SAXSdb — 9k3m

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

Capsid protein F

OrganismNot specified

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 180	Major spike protein G × 60 （A0A5J6T840） DNA-binding protein J × 60 （P69592）	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	Q2LLZ1_BPPHX
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 1–427； UniProt 1–427 Author chain AB； PDBConstruct 1–427； UniProt 1–427 Author chain AE； PDBConstruct 1–427； UniProt 1–427 Author chain BC； PDBConstruct 1–427； UniProt 1–427 Author chain BF； PDBConstruct 1–427； UniProt 1–427 Author chain CA； PDBConstruct 1–427； UniProt 1–427 Author chain CD； PDBConstruct 1–427； UniProt 1–427 Author chain D； PDBConstruct 1–427； UniProt 1–427 Author chain DB； PDBConstruct 1–427； UniProt 1–427 Author chain DE； PDBConstruct 1–427； UniProt 1–427 Author chain EC； PDBConstruct 1–427； UniProt 1–427 Author chain EF； PDBConstruct 1–427； UniProt 1–427 Author chain F； PDBConstruct 1–427； UniProt 1–427 Author chain FA； PDBConstruct 1–427； UniProt 1–427 Author chain FD； PDBConstruct 1–427； UniProt 1–427 Author chain GB； PDBConstruct 1–427； UniProt 1–427 Author chain GE； PDBConstruct 1–427； UniProt 1–427 Author chain HC； PDBConstruct 1–427； UniProt 1–427 Author chain HF； PDBConstruct 1–427； UniProt 1–427 Author chain I； PDBConstruct 1–427； UniProt 1–427 Author chain IA； PDBConstruct 1–427； UniProt 1–427 Author chain ID； PDBConstruct 1–427； UniProt 1–427 Author chain JB； PDBConstruct 1–427； UniProt 1–427 Author chain JE； PDBConstruct 1–427； UniProt 1–427 Author chain KC； PDBConstruct 1–427； UniProt 1–427 Author chain KF； PDBConstruct 1–427； UniProt 1–427 Author chain LA； PDBConstruct 1–427； UniProt 1–427 Author chain LD； PDBConstruct 1–427； UniProt 1–427 Author chain M； PDBConstruct 1–427； UniProt 1–427 Author chain MB； PDBConstruct 1–427； UniProt 1–427 Author chain ME； PDBConstruct 1–427； UniProt 1–427 Author chain NC； PDBConstruct 1–427； UniProt 1–427 Author chain NF； PDBConstruct 1–427； UniProt 1–427 Author chain OA； PDBConstruct 1–427； UniProt 1–427 Author chain OD； PDBConstruct 1–427； UniProt 1–427 Author chain P； PDBConstruct 1–427； UniProt 1–427 Author chain PB； PDBConstruct 1–427； UniProt 1–427 Author chain PE； PDBConstruct 1–427； UniProt 1–427 Author chain QC； PDBConstruct 1–427； UniProt 1–427 Author chain QF； PDBConstruct 1–427； UniProt 1–427 Author chain RA； PDBConstruct 1–427； UniProt 1–427 Author chain RD； PDBConstruct 1–427； UniProt 1–427 Author chain S； PDBConstruct 1–427； UniProt 1–427 Author chain SB； PDBConstruct 1–427； UniProt 1–427 Author chain SE； PDBConstruct 1–427； UniProt 1–427 Author chain TC； PDBConstruct 1–427； UniProt 1–427 Author chain TF； PDBConstruct 1–427； UniProt 1–427 Author chain UA； PDBConstruct 1–427； UniProt 1–427 Author chain UD； PDBConstruct 1–427； UniProt 1–427 Author chain VB； PDBConstruct 1–427； UniProt 1–427 Author chain VE； PDBConstruct 1–427； UniProt 1–427 Author chain W； PDBConstruct 1–427； UniProt 1–427 Author chain WC； PDBConstruct 1–427； UniProt 1–427 Author chain WF； PDBConstruct 1–427； UniProt 1–427 Author chain XA； PDBConstruct 1–427； UniProt 1–427 Author chain XD； PDBConstruct 1–427； UniProt 1–427 Author chain YB； PDBConstruct 1–427； UniProt 1–427 Author chain YE； PDBConstruct 1–427； UniProt 1–427 Author chain Z； PDBConstruct 1–427； UniProt 1–427 Author chain ZC； PDBConstruct 1–427； UniProt 1–427

Major spike protein G

OrganismNot specified

UniProt A0A5J6T840

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 180	Capsid protein F × 60 （Q2LLZ1） DNA-binding protein J × 60 （P69592）	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	A0A5J6T840_9VIRU
Isoform	—
PDB entities	2
Chains and sequence ranges	Author chain AA； PDBConstruct 1–175； UniProt 1–175 Author chain AD； PDBConstruct 1–175； UniProt 1–175 Author chain B； PDBConstruct 1–175； UniProt 1–175 Author chain BB； PDBConstruct 1–175； UniProt 1–175 Author chain BE； PDBConstruct 1–175； UniProt 1–175 Author chain CC； PDBConstruct 1–175； UniProt 1–175 Author chain CF； PDBConstruct 1–175； UniProt 1–175 Author chain DA； PDBConstruct 1–175； UniProt 1–175 Author chain DD； PDBConstruct 1–175； UniProt 1–175 Author chain E； PDBConstruct 1–175； UniProt 1–175 Author chain EB； PDBConstruct 1–175； UniProt 1–175 Author chain EE； PDBConstruct 1–175； UniProt 1–175 Author chain FC； PDBConstruct 1–175； UniProt 1–175 Author chain FF； PDBConstruct 1–175； UniProt 1–175 Author chain G； PDBConstruct 1–175； UniProt 1–175 Author chain GA； PDBConstruct 1–175； UniProt 1–175 Author chain GD； PDBConstruct 1–175； UniProt 1–175 Author chain HB； PDBConstruct 1–175； UniProt 1–175 Author chain HE； PDBConstruct 1–175； UniProt 1–175 Author chain IC； PDBConstruct 1–175； UniProt 1–175 Author chain IF； PDBConstruct 1–175； UniProt 1–175 Author chain JA； PDBConstruct 1–175； UniProt 1–175 Author chain JD； PDBConstruct 1–175； UniProt 1–175 Author chain K； PDBConstruct 1–175； UniProt 1–175 Author chain KB； PDBConstruct 1–175； UniProt 1–175 Author chain KE； PDBConstruct 1–175； UniProt 1–175 Author chain LC； PDBConstruct 1–175； UniProt 1–175 Author chain LF； PDBConstruct 1–175； UniProt 1–175 Author chain MA； PDBConstruct 1–175； UniProt 1–175 Author chain MD； PDBConstruct 1–175； UniProt 1–175 Author chain N； PDBConstruct 1–175； UniProt 1–175 Author chain NB； PDBConstruct 1–175； UniProt 1–175 Author chain NE； PDBConstruct 1–175； UniProt 1–175 Author chain OC； PDBConstruct 1–175； UniProt 1–175 Author chain OF； PDBConstruct 1–175； UniProt 1–175 Author chain PA； PDBConstruct 1–175； UniProt 1–175 Author chain PD； PDBConstruct 1–175； UniProt 1–175 Author chain Q； PDBConstruct 1–175； UniProt 1–175 Author chain QB； PDBConstruct 1–175； UniProt 1–175 Author chain QE； PDBConstruct 1–175； UniProt 1–175 Author chain RC； PDBConstruct 1–175； UniProt 1–175 Author chain RF； PDBConstruct 1–175； UniProt 1–175 Author chain SA； PDBConstruct 1–175； UniProt 1–175 Author chain SD； PDBConstruct 1–175； UniProt 1–175 Author chain T； PDBConstruct 1–175； UniProt 1–175 Author chain TB； PDBConstruct 1–175； UniProt 1–175 Author chain TE； PDBConstruct 1–175； UniProt 1–175 Author chain UC； PDBConstruct 1–175； UniProt 1–175 Author chain UF； PDBConstruct 1–175； UniProt 1–175 Author chain VA； PDBConstruct 1–175； UniProt 1–175 Author chain VD； PDBConstruct 1–175； UniProt 1–175 Author chain WB； PDBConstruct 1–175； UniProt 1–175 Author chain WE； PDBConstruct 1–175； UniProt 1–175 Author chain X； PDBConstruct 1–175； UniProt 1–175 Author chain XC； PDBConstruct 1–175； UniProt 1–175 Author chain XF； PDBConstruct 1–175； UniProt 1–175 Author chain YA； PDBConstruct 1–175； UniProt 1–175 Author chain YD； PDBConstruct 1–175； UniProt 1–175 Author chain ZB； PDBConstruct 1–175； UniProt 1–175 Author chain ZE； PDBConstruct 1–175； UniProt 1–175

DNA-binding protein J

OrganismNot specified

UniProt P69592

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 180	Capsid protein F × 60 （Q2LLZ1） Major spike protein G × 60 （A0A5J6T840）	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	J_BPPHS
Isoform	—
PDB entities	3
Chains and sequence ranges	Author chain AC； PDBConstruct 1–38； UniProt 1–38 Author chain AF； PDBConstruct 1–38； UniProt 1–38 Author chain BA； PDBConstruct 1–38； UniProt 1–38 Author chain BD； PDBConstruct 1–38； UniProt 1–38 Author chain C； PDBConstruct 1–38； UniProt 1–38 Author chain CB； PDBConstruct 1–38； UniProt 1–38 Author chain CE； PDBConstruct 1–38； UniProt 1–38 Author chain DC； PDBConstruct 1–38； UniProt 1–38 Author chain DF； PDBConstruct 1–38； UniProt 1–38 Author chain EA； PDBConstruct 1–38； UniProt 1–38 Author chain ED； PDBConstruct 1–38； UniProt 1–38 Author chain FB； PDBConstruct 1–38； UniProt 1–38 Author chain FE； PDBConstruct 1–38； UniProt 1–38 Author chain GC； PDBConstruct 1–38； UniProt 1–38 Author chain GF； PDBConstruct 1–38； UniProt 1–38 Author chain H； PDBConstruct 1–38； UniProt 1–38 Author chain HA； PDBConstruct 1–38； UniProt 1–38 Author chain HD； PDBConstruct 1–38； UniProt 1–38 Author chain IB； PDBConstruct 1–38； UniProt 1–38 Author chain IE； PDBConstruct 1–38； UniProt 1–38 Author chain J； PDBConstruct 1–38； UniProt 1–38 Author chain JC； PDBConstruct 1–38； UniProt 1–38 Author chain JF； PDBConstruct 1–38； UniProt 1–38 Author chain KA； PDBConstruct 1–38； UniProt 1–38 Author chain KD； PDBConstruct 1–38； UniProt 1–38 Author chain L； PDBConstruct 1–38； UniProt 1–38 Author chain LB； PDBConstruct 1–38； UniProt 1–38 Author chain LE； PDBConstruct 1–38； UniProt 1–38 Author chain MC； PDBConstruct 1–38； UniProt 1–38 Author chain MF； PDBConstruct 1–38； UniProt 1–38 Author chain NA； PDBConstruct 1–38； UniProt 1–38 Author chain ND； PDBConstruct 1–38； UniProt 1–38 Author chain O； PDBConstruct 1–38； UniProt 1–38 Author chain OB； PDBConstruct 1–38； UniProt 1–38 Author chain OE； PDBConstruct 1–38； UniProt 1–38 Author chain PC； PDBConstruct 1–38； UniProt 1–38 Author chain PF； PDBConstruct 1–38； UniProt 1–38 Author chain QA； PDBConstruct 1–38； UniProt 1–38 Author chain QD； PDBConstruct 1–38； UniProt 1–38 Author chain R； PDBConstruct 1–38； UniProt 1–38 Author chain RB； PDBConstruct 1–38； UniProt 1–38 Author chain RE； PDBConstruct 1–38； UniProt 1–38 Author chain SC； PDBConstruct 1–38； UniProt 1–38 Author chain SF； PDBConstruct 1–38； UniProt 1–38 Author chain TA； PDBConstruct 1–38； UniProt 1–38 Author chain TD； PDBConstruct 1–38； UniProt 1–38 Author chain UB； PDBConstruct 1–38； UniProt 1–38 Author chain UE； PDBConstruct 1–38； UniProt 1–38 Author chain V； PDBConstruct 1–38； UniProt 1–38 Author chain VC； PDBConstruct 1–38； UniProt 1–38 Author chain VF； PDBConstruct 1–38； UniProt 1–38 Author chain WA； PDBConstruct 1–38； UniProt 1–38 Author chain WD； PDBConstruct 1–38； UniProt 1–38 Author chain XB； PDBConstruct 1–38； UniProt 1–38 Author chain XE； PDBConstruct 1–38； UniProt 1–38 Author chain Y； PDBConstruct 1–38； UniProt 1–38 Author chain YC； PDBConstruct 1–38； UniProt 1–38 Author chain YF； PDBConstruct 1–38； UniProt 1–38 Author chain ZA； PDBConstruct 1–38； UniProt 1–38 Author chain ZD； PDBConstruct 1–38； UniProt 1–38

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	9k3m
Deposition date deposition_date	2024-10-19
Structure title title	The structure of Microviridae PJNS001
Keywords keywords	structual proteins, VIRUS; VIRUS
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.

9k3m__assembly_1__model_1

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

Download this curve (.dat)

9k3m__assembly_1__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

9k3m__assembly_1__model_1 | P(r) · Pending

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

Rg（Guinier）	0.00 Å
Rg (electron density)	129.80 Å
Total Rg	129.90 Å
Atom count	302160
Residues	38280
Excluded volume	5351200 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`9k3m__assembly_1__model_1`	180-meric （180）	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	Capsid protein F
Molecular weight formula_weight	48500.5 kDa
Source method src_method	nat
Copy count entity_count	60

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	;F,A,D,I,M,P,S,W,Z,CA,FA,IA,LA,OA,RA,UA,XA,AB,DB,GB,JB,MB,PB,SB,VB,YB,BC,EC,HC,KC,NC,QC,TC,WC,ZC,CD,FD,ID,LD,OD,RD,UD,XD,AE,DE,GE,JE,ME,PE,SE,VE,YE,BF,EF,HF,KF,NF,QF,TF,WF ;
Atom count atom_count	302160

MSNVQTGAERMPHDLSHLGFLAGQIGRLITISTTPVIAGDSFEMDAVGALRLSPLRRGLAIDSTVDIFTFYVPHRHVYGEQWIKFMKDGVNAAPLPTVNTTGYIDHAAFLGTINPDTNKIPKHLFQGYLNIYNNYFKAPWMPDRTEANPNQLNEDDARYGFRCCHLKNIWTAPLPPETELSRQMTTSTTSIDIMGLQAAYANLHTDQERDYFMQRYRDVISSFGGKTSYDADNRPLLVMRSNFWASGYDVDGTDQTSLGQFSGRVQQTYKHSVPRFFVPEHGTMFTLALVRFPPTATKEIQYLNAKGALTYTDIAGDPALYGNLPPREISMKDVFRSGDASKKFKIAEGQWYRYAPSYVSPAYHLLEGFPFIQEPPSGDLQERVLIRHHDYDQCFQSVQLLQWNSQVKFNVTVYRNLPTTRDSIMTS

Entity 2 Entity 2 polymer

Description description	Major spike protein G
Molecular weight formula_weight	19112.7 kDa
Source method src_method	nat
Copy count entity_count	60

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	;G,B,E,K,N,Q,T,X,AA,DA,GA,JA,MA,PA,SA,VA,YA,BB,EB,HB,KB,NB,QB,TB,WB,ZB,CC,FC,IC,LC,OC,RC,UC,XC,AD,DD,GD,JD,MD,PD,SD,VD,YD,BE,EE,HE,KE,NE,QE,TE,WE,ZE,CF,FF,IF,LF,OF,RF,UF,XF ;

MFQTFISRHNSNFFSDKLVATSVTPASLAPVLQTPKAASSTLYFNQLTVNAGNGGFLHCIQMDTSVNAANQVVSVGADIAFDADPKFFACLVRFESASVPTTLPTDYDVYPLDGRHDGGYYTVKDCVTIDVLPREPGNNVYVGFMVWSNFTATKCRGLVSLNQVIKEIICLQPLK

Entity 3 Entity 3 polymer

Description description	DNA-binding protein J
Molecular weight formula_weight	4239.0 kDa
Source method src_method	nat
Copy count entity_count	60

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	;J,C,H,L,O,R,V,Y,BA,EA,HA,KA,NA,QA,TA,WA,ZA,CB,FB,IB,LB,OB,RB,UB,XB,AC,DC,GC,JC,MC,PC,SC,VC,YC,BD,ED,HD,KD,ND,QD,TD,WD,ZD,CE,FE,IE,LE,OE,RE,UE,XE,AF,DF,GF,JF,MF,PF,SF,VF,YF ;

MSKGKKRSGARPGRPQPLRGTKGKRKGARLWYVGGQQF

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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	—

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

Resolution resolution	2.68 Å
Resolution测定Method resolution_method	—
颗粒数 num_particles	16905

The structure of Microviridae PJNS001

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

Capsid protein F

State in the Current Structure

Other States of the Same Protein in the Database

Major spike protein G

State in the Current Structure

Other States of the Same Protein in the Database

DNA-binding protein J

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

9k3m__assembly_1__model_1

9k3m__assembly_1__model_1 | I(q)

9k3m__assembly_1__model_1 | P(r) · Pending

4. Crystallography and Experiment 4. Crystallography & Experiment

Unit cell Unit Cell

Symmetry Symmetry

冷冻电镜 EM 3D

5. Entities and Polymers Entities & Polymers (3)

Entity 1 Entity 1 polymer

Polymer Polymer

Entity 2 Entity 2 polymer

Polymer Polymer

Entity 3 Entity 3 polymer

Polymer Polymer

7. Citations (1)

The structure of Microviridae PJNS001

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

Capsid protein 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

Major spike protein 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

DNA-binding protein J

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

9k3m__assembly_1__model_1

9k3m__assembly_1__model_1 | I(q)

9k3m__assembly_1__model_1 | P(r) · Pending

4. Crystallography and Experiment 4. Crystallography & Experiment

Unit cell Unit Cell

Symmetry Symmetry

冷冻电镜 EM 3D

5. Entities and Polymers Entities & Polymers (3)

Entity 1 Entity 1 polymer

Polymer Polymer

Entity 2 Entity 2 polymer

Polymer Polymer

Entity 3 Entity 3 polymer

Polymer Polymer

7. Citations (1)