3j9t

Yeast V-ATPase state 1

Method: ELECTRON MICROSCOPY

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1. Protein Identity and Related Structures Protein Identity & Related Structures

V-type proton ATPase subunit D

OrganismNot specified

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 28	V-type proton ATPase subunit F × 1 （P39111） V-type proton ATPase catalytic subunit A × 3 （P17255） V-type proton ATPase subunit B × 3 （P16140） V-type proton ATPase subunit d × 1 （P32366） V-type proton ATPase subunit G × 3 （P48836） V-type proton ATPase subunit E × 3 （P22203） V-type proton ATPase subunit H × 1 （P41807） V-type proton ATPase subunit a, vacuolar isoform × 1 （P32563） V-type proton ATPase subunit C × 1 （P31412） V-type proton ATPase subunit c × 10 （P25515）	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	VATD_YEAST
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain M； PDBConstruct 1–256； UniProt 1–256

V-type proton ATPase subunit F

OrganismNot specified

UniProt P39111

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 28	V-type proton ATPase subunit D × 1 （P32610） V-type proton ATPase catalytic subunit A × 3 （P17255） V-type proton ATPase subunit B × 3 （P16140） V-type proton ATPase subunit d × 1 （P32366） V-type proton ATPase subunit G × 3 （P48836） V-type proton ATPase subunit E × 3 （P22203） V-type proton ATPase subunit H × 1 （P41807） V-type proton ATPase subunit a, vacuolar isoform × 1 （P32563） V-type proton ATPase subunit C × 1 （P31412） V-type proton ATPase subunit c × 10 （P25515）	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	VATF_YEAST
Isoform	—
PDB entities	2
Chains and sequence ranges	Author chain N； PDBConstruct 1–118； UniProt 1–118

V-type proton ATPase catalytic subunit A

OrganismNot specified

UniProt P17255

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 28	V-type proton ATPase subunit D × 1 （P32610） V-type proton ATPase subunit F × 1 （P39111） V-type proton ATPase subunit B × 3 （P16140） V-type proton ATPase subunit d × 1 （P32366） V-type proton ATPase subunit G × 3 （P48836） V-type proton ATPase subunit E × 3 （P22203） V-type proton ATPase subunit H × 1 （P41807） V-type proton ATPase subunit a, vacuolar isoform × 1 （P32563） V-type proton ATPase subunit C × 1 （P31412） V-type proton ATPase subunit c × 10 （P25515）	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	VATA_YEAST
Isoform	—
PDB entities	3
Chains and sequence ranges	Author chain A； PDBConstruct 1–282； UniProt 2–283 Author chain A； PDBConstruct 283–616； UniProt 738–1071 Author chain C； PDBConstruct 1–282； UniProt 2–283 Author chain C； PDBConstruct 283–616； UniProt 738–1071 Author chain E； PDBConstruct 1–282； UniProt 2–283 Author chain E； PDBConstruct 283–616； UniProt 738–1071

V-type proton ATPase subunit B

OrganismNot specified

UniProt P16140

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 28	V-type proton ATPase subunit D × 1 （P32610） V-type proton ATPase subunit F × 1 （P39111） V-type proton ATPase catalytic subunit A × 3 （P17255） V-type proton ATPase subunit d × 1 （P32366） V-type proton ATPase subunit G × 3 （P48836） V-type proton ATPase subunit E × 3 （P22203） V-type proton ATPase subunit H × 1 （P41807） V-type proton ATPase subunit a, vacuolar isoform × 1 （P32563） V-type proton ATPase subunit C × 1 （P31412） V-type proton ATPase subunit c × 10 （P25515）	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	VATB_YEAST
Isoform	—
PDB entities	4
Chains and sequence ranges	Author chain B； PDBConstruct 1–517； UniProt 1–517 Author chain D； PDBConstruct 1–517； UniProt 1–517 Author chain F； PDBConstruct 1–517； UniProt 1–517

V-type proton ATPase subunit d

OrganismNot specified

UniProt P32366

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 28	V-type proton ATPase subunit D × 1 （P32610） V-type proton ATPase subunit F × 1 （P39111） V-type proton ATPase catalytic subunit A × 3 （P17255） V-type proton ATPase subunit B × 3 （P16140） V-type proton ATPase subunit G × 3 （P48836） V-type proton ATPase subunit E × 3 （P22203） V-type proton ATPase subunit H × 1 （P41807） V-type proton ATPase subunit a, vacuolar isoform × 1 （P32563） V-type proton ATPase subunit C × 1 （P31412） V-type proton ATPase subunit c × 10 （P25515）	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	VA0D_YEAST
Isoform	—
PDB entities	5
Chains and sequence ranges	Author chain Q； PDBConstruct 1–345； UniProt 1–345

V-type proton ATPase subunit G

OrganismNot specified

UniProt P48836

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 28	V-type proton ATPase subunit D × 1 （P32610） V-type proton ATPase subunit F × 1 （P39111） V-type proton ATPase catalytic subunit A × 3 （P17255） V-type proton ATPase subunit B × 3 （P16140） V-type proton ATPase subunit d × 1 （P32366） V-type proton ATPase subunit E × 3 （P22203） V-type proton ATPase subunit H × 1 （P41807） V-type proton ATPase subunit a, vacuolar isoform × 1 （P32563） V-type proton ATPase subunit C × 1 （P31412） V-type proton ATPase subunit c × 10 （P25515）	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	VATG_YEAST
Isoform	—
PDB entities	6
Chains and sequence ranges	Author chain H； PDBConstruct 1–114； UniProt 1–114 Author chain J； PDBConstruct 1–114； UniProt 1–114 Author chain L； PDBConstruct 1–114； UniProt 1–114

V-type proton ATPase subunit E

OrganismNot specified

UniProt P22203

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 28	V-type proton ATPase subunit D × 1 （P32610） V-type proton ATPase subunit F × 1 （P39111） V-type proton ATPase catalytic subunit A × 3 （P17255） V-type proton ATPase subunit B × 3 （P16140） V-type proton ATPase subunit d × 1 （P32366） V-type proton ATPase subunit G × 3 （P48836） V-type proton ATPase subunit H × 1 （P41807） V-type proton ATPase subunit a, vacuolar isoform × 1 （P32563） V-type proton ATPase subunit C × 1 （P31412） V-type proton ATPase subunit c × 10 （P25515）	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	VATE_YEAST
Isoform	—
PDB entities	7
Chains and sequence ranges	Author chain G； PDBConstruct 1–233； UniProt 1–233 Author chain I； PDBConstruct 1–233； UniProt 1–233 Author chain K； PDBConstruct 1–233； UniProt 1–233

V-type proton ATPase subunit H

OrganismNot specified

UniProt P41807

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 28	V-type proton ATPase subunit D × 1 （P32610） V-type proton ATPase subunit F × 1 （P39111） V-type proton ATPase catalytic subunit A × 3 （P17255） V-type proton ATPase subunit B × 3 （P16140） V-type proton ATPase subunit d × 1 （P32366） V-type proton ATPase subunit G × 3 （P48836） V-type proton ATPase subunit E × 3 （P22203） V-type proton ATPase subunit a, vacuolar isoform × 1 （P32563） V-type proton ATPase subunit C × 1 （P31412） V-type proton ATPase subunit c × 10 （P25515）	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	VATH_YEAST
Isoform	—
PDB entities	8
Chains and sequence ranges	Author chain P； PDBConstruct 1–478； UniProt 1–478

V-type proton ATPase subunit a, vacuolar isoform

OrganismNot specified

UniProt P32563

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 28	V-type proton ATPase subunit D × 1 （P32610） V-type proton ATPase subunit F × 1 （P39111） V-type proton ATPase catalytic subunit A × 3 （P17255） V-type proton ATPase subunit B × 3 （P16140） V-type proton ATPase subunit d × 1 （P32366） V-type proton ATPase subunit G × 3 （P48836） V-type proton ATPase subunit E × 3 （P22203） V-type proton ATPase subunit H × 1 （P41807） V-type proton ATPase subunit C × 1 （P31412） V-type proton ATPase subunit c × 10 （P25515）	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	VPH1_YEAST
Isoform	—
PDB entities	9
Chains and sequence ranges	Author chain b； PDBConstruct 1–840； UniProt 1–840

V-type proton ATPase subunit C

OrganismNot specified

UniProt P31412

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 28	V-type proton ATPase subunit D × 1 （P32610） V-type proton ATPase subunit F × 1 （P39111） V-type proton ATPase catalytic subunit A × 3 （P17255） V-type proton ATPase subunit B × 3 （P16140） V-type proton ATPase subunit d × 1 （P32366） V-type proton ATPase subunit G × 3 （P48836） V-type proton ATPase subunit E × 3 （P22203） V-type proton ATPase subunit H × 1 （P41807） V-type proton ATPase subunit a, vacuolar isoform × 1 （P32563） V-type proton ATPase subunit c × 10 （P25515）	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	VATC_YEAST
Isoform	—
PDB entities	10
Chains and sequence ranges	Author chain O； PDBConstruct 1–392； UniProt 1–392

V-type proton ATPase subunit c

OrganismNot specified

UniProt P25515

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 28	V-type proton ATPase subunit D × 1 （P32610） V-type proton ATPase subunit F × 1 （P39111） V-type proton ATPase catalytic subunit A × 3 （P17255） V-type proton ATPase subunit B × 3 （P16140） V-type proton ATPase subunit d × 1 （P32366） V-type proton ATPase subunit G × 3 （P48836） V-type proton ATPase subunit E × 3 （P22203） V-type proton ATPase subunit H × 1 （P41807） V-type proton ATPase subunit a, vacuolar isoform × 1 （P32563） V-type proton ATPase subunit C × 1 （P31412）	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	VATL1_YEAST
Isoform	—
PDB entities	11
Chains and sequence ranges	Author chain R； PDBConstruct 1–160； UniProt 1–160 Author chain S； PDBConstruct 1–160； UniProt 1–160 Author chain T； PDBConstruct 1–160； UniProt 1–160 Author chain U； PDBConstruct 1–160； UniProt 1–160 Author chain V； PDBConstruct 1–160； UniProt 1–160 Author chain W； PDBConstruct 1–160； UniProt 1–160 Author chain X； PDBConstruct 1–160； UniProt 1–160 Author chain Y； PDBConstruct 1–160； UniProt 1–160 Author chain Z； PDBConstruct 1–160； UniProt 1–160 Author chain a； PDBConstruct 1–160； UniProt 1–160

The page prioritizes protein identity, the current assembly, associated components, oligomeric state and cross-PDB links. Chain mapping and sequence ranges are retained as data evidence. Internal IDs, import timestamps and assembly operation expressions are maintenance fields and are not shown here.

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2. Structure Basics 2. Structure Basics

Entry ID entry_id	3j9t
Deposition date deposition_date	2015-02-23
Structure title title	Yeast V-ATPase state 1
Keywords keywords	V-ATPase, V-type ATPase, vacuolar-type ATPase, proton pump, HYDROLASE; HYDROLASE
Experimental Method method	ELECTRON MICROSCOPY

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3. Official assembly/model SAXS Official SAXS Profiles

This page reads only the latest assembly calculations. Every curve maps to an explicit PDB entry, official biological assembly and coordinate model.

3j9t__assembly_1__model_1

Assembly 1 · Model 1 · CRYSOL 4.1.3-1-20251215 (887e7ef)

Download this curve (.dat)

3j9t__assembly_1__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

3j9t__assembly_1__model_1 | P(r) · Pending

P(r) will be calculated and displayed separately for the same assembly/model.

Rg（Guinier）	74.39 Å
Rg (electron density)	75.24 Å
Total Rg	75.39 Å
Atom count	57659
Residues	7451
Excluded volume	1036300 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`3j9t__assembly_1__model_1`	28-meric （28）	Success	4.1.3-1-20251215 (887e7ef)	View Download

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4. Crystallography and Experiment 4. Crystallography & Experiment

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5. Entities and Polymers Entities & Polymers (11)

Entity 1 Entity 1 polymer

Description description	V-type proton ATPase subunit D
Molecular weight formula_weight	29235.0 kDa
Source method src_method	nat
Copy count entity_count	1

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	M
Atom count atom_count	57659

MSGNREQVFPTRMTLGLMKTKLKGANQGYSLLKRKSEALTKRFRDITKRIDDAKQKMGRVMQTAAFSLAEVSYATGENIGYQVQESVSTARFKVRARQENVSGVYLSQFESYIDPEINDFRLTGLGRGGQQVQRAKEIYSRAVETLVELASLQTAFIILDEVIKVTNRRVNAIEHVIIPRTENTIAYINSELDELDREEFYRLKKVQEKKQNETAKLDAEMKLKRDRAEQDASEVAADEEPQGETLVADQEDDVIF

Entity 2 Entity 2 polymer

Description description	V-type proton ATPase subunit F
Molecular weight formula_weight	13479.2 kDa
Source method src_method	nat
Copy count entity_count	1

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	N

MAEKRTLIAVIADEDTTTGLLLAGIGQITPETQEKNFFVYQEGKTTKEEITDKFNHFTEERDDIAILLINQHIAENIRARVDSFTNAFPAILEIPSKDHPYDPEKDSVLKRVRKLFGE

Entity 3 Entity 3 polymer

Description description	V-type proton ATPase catalytic subunit A
Molecular weight formula_weight	67665.3 kDa
EC 编号 ec_number	3.6.3.14, 3.1.-.-
Source method src_method	nat
Copy count entity_count	3

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	A,C,E

AGAIENARKEIKRISLEDHAESEYGAIYSVSGPVVIAENMIGCAMYELVKVGHDNLVGEVIRIDGDKATIQVYEETAGLTVGDPVLRTGKPLSVELGPGLMETIYDGIQRPLKAIKEESQSIYIPRGIDTPALDRTIKWQFTPGKFQVGDHISGGDIYGSVFENSLISSHKILLPPRSRGTITWIAPAGEYTLDEKILEVEFDGKKSDFTLYHTWPVRVPRPVTEKLSADYPLLTGQRVLDALFPCVQGGTTCIPGAFGCGKTVISQSLSKYSNSDAIIYVGCGERGNEMAEVLMEFPELYTEMSGTKEPIMKRTTLVANTSNMPVAAREASIYTGITLAEYFRDQGKNVSMIADSSSRWAEALREISGRLGEMPADQGFPAYLGAKLASFYERAGKAVALGSPDRTGSVSIVAAVSPAGGDFSDPVTTATLGITQVFWGLDKKLAQRKHFPSINTSVSYSKYTNVLNKFYDSNYPEFPVLRDRMKEILSNAEELEQVVQLVGKSALSDSDKITLDVATLIKEDFLQQNGYSTYDAFCPIWKTFDMMRAFISYHDEAQKAVANGANWSKLADSTGDVKHAVSSSKFFEPSRGEKEVHGEFEKLLSTMQERFAESTD

Entity 4 Entity 4 polymer

Description description	V-type proton ATPase subunit B
Molecular weight formula_weight	57815.0 kDa
Source method src_method	nat
Copy count entity_count	3

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	B,D,F

MVLSDKELFAINKKAVEQGFNVKPRLNYNTVSGVNGPLVILEKVKFPRYNEIVNLTLPDGTVRQGQVLEIRGDRAIVQVFEGTSGIDVKKTTVEFTGESLRIPVSEDMLGRIFDGSGRPIDNGPKVFAEDYLDINGSPINPYARIYPEEMISTGVSAIDTMNSIARGQKIPIFSASGLPHNEIAAQICRQAGLVRPTKDVHDGHEENFSIVFAAMGVNLETARFFKQDFEENGSLERTSLFLNLANDPTIERIITPRLALTTAEYLAYQTERHVLTILTDMSSYADALREVSAAREEVPGRRGYPGYMYTDLSTIYERAGRVEGRNGSITQIPILTMPNDDITHPIPDLTGYITEGQIFVDRQLHNKGIYPPINVLPSLSRLMKSAIGEGMTRKDHGDVSNQLYAKYAIGKDAAAMKAVVGEEALSIEDKLSLEFLEKFEKTFITQGAYEDRTVFESLDQAWSLLRIYPKEMLNRISPKILDEFYDRARDDADEDEEDPDTRSSGKKKDASQEESLI

Entity 5 Entity 5 polymer

Description description	V-type proton ATPase subunit d
Molecular weight formula_weight	39822.5 kDa
Source method src_method	nat
Copy count entity_count	1

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	Q

MEGVYFNIDNGFIEGVVRGYRNGLLSNNQYINLTQCDTLEDLKLQLSSTDYGNFLSSVSSESLTTSLIQEYASSKLYHEFNYIRDQSSGSTRKFMDYITYGYMIDNVALMITGTIHDRDKGEILQRCHPLGWFDTLPTLSVATDLESLYETVLVDTPLAPYFKNCFDTAEELDDMNIEIIRNKLYKAYLEDFYNFVTEEIPEPAKECMQTLLGFEADRRSINIALNSLQSSDIDPDLKSDLLPNIGKLYPLATFHLAQAQDFEGVRAALANVYEYRGFLETGNLEDHFYQLEMELCRDAFTQQFAISTVWAWMKSKEQEVRNITWIAECIAQNQRERINNYISVY

Entity 6 Entity 6 polymer

Description description	V-type proton ATPase subunit G
Molecular weight formula_weight	12738.7 kDa
Source method src_method	nat
Copy count entity_count	3

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	L,H,J

MSQKNGIATLLQAEKEAHEIVSKARKYRQDKLKQAKTDAAKEIDSYKIQKDKELKEFEQKNAGGVGELEKKAEAGVQGELAEIKKIAEKKKDDVVKILIETVIKPSAEVHINAL

Entity 7 Entity 7 polymer

Description description	V-type proton ATPase subunit E
Molecular weight formula_weight	26508.4 kDa
Source method src_method	nat
Copy count entity_count	3

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	K,G,I

MSSAITALTPNQVNDELNKMQAFIRKEAEEKAKEIQLKADQEYEIEKTNIVRNETNNIDGNFKSKLKKAMLSQQITKSTIANKMRLKVLSAREQSLDGIFEETKEKLSGIANNRDEYKPILQSLIVEALLKLLEPKAIVKALERDVDLIESMKDDIMREYGEKAQRAPLEEIVISNDYLNKDLVSGGVVVSNASDKIEINNTLEERLKLLSEEALPAIRLELYGPSKTRKFFD

Entity 8 Entity 8 polymer

Description description	V-type proton ATPase subunit H
Molecular weight formula_weight	54482.6 kDa
Source method src_method	nat
Copy count entity_count	1

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	P

MGATKILMDSTHFNEIRSIIRSRSVAWDALARSEELSEIDASTAKALESILVKKNIGDGLSSSNNAHSGFKVNGKTLIPLIHLLSTSDNEDCKKSVQNLIAELLSSDKYGDDTVKFFQEDPKQLEQLFDVSLKGDFQTVLISGFNVVSLLVQNGLHNVKLVEKLLKNNNLINILQNIEQMDTCYVCIRLLQELAVIPEYRDVIWLHEKKFMPTLFKILQRATDSQLATRIVATNSNHLGIQLQYHSLLLIWLLTFNPVFANELVQKYLSDFLDLLKLVKITIKEKVSRLCISIILQCCSTRVKQHKKVIKQLLLLGNALPTVQSLSERKYSDEELRQDISNLKEILENEYQELTSFDEYVAELDSKLLCWSPPHVDNGFWSDNIDEFKKDNYKIFRQLIELLQAKVRNGDVNAKQEKIIIQVALNDITHVVELLPESIDVLDKTGGKADIMELLNHSDSRVKYEALKATQAIIGYTFK

Entity 9 Entity 9 polymer

Description description	V-type proton ATPase subunit a, vacuolar isoform
Molecular weight formula_weight	95625.5 kDa
Source method src_method	nat
Copy count entity_count	1

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	b

MAEKEEAIFRSAEMALVQFYIPQEISRDSAYTLGQLGLVQFRDLNSKVRAFQRTFVNEIRRLDNVERQYRYFYSLLKKHDIKLYEGDTDKYLDGSGELYVPPSGSVIDDYVRNASYLEERLIQMEDATDQIEVQKNDLEQYRFILQSGDEFFLKGDNTDSTSYMDEDMIDANGENIAAAIGASVNYVTGVIARDKVATLEQILWRVLRGNLFFKTVEIEQPVYDVKTREYKHKNAFIVFSHGDLIIKRIRKIAESLDANLYDVDSSNEGRSQQLAKVNKNLSDLYTVLKTTSTTLESELYAIAKELDSWFQDVTREKAIFEILNKSNYDTNRKILIAEGWIPRDELATLQARLGEMIARLGIDVPSIIQVLDTNHTPPTFHRTNKFTAGFQSICDCYGIAQYREINAGLPTIVTFPFMFAIMFGDMGHGFLMTLAALSLVLNEKKINKMKRGEIFDMAFTGRYIILLMGVFSMYTGFLYNDIFSKTMTIFKSGWKWPDHWKKGESITATSVGTYPIGLDWAWHGTENALLFSNSYKMKLSILMGFIHMTYSYFFSLANHLYFNSMIDIIGNFIPGLLFMQGIFGYLSVCIVYKWAVDWVKDGKPAPGLLNMLINMFLSPGTIDDELYPHQAKVQVFLLLMALVCIPWLLLVKPLHFKFTHKKKSHEPLPSTEADASSEDLEAQQLISAMDADDAEEEEVGSGSHGEDFGDIMIHQVIHTIEFCLNCVSHTASYLRLWALSLAHAQLSSVLWTMTIQIAFGFRGFVGVFMTVALFAMWFALTCAVLVLMEGTSAMLHSLRLHWVESMSKFFVGEGLPYEPFAFEYKDMEVAVASASSSASS

Entity 10 Entity 10 polymer

Description description	V-type proton ATPase subunit C
Molecular weight formula_weight	44241.4 kDa
Source method src_method	nat
Copy count entity_count	1

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	O

MATALYTANDFILISLPQNAQPVTAPGSKTDSWFNETLIGGRAFVSDFKIPEFKIGSLDTLIVESEELSKVDNQIGASIGKIIEILQGLNETSTNAYRTLPINNMPVPEYLENFQWQTRKFKLDKSIKDLITLISNESSQLDADVRATYANYNSAKTNLAAAERKKTGDLSVRSLHDIVKPEDFVLNSEHLTTVLVAVPKSLKSDFEKSYETLSKNVVPASASVIAEDAEYVLFNVHLFKKNVQEFTTAAREKKFIPREFNYSEELIDQLKKEHDSAASLEQSLRVQLVRLAKTAYVDVFINWFHIKALRVYVESVLRYGLPPHFNIKIIAVPPKNLSKCKSELIDAFGFLGGNAFMKDKKGKINKQDTSLHQYASLVDTEYEPFVMYIINL

Entity 11 Entity 11 polymer

Description description	V-type proton ATPase subunit c
Molecular weight formula_weight	16357.5 kDa
Source method src_method	nat
Copy count entity_count	10

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	Y,R,U,V,T,W,S,X,Z,a

MTELCPVYAPFFGAIGCASAIIFTSLGAAYGTAKSGVGICATCVLRPDLLFKNIVPVIMAGIIAIYGLVVSVLVCYSLGQKQALYTGFIQLGAGLSVGLSGLAAGFAIGIVGDAGVRGSSQQPRLFVGMILILIFAEVLGLYGLIVALLLNSRATQDVVC

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6. Fold Classification (SCOP + CATH) 53 domains

SCOP 2.08 (53 domains)

Domain ID domain_id	d3j9ta1
Class class	b — All beta proteins
Fold Fold fold	b.49 — Domain of alpha and beta subunits of F1 ATP synthase-like
Superfamily Superfamily superfamily	b.49.1 — N-terminal domain of alpha and beta (or A/B) subunits of rotary ATPases
Family Family family	b.49.1.2 — N-terminal domain of A and B subunits of V1 ATP synthase

Domain ID domain_id	d3j9ta2
Class class	c — Alpha and beta proteins (a/b)
Fold Fold fold	c.37 — P-loop containing nucleoside triphosphate hydrolases
Superfamily Superfamily superfamily	c.37.1 — P-loop containing nucleoside triphosphate hydrolases
Family Family family	c.37.1.11 — RecA protein-like (ATPase-domain)

Domain ID domain_id	d3j9ta3
Class class	b — All beta proteins
Fold Fold fold	b.84 — Barrel-sandwich hybrid
Superfamily Superfamily superfamily	b.84.5 — V1 ATP synthase A subunit, bulge domain-like
Family Family family	b.84.5.1 — V1 ATP synthase A subunit, bulge domain-like

Domain ID domain_id	d3j9ta4
Class class	a — All alpha proteins
Fold Fold fold	a.69 — Left-handed superhelix
Superfamily Superfamily superfamily	a.69.1 — C-terminal domain of alpha and beta (or A/B) subunits of rotary ATPases
Family Family family	a.69.1.2 — C-terminal domain of A and B subunits of V1 ATP synthase and A1 ATP sythase

Domain ID domain_id	d3j9tb1
Class class	b — All beta proteins
Fold Fold fold	b.49 — Domain of alpha and beta subunits of F1 ATP synthase-like
Superfamily Superfamily superfamily	b.49.1 — N-terminal domain of alpha and beta (or A/B) subunits of rotary ATPases
Family Family family	b.49.1.2 — N-terminal domain of A and B subunits of V1 ATP synthase

Domain ID domain_id	d3j9tb2
Class class	c — Alpha and beta proteins (a/b)
Fold Fold fold	c.37 — P-loop containing nucleoside triphosphate hydrolases
Superfamily Superfamily superfamily	c.37.1 — P-loop containing nucleoside triphosphate hydrolases
Family Family family	c.37.1.11 — RecA protein-like (ATPase-domain)

Domain ID domain_id	d3j9tb3
Class class	a — All alpha proteins
Fold Fold fold	a.69 — Left-handed superhelix
Superfamily Superfamily superfamily	a.69.1 — C-terminal domain of alpha and beta (or A/B) subunits of rotary ATPases
Family Family family	a.69.1.2 — C-terminal domain of A and B subunits of V1 ATP synthase and A1 ATP sythase

Domain ID domain_id	d3j9tc1
Class class	b — All beta proteins
Fold Fold fold	b.49 — Domain of alpha and beta subunits of F1 ATP synthase-like
Superfamily Superfamily superfamily	b.49.1 — N-terminal domain of alpha and beta (or A/B) subunits of rotary ATPases
Family Family family	b.49.1.2 — N-terminal domain of A and B subunits of V1 ATP synthase

Domain ID domain_id	d3j9tc2
Class class	c — Alpha and beta proteins (a/b)
Fold Fold fold	c.37 — P-loop containing nucleoside triphosphate hydrolases
Superfamily Superfamily superfamily	c.37.1 — P-loop containing nucleoside triphosphate hydrolases
Family Family family	c.37.1.11 — RecA protein-like (ATPase-domain)

Domain ID domain_id	d3j9tc3
Class class	b — All beta proteins
Fold Fold fold	b.84 — Barrel-sandwich hybrid
Superfamily Superfamily superfamily	b.84.5 — V1 ATP synthase A subunit, bulge domain-like
Family Family family	b.84.5.1 — V1 ATP synthase A subunit, bulge domain-like

Domain ID domain_id	d3j9tc4
Class class	a — All alpha proteins
Fold Fold fold	a.69 — Left-handed superhelix
Superfamily Superfamily superfamily	a.69.1 — C-terminal domain of alpha and beta (or A/B) subunits of rotary ATPases
Family Family family	a.69.1.2 — C-terminal domain of A and B subunits of V1 ATP synthase and A1 ATP sythase

Domain ID domain_id	d3j9td1
Class class	b — All beta proteins
Fold Fold fold	b.49 — Domain of alpha and beta subunits of F1 ATP synthase-like
Superfamily Superfamily superfamily	b.49.1 — N-terminal domain of alpha and beta (or A/B) subunits of rotary ATPases
Family Family family	b.49.1.2 — N-terminal domain of A and B subunits of V1 ATP synthase

Domain ID domain_id	d3j9td2
Class class	c — Alpha and beta proteins (a/b)
Fold Fold fold	c.37 — P-loop containing nucleoside triphosphate hydrolases
Superfamily Superfamily superfamily	c.37.1 — P-loop containing nucleoside triphosphate hydrolases
Family Family family	c.37.1.11 — RecA protein-like (ATPase-domain)

Domain ID domain_id	d3j9td3
Class class	a — All alpha proteins
Fold Fold fold	a.69 — Left-handed superhelix
Superfamily Superfamily superfamily	a.69.1 — C-terminal domain of alpha and beta (or A/B) subunits of rotary ATPases
Family Family family	a.69.1.2 — C-terminal domain of A and B subunits of V1 ATP synthase and A1 ATP sythase

Domain ID domain_id	d3j9te1
Class class	b — All beta proteins
Fold Fold fold	b.49 — Domain of alpha and beta subunits of F1 ATP synthase-like
Superfamily Superfamily superfamily	b.49.1 — N-terminal domain of alpha and beta (or A/B) subunits of rotary ATPases
Family Family family	b.49.1.2 — N-terminal domain of A and B subunits of V1 ATP synthase

Domain ID domain_id	d3j9te2
Class class	c — Alpha and beta proteins (a/b)
Fold Fold fold	c.37 — P-loop containing nucleoside triphosphate hydrolases
Superfamily Superfamily superfamily	c.37.1 — P-loop containing nucleoside triphosphate hydrolases
Family Family family	c.37.1.11 — RecA protein-like (ATPase-domain)

Domain ID domain_id	d3j9te3
Class class	b — All beta proteins
Fold Fold fold	b.84 — Barrel-sandwich hybrid
Superfamily Superfamily superfamily	b.84.5 — V1 ATP synthase A subunit, bulge domain-like
Family Family family	b.84.5.1 — V1 ATP synthase A subunit, bulge domain-like

Domain ID domain_id	d3j9te4
Class class	a — All alpha proteins
Fold Fold fold	a.69 — Left-handed superhelix
Superfamily Superfamily superfamily	a.69.1 — C-terminal domain of alpha and beta (or A/B) subunits of rotary ATPases
Family Family family	a.69.1.2 — C-terminal domain of A and B subunits of V1 ATP synthase and A1 ATP sythase

Domain ID domain_id	d3j9tf1
Class class	b — All beta proteins
Fold Fold fold	b.49 — Domain of alpha and beta subunits of F1 ATP synthase-like
Superfamily Superfamily superfamily	b.49.1 — N-terminal domain of alpha and beta (or A/B) subunits of rotary ATPases
Family Family family	b.49.1.2 — N-terminal domain of A and B subunits of V1 ATP synthase

Domain ID domain_id	d3j9tf2
Class class	c — Alpha and beta proteins (a/b)
Fold Fold fold	c.37 — P-loop containing nucleoside triphosphate hydrolases
Superfamily Superfamily superfamily	c.37.1 — P-loop containing nucleoside triphosphate hydrolases
Family Family family	c.37.1.11 — RecA protein-like (ATPase-domain)

Domain ID domain_id	d3j9tf3
Class class	a — All alpha proteins
Fold Fold fold	a.69 — Left-handed superhelix
Superfamily Superfamily superfamily	a.69.1 — C-terminal domain of alpha and beta (or A/B) subunits of rotary ATPases
Family Family family	a.69.1.2 — C-terminal domain of A and B subunits of V1 ATP synthase and A1 ATP sythase

Domain ID domain_id	d3j9tg1
Class class	d — Alpha and beta proteins (a+b)
Fold Fold fold	d.81 — FwdE/GAPDH domain-like
Superfamily Superfamily superfamily	d.81.4 — V-type ATPase subunit E-like
Family Family family	d.81.4.1 — V-type ATPase subunit E C-terminal domain

Domain ID domain_id	d3j9tg2
Class class	h — Coiled coil proteins
Fold Fold fold	h.1 — Parallel coiled-coil
Superfamily Superfamily superfamily	h.1.36 — V-type ATPase peripheral stalk subunit E coiled coil
Family Family family	h.1.36.1 — V-type ATPase peripheral stalk subunit E coiled coil

Domain ID domain_id	d3j9th_
Class class	h — Coiled coil proteins
Fold Fold fold	h.1 — Parallel coiled-coil
Superfamily Superfamily superfamily	h.1.37 — V-type ATPase peripheral stalk subunit G coiled coil
Family Family family	h.1.37.1 — V-type ATPase peripheral stalk subunit G coiled coil

Domain ID domain_id	d3j9ti1
Class class	d — Alpha and beta proteins (a+b)
Fold Fold fold	d.81 — FwdE/GAPDH domain-like
Superfamily Superfamily superfamily	d.81.4 — V-type ATPase subunit E-like
Family Family family	d.81.4.1 — V-type ATPase subunit E C-terminal domain

Domain ID domain_id	d3j9ti2
Class class	h — Coiled coil proteins
Fold Fold fold	h.1 — Parallel coiled-coil
Superfamily Superfamily superfamily	h.1.36 — V-type ATPase peripheral stalk subunit E coiled coil
Family Family family	h.1.36.1 — V-type ATPase peripheral stalk subunit E coiled coil

Domain ID domain_id	d3j9tj_
Class class	h — Coiled coil proteins
Fold Fold fold	h.1 — Parallel coiled-coil
Superfamily Superfamily superfamily	h.1.37 — V-type ATPase peripheral stalk subunit G coiled coil
Family Family family	h.1.37.1 — V-type ATPase peripheral stalk subunit G coiled coil

Domain ID domain_id	d3j9tk1
Class class	d — Alpha and beta proteins (a+b)
Fold Fold fold	d.81 — FwdE/GAPDH domain-like
Superfamily Superfamily superfamily	d.81.4 — V-type ATPase subunit E-like
Family Family family	d.81.4.1 — V-type ATPase subunit E C-terminal domain

Domain ID domain_id	d3j9tk2
Class class	h — Coiled coil proteins
Fold Fold fold	h.1 — Parallel coiled-coil
Superfamily Superfamily superfamily	h.1.36 — V-type ATPase peripheral stalk subunit E coiled coil
Family Family family	h.1.36.1 — V-type ATPase peripheral stalk subunit E coiled coil

Domain ID domain_id	d3j9tl_
Class class	h — Coiled coil proteins
Fold Fold fold	h.1 — Parallel coiled-coil
Superfamily Superfamily superfamily	h.1.37 — V-type ATPase peripheral stalk subunit G coiled coil
Family Family family	h.1.37.1 — V-type ATPase peripheral stalk subunit G coiled coil

Domain ID domain_id	d3j9tm_
Class class	h — Coiled coil proteins
Fold Fold fold	h.4 — Antiparallel coiled-coil
Superfamily Superfamily superfamily	h.4.20 — V-type ATPase central rotor subunit D
Family Family family	h.4.20.1 — V1 ATP synthase D subunit

Domain ID domain_id	d3j9tn_
Class class	c — Alpha and beta proteins (a/b)
Fold Fold fold	c.149 — AtpF-like
Superfamily Superfamily superfamily	c.149.1 — AtpF-like
Family Family family	c.149.1.1 — AtpF-like

Domain ID domain_id	d3j9to_
Class class	e — Multi-domain proteins (alpha and beta)
Fold Fold fold	e.57 — Vacuolar ATP synthase subunit C
Superfamily Superfamily superfamily	e.57.1 — Vacuolar ATP synthase subunit C
Family Family family	e.57.1.1 — Vacuolar ATP synthase subunit C

Domain ID domain_id	d3j9tp_
Class class	a — All alpha proteins
Fold Fold fold	a.118 — alpha-alpha superhelix
Superfamily Superfamily superfamily	a.118.1 — ARM repeat
Family Family family	a.118.1.9 — Regulatory subunit H of the V-type ATPase

Domain ID domain_id	d3j9tq_
Class class	f — Membrane and cell surface proteins and peptides
Fold Fold fold	f.40 — V-type ATP synthase subunit C
Superfamily Superfamily superfamily	f.40.1 — V-type ATP synthase subunit C
Family Family family	f.40.1.1 — V-type ATP synthase subunit C

Domain ID domain_id	d3j9tr1
Class class	f — Membrane and cell surface proteins and peptides
Fold Fold fold	f.17 — Transmembrane helix hairpin
Superfamily Superfamily superfamily	f.17.1 — Rotary ATPase ring subunits
Family Family family	f.17.1.1 — F1F0 ATP synthase subunit C or V-type proton ATPase subunit c

Domain ID domain_id	d3j9tr2
Class class	f — Membrane and cell surface proteins and peptides
Fold Fold fold	f.17 — Transmembrane helix hairpin
Superfamily Superfamily superfamily	f.17.1 — Rotary ATPase ring subunits
Family Family family	f.17.1.1 — F1F0 ATP synthase subunit C or V-type proton ATPase subunit c

Domain ID domain_id	d3j9ts1
Class class	f — Membrane and cell surface proteins and peptides
Fold Fold fold	f.17 — Transmembrane helix hairpin
Superfamily Superfamily superfamily	f.17.1 — Rotary ATPase ring subunits
Family Family family	f.17.1.1 — F1F0 ATP synthase subunit C or V-type proton ATPase subunit c

Domain ID domain_id	d3j9ts2
Class class	f — Membrane and cell surface proteins and peptides
Fold Fold fold	f.17 — Transmembrane helix hairpin
Superfamily Superfamily superfamily	f.17.1 — Rotary ATPase ring subunits
Family Family family	f.17.1.1 — F1F0 ATP synthase subunit C or V-type proton ATPase subunit c

Domain ID domain_id	d3j9tt1
Class class	f — Membrane and cell surface proteins and peptides
Fold Fold fold	f.17 — Transmembrane helix hairpin
Superfamily Superfamily superfamily	f.17.1 — Rotary ATPase ring subunits
Family Family family	f.17.1.1 — F1F0 ATP synthase subunit C or V-type proton ATPase subunit c

Domain ID domain_id	d3j9tt2
Class class	f — Membrane and cell surface proteins and peptides
Fold Fold fold	f.17 — Transmembrane helix hairpin
Superfamily Superfamily superfamily	f.17.1 — Rotary ATPase ring subunits
Family Family family	f.17.1.1 — F1F0 ATP synthase subunit C or V-type proton ATPase subunit c

Domain ID domain_id	d3j9tu1
Class class	f — Membrane and cell surface proteins and peptides
Fold Fold fold	f.17 — Transmembrane helix hairpin
Superfamily Superfamily superfamily	f.17.1 — Rotary ATPase ring subunits
Family Family family	f.17.1.1 — F1F0 ATP synthase subunit C or V-type proton ATPase subunit c

Domain ID domain_id	d3j9tu2
Class class	f — Membrane and cell surface proteins and peptides
Fold Fold fold	f.17 — Transmembrane helix hairpin
Superfamily Superfamily superfamily	f.17.1 — Rotary ATPase ring subunits
Family Family family	f.17.1.1 — F1F0 ATP synthase subunit C or V-type proton ATPase subunit c

Domain ID domain_id	d3j9tv1
Class class	f — Membrane and cell surface proteins and peptides
Fold Fold fold	f.17 — Transmembrane helix hairpin
Superfamily Superfamily superfamily	f.17.1 — Rotary ATPase ring subunits
Family Family family	f.17.1.1 — F1F0 ATP synthase subunit C or V-type proton ATPase subunit c

Domain ID domain_id	d3j9tv2
Class class	f — Membrane and cell surface proteins and peptides
Fold Fold fold	f.17 — Transmembrane helix hairpin
Superfamily Superfamily superfamily	f.17.1 — Rotary ATPase ring subunits
Family Family family	f.17.1.1 — F1F0 ATP synthase subunit C or V-type proton ATPase subunit c

Domain ID domain_id	d3j9tw1
Class class	f — Membrane and cell surface proteins and peptides
Fold Fold fold	f.17 — Transmembrane helix hairpin
Superfamily Superfamily superfamily	f.17.1 — Rotary ATPase ring subunits
Family Family family	f.17.1.1 — F1F0 ATP synthase subunit C or V-type proton ATPase subunit c

Domain ID domain_id	d3j9tw2
Class class	f — Membrane and cell surface proteins and peptides
Fold Fold fold	f.17 — Transmembrane helix hairpin
Superfamily Superfamily superfamily	f.17.1 — Rotary ATPase ring subunits
Family Family family	f.17.1.1 — F1F0 ATP synthase subunit C or V-type proton ATPase subunit c

Domain ID domain_id	d3j9tx1
Class class	f — Membrane and cell surface proteins and peptides
Fold Fold fold	f.17 — Transmembrane helix hairpin
Superfamily Superfamily superfamily	f.17.1 — Rotary ATPase ring subunits
Family Family family	f.17.1.1 — F1F0 ATP synthase subunit C or V-type proton ATPase subunit c

Domain ID domain_id	d3j9tx2
Class class	f — Membrane and cell surface proteins and peptides
Fold Fold fold	f.17 — Transmembrane helix hairpin
Superfamily Superfamily superfamily	f.17.1 — Rotary ATPase ring subunits
Family Family family	f.17.1.1 — F1F0 ATP synthase subunit C or V-type proton ATPase subunit c

Domain ID domain_id	d3j9ty1
Class class	f — Membrane and cell surface proteins and peptides
Fold Fold fold	f.17 — Transmembrane helix hairpin
Superfamily Superfamily superfamily	f.17.1 — Rotary ATPase ring subunits
Family Family family	f.17.1.1 — F1F0 ATP synthase subunit C or V-type proton ATPase subunit c

Domain ID domain_id	d3j9ty2
Class class	f — Membrane and cell surface proteins and peptides
Fold Fold fold	f.17 — Transmembrane helix hairpin
Superfamily Superfamily superfamily	f.17.1 — Rotary ATPase ring subunits
Family Family family	f.17.1.1 — F1F0 ATP synthase subunit C or V-type proton ATPase subunit c

Domain ID domain_id	d3j9tz1
Class class	f — Membrane and cell surface proteins and peptides
Fold Fold fold	f.17 — Transmembrane helix hairpin
Superfamily Superfamily superfamily	f.17.1 — Rotary ATPase ring subunits
Family Family family	f.17.1.1 — F1F0 ATP synthase subunit C or V-type proton ATPase subunit c

Domain ID domain_id	d3j9tz2
Class class	f — Membrane and cell surface proteins and peptides
Fold Fold fold	f.17 — Transmembrane helix hairpin
Superfamily Superfamily superfamily	f.17.1 — Rotary ATPase ring subunits
Family Family family	f.17.1.1 — F1F0 ATP synthase subunit C or V-type proton ATPase subunit c

▶

Unit-cell length a length_a	1.000 Å
Unit-cell length b length_b	1.000 Å
Unit-cell length c length_c	1.000 Å
Unit-cell angle α angle_alpha	90.00 °
Unit-cell angle β angle_beta	90.00 °
Unit-cell angle γ angle_gamma	90.00 °
Molecules per unit cell Z z_pdb	1

Space group space_group	P 1
Space-group number int_tables_number	1
Crystal system crystal_system	—

Resolution resolution	6.90 Å
Resolution测定Method resolution_method	Maximum likelihood
颗粒数 num_particles	50503

Yeast V-ATPase state 1

1. Protein Identity and Related Structures Protein Identity & Related Structures

V-type proton ATPase subunit D

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

V-type proton ATPase subunit F

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

V-type proton ATPase catalytic subunit A

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

V-type proton ATPase subunit B

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

V-type proton ATPase subunit d

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

V-type proton ATPase subunit G

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

V-type proton ATPase subunit E

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

V-type proton ATPase subunit H

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

V-type proton ATPase subunit a, vacuolar isoform

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

V-type proton ATPase subunit C

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer