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3c9m

Structure of a mutant bovine rhodopsin in hexagonal crystal form

Method: X-RAY DIFFRACTION
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1. Protein Identity and Related Structures Protein Identity & Related Structures

Rhodopsin

OrganismNot specified

UniProt P02699

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein monomer Monomer Protein 1 2-acetamido-2-deoxy-beta-D-glucopyranose × 1 ACETYL GROUP × 1 RETINAL × 1 Consistent with protein count

Other States of the Same Protein in the Database

Monomer
1eds 1edv 1edw 1edx 1fdf 1jfp 1ln6 1nzs 1vqx 3c9m 5te5 6fkb

12 assemblies

Homodimer
2j4y 6ofj

2 assemblies

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
1f88 1f88 1f88 1gzm 1hzx 1hzx 1hzx 1hzx 1l9h 1l9h 1l9h 1l9h

82 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name OPSD_BOVIN
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 1–348； UniProt 1–348

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_id3c9m
Deposition date deposition_date2008-02-16
Structure title titleStructure of a mutant bovine rhodopsin in hexagonal crystal form
Keywords keywords;chromophore, lipoprotein, glycoprotein, sensory transduction, photoreceptor protein, integral membrane protein, G-protein coupled receptor, vision membrane, receptor, palmitate, transducer, retinal protein, phosphorylation, signaling protein, photoreceptor, transmembrane, visual pigment, alternate space group, Phosphoprotein ;; SIGNALING PROTEIN
Experimental Method methodX-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.

3c9m__assembly_1__model_1

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

Download this curve (.dat)

3c9m__assembly_1__model_1 | I(q)

10-2 10-1 105 106 107 q (1/Angstrom) I(q)
100 plotted points; both axes use logarithmic scales.

3c9m__assembly_1__model_1 | P(r) · Pending

The new assembly/model P(r) has not been calculated yet This placeholder does not display legacy data r (Angstrom) P(r)
P(r) will be calculated and displayed separately for the same assembly/model.
Rg（Guinier）23.32 Å
Rg (electron density)21.98 Å
Total Rg23.04 Å
Atom count2626
Residues327
Excluded volume47970 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 3c9m__assembly_1__model_1 monomeric （1） 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)

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6. Fold Classification (SCOP + CATH) 1 domains

CATH v4.4 (1 domains)

Domain ID domain_id3c9mA00
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology1070 — Rhopdopsin 7-helix transmembrane proteins
Homologous superfamily homologous superfamily10 — Rhodopsin 7-helix transmembrane proteins
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7. Citations (2)