1cgm

STRUCTURE DETERMINATION OF CUCUMBER GREEN MOTTLE MOSAIC VIRUS BY X-RAY FIBER DIFFRACTION. SIGNIFICANCE FOR THE EVOLUTION OF TOBAMOVIRUSES

Method: FIBER DIFFRACTION D_max: 84.0 Å Quality: SUSPICIOUS

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

CUCUMBER GREEN MOTTLE MOSAIC VIRUS

Cucumber green mottle mosaic virus

UniProt P19521

State in the Current Structure

Assembly	Oligomeric State	Construct	Mutations and Modifications	Ligands, Ions and Associated Components	Method and Experimental Conditions	Structure Quality
1	Protein–RNA Homooligomer Protein × 49 RNA 49 PDB declaration: helical（98） Consistent with all polymer counts	Chain E； UniProt 1–160	Non-standard monomer：Yes (specific site not provided by mmCIF)	;RNA (5'-R(PGPAP*A)-3') ; × 49	FIBER DIFFRACTION mmCIF provides none of the parsed experimental conditions	Resolution 3.40 Å
2	Protein–RNA Monomer Protein × 1 RNA 1 PDB declaration: dimeric（2） Consistent with all polymer counts	Chain E； UniProt 1–160	Non-standard monomer：Yes (specific site not provided by mmCIF)	;RNA (5'-R(PGPAP*A)-3') ; × 1	FIBER DIFFRACTION mmCIF provides none of the parsed experimental conditions	Resolution 3.40 Å
3	Protein–RNA Monomer Protein × 1 RNA 1 PDB declaration: dimeric（2） Consistent with all polymer counts	Chain E； UniProt 1–160	Non-standard monomer：Yes (specific site not provided by mmCIF)	;RNA (5'-R(PGPAP*A)-3') ; × 1	FIBER DIFFRACTION mmCIF provides none of the parsed experimental conditions	Resolution 3.40 Å

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

No other PDB entry for the same UniProt protein was found.

View Construct and Data Evidence

UniProt name	COAT_CGMVS
Isoform	—
PDB entities	2
Chains and sequence ranges	Author chain E； PDBConstruct 2–161； 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.

SAXS scattering curve SAXS Profile

P(r) Distance Distribution P(r) Distribution

Download Download SAXS (.dat) P(r) (.pr.out) CIF

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2. Structure Basics 2. Structure Basics

Entry ID entry_id	1cgm
Deposition date deposition_date	1993-11-17
Structure title title	STRUCTURE DETERMINATION OF CUCUMBER GREEN MOTTLE MOSAIC VIRUS BY X-RAY FIBER DIFFRACTION. SIGNIFICANCE FOR THE EVOLUTION OF TOBAMOVIRUSES
Keywords keywords	VIRUS, Helical virus; VIRUS
Experimental Method method	FIBER DIFFRACTION

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3. SAXS Parameters (CRYSOL theoretical calculation) 3. SAXS Parameters (CRYSOL)

Radius of gyration Rg (Guinier) rg_guinier	21.62 Å
Radius of gyration Rg (electron density) rg_electron	21.34 Å
Forward intensity I(0) i0	6802650.00
Molecular weight molecular_weight	18310.0 kDa
Excluded volume excluded_volume	22605 Å³
Envelope volume envelope_volume	30588 Å³
Hydration-shell volume shell_volume	13828 Å³
Envelope diameter envelope_diameter	86.5 Å
Shell Rg shell_rg	25.19 Å
Envelope Rg envelope_rg	22.23 Å
Shape Rg shape_rg	21.31 Å
Total Rg total_rg	22.07 Å
Total atoms total_atoms	1291
Residues n_residues	163
Spherical-harmonic order n_harmonics	20
q range q_range	— – 0.5000 Å⁻¹
Data points n_points	101
Shell type shell_type	directional
Solvent electron density solvent_density	0.3340 e/Å³
Shell contrast contrast_shell	0.0300 e/Å³
CRYSOL version crysol_version	4.1.3

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4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

Maximum dimension Dmax dmax	84.0 Å
Rg (real space) rg_real	22.06 Å
Rg uncertainty (real space) rg_real_error	0.96 Å
I(0) (real space) i0_real	6.8030e+06
I(0) uncertainty (real space) i0_real_error	1.1850e+05
Rg (reciprocal space) rg_reciprocal	21.98 Å
I(0) (reciprocal space) i0_reciprocal	6802000.0000
Solution quality estimate total_estimate	0.4619
Solution quality rating solution_quality	SUSPICIOUS a SUSPICIOUS solution
P(r) peaks n_peaks	2
Primary peak position r_peak_primary	18.5 Å
Skewness Skewness skewness	0.741
Kurtosis Kurtosis kurtosis	0.170
Angular range angular_range	— – 0.3700 Å⁻¹
Current regularization parameter α current_alpha	0.0000
Highest regularization parameter α highest_alpha	1085000.0000
Real-space data points n_real_points	69
GNOM version gnom_version	4.1.3
Quality Criteria quality_criteria	AN1: 0.000; Oscil: 0.328; Stabil: 0.997; Sysdev: 0.281; Positv: 1.000; Valcen: 0.182; Smooth: 0.000

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5. Crystallography and Experiment 5. Crystallography & Experiment

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6. Entities and Polymers Entities & Polymers (3)

Entity 1 Entity 1 polymer

Description description	;RNA (5'-R(PGPAP*A)-3') ;
Molecular weight formula_weight	958.7 kDa
Source method src_method	syn
Copy count entity_count	1

Polymer Polymer

Polymer type type	polyribonucleotide
Chain IDs strand_id	I
Atom count atom_count	1296

GAA

Entity 2 Entity 2 polymer

Description description	CUCUMBER GREEN MOTTLE MOSAIC VIRUS
Molecular weight formula_weight	17303.2 kDa
Source method src_method	man
Copy count entity_count	1

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	E

XAYNPITPSKLIAFSASYVPVRTLLNFLVASQGTAFQTQAGRDSFRESLSALPSSVVDINSRFPDAGFYAFLNGPVLRPIFVSLLSSTDTRNRVIEVVDPSNPTTAESLNAVKRTDDASTAARAEIDNLIESISKGFDVYDRASFEAAFSVVWSEATTSKA

来源 Source

来源生物 organism	Cucumber green mottle mosaic virus
NCBI Class编号 ncbi_taxonomy_id	12235

Entity 3 Entity 3 water

Description description	water
Molecular weight formula_weight	18.0 kDa
Source method src_method	nat
Copy count entity_count	5

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7. Fold Classification (SCOP + CATH) 2 domains

SCOP 2.08 (1 domains)

Domain ID domain_id	d1cgme_
Class class	a — All alpha proteins
Fold Fold fold	a.24 — Four-helical up-and-down bundle
Superfamily Superfamily superfamily	a.24.5 — TMV-like viral coat proteins
Family Family family	a.24.5.1 — TMV-like viral coat proteins

CATH v4.4 (1 domains)

Domain ID domain_id	1cgmE00
Class class	1 — Mainly Alpha
Architecture architecture	20 — Up-down Bundle
Topology topology	120 — Four Helix Bundle (Hemerythrin (Met), subunit A)
Homologous superfamily homologous superfamily	70 — Tobacco mosaic virus-like, coat protein

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8. Citations (6)

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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	70.800 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	49

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

Resolution resolution	3.400 Å
Low-resolution limit resolution_low	— Å
R factor r_factor	0.0930
R_work r_work	0.0930
R_free r_free	—

fit	/app/data/saxs_computation/cg/1cgm/1cgm.fit
pddf	/app/data/pr_computation/cg/1cgm/1cgm.pr.out
profile	/app/data/saxs_computation/cg/1cgm/1cgm.dat

STRUCTURE DETERMINATION OF CUCUMBER GREEN MOTTLE MOSAIC VIRUS BY X-RAY FIBER DIFFRACTION. SIGNIFICANCE FOR THE EVOLUTION OF TOBAMOVIRUSES

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

CUCUMBER GREEN MOTTLE MOSAIC VIRUS

State in the Current Structure

Other States of the Same Protein in the Database

SAXS scattering curve SAXS Profile

P(r) Distance Distribution P(r) Distribution

2. Structure Basics 2. Structure Basics

3. SAXS Parameters (CRYSOL theoretical calculation) 3. SAXS Parameters (CRYSOL)

4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

5. Crystallography and Experiment 5. Crystallography & Experiment

Unit cell Unit Cell

Symmetry Symmetry

Refinement Refinement

6. Entities and Polymers Entities & Polymers (3)

Entity 1 Entity 1 polymer

Polymer Polymer

Entity 2 Entity 2 polymer

Polymer Polymer

来源 Source

Entity 3 Entity 3 water

7. Fold Classification (SCOP + CATH) 2 domains

SCOP 2.08 (1 domains)

CATH v4.4 (1 domains)

8. Citations (6)

9. Files and Curves (10)

Files (7)

Curves (3)