4y5z

T=1 capsid structure of SeMV Ndel65CP fused with B-domain of S. aureus protein SpA at the N-terminus (P1 crystal form)

Method: X-RAY DIFFRACTION

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

Immunoglobulin G-binding protein A,Coat protein

Sesbania mosaic virus

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Insufficient information	Homooligomer	Protein 60	SULFATE ION × 12 water × 60	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	SPA_STAA8
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain 0； PDBConstruct 19–72； UniProt 158–211 Author chain 1； PDBConstruct 19–72； UniProt 158–211 Author chain 2； PDBConstruct 19–72； UniProt 158–211 Author chain 3； PDBConstruct 19–72； UniProt 158–211 Author chain 4； PDBConstruct 19–72； UniProt 158–211 Author chain 5； PDBConstruct 19–72； UniProt 158–211 Author chain 6； PDBConstruct 19–72； UniProt 158–211 Author chain 7； PDBConstruct 19–72； UniProt 158–211 Author chain A； PDBConstruct 19–72； UniProt 158–211 Author chain B； PDBConstruct 19–72； UniProt 158–211 Author chain C； PDBConstruct 19–72； UniProt 158–211 Author chain D； PDBConstruct 19–72； UniProt 158–211 Author chain E； PDBConstruct 19–72； UniProt 158–211 Author chain F； PDBConstruct 19–72； UniProt 158–211 Author chain G； PDBConstruct 19–72； UniProt 158–211 Author chain H； PDBConstruct 19–72； UniProt 158–211 Author chain I； PDBConstruct 19–72； UniProt 158–211 Author chain J； PDBConstruct 19–72； UniProt 158–211 Author chain K； PDBConstruct 19–72； UniProt 158–211 Author chain L； PDBConstruct 19–72； UniProt 158–211 Author chain M； PDBConstruct 19–72； UniProt 158–211 Author chain N； PDBConstruct 19–72； UniProt 158–211 Author chain O； PDBConstruct 19–72； UniProt 158–211 Author chain P； PDBConstruct 19–72； UniProt 158–211 Author chain Q； PDBConstruct 19–72； UniProt 158–211 Author chain R； PDBConstruct 19–72； UniProt 158–211 Author chain S； PDBConstruct 19–72； UniProt 158–211 Author chain T； PDBConstruct 19–72； UniProt 158–211 Author chain U； PDBConstruct 19–72； UniProt 158–211 Author chain V； PDBConstruct 19–72； UniProt 158–211 Author chain W； PDBConstruct 19–72； UniProt 158–211 Author chain X； PDBConstruct 19–72； UniProt 158–211 Author chain Y； PDBConstruct 19–72； UniProt 158–211 Author chain Z； PDBConstruct 19–72； UniProt 158–211 Author chain a； PDBConstruct 19–72； UniProt 158–211 Author chain b； PDBConstruct 19–72； UniProt 158–211 Author chain c； PDBConstruct 19–72； UniProt 158–211 Author chain d； PDBConstruct 19–72； UniProt 158–211 Author chain e； PDBConstruct 19–72； UniProt 158–211 Author chain f； PDBConstruct 19–72； UniProt 158–211 Author chain g； PDBConstruct 19–72； UniProt 158–211 Author chain h； PDBConstruct 19–72； UniProt 158–211 Author chain i； PDBConstruct 19–72； UniProt 158–211 Author chain j； PDBConstruct 19–72； UniProt 158–211 Author chain k； PDBConstruct 19–72； UniProt 158–211 Author chain l； PDBConstruct 19–72； UniProt 158–211 Author chain m； PDBConstruct 19–72； UniProt 158–211 Author chain n； PDBConstruct 19–72； UniProt 158–211 Author chain o； PDBConstruct 19–72； UniProt 158–211 Author chain p； PDBConstruct 19–72； UniProt 158–211 Author chain q； PDBConstruct 19–72； UniProt 158–211 Author chain r； PDBConstruct 19–72； UniProt 158–211 Author chain s； PDBConstruct 19–72； UniProt 158–211 Author chain t； PDBConstruct 19–72； UniProt 158–211 Author chain u； PDBConstruct 19–72； UniProt 158–211 Author chain v； PDBConstruct 19–72； UniProt 158–211 Author chain w； PDBConstruct 19–72； UniProt 158–211 Author chain x； PDBConstruct 19–72； UniProt 158–211 Author chain y； PDBConstruct 19–72； UniProt 158–211 Author chain z； PDBConstruct 19–72； UniProt 158–211

Immunoglobulin G-binding protein A,Coat protein

Sesbania mosaic virus

UniProt Q9EB06

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Insufficient information	Homooligomer	Protein 60	SULFATE ION × 12 water × 60	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	Q9EB06_9VIRU
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain 0； PDBConstruct 80–282； UniProt 66–268 Author chain 1； PDBConstruct 80–282； UniProt 66–268 Author chain 2； PDBConstruct 80–282； UniProt 66–268 Author chain 3； PDBConstruct 80–282； UniProt 66–268 Author chain 4； PDBConstruct 80–282； UniProt 66–268 Author chain 5； PDBConstruct 80–282； UniProt 66–268 Author chain 6； PDBConstruct 80–282； UniProt 66–268 Author chain 7； PDBConstruct 80–282； UniProt 66–268 Author chain A； PDBConstruct 80–282； UniProt 66–268 Author chain B； PDBConstruct 80–282； UniProt 66–268 Author chain C； PDBConstruct 80–282； UniProt 66–268 Author chain D； PDBConstruct 80–282； UniProt 66–268 Author chain E； PDBConstruct 80–282； UniProt 66–268 Author chain F； PDBConstruct 80–282； UniProt 66–268 Author chain G； PDBConstruct 80–282； UniProt 66–268 Author chain H； PDBConstruct 80–282； UniProt 66–268 Author chain I； PDBConstruct 80–282； UniProt 66–268 Author chain J； PDBConstruct 80–282； UniProt 66–268 Author chain K； PDBConstruct 80–282； UniProt 66–268 Author chain L； PDBConstruct 80–282； UniProt 66–268 Author chain M； PDBConstruct 80–282； UniProt 66–268 Author chain N； PDBConstruct 80–282； UniProt 66–268 Author chain O； PDBConstruct 80–282； UniProt 66–268 Author chain P； PDBConstruct 80–282； UniProt 66–268 Author chain Q； PDBConstruct 80–282； UniProt 66–268 Author chain R； PDBConstruct 80–282； UniProt 66–268 Author chain S； PDBConstruct 80–282； UniProt 66–268 Author chain T； PDBConstruct 80–282； UniProt 66–268 Author chain U； PDBConstruct 80–282； UniProt 66–268 Author chain V； PDBConstruct 80–282； UniProt 66–268 Author chain W； PDBConstruct 80–282； UniProt 66–268 Author chain X； PDBConstruct 80–282； UniProt 66–268 Author chain Y； PDBConstruct 80–282； UniProt 66–268 Author chain Z； PDBConstruct 80–282； UniProt 66–268 Author chain a； PDBConstruct 80–282； UniProt 66–268 Author chain b； PDBConstruct 80–282； UniProt 66–268 Author chain c； PDBConstruct 80–282； UniProt 66–268 Author chain d； PDBConstruct 80–282； UniProt 66–268 Author chain e； PDBConstruct 80–282； UniProt 66–268 Author chain f； PDBConstruct 80–282； UniProt 66–268 Author chain g； PDBConstruct 80–282； UniProt 66–268 Author chain h； PDBConstruct 80–282； UniProt 66–268 Author chain i； PDBConstruct 80–282； UniProt 66–268 Author chain j； PDBConstruct 80–282； UniProt 66–268 Author chain k； PDBConstruct 80–282； UniProt 66–268 Author chain l； PDBConstruct 80–282； UniProt 66–268 Author chain m； PDBConstruct 80–282； UniProt 66–268 Author chain n； PDBConstruct 80–282； UniProt 66–268 Author chain o； PDBConstruct 80–282； UniProt 66–268 Author chain p； PDBConstruct 80–282； UniProt 66–268 Author chain q； PDBConstruct 80–282； UniProt 66–268 Author chain r； PDBConstruct 80–282； UniProt 66–268 Author chain s； PDBConstruct 80–282； UniProt 66–268 Author chain t； PDBConstruct 80–282； UniProt 66–268 Author chain u； PDBConstruct 80–282； UniProt 66–268 Author chain v； PDBConstruct 80–282； UniProt 66–268 Author chain w； PDBConstruct 80–282； UniProt 66–268 Author chain x； PDBConstruct 80–282； UniProt 66–268 Author chain y； PDBConstruct 80–282； UniProt 66–268 Author chain z； PDBConstruct 80–282； UniProt 66–268

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	4y5z
Deposition date deposition_date	2015-02-12
Structure title title	T=1 capsid structure of SeMV Ndel65CP fused with B-domain of S. aureus protein SpA at the N-terminus (P1 crystal form)
Keywords keywords	coat protein, chimeric VLP, in vitro assembly, VIRUS; VIRUS
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.

4y5z__assembly_1__model_1

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

Download this curve (.dat)

4y5z__assembly_1__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

4y5z__assembly_1__model_1 | P(r) · Pending

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

Rg（Guinier）	76.98 Å
Rg (electron density)	75.96 Å
Total Rg	76.14 Å
Atom count	85471
Residues	11534
Excluded volume	1527700 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`4y5z__assembly_1__model_1`	60-meric （60）	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 (3)

Entity 1 Entity 1 polymer

Description description	Immunoglobulin G-binding protein A,Coat protein
Molecular weight formula_weight	30543.2 kDa
Source method src_method	man
Copy count entity_count	60

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,a,c,e,g,i,k,m,o,q,r,s,t,u,v,w,x,y,z,0,1,2,3,4,5,6,7,b,d,f,h,j,l,n,p
Atom count atom_count	86922

MRGSHHHHHHGMASMDNKFNKEQQNAFYEILNMPNLNEEQRNGFIQSLKDDPSQSANLLSEAKKLNESQAPKEGSELEMAVSSSRGGITVLTHSELSAEIGVTDSIVVSSELVMPYTVGTWLRGVAANWSKYSWLSVRYTYIPSCPSSTAGSIHMGFQYDMADTVPVSVNQLSNLRGYVSGQVWSGSAGLCFINGTRCSDTSTAISTTLDVSKLGKKWYPYKTSADYATAVGVDVNIATPLVPARLVIALLDGSSSTAVAAGRIYCTYTIQMIEPTASALNN

Source Source

Source organism organism	Sesbania mosaic virus
NCBI taxonomy ID ncbi_taxonomy_id	12558
Host organism host_organism	Escherichia coli

Entity 2 Entity 2 non-polymer

Description description	SULFATE ION
Molecular weight formula_weight	96.1 kDa
Source method src_method	syn
Copy count entity_count	12

Entity 3 Entity 3 water

Description description	water
Molecular weight formula_weight	18.0 kDa
Source method src_method	nat
Copy count entity_count	1451

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6. Fold Classification (SCOP + CATH) 94 domains

SCOP 2.08 (34 domains)

Domain ID domain_id	d4y5z0_
Class class	b — All beta proteins
Fold Fold fold	b.121 — Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily Superfamily superfamily	b.121.4 — Positive stranded ssRNA viruses
Family Family family	b.121.4.7 — Tombusviridae-like VP

Domain ID domain_id	d4y5z1_
Class class	b — All beta proteins
Fold Fold fold	b.121 — Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily Superfamily superfamily	b.121.4 — Positive stranded ssRNA viruses
Family Family family	b.121.4.7 — Tombusviridae-like VP

Domain ID domain_id	d4y5z2_
Class class	b — All beta proteins
Fold Fold fold	b.121 — Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily Superfamily superfamily	b.121.4 — Positive stranded ssRNA viruses
Family Family family	b.121.4.7 — Tombusviridae-like VP

Domain ID domain_id	d4y5z3_
Class class	b — All beta proteins
Fold Fold fold	b.121 — Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily Superfamily superfamily	b.121.4 — Positive stranded ssRNA viruses
Family Family family	b.121.4.7 — Tombusviridae-like VP

Domain ID domain_id	d4y5z4_
Class class	b — All beta proteins
Fold Fold fold	b.121 — Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily Superfamily superfamily	b.121.4 — Positive stranded ssRNA viruses
Family Family family	b.121.4.7 — Tombusviridae-like VP

Domain ID domain_id	d4y5z5_
Class class	b — All beta proteins
Fold Fold fold	b.121 — Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily Superfamily superfamily	b.121.4 — Positive stranded ssRNA viruses
Family Family family	b.121.4.7 — Tombusviridae-like VP

Domain ID domain_id	d4y5z6_
Class class	b — All beta proteins
Fold Fold fold	b.121 — Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily Superfamily superfamily	b.121.4 — Positive stranded ssRNA viruses
Family Family family	b.121.4.7 — Tombusviridae-like VP

Domain ID domain_id	d4y5z7_
Class class	b — All beta proteins
Fold Fold fold	b.121 — Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily Superfamily superfamily	b.121.4 — Positive stranded ssRNA viruses
Family Family family	b.121.4.7 — Tombusviridae-like VP

Domain ID domain_id	d4y5za_
Class class	b — All beta proteins
Fold Fold fold	b.121 — Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily Superfamily superfamily	b.121.4 — Positive stranded ssRNA viruses
Family Family family	b.121.4.7 — Tombusviridae-like VP

Domain ID domain_id	d4y5zb_
Class class	b — All beta proteins
Fold Fold fold	b.121 — Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily Superfamily superfamily	b.121.4 — Positive stranded ssRNA viruses
Family Family family	b.121.4.7 — Tombusviridae-like VP

Domain ID domain_id	d4y5zc_
Class class	b — All beta proteins
Fold Fold fold	b.121 — Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily Superfamily superfamily	b.121.4 — Positive stranded ssRNA viruses
Family Family family	b.121.4.7 — Tombusviridae-like VP

Domain ID domain_id	d4y5zd_
Class class	b — All beta proteins
Fold Fold fold	b.121 — Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily Superfamily superfamily	b.121.4 — Positive stranded ssRNA viruses
Family Family family	b.121.4.7 — Tombusviridae-like VP

Domain ID domain_id	d4y5ze_
Class class	b — All beta proteins
Fold Fold fold	b.121 — Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily Superfamily superfamily	b.121.4 — Positive stranded ssRNA viruses
Family Family family	b.121.4.7 — Tombusviridae-like VP

Domain ID domain_id	d4y5zf_
Class class	b — All beta proteins
Fold Fold fold	b.121 — Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily Superfamily superfamily	b.121.4 — Positive stranded ssRNA viruses
Family Family family	b.121.4.7 — Tombusviridae-like VP

Domain ID domain_id	d4y5zg_
Class class	b — All beta proteins
Fold Fold fold	b.121 — Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily Superfamily superfamily	b.121.4 — Positive stranded ssRNA viruses
Family Family family	b.121.4.7 — Tombusviridae-like VP

Domain ID domain_id	d4y5zh_
Class class	b — All beta proteins
Fold Fold fold	b.121 — Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily Superfamily superfamily	b.121.4 — Positive stranded ssRNA viruses
Family Family family	b.121.4.7 — Tombusviridae-like VP

Domain ID domain_id	d4y5zi_
Class class	b — All beta proteins
Fold Fold fold	b.121 — Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily Superfamily superfamily	b.121.4 — Positive stranded ssRNA viruses
Family Family family	b.121.4.7 — Tombusviridae-like VP

Domain ID domain_id	d4y5zj_
Class class	b — All beta proteins
Fold Fold fold	b.121 — Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily Superfamily superfamily	b.121.4 — Positive stranded ssRNA viruses
Family Family family	b.121.4.7 — Tombusviridae-like VP

Domain ID domain_id	d4y5zk_
Class class	b — All beta proteins
Fold Fold fold	b.121 — Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily Superfamily superfamily	b.121.4 — Positive stranded ssRNA viruses
Family Family family	b.121.4.7 — Tombusviridae-like VP

Domain ID domain_id	d4y5zl_
Class class	b — All beta proteins
Fold Fold fold	b.121 — Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily Superfamily superfamily	b.121.4 — Positive stranded ssRNA viruses
Family Family family	b.121.4.7 — Tombusviridae-like VP

Domain ID domain_id	d4y5zm_
Class class	b — All beta proteins
Fold Fold fold	b.121 — Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily Superfamily superfamily	b.121.4 — Positive stranded ssRNA viruses
Family Family family	b.121.4.7 — Tombusviridae-like VP

Domain ID domain_id	d4y5zn_
Class class	b — All beta proteins
Fold Fold fold	b.121 — Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily Superfamily superfamily	b.121.4 — Positive stranded ssRNA viruses
Family Family family	b.121.4.7 — Tombusviridae-like VP

Domain ID domain_id	d4y5zo_
Class class	b — All beta proteins
Fold Fold fold	b.121 — Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily Superfamily superfamily	b.121.4 — Positive stranded ssRNA viruses
Family Family family	b.121.4.7 — Tombusviridae-like VP

Domain ID domain_id	d4y5zp_
Class class	b — All beta proteins
Fold Fold fold	b.121 — Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily Superfamily superfamily	b.121.4 — Positive stranded ssRNA viruses
Family Family family	b.121.4.7 — Tombusviridae-like VP

Domain ID domain_id	d4y5zq_
Class class	b — All beta proteins
Fold Fold fold	b.121 — Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily Superfamily superfamily	b.121.4 — Positive stranded ssRNA viruses
Family Family family	b.121.4.7 — Tombusviridae-like VP

Domain ID domain_id	d4y5zr_
Class class	b — All beta proteins
Fold Fold fold	b.121 — Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily Superfamily superfamily	b.121.4 — Positive stranded ssRNA viruses
Family Family family	b.121.4.7 — Tombusviridae-like VP

Domain ID domain_id	d4y5zs_
Class class	b — All beta proteins
Fold Fold fold	b.121 — Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily Superfamily superfamily	b.121.4 — Positive stranded ssRNA viruses
Family Family family	b.121.4.7 — Tombusviridae-like VP

Domain ID domain_id	d4y5zt_
Class class	b — All beta proteins
Fold Fold fold	b.121 — Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily Superfamily superfamily	b.121.4 — Positive stranded ssRNA viruses
Family Family family	b.121.4.7 — Tombusviridae-like VP

Domain ID domain_id	d4y5zu_
Class class	b — All beta proteins
Fold Fold fold	b.121 — Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily Superfamily superfamily	b.121.4 — Positive stranded ssRNA viruses
Family Family family	b.121.4.7 — Tombusviridae-like VP

Domain ID domain_id	d4y5zv_
Class class	b — All beta proteins
Fold Fold fold	b.121 — Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily Superfamily superfamily	b.121.4 — Positive stranded ssRNA viruses
Family Family family	b.121.4.7 — Tombusviridae-like VP

Domain ID domain_id	d4y5zw_
Class class	b — All beta proteins
Fold Fold fold	b.121 — Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily Superfamily superfamily	b.121.4 — Positive stranded ssRNA viruses
Family Family family	b.121.4.7 — Tombusviridae-like VP

Domain ID domain_id	d4y5zx_
Class class	b — All beta proteins
Fold Fold fold	b.121 — Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily Superfamily superfamily	b.121.4 — Positive stranded ssRNA viruses
Family Family family	b.121.4.7 — Tombusviridae-like VP

Domain ID domain_id	d4y5zy_
Class class	b — All beta proteins
Fold Fold fold	b.121 — Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily Superfamily superfamily	b.121.4 — Positive stranded ssRNA viruses
Family Family family	b.121.4.7 — Tombusviridae-like VP

Domain ID domain_id	d4y5zz_
Class class	b — All beta proteins
Fold Fold fold	b.121 — Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily Superfamily superfamily	b.121.4 — Positive stranded ssRNA viruses
Family Family family	b.121.4.7 — Tombusviridae-like VP

CATH v4.4 (60 domains)

Domain ID domain_id	4y5z000
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5z100
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5z200
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5z300
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5z400
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5z500
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5z600
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5z700
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5zA00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5zB00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5zC00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5zD00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5zE00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5zF00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5zG00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5zH00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5zI00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5zJ00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5zK00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5zL00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5zM00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5zN00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5zO00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5zP00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5zQ00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5zR00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5zS00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5zT00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5zU00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5zV00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5zW00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5zX00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5zY00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5zZ00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5za00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5zb00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5zc00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5zd00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5ze00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5zf00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5zg00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5zh00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5zi00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5zj00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5zk00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5zl00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5zm00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5zn00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5zo00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5zp00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5zq00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5zr00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5zs00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5zt00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5zu00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5zv00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5zw00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5zx00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5zy00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4y5zz00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	20 —

▶

Unit-cell length a length_a	186.480 Å
Unit-cell length b length_b	187.420 Å
Unit-cell length c length_c	187.930 Å
Unit-cell angle α angle_alpha	61.09 °
Unit-cell angle β angle_beta	89.24 °
Unit-cell angle γ angle_gamma	60.20 °
Molecules per unit cell Z z_pdb	60

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

Resolution resolution	2.950 Å
Low-resolution limit resolution_low	41.916 Å
R factor r_factor	0.1987
R_work r_work	0.1960
R_free r_free	0.2494

T=1 capsid structure of SeMV Ndel65CP fused with B-domain of S. aureus protein SpA at the N-terminus (P1 crystal form)

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

Immunoglobulin G-binding protein A,Coat protein

State in the Current Structure

Other States of the Same Protein in the Database

Immunoglobulin G-binding protein A,Coat protein

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

4y5z__assembly_1__model_1

4y5z__assembly_1__model_1 | I(q)

4y5z__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 (3)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

Entity 2 Entity 2 non-polymer

Entity 3 Entity 3 water

6. Fold Classification (SCOP + CATH) 94 domains

SCOP 2.08 (34 domains)

CATH v4.4 (60 domains)

7. Citations (1)

T=1 capsid structure of SeMV Ndel65CP fused with B-domain of S. aureus protein SpA at the N-terminus (P1 crystal form)

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

Immunoglobulin G-binding protein A,Coat protein

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

Immunoglobulin G-binding protein A,Coat protein

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

4y5z__assembly_1__model_1

4y5z__assembly_1__model_1 | I(q)

4y5z__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 (3)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

Entity 2 Entity 2 non-polymer

Entity 3 Entity 3 water

6. Fold Classification (SCOP + CATH) 94 domains

SCOP 2.08 (34 domains)

CATH v4.4 (60 domains)

7. Citations (1)