Structure of PDB 7ymm Chain 3B Binding Site BS03

Receptor Information
>7ymm Chain 3B (length=479) Species: 329726 (Acaryochloris marina MBIC11017) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
GLPWYRVHTVVLNDPGRLLSVHLMHTALVSGWAGSMALYELAKYDPSDPV
LNPMWRQGTFVMPVMTRIGVTHSWSGWTVTGEPWVTQPGILGAHLNFFSY
EGVILMHILAAGLFFLAAVWHWINWDLDIYYPDGSSEPASDWPKIFGLHL
LTLGIVCFGFGSLHLTGILGPGMWVSDPYGLTGHVQGVSPDWRPFAFDPY
NPTGLVTHHISAGIALIIGGIFHTVSRPSERLYNALSMGNVETVLSSSVA
FVAAAAFVMVGTMWYGSATTPIELFGPTRYQWDSGYFQTEIQRRVQSGQT
WDQIPEKLVFYDYIGNSPAKGGLFRTGAMNSGDGIARAWEGHPTFTDSEG
RELFVRRMPNFFETFPVVLTDKDGVVRADIPFRRAESRYSFEQKGVSVSF
EGGTLNGQTFTDAPSVKKYARKAQLGEPFEFDRETLGSDGVFRTSTRGWF
AFSHSCYALLFFFGHWWHGARTIFKDVFE
Ligand information
Ligand IDCL7
InChIInChI=1S/C54H72N4O6.Mg/c1-12-38-34(7)42-27-46-40(29-59)36(9)41(56-46)26-43-35(8)39(51(57-43)49-50(54(62)63-11)53(61)48-37(10)44(58-52(48)49)28-45(38)55-42)22-23-47(60)64-25-24-33(6)21-15-20-32(5)19-14-18-31(4)17-13-16-30(2)3;/h24,26-32,35,39,50H,12-23,25H2,1-11H3,(H2-2,55,56,57,58,59,61);/q-2;+4/p-2/b33-24+,43-26-;/t31-,32-,35+,39+,50-;/m1./s1
InChIKeyFBCRYORFRGRJBC-ACDPFEIMSA-L
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.7.5CCC1=C(C2=Cc3c(c(c4n3[Mg]56N2C1=Cc7n5c8c(c7C)C(=O)[C@@H](C8=C9N6C(=C4)[C@H]([C@@H]9CCC(=O)OC/C=C(\C)/CCC[C@H](C)CCC[C@H](C)CCCC(C)C)C)C(=O)OC)C)C=O)C
CACTVS 3.385CCC1=C(C)C2=Cc3n4c(C=C5[C@@H](C)[C@H](CCC(=O)OC\C=C(C)\CCC[C@H](C)CCC[C@H](C)CCCC(C)C)C6=C7[C@@H](C(=O)OC)C(=O)c8c(C)c9C=C1[N@@]2[Mg]4([N@@]56)n9c78)c(C)c3C=O
OpenEye OEToolkits 1.7.5CCC1=C(C2=Cc3c(c(c4n3[Mg]56N2C1=Cc7n5c8c(c7C)C(=O)C(C8=C9N6C(=C4)C(C9CCC(=O)OCC=C(C)CCCC(C)CCCC(C)CCCC(C)C)C)C(=O)OC)C)C=O)C
CACTVS 3.385CCC1=C(C)C2=Cc3n4c(C=C5[CH](C)[CH](CCC(=O)OCC=C(C)CCC[CH](C)CCC[CH](C)CCCC(C)C)C6=C7[CH](C(=O)OC)C(=O)c8c(C)c9C=C1[N]2[Mg]4([N]56)n9c78)c(C)c3C=O
FormulaC54 H70 Mg N4 O6
NameCHLOROPHYLL D
ChEMBL
DrugBank
ZINC
PDB chain7ymm Chain 3B Residue 603 [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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PDB7ymm Structure of a large photosystem II supercomplex from Acaryochloris marina.
Resolution3.6 Å
Binding residue
(original residue number in PDB)		R68 C158 F161 L206 H209 H210 F252 T270
Binding residue
(residue number reindexed from 1)		R67 C157 F160 L205 H208 H209 F251 T269
Annotation score4
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0016168 chlorophyll binding
GO:0045156 electron transporter, transferring electrons within the cyclic electron transport pathway of photosynthesis activity
Biological Process
GO:0009767 photosynthetic electron transport chain
GO:0009772 photosynthetic electron transport in photosystem II
GO:0015979 photosynthesis
GO:0019684 photosynthesis, light reaction
Cellular Component
GO:0009521 photosystem
GO:0009523 photosystem II
GO:0009579 thylakoid
GO:0016020 membrane
GO:0031676 plasma membrane-derived thylakoid membrane
GO:0042651 thylakoid membrane

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Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:7ymm, PDBe:7ymm, PDBj:7ymm
PDBsum7ymm
PubMed38394197
UniProtB0CFM2

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