Structure of PDB 2ped Chain A Binding Site BS03

Receptor Information
>2ped Chain A (length=348) Species: 9913 (Bos taurus) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
MNGTEGPNFYVPFSNKTGVVRSPFEAPQYYLAEPWQFSMLAAYMFLLIML
GFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLH
GYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGE
NHAIMGVAFTWVMALACAAPPLVGWSRYIPEGMQCSCGIDYYTPHEETNN
ESFVIYMFVVHFIIPLIVIFFCYGQLVFTVKEAAAQQQESATTQKAEKEV
TRMVIIMVIAFLICWLPYAGVAFYIFTHQGSDFGPIFMTIPAFFAKTSAV
YNPVIYIMMNKQFRNCMVTTLCCGKNPLGDDEASTTVSKTETSQVAPA
Ligand information
Ligand IDZN
InChIInChI=1S/Zn/q+2
InChIKeyPTFCDOFLOPIGGS-UHFFFAOYSA-N
SMILES
SoftwareSMILES
CACTVS 3.341[Zn++]
ACDLabs 10.04
OpenEye OEToolkits 1.5.0		[Zn+2]
FormulaZn
NameZINC ION
ChEMBLCHEMBL1236970
DrugBankDB14532
ZINC
PDB chain2ped Chain A Residue 962 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB2ped Photoisomerization mechanism of rhodopsin and 9-cis-rhodopsin revealed by x-ray crystallography
Resolution2.95 Å
Binding residue
(original residue number in PDB)		E122 W126 M163 H211
Binding residue
(residue number reindexed from 1)		E122 W126 M163 H211
Annotation score4
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0001965 G-protein alpha-subunit binding
GO:0002046 opsin binding
GO:0004930 G protein-coupled receptor activity
GO:0005085 guanyl-nucleotide exchange factor activity
GO:0005502 11-cis retinal binding
GO:0005515 protein binding
GO:0008020 G protein-coupled photoreceptor activity
GO:0008270 zinc ion binding
GO:0009881 photoreceptor activity
GO:0042802 identical protein binding
GO:0046872 metal ion binding
GO:1990763 arrestin family protein binding
Biological Process
GO:0000226 microtubule cytoskeleton organization
GO:0007186 G protein-coupled receptor signaling pathway
GO:0007601 visual perception
GO:0007602 phototransduction
GO:0007603 phototransduction, visible light
GO:0009416 response to light stimulus
GO:0009583 detection of light stimulus
GO:0009642 response to light intensity
GO:0010467 gene expression
GO:0016038 absorption of visible light
GO:0016056 G protein-coupled opsin signaling pathway
GO:0043052 thermotaxis
GO:0045494 photoreceptor cell maintenance
GO:0050953 sensory perception of light stimulus
GO:0050960 detection of temperature stimulus involved in thermoception
GO:0060041 retina development in camera-type eye
GO:0071482 cellular response to light stimulus
GO:0071800 podosome assembly
GO:1904389 rod bipolar cell differentiation
Cellular Component
GO:0000139 Golgi membrane
GO:0001750 photoreceptor outer segment
GO:0001917 photoreceptor inner segment
GO:0005794 Golgi apparatus
GO:0005886 plasma membrane
GO:0005911 cell-cell junction
GO:0016020 membrane
GO:0019867 outer membrane
GO:0042622 photoreceptor outer segment membrane
GO:0042995 cell projection
GO:0060342 photoreceptor inner segment membrane
GO:0097225 sperm midpiece
GO:0097381 photoreceptor disc membrane
GO:0097648 G protein-coupled receptor complex
GO:0120200 rod photoreceptor outer segment
GO:1990913 sperm head plasma membrane

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:2ped, PDBe:2ped, PDBj:2ped
PDBsum2ped
PubMed17449675
UniProtP02699|OPSD_BOVIN Rhodopsin (Gene Name=RHO)

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