6CMO	Signaling Protein	date	Mar 05, 2018
title	Rhodopsin-Gi Complex
authors	Y.Kang, O.Kuybeda, P.W.De Waal, S.Mukherjee, N.Van Eps, P.Dutka, X A.Bartesaghi, S.Erramilli, T.Morizumi, X.Gu, Y.Yin, P.Liu, Y.Jian G.Zhao, K.Melcher, O.P.Earnst, A.A.Kossiakoff, S.Subramaniam, H.
compound		source
Molecule: Chimera Protein Of Soluble Cytochrome B562 And Rh Chain: R Synonym: Cytochrome B-562,Opsin-2 Engineered: Yes		Organism_scientific: Escherichia Coli, Homo Sapiens Organism_common: Human Organism_taxid: 562, 9606 Gene: Cybc, Rho, Opn2 Expression_system: Spodoptera Frugiperda Expression_system_common: Fall Armyworm Expression_system_taxid: 7108 Expression_system_vector_type: Baculovirus
Molecule: Guanine Nucleotide-Binding Protein G(I) Subunit A Chain: A Synonym: Adenylate Cyclase-Inhibiting G Alpha Protein Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Gnai1 Expression_system: Spodoptera Frugiperda Expression_system_common: Fall Armyworm Expression_system_taxid: 7108 Expression_system_vector_type: Baculovirus
Molecule: Guanine Nucleotide-Binding Protein G(I)G(S)G(T) Beta-1; Chain: B Synonym: Transducin Beta Chain 1 Engineered: Yes		Organism_scientific: Rattus Norvegicus Organism_common: Rat Organism_taxid: 10116 Gene: Gnb1 Expression_system: Spodoptera Frugiperda Expression_system_common: Fall Armyworm Expression_system_taxid: 7108 Expression_system_vector_type: Baculovirus
Molecule: Guanine Nucleotide-Binding Protein G(I)G(S)G(O) Gamma-2; Chain: G Synonym: G Gamma-I Engineered: Yes		Organism_scientific: Bos Taurus Organism_common: Bovine Organism_taxid: 9913 Gene: Gng2 Expression_system: Spodoptera Frugiperda Expression_system_common: Fall Armyworm Expression_system_taxid: 7108 Expression_system_vector_type: Baculovirus
Molecule: Fab Light Chain Chain: L Engineered: Yes		Organism_scientific: Synthetic Construct Organism_taxid: 32630 Expression_system: Bacteria Latreille Et Al. 1825 Expression_system_taxid: 629395
Molecule: Fab Heavy Chain Chain: H Engineered: Yes		Organism_scientific: Synthetic Construct Organism_taxid: 32630 Expression_system: Bacteria Latreille Et Al. 1825 Expression_system_taxid: 629395
symmetry	Space Group: P 1	R_factor R_Free
crystal cell	length a length b length c angle alpha angle beta angle gamma 1.000 1.000 1.000 90.00 90.00 90.00
method	Electron Microscopy	resolution	4.50 Å
ligand	NAG	enzyme
Gene Ontology	Chain Function Process Component A B G R
Primary reference	Cryo-EM structure of human rhodopsin bound to an inhibitory G protein., Kang Y, Kuybeda O, de Waal PW, Mukherjee S, Van Eps N, Dutka P, Zhou XE, Bartesaghi A, Erramilli S, Morizumi T, Gu X, Yin Y, Liu P, Jiang Y, Meng X, Zhao G, Melcher K, Ernst OP, Kossiakoff AA, Subramaniam S, Xu HE, Nature. 2018 Jun;558(7711):553-558. doi: 10.1038/s41586-018-0215-y. Epub 2018 Jun, 13. PMID:29899450

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (226 Kb) [Save to disk] Biological Unit Coordinates (6cmo.pdb1.gz) 221 Kb LPC: Ligand-Protein Contacts for 6CMO CSU: Contacts of Structural Units for 6CMO Retrieve 6CMO in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 6CMO from S2C, [Save to disk]

View 6CMO in 3D

Proteopedia, because life has more than 2D. On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure. On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.

Visual 3D analysis of 6CMO

Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [6cmo_A] [6cmo_L] [6cmo_B] [6cmo_H] [6cmo_R] [6cmo_G] SWISS-PROT database: Domain organization of by SWISSPFAM

Other resources with information on 6CMO

Community annotation for 6CMO at PDBWiki (http://pdbwiki.org)

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