Structure of PDB 3c3e Chain A Binding Site BS02

Receptor Information
>3c3e Chain A (length=305) Species: 192952 (Methanosarcina mazei Go1) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
MIIFSGGTGTPKLLDGLKEILPEEELTVVVNTAEDLWVSGNLISPDLDTV
LYLFSDQIDRKRWWGIENDTFGTYERMKELGIEEGLKLGDRDRATHIIRS
NIIRDGASLTDSTVKLSSLFGIKANILPMSDDPVSTYIETAEGIMHFQDF
WIGKRGEPDVRGVDIRGVSEASISPKVLEAFEKEENILIGPSNPITSIGP
IISLPGMRELLKKKKVVAVSPIIGNAPVSGPAGKLMPACGIEVSSMGVAE
YYQDFLDVFVFDERDRADEFAFERLGCHASRADTLMTSTEKSKELAEIVV
QAFLE
Ligand information
Ligand IDGDP
InChIInChI=1S/C10H15N5O11P2/c11-10-13-7-4(8(18)14-10)12-2-15(7)9-6(17)5(16)3(25-9)1-24-28(22,23)26-27(19,20)21/h2-3,5-6,9,16-17H,1H2,(H,22,23)(H2,19,20,21)(H3,11,13,14,18)/t3-,5-,6-,9-/m1/s1
InChIKeyQGWNDRXFNXRZMB-UUOKFMHZSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.7.6c1nc2c(n1C3C(C(C(O3)COP(=O)(O)OP(=O)(O)O)O)O)N=C(NC2=O)N
CACTVS 3.385NC1=Nc2n(cnc2C(=O)N1)[C@@H]3O[C@H](CO[P](O)(=O)O[P](O)(O)=O)[C@@H](O)[C@H]3O
CACTVS 3.385NC1=Nc2n(cnc2C(=O)N1)[CH]3O[CH](CO[P](O)(=O)O[P](O)(O)=O)[CH](O)[CH]3O
ACDLabs 12.01O=P(O)(O)OP(=O)(O)OCC3OC(n2cnc1c2N=C(N)NC1=O)C(O)C3O
OpenEye OEToolkits 1.7.6c1nc2c(n1[C@H]3[C@@H]([C@@H]([C@H](O3)CO[P@](=O)(O)OP(=O)(O)O)O)O)N=C(NC2=O)N
FormulaC10 H15 N5 O11 P2
NameGUANOSINE-5'-DIPHOSPHATE
ChEMBLCHEMBL384759
DrugBankDB04315
ZINCZINC000008215481
PDB chain3c3e Chain A Residue 402 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
PDB3c3e Molecular insights into the biosynthesis of the f420 coenzyme.
Resolution3.0 Å
Binding residue
(original residue number in PDB)		G6 G7 T8 G9 P191 S192 N193 S197 P227 V228 S229 T284 M286
Binding residue
(residue number reindexed from 1)		G6 G7 T8 G9 P191 S192 N193 S197 P227 V228 S229 T284 M286
Annotation score3
Enzymatic activity
Enzyme Commision number 2.7.8.28: 2-phospho-L-lactate transferase.
Gene Ontology
Molecular Function
GO:0000287 magnesium ion binding
GO:0016740 transferase activity
GO:0016773 phosphotransferase activity, alcohol group as acceptor
GO:0043743 LPPG:FO 2-phospho-L-lactate transferase activity
Biological Process
GO:0052645 F420-0 metabolic process

View graph for
Molecular Function
View graph for
Biological Process
External links
PDB RCSB:3c3e, PDBe:3c3e, PDBj:3c3e
PDBsum3c3e
PubMed18252724
UniProtQ8PVT6|COFD_METMA 2-phospho-L-lactate transferase (Gene Name=cofD)

[Back to BioLiP]