SAXSdb — 9xps

▼

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

PHIKZ099

OrganismNot specified

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 15	PHIKZ029 × 1 （Q8SDD3） PHIKZ030 × 2 （Q8SDD2） PHIKZ098 × 1 （Q8SD64） PHIKZ034 × 8 （Q8SDC8） Endolysin gp144 × 1 （Q8SD18）	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	Q8SD63_BPDPK
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 1–469； UniProt 1–469 Author chain B； PDBConstruct 1–469； UniProt 1–469

PHIKZ029

OrganismNot specified

UniProt Q8SDD3

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 15	PHIKZ099 × 2 （Q8SD63） PHIKZ030 × 2 （Q8SDD2） PHIKZ098 × 1 （Q8SD64） PHIKZ034 × 8 （Q8SDC8） Endolysin gp144 × 1 （Q8SD18）	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	Q8SDD3_BPDPK
Isoform	—
PDB entities	2
Chains and sequence ranges	Author chain x； PDBConstruct 1–695； UniProt 1–695

PHIKZ030

OrganismNot specified

UniProt Q8SDD2

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 15	PHIKZ099 × 2 （Q8SD63） PHIKZ029 × 1 （Q8SDD3） PHIKZ098 × 1 （Q8SD64） PHIKZ034 × 8 （Q8SDC8） Endolysin gp144 × 1 （Q8SD18）	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	Q8SDD2_BPDPK
Isoform	—
PDB entities	3
Chains and sequence ranges	Author chain y； PDBConstruct 1–293； UniProt 1–293 Author chain z； PDBConstruct 1–293； UniProt 1–293

PHIKZ098

OrganismNot specified

UniProt Q8SD64

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 15	PHIKZ099 × 2 （Q8SD63） PHIKZ029 × 1 （Q8SDD3） PHIKZ030 × 2 （Q8SDD2） PHIKZ034 × 8 （Q8SDC8） Endolysin gp144 × 1 （Q8SD18）	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	Q8SD64_BPDPK
Isoform	—
PDB entities	4
Chains and sequence ranges	Author chain w； PDBConstruct 1–542； UniProt 1–542

PHIKZ034

OrganismNot specified

UniProt Q8SDC8

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 15	PHIKZ099 × 2 （Q8SD63） PHIKZ029 × 1 （Q8SDD3） PHIKZ030 × 2 （Q8SDD2） PHIKZ098 × 1 （Q8SD64） Endolysin gp144 × 1 （Q8SD18）	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	Q8SDC8_BPDPK
Isoform	—
PDB entities	5
Chains and sequence ranges	Author chain 1； PDBConstruct 1–256； UniProt 1–256 Author chain 2； PDBConstruct 1–256； UniProt 1–256 Author chain 3； PDBConstruct 1–256； UniProt 1–256 Author chain 4； PDBConstruct 1–256； UniProt 1–256 Author chain 5； PDBConstruct 1–256； UniProt 1–256 Author chain 6； PDBConstruct 1–256； UniProt 1–256 Author chain 7； PDBConstruct 1–256； UniProt 1–256 Author chain 8； PDBConstruct 1–256； UniProt 1–256

Endolysin gp144

OrganismNot specified

UniProt Q8SD18

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 15	PHIKZ099 × 2 （Q8SD63） PHIKZ029 × 1 （Q8SDD3） PHIKZ030 × 2 （Q8SDD2） PHIKZ098 × 1 （Q8SD64） PHIKZ034 × 8 （Q8SDC8）	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	ENLYS_BPDPK
Isoform	—
PDB entities	6
Chains and sequence ranges	Author chain S； PDBConstruct 1–260； UniProt 1–260

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.

▼

2. Structure Basics 2. Structure Basics

Entry ID entry_id	9xps
Deposition date deposition_date	2025-11-17
Structure title title	The neck structure of the Phage Phikz
Keywords keywords	neck, VIRAL PROTEIN; VIRAL PROTEIN
Experimental Method method	ELECTRON MICROSCOPY

▼

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.

9xps__assembly_1__model_1

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

Download this curve (.dat)

9xps__assembly_1__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

9xps__assembly_1__model_1 | P(r) · Pending

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

Rg（Guinier）	70.66 Å
Rg (electron density)	70.39 Å
Total Rg	70.48 Å
Atom count	37802
Residues	4640
Excluded volume	672060 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`9xps__assembly_1__model_1`	15-meric （15）	Success	4.1.3-1-20251215 (887e7ef)	View Download

▶

4. Crystallography and Experiment 4. Crystallography & Experiment

▶

5. Entities and Polymers Entities & Polymers (6)

Entity 1 Entity 1 polymer

Description description	PHIKZ099
Molecular weight formula_weight	54814.4 kDa
Source method src_method	nat
Copy count entity_count	2

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	A,B
Atom count atom_count	37802

MALLTIEDEELPVNPEVKPVNPKECPDVFRGIAVDTKYVPRSDLMAWITGSNWRVDYFSQILREDQEPTALDIHRRPDKQQYIAIKGMDLKVTQALQYNQAENTTKFKVDGTGFTYPFLVPQKNDMFIADVGDGRSGLFTITSVRRQTILRDSTYAVTWKMIHYVTQQEYDDLITKSQMSYYYSSTSLMNGCGPFVTEQEQEDNTNLTKLYKEIIRNYITEFYSPQHQTFLVPDQLTKTYDHFAVKAFLQMVDASADPRMYKIKLLNVFSEPVMSQPTVWDAIVRQDVARMCYATEKAHLVTTKISRWKPVFQAIGFTGIARMVFPIDAPIDVESRYDGETMCRPDGQPFREGRPMREAPGPYRTQAERNLPWFKRIDPQYEDRVKPWQIPADIYPIVRDNYYVFTEAFYRGDKKLMSKLELCVWAMINGEAVNADQLREVAKCSRSWDNLERYYYHIVLLSLIKYSLR

Entity 2 Entity 2 polymer

Description description	PHIKZ029
Molecular weight formula_weight	77712.3 kDa
Source method src_method	nat
Copy count entity_count	1

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	x

MAYYNAVPRVVFNGIRDRSRRPLIRPDITFAQHCPLLRLFTETGPTETTYVGDSDDGFASIYGQASLDPRSKFFNTQSLLALNLLGRGNGFYVKRLRPEDAANPSRLIVAIEIVEDEIPLTIRRLSGFNYPNSVRDIGNAPVPTTDKVDGLKARIILIEDNTSEVGTQRVLPGTLVSDKDGSQSLVYPLFEAPVSFFGKLGDSNGMRVWSTTTADIEEFDEAAMAKFKTRQFRIQLIEKPEVGTSPVIVKTADQQDYLNITFDKGVYSDMYNADLYVGDVLVDSYSDDGVVSGLSPLYSPFSQFYVYHENIDLVRQMIYDTEMRVNPAAAAHTTAPGEIDFLTFLAVDGDPYQGIQVLGPLDGGITLGKDGNIYASGGTDGTTDLEEYAKLVDIENINFGKLNDRYNNIAEYQFGVLYDTGLPMESKYRAMRVLSARRDLQYFFTTFVETDSRLPDEATELSRVQQIITRLKAFPESTLYGTGVCRAMIVMQSGKLMDGTYRKYVPQLLDVAMSWARYAGAGTGNLVPGMEMDVSPNNRVTFVKDLNVKFFDDRVRAQAWANGATWSQSYDHRSSYYPCLRSVMLDDTSVLLSPITVNICCVLIRLIHKVHAQFSGNATLTPEQLVERCDEYILDLVRDMFGTRVNIIPRTEITPIDANNGTSWTCNVTVEANNPRTTLNFNLETVRIETPPAQQ

Entity 3 Entity 3 polymer

Description description	PHIKZ030
Molecular weight formula_weight	32686.6 kDa
Source method src_method	nat
Copy count entity_count	2

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	y,z

MARYNDPMAPETGYGAGGARNTVNLAQAGTNVFRPDLANLATNTPYVARNLVPFLLDAPRFFKYASNTNWLVACLKAFVETHTRTIDGLQRTLTVDNAEAPWGGSGEVIQTATNVTRARSNPNFGCWELQNRAIQRFLQWWINYGIADENTKVPRIVSDGIVPVEKYDATFYGMTVLFVEPDPTFQDCVNAYLCTNMFPLTTGPWENRKDASQIGQNLDLNVEFSALTDVSEGVQEYARQMFRKLNIRGMNPNNQKLDWGGLSADVLRARNGIQDQIERAVGNRVTYDGVGLS

Entity 4 Entity 4 polymer

Description description	PHIKZ098
Molecular weight formula_weight	63225.4 kDa
Source method src_method	nat
Copy count entity_count	1

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	w

MPNTTLVLPDVYESVTRRVAADIIGQLAKMMGLPEDTLVQFPGNVQTVPMNGGMFGNCCDSANVVKFDPEDHIIITYDEVADERYTLSTDVKNHQNFPWFVDETRGVRITPVRRFVDVRFDIEYKSKNITLAQRWLDEQRLWFSNNGQELVHTLTYHVDVPMPVQGILAAIYNTAQNSHWPMEETFPEYLNKYFTFPTTELADLSQKNKSLVIYERQVDVIGWYDYTSTPPTPEYDSESDGSYNVRFSYFLTYARPTHVWIEYPLTVHQCLVPSVIRPKYIYENYQQVDRKVSQFRGSLYHKFLLIRDKKIPYIQHPDIDTWDTDNIPINQLTFFSGLLTLCPDEIESGTLMSFDQLGRYSFSPFFLEYFEGVGTKAIDQNGIFQVRLYENDNYTRAECYLDGLMLKTKWKLDPCKVYHVQISIHKNLLLVFDDRWRCLQRYPRVCWTIFNLFGVGIGRKPFEEVKLLGKGRDRLPSEECPGEGTTCHTQCLNPTTEGVINWKDIVDAREEMNTRIGPDWDPTYLMGPLTVLYGNIITERKE

Entity 5 Entity 5 polymer

Description description	PHIKZ034
Molecular weight formula_weight	29899.9 kDa
Source method src_method	nat
Copy count entity_count	8

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	1,3,5,6,4,7,8,2

MSCCKAPVKPDTSIDIDHLGGGCQTYNHLQDMFFYLKEERLNAKPCDLSRYSIQYSYVDSMTYLYVLTDELTGETISWSVTKEFEKESPQAAFERDYIERELIYNRGIKRALDDMLEGLADADPSNVYKLERTDYGYRILRRINDELGAVIFKLSYTIHRGPIITPFSDKCTVPENVPDIFPTETQRALSRLVYRFHKLGVIFGDWVPDHVQKYNKMELTGYTRRTMDSYVILNMAIQSINLTDPELVTYHKYYSI

Entity 6 Entity 6 polymer

Description description	Endolysin gp144
Molecular weight formula_weight	28850.0 kDa
EC 编号 ec_number	4.2.2.-
Source method src_method	nat
Copy count entity_count	1

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	S

MKVLRKGDRGDEVCQLQTLLNLCGYDVGKPDGIFGNNTFNQVVKFQKDNCLDSDGIVGKNTWAELFSKYSPPIPYKTIPMPTANKSRAAATPVMNAVENATGVRSQLLLTFASIESAFDYEIKAKTSSATGWFQFLTGTWKTMIENYGMKYGVLTDPTGALRKDPRISALMGAELIKENMNILRPVLKREPTDTDLYLAHFFGPGAARRFLTTGQNELAATHFPKEAQANPSIFYNKDGSPKTIQEVYNLMDGKVAAHRK

▶

Resolution resolution	3.520 Å
Low-resolution limit resolution_low	— Å
R factor r_factor	—
R_work r_work	—
R_free r_free	—

Resolution resolution	3.52 Å
Resolution测定Method resolution_method	—
颗粒数 num_particles	35244

The neck structure of the Phage Phikz

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

PHIKZ099

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

PHIKZ029

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

PHIKZ030

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

PHIKZ098

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

PHIKZ034

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

Endolysin gp144

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

9xps__assembly_1__model_1

9xps__assembly_1__model_1 | I(q)

9xps__assembly_1__model_1 | P(r) · Pending

4. Crystallography and Experiment 4. Crystallography & Experiment

Refinement Refinement

冷冻电镜 EM 3D

5. Entities and Polymers Entities & Polymers (6)

Entity 1 Entity 1 polymer

Polymer Polymer

Entity 2 Entity 2 polymer

Polymer Polymer

Entity 3 Entity 3 polymer

Polymer Polymer

Entity 4 Entity 4 polymer

Polymer Polymer

Entity 5 Entity 5 polymer

Polymer Polymer

Entity 6 Entity 6 polymer

Polymer Polymer

7. Citations (1)