Structure of PDB 6vpv Chain B Binding Site BS47

Receptor Information
>6vpv Chain B (length=737) Species: 2676140 (Cyanobacterium aponinum 0216) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
ATKFPKFSQDLAQDPTTRRIWYGIATAHDFETHDGMTEENLYQKIFASHF
GHLAIIFLWTSGTVFHVAWQGNFEQWIKDPLNVRPIAHAIWDPHFGQGAV
DAFTQAGASSPVNVAYSGVYHWFYTIGMTNNQDLYQGAVFLLILSALFLF
AGWLHLQPKFRPSLSWFKNAESRLNHHLAGLFGVSSLAWTGHLVHVAIPE
SRGVHVGWDNFLSVKPHPAGLAPFFTGNWGVYAQNPDTASHVFGTSEGAG
SAILTFLGGFHPQTESLWLTDIAHHHLAIAVIFIVAGHMYRTNWGIGHSI
KDILAAHNPPQGTPFGGALGAGHRGLYDTINNSLHFQLGLALASLGVITS
LVAQHMYSLPSYAFIAKDYTTQAALYTHHQYIAGFLMVGAFAHGAIFFVR
DYDPEANKDNVLARMLEHKEAIISHLSWVSLFLGFHTLGLYVHNDVVVAF
GTPEKQILIEPVFAQFVQAASGKALYGFDALLSNPDSVASTASAVWLPGW
LDAINSGTNSLFLNIGPGDFLVHHAIALGLHTTTLILVKGALDARGSKLM
PDKKDFGFSFPCDGPGRGGTCDISAWDAFYLAMFWMLNTLGWLTFYWHWK
HLGIWTGNVAQFNENSTYLMGWFRDYLWANSAQLINGYNPYGVNNLSVWA
WMFLFGHLVWATGFMFLISWRGYWQELIETIVWAHERTPLANLVRWKDKP
VALSIVQARLVGLAHFTVGYILTYAAFLIASTAGKFG
Ligand information
Ligand IDPQN
InChIInChI=1S/C31H46O2/c1-22(2)12-9-13-23(3)14-10-15-24(4)16-11-17-25(5)20-21-27-26(6)30(32)28-18-7-8-19-29(28)31(27)33/h7-8,18-20,22-24H,9-17,21H2,1-6H3/b25-20+/t23-,24-/m1/s1
InChIKeyMBWXNTAXLNYFJB-NKFFZRIASA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.5.0CC1=C(C(=O)c2ccccc2C1=O)CC=C(C)CCCC(C)CCCC(C)CCCC(C)C
ACDLabs 10.04O=C2c1c(cccc1)C(=O)C(=C2C)C\C=C(/C)CCCC(C)CCCC(C)CCCC(C)C
OpenEye OEToolkits 1.5.0CC1=C(C(=O)c2ccccc2C1=O)C\C=C(/C)\CCC[C@H](C)CCC[C@H](C)CCCC(C)C
CACTVS 3.341CC(C)CCC[CH](C)CCC[CH](C)CCCC(C)=CCC1=C(C)C(=O)c2ccccc2C1=O
CACTVS 3.341CC(C)CCC[C@@H](C)CCC[C@@H](C)CCCC(/C)=C/CC1=C(C)C(=O)c2ccccc2C1=O
FormulaC31 H46 O2
NamePHYLLOQUINONE;
VITAMIN K1;
2-METHYL-3-PHYTYL-1,4-NAPHTHOQUINONE
ChEMBLCHEMBL1550
DrugBankDB01022
ZINCZINC000003831332
PDB chain6vpv Chain B Residue 839 [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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PDB6vpv The structure of photosystem I from a high-light tolerant Cyanobacteria.
Resolution2.7 Å
Binding residue
(original residue number in PDB)		W25 M669 F670 S673 W674 R675 W678 A706 L707 A712
Binding residue
(residue number reindexed from 1)		W21 M665 F666 S669 W670 R671 W674 A702 L703 A708
Annotation score1
Enzymatic activity
Enzyme Commision number 1.97.1.12: photosystem I.
Gene Ontology
Molecular Function
GO:0000287 magnesium ion binding
GO:0009055 electron transfer activity
GO:0016168 chlorophyll binding
GO:0016491 oxidoreductase activity
GO:0046872 metal ion binding
GO:0051539 4 iron, 4 sulfur cluster binding
Biological Process
GO:0015979 photosynthesis
Cellular Component
GO:0009522 photosystem I
GO:0009579 thylakoid
GO:0016020 membrane
GO:0031676 plasma membrane-derived thylakoid membrane
GO:0042651 thylakoid membrane

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:6vpv, PDBe:6vpv, PDBj:6vpv
PDBsum6vpv
PubMed34435952
UniProtK9Z2J7

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