Structure of PDB 4m6v Chain D Binding Site BS04

Receptor Information
>4m6v Chain D (length=593) Species: 347834 (Rhizobium etli CFN 42) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
DRATKLLTYLADVTVNGHPEAKDRPKPLENAARPVVPYAGVKDGTKQLLD
TLGPKKFGEWMRNEKRVLLTDTTMRDGHQSLLATRMRTYDIARIAGTYSH
ALPNLLSLECWGGATFDVSMRFLTEDPWERLALIREGAPNLLLQMLLRGA
NGVGYTNYPDNVVKYFVRQAAKGGIDLFRVFDCLNWVENMRVSMDAIAEE
NKLCEAAICYTGDILNSARPKYDLKYYTNLAVELEKAGAHIIAVKDMAGL
LKPAAAKVLFKALREATGLPIHFHTHDTSGIAAATVLAAVEAGVDAVDAA
MDALSGNTSQPCLGSIVEALSGSERDPGLDPAWIRRISFYWEAVRNQYAA
FESDLKGPASEVYLHEMPGGQFTNLKEQARSLGLETRWHQVAQAYADANQ
MFGDIVKVTPSSKVVGDMALMMVSQDLTVADVVSPDREVSFPESVVSMLK
GDLGQPPSGWPEALQKKALKEKPYTVRPGSLLKEADLDAERKVIEKKLER
EVSDFEFASYLMYPKVFTDFALASDTYGPVSVLPTPAYFYGLADGEELFA
DIEKGKTLVIVNQAVSATDSQGMVTVFFELNGQPRRIKVPDRA
Ligand information
Ligand IDBYT
InChIInChI=1S/C16H28N4O4S/c17-10(15(22)23)5-3-4-8-18-13(21)7-2-1-6-12-14-11(9-25-12)19-16(24)20-14/h10-12,14H,1-9,17H2,(H,18,21)(H,22,23)(H2,19,20,24)/t10-,11-,12-,14-/m0/s1
InChIKeyBAQMYDQNMFBZNA-MNXVOIDGSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.7.6C1C2C(C(S1)CCCCC(=O)NCCCCC(C(=O)O)N)NC(=O)N2
CACTVS 3.385N[CH](CCCCNC(=O)CCCC[CH]1SC[CH]2NC(=O)N[CH]12)C(O)=O
CACTVS 3.385N[C@@H](CCCCNC(=O)CCCC[C@@H]1SC[C@@H]2NC(=O)N[C@H]12)C(O)=O
OpenEye OEToolkits 1.7.6C1[C@H]2[C@@H]([C@@H](S1)CCCCC(=O)NCCCC[C@@H](C(=O)O)N)NC(=O)N2
ACDLabs 12.01O=C1NC2C(SCC2N1)CCCCC(=O)NCCCCC(C(=O)O)N
FormulaC16 H28 N4 O4 S
NameBiocytin;
N~6~-{5-[(3aS,4S,6aR)-2-oxohexahydro-1H-thieno[3,4-d]imidazol-4-yl]pentanoyl}-L-lysine
ChEMBL
DrugBank
ZINCZINC000004096827
PDB chain4m6v Chain D Residue 1105 [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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PDB4m6v The role of biotin and oxamate in the carboxyltransferase reaction of pyruvate carboxylase.
Resolution2.4 Å
Binding residue
(original residue number in PDB)
D482 G487 H488 R594 T597 Y1001 R1066
Binding residue
(residue number reindexed from 1)
D12 G17 H18 R121 T124 Y527 R592
Annotation score1
Enzymatic activity
Catalytic site (original residue number in PDB) D549 D655 K718 H747 H749 T882
Catalytic site (residue number reindexed from 1) D76 D182 K245 H274 H276 T409
Enzyme Commision number 6.4.1.1: pyruvate carboxylase.
Gene Ontology
Molecular Function
GO:0003824 catalytic activity
GO:0004736 pyruvate carboxylase activity
GO:0005524 ATP binding
Biological Process
GO:0006090 pyruvate metabolic process
GO:0006094 gluconeogenesis

View graph for
Molecular Function

View graph for
Biological Process
External links
PDB RCSB:4m6v, PDBe:4m6v, PDBj:4m6v
PDBsum4m6v
PubMed25157442
UniProtQ2K340

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