Structure of PDB 6g1z Chain A Binding Site BS01

Receptor Information
>6g1z Chain A (length=489) Species: 176299 (Agrobacterium fabrum str. C58) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
YHVDLTNCDREPIHIPGYIQPHGCLIACDNAMRMVLRHSENCGELLGLEG
DLNGRTAEDVLGKRLVHDLRNALTRPAMLPAMETSDGRSFDISLHRYKST
TIIEFEPSLGTARKMVDRIREADSVESLISRTTRLVKATLGYDRVLIYRF
EEDGAGKVVSEAKQPELESFLGQYFPASDIPQQARALYLKNTLRIISDAS
GTPIPVLPAVDVSGEPLDLSYAHLRNFSPIHCEYLRNMGVAASMSISVIV
DDALWGLIVCHHCSPRVLSMPVRIAAAMFGEFFSMFLQVLKQKRRLDTIN
HAHAALDRFLRLAAHRANLEELLVDSFQDFARLIPCDGVGLWVGNNWHGH
GATPPHDAIPRLARFVASVSEGRVWATHALSQAIPEAEIYADTAAGMLAI
PISQVKSDYLLFFRKEIVQNLNWAGNPEKSYETGPMGDRLTPRKSFAIWK
ESVRLQAQPWSEADREIAETARIALVGVAFHHSELMAGL
Ligand information
Ligand IDEL5
InChIInChI=1S/C33H36N4O6/c1-7-20-19(6)32(42)37-27(20)14-25-18(5)23(10-12-31(40)41)29(35-25)15-28-22(9-11-30(38)39)17(4)24(34-28)13-26-16(3)21(8-2)33(43)36-26/h7-8,13-15,19,34H,2,9-12H2,1,3-6H3,(H,36,43)(H,37,42)(H,38,39)(H,40,41)/b20-7+,26-13+,27-14-,29-15-/t19-/m0/s1
InChIKeySNHIGJASYQUMKZ-IDFYGOSVSA-N
SMILES
SoftwareSMILES
CACTVS 3.385C\C=C\1[C@H](C)C(=O)NC\1=C\C2=NC(=C\c3[nH]c(\C=C/4NC(=O)C(=C/4C)C=C)c(C)c3CCC(O)=O)/C(=C2C)CCC(O)=O
ACDLabs 12.01C\C=C1C(=C/C2=N/C(=C\c3[NH]c(/C=C4/NC(=O)C(C=C)=C4C)c(C)c3CCC(=O)O)C(CCC(=O)O)=C2C)/NC(=O)C1C
OpenEye OEToolkits 2.0.7CC=C1C(C(=O)NC1=CC2=NC(=Cc3c(c(c([nH]3)C=C4C(=C(C(=O)N4)C=C)C)C)CCC(=O)O)C(=C2C)CCC(=O)O)C
CACTVS 3.385CC=C1[CH](C)C(=O)NC1=CC2=NC(=Cc3[nH]c(C=C4NC(=O)C(=C4C)C=C)c(C)c3CCC(O)=O)C(=C2C)CCC(O)=O
OpenEye OEToolkits 2.0.7C/C=C/1\[C@@H](C(=O)N\C1=C/C2=N/C(=C\c3c(c(c([nH]3)/C=C/4\C(=C(C(=O)N4)C=C)C)C)CCC(=O)O)/C(=C2C)CCC(=O)O)C
FormulaC33 H36 N4 O6
Name3-[(2Z)-2-({3-(2-carboxyethyl)-5-[(E)-(4-ethenyl-3-methyl-5-oxo-1,5-dihydro-2H-pyrrol-2-ylidene)methyl]-4-methyl-1H-pyrrol-2-yl}methylidene)-5-{(Z)-[(3E,4S)-3-ethylidene-4-methyl-5-oxopyrrolidin-2-ylidene]methyl}-4-methyl-2H-pyrrol-3-yl]propanoic acid;
biliverdin, bound form at Pfr state
ChEMBL
DrugBank
ZINC
PDB chain6g1z Chain A Residue 601 [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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PDB6g1z Structural snapshot of a bacterial phytochrome in its functional intermediate state.
Resolution2.03 Å
Binding residue
(original residue number in PDB)
C13 Y165 F187 F192 D196 I197 P198 Y205 R211 I247 H248 Y251 V276 H278
Binding residue
(residue number reindexed from 1)
C8 Y148 F170 F175 D179 I180 P181 Y188 R194 I230 H231 Y234 V259 H261
Annotation score1
Enzymatic activity
Enzyme Commision number 2.7.13.3: histidine kinase.
Gene Ontology
Biological Process
GO:0006355 regulation of DNA-templated transcription
GO:0009584 detection of visible light

View graph for
Biological Process
External links
PDB RCSB:6g1z, PDBe:6g1z, PDBj:6g1z
PDBsum6g1z
PubMed30464203
UniProtA9CI81

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