Structure of PDB 1ofd Chain B Binding Site BS01

Receptor Information
>1ofd Chain B (length=1491) Species: 1148 (Synechocystis sp. PCC 6803) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
CGVGFIANLRGKPDHTLVEQALKALGCMEHRGGCSADNDSGDGAGVMTAI
PRELLAQWFNTRNLPMPDGDRLGVGMVFLPQEPSAREVARAYVEEVVRLE
KLTVLGWREVPVNSDVLGIQAKNNQPHIEQILVTCPEGCAGDELDRRLYI
ARSIIGKKLAEDFYVCSFSCRTIVYKGMVRSIILGEFYLDLKNPGYTSNF
AVYHRRFSTNTMPKWPLAQPMRLLGHNGEINTLLGNINWMAAREKELEVS
GWTKAELEALTPIVNQANSDSYNLDSALELLVRTGRSPLEAAMILVPEAY
KNQPALKDYPEISDFHDYYSGLQEPWDGPALLVFSDGKIVGAGLDRNGLR
PARYCITKDDYIVLGSEAGVVDLPEVDIVEKGRLAPGQMIAVDLAEQKIL
KNYQIKQQAAQKYPYGEWIKIQRQTVASDSFAEKTLFNDAQTVLQQQAAF
GYTAEDVEMVVVPMASQGKEPTFCMGDDTPLAVLSHKPRLLYDYFKQRFA
QVTNPPIDPLRENLVMSLAMFLGKRGNLLEPKAESARTIKLRSPLVNEVE
LQAIKTGQLQVAEVSTLYDLDGVNSLEDALTNLVKTAIATVQAGAEILVL
TDRPNGAILTENQSFIPPLLAVGAVHHHLIRAGLRLKASLIVDTAQCWST
HHFACLVGYGASAICPYLALESVRQWWLDEKTQKLMENGRLDRIDLPTAL
KNYRQSVEAGLFKILSKMGISLLASYHGAQIFEAIGLGAELVEYAFAGTT
SRVGGLTIADVAGEVMVFHGMAFKKLENFGFVNYRPGGEYHMNSPEMSKS
LHKAVAAYDHYELYRQYLKDRPVTALRDLLDFNADQPAISLEEVESVESI
VKRFCTGGMSLGALSREAHETLAIAMNRLGAKSNSGEGGEDVVRYLTLDD
VDSEGNSPTLPHLHGLQNGDTANSAIKQIASGRFGVTPEYLMSGKQLEIK
MAQGAKPGEGGQLPGKKVSEYIAMLRRSKPGVTLISPPPHHDIYSIEDLA
QLIYDLHQINPEAQVSVKLVAEIGIGTIAAGVAKANADIIQISGHDGGTG
ASPLSSIKHAGSPWELGVTEVHRVLMENQLRDRVLLRADGGLKTGWDVVM
AALMGAEEYGFGSIAMIAEGCIMARVCHTNNCPVGVATQQERLRQRFKGV
PGQVVNFFYFIAEEVRSLLAHLGYRSLDDIIGRTDLLKVRSDVQLSKTQN
LTLDCLLNLPDTKQNRQWLNHEPVHSNGPVLDDDILADPDIQEAINHQTT
ATKTYRLVNTDRTVGTRLSGAIAKKYGNNGFEGNITLNFQGAAGQSFGAF
NLDGMTLHLQGEANDYVGKGMNGGEIVIVPHPQASFAPEDNVIIGNTCLY
GATGGNLYANGRAGERFAVRNSVGKAVIEGAGDHCCEYMTGGVIVVLGPV
GRNVGAGMTGGLAYFLDEVGDLPEKINPEIITLQRITASKGEEQLKSLIT
AHVEHTGSPKGKAILANWSDYLGKFWQAVPPSEKDSPEANN
Ligand information
Ligand IDFMN
InChIInChI=1S/C17H21N4O9P/c1-7-3-9-10(4-8(7)2)21(15-13(18-9)16(25)20-17(26)19-15)5-11(22)14(24)12(23)6-30-31(27,28)29/h3-4,11-12,14,22-24H,5-6H2,1-2H3,(H,20,25,26)(H2,27,28,29)/t11-,12+,14-/m0/s1
InChIKeyFVTCRASFADXXNN-SCRDCRAPSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.7.6Cc1cc2c(cc1C)N(C3=NC(=O)NC(=O)C3=N2)CC(C(C(COP(=O)(O)O)O)O)O
OpenEye OEToolkits 1.7.6Cc1cc2c(cc1C)N(C3=NC(=O)NC(=O)C3=N2)C[C@@H]([C@@H]([C@@H](COP(=O)(O)O)O)O)O
ACDLabs 12.01N=2C(=O)NC(=O)C3=Nc1cc(C)c(C)cc1N(C=23)CC(O)C(O)C(O)COP(=O)(O)O
CACTVS 3.385Cc1cc2N=C3C(=O)NC(=O)N=C3N(C[CH](O)[CH](O)[CH](O)CO[P](O)(O)=O)c2cc1C
CACTVS 3.385Cc1cc2N=C3C(=O)NC(=O)N=C3N(C[C@H](O)[C@H](O)[C@H](O)CO[P](O)(O)=O)c2cc1C
FormulaC17 H21 N4 O9 P
NameFLAVIN MONONUCLEOTIDE;
RIBOFLAVIN MONOPHOSPHATE
ChEMBLCHEMBL1201794
DrugBankDB03247
ZINCZINC000003831425
PDB chain1ofd Chain B Residue 3508 [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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PDB1ofd The Active Conformation of Glutamate Synthase and its Binding to Ferredoxin
Resolution2.0 Å
Binding residue
(original residue number in PDB)		G874 M875 S876 E903 Q944 K966 Q969 K1034 G1063 G1064 T1065 G1066 D1105 G1107 G1128 S1129 M1132
Binding residue
(residue number reindexed from 1)		G858 M859 S860 E887 Q928 K950 Q953 K1018 G1047 G1048 T1049 G1050 D1089 G1091 G1112 S1113 M1116
Annotation score1
Enzymatic activity
Catalytic site (original residue number in PDB) C1 R31 F207 N227 G228 M475 E903 Q969 K972 Q978
Catalytic site (residue number reindexed from 1) C1 R31 F207 N227 G228 M475 E887 Q953 K956 Q962
Enzyme Commision number 1.4.7.1: glutamate synthase (ferredoxin).
Gene Ontology
Molecular Function
GO:0015930 glutamate synthase activity
GO:0016040 glutamate synthase (NADH) activity
GO:0016041 glutamate synthase (ferredoxin) activity
GO:0016491 oxidoreductase activity
GO:0016638 oxidoreductase activity, acting on the CH-NH2 group of donors
GO:0046872 metal ion binding
GO:0051538 3 iron, 4 sulfur cluster binding
Biological Process
GO:0006537 glutamate biosynthetic process
GO:0006541 glutamine metabolic process
GO:0019676 ammonia assimilation cycle
GO:0097054 L-glutamate biosynthetic process

View graph for
Molecular Function
View graph for
Biological Process
External links
PDB RCSB:1ofd, PDBe:1ofd, PDBj:1ofd
PDBsum1ofd
PubMed12818206
UniProtP55038|GLTS_SYNY3 Ferredoxin-dependent glutamate synthase 2 (Gene Name=gltS)

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