Structure of PDB 7ymm Chain 2C Binding Site BS02
Receptor Information
>7ymm Chain 2C (length=420) Species:
329726
(Acaryochloris marina MBIC11017) [
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AAGYDRATTGYGWWAGNARLTDLSGQLTGAHIAHAGMITFWAGAMTLFEV
SHFIPEKPMYEQGSILLAHLAAEGFGVGPGGEVISTYPYFVIGAIHLIAS
AVLGFGGLYHTFRGPAKFEDYSDWWGYDWEDKEKMMQILGIHLIFLGIGA
LAFAAKAMFFGGLYDPWAPGGGNVRLITNPTWNLGTFLGYITRSPWGEGG
WIVSVNNLEDVVGGHLLVGVHYIFGGVFHILVKPWGWVRRAYVWSGEAYL
SYSLGALYMCGMIAVGYVWFNNTVYPSEFYGPTAAEASQAQAMTFLIRDQ
RLGYLMRSPSGEIIFGGETMRFWDFRGPWLEPLRGPNGLDLNKLRNDIQP
WQARRAAEYMTHAPNYVSPRSWLSTSHFCLAFFFFVGHIWHSGRARAAAA
GFEKGIERKTEYALSLPDID
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 2C Residue 501 [
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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)
E107 A184 F187 H249 H255 Y256 C294 I297 Y301 V308 Y309
Binding residue
(residue number reindexed from 1)
E73 A150 F153 H215 H221 Y222 C260 I263 Y267 V274 Y275
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
GO:0046872
metal ion binding
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:0005737
cytoplasm
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
B0C1V7
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