Structure of PDB 7ymm Chain 2B Binding Site BS16
Receptor Information
>7ymm Chain 2B (length=479) Species:
329726
(Acaryochloris marina MBIC11017) [
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GLPWYRVHTVVLNDPGRLLSVHLMHTALVSGWAGSMALYELAKYDPSDPV
LNPMWRQGTFVMPVMTRIGVTHSWSGWTVTGEPWVTQPGILGAHLNFFSY
EGVILMHILAAGLFFLAAVWHWINWDLDIYYPDGSSEPASDWPKIFGLHL
LTLGIVCFGFGSLHLTGILGPGMWVSDPYGLTGHVQGVSPDWRPFAFDPY
NPTGLVTHHISAGIALIIGGIFHTVSRPSERLYNALSMGNVETVLSSSVA
FVAAAAFVMVGTMWYGSATTPIELFGPTRYQWDSGYFQTEIQRRVQSGQT
WDQIPEKLVFYDYIGNSPAKGGLFRTGAMNSGDGIARAWEGHPTFTDSEG
RELFVRRMPNFFETFPVVLTDKDGVVRADIPFRRAESRYSFEQKGVSVSF
EGGTLNGQTFTDAPSVKKYARKAQLGEPFEFDRETLGSDGVFRTSTRGWF
AFSHSCYALLFFFGHWWHGARTIFKDVFE
Ligand information
Ligand ID
CL7
InChI
InChI=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
InChIKey
FBCRYORFRGRJBC-ACDPFEIMSA-L
SMILES
Software
SMILES
OpenEye OEToolkits 1.7.5
CCC1=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 3.385
CCC1=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 1.7.5
CCC1=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 3.385
CCC1=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
Formula
C54 H70 Mg N4 O6
Name
CHLOROPHYLL D
ChEMBL
DrugBank
ZINC
PDB chain
7ymm Chain 2B Residue 616 [
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Receptor-Ligand Complex Structure
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PDB
7ymm
Structure of a large photosystem II supercomplex from Acaryochloris marina.
Resolution
3.6 Å
Binding residue
(original residue number in PDB)
L20 H23 I146 L149 H150
Binding residue
(residue number reindexed from 1)
L19 H22 I145 L148 H149
Annotation score
4
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
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Biological Process
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Cellular Component
External links
PDB
RCSB:7ymm
,
PDBe:7ymm
,
PDBj:7ymm
PDBsum
7ymm
PubMed
38394197
UniProt
B0CFM2
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