SAXSdb — 5bwk

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

ATPase GET3

Saccharomyces cerevisiae (strain RM11-1a)

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 24	Golgi to ER traffic protein 4 × 8 （Q12125） Ubiquitin-like protein MDY2 × 8 （Q12285） ZINC ION × 4	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	GET3_YEAS1
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 21–373； UniProt 2–354 Author chain B； PDBConstruct 21–373； UniProt 2–354 Author chain C； PDBConstruct 21–373； UniProt 2–354 Author chain D； PDBConstruct 21–373； UniProt 2–354 Author chain M； PDBConstruct 21–373； UniProt 2–354 Author chain N； PDBConstruct 21–373； UniProt 2–354 Author chain O； PDBConstruct 21–373； UniProt 2–354 Author chain P； PDBConstruct 21–373； UniProt 2–354

Golgi to ER traffic protein 4

Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

UniProt Q12125

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 24	ATPase GET3 × 8 （B3LGZ3） Ubiquitin-like protein MDY2 × 8 （Q12285） ZINC ION × 4	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	GET4_YEAST
Isoform	—
PDB entities	2
Chains and sequence ranges	Author chain E； PDBConstruct 3–303； UniProt 11–311 Author chain G； PDBConstruct 3–303； UniProt 11–311 Author chain I； PDBConstruct 3–303； UniProt 11–311 Author chain K； PDBConstruct 3–303； UniProt 11–311 Author chain Q； PDBConstruct 3–303； UniProt 11–311 Author chain S； PDBConstruct 3–303； UniProt 11–311 Author chain U； PDBConstruct 3–303； UniProt 11–311 Author chain W； PDBConstruct 3–303； UniProt 11–311

Ubiquitin-like protein MDY2

Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

UniProt Q12285

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 24	ATPase GET3 × 8 （B3LGZ3） Golgi to ER traffic protein 4 × 8 （Q12125） ZINC ION × 4	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	MDY2_YEAST
Isoform	—
PDB entities	3
Chains and sequence ranges	Author chain F； PDBConstruct 1–56； UniProt 1–56 Author chain H； PDBConstruct 1–56； UniProt 1–56 Author chain J； PDBConstruct 1–56； UniProt 1–56 Author chain L； PDBConstruct 1–56； UniProt 1–56 Author chain R； PDBConstruct 1–56； UniProt 1–56 Author chain T； PDBConstruct 1–56； UniProt 1–56 Author chain V； PDBConstruct 1–56； UniProt 1–56 Author chain X； PDBConstruct 1–56； UniProt 1–56

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	5bwk
Deposition date deposition_date	2015-06-08
Structure title title	6.0 A Crystal structure of a Get3-Get4-Get5 intermediate complex from S.cerevisiae
Keywords keywords	Tail-anchored targeting, ATPase, electrostatic interaction, Hydrolase-Transport complex; Hydrolase/Transport
Experimental Method method	X-RAY DIFFRACTION

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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.

5bwk__assembly_1__model_1

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

Download this curve (.dat)

5bwk__assembly_1__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

5bwk__assembly_1__model_1 | P(r) · Pending

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

Rg（Guinier）	64.55 Å
Rg (electron density)	64.14 Å
Total Rg	64.07 Å
Atom count	41907
Residues	5192
Excluded volume	750900 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`5bwk__assembly_1__model_1`	24-meric （24）	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 (4)

Entity 1 Entity 1 polymer

Description description	ATPase GET3
Molecular weight formula_weight	41576.8 kDa
EC 编号 ec_number	3.6.-.-
Source method src_method	man
Copy count entity_count	8

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	A,B,D,M,N,O,P,C
Atom count atom_count	41907

MGGSHHHHHHGENLYFQSVDDLTVEPNLHSLITSTTHKWIFVGGKGGVGKTTSSCSIAIQMALSQPNKQFLLISTDPAHNLSDAFGEKFGKDARKVTGMNNLSCMEIDPSAALKDMNDMAVSRANNNGSDGQGDDLGSLLQGGALADLTGSIPGIDEALSFMEVMKHIKRQEQGEGETFDTVIFDTAPTGHTLRFLQLPNTLSKLLEKFGEITNKLGPMLNSFMGAGNVDISGKLNELKANVETIRQQFTDPDLTTFVCVCISEFLSLYETERLIQELISYDMDVNSIIVNQLLFAENDQEHNCKRCQARWKMQKKYLDQIDELYEDFHVVKMPLCAGEIRGLNNLTKFSQFLNKEYNPITDGKVIYELEDKE

Source Source

Source organism organism	Saccharomyces cerevisiae (strain RM11-1a)
Common name common_name	;Baker's yeast ;
NCBI taxonomy ID ncbi_taxonomy_id	285006
Host organism host_organism	Escherichia coli

Entity 2 Entity 2 polymer

Description description	Golgi to ER traffic protein 4
Molecular weight formula_weight	37246.0 kDa
Source method src_method	man
Copy count entity_count	8

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	E,G,I,K,Q,S,U,W

MGAKLAKTLQRFENKIKAGDYYEAHQTLRTIANRYVRSKSYEHAIELISQGALSFLKAKQGGSGTDLIFYLLEVYDLAEVKVDDISVARLVRLIAELDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYFMLGTHDSMIKYVDLLWDWLCQVDDIEDSTVAEFFSRLVFNYLFISNISFAHESKDIFLERFIEKFHPKYEKIDKNGYEIVFFEDYSDLNFLQLLLITCQTADASYFLNLKNHYLDFSQAYKSELEFLGQEYFNIVAPKQTNFLQDMMSGFLGGSGENLYFQSLEHHHHHH

Source Source

Source organism organism	Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Common name common_name	;Baker's yeast ;
NCBI taxonomy ID ncbi_taxonomy_id	559292
Host organism host_organism	Escherichia coli

Entity 3 Entity 3 polymer

Description description	Ubiquitin-like protein MDY2
Molecular weight formula_weight	6305.3 kDa
Source method src_method	man
Copy count entity_count	8

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	F,H,J,L,R,T,V,X

MSTSASGPEHEFVSKFLTLATLTEPKLPKSYTKPLKDVTNLGVPLPTLKYKYKQNR

Source Source

Source organism organism	Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Common name common_name	;Baker's yeast ;
NCBI taxonomy ID ncbi_taxonomy_id	559292
Host organism host_organism	Escherichia coli

Entity 4 Entity 4 non-polymer

Description description	ZINC ION
Molecular weight formula_weight	65.4 kDa
Source method src_method	syn
Copy count entity_count	4

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Unit-cell length a length_a	152.430 Å
Unit-cell length b length_b	127.330 Å
Unit-cell length c length_c	210.260 Å
Unit-cell angle α angle_alpha	90.00 °
Unit-cell angle β angle_beta	110.23 °
Unit-cell angle γ angle_gamma	90.00 °
Molecules per unit cell Z z_pdb	16

Space group space_group	P 1 21 1
Space-group number int_tables_number	4
Crystal system crystal_system	—

Resolution resolution	6.000 Å
Low-resolution limit resolution_low	30.000 Å
R factor r_factor	0.2740
R_work r_work	0.2739
R_free r_free	0.3025

6.0 A Crystal structure of a Get3-Get4-Get5 intermediate complex from S.cerevisiae

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

ATPase GET3

State in the Current Structure

Other States of the Same Protein in the Database

Golgi to ER traffic protein 4

State in the Current Structure

Other States of the Same Protein in the Database

Ubiquitin-like protein MDY2

State in the Current Structure

Other States of the Same Protein in the Database

2. Structure Basics 2. Structure Basics

3. Official assembly/model SAXS Official SAXS Profiles

5bwk__assembly_1__model_1

5bwk__assembly_1__model_1 | I(q)

5bwk__assembly_1__model_1 | P(r) · Pending

4. Crystallography and Experiment 4. Crystallography & Experiment

Unit cell Unit Cell

Symmetry Symmetry

Refinement Refinement

Diffraction experiment Diffraction

5. Entities and Polymers Entities & Polymers (4)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

Entity 2 Entity 2 polymer

Polymer Polymer

Source Source

Entity 3 Entity 3 polymer

Polymer Polymer

Source Source

Entity 4 Entity 4 non-polymer

7. Citations (1)

6.0 A Crystal structure of a Get3-Get4-Get5 intermediate complex from S.cerevisiae

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

ATPase GET3

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

Golgi to ER traffic protein 4

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

Ubiquitin-like protein MDY2

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

2. Structure Basics 2. Structure Basics

3. Official assembly/model SAXS Official SAXS Profiles

5bwk__assembly_1__model_1

5bwk__assembly_1__model_1 | I(q)

5bwk__assembly_1__model_1 | P(r) · Pending

4. Crystallography and Experiment 4. Crystallography & Experiment

Unit cell Unit Cell

Symmetry Symmetry

Refinement Refinement

Diffraction experiment Diffraction

5. Entities and Polymers Entities & Polymers (4)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

Entity 2 Entity 2 polymer

Polymer Polymer

Source Source

Entity 3 Entity 3 polymer

Polymer Polymer

Source Source

Entity 4 Entity 4 non-polymer

7. Citations (1)