Structure of PDB 1ofd Chain B Binding Site BS03

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 IDAKG
InChIInChI=1S/C5H6O5/c6-3(5(9)10)1-2-4(7)8/h1-2H2,(H,7,8)(H,9,10)
InChIKeyKPGXRSRHYNQIFN-UHFFFAOYSA-N
SMILES
SoftwareSMILES
ACDLabs 10.04O=C(O)C(=O)CCC(=O)O
OpenEye OEToolkits 1.7.6C(CC(=O)O)C(=O)C(=O)O
CACTVS 3.385OC(=O)CCC(=O)C(O)=O
FormulaC5 H6 O5
Name2-OXOGLUTARIC ACID
ChEMBLCHEMBL1686
DrugBankDB08845
ZINCZINC000001532519
PDB chain1ofd Chain B Residue 3510 [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)		S876 E903 Q969 K972 G977 Q978 R992 T1065 G1066
Binding residue
(residue number reindexed from 1)		S860 E887 Q953 K956 G961 Q962 R976 T1049 G1050
Annotation score5
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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