Structure of PDB 1y5l Chain A Binding Site BS04

Receptor Information
>1y5l Chain A (length=1244) Species: 562 (Escherichia coli) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
SKFLDRFRYFKQKGETFADGHGQLLNTNRDWEDGYRQRWQHDKIVRSTHG
VNCTGSCSWKIYVKNGLVTWETQQTDYPRTRPDLPNHEPRGCPRGASYSW
YLYSANRLKYPMMRKRLMKMWREAKALHSDPVEAWASIIEDADKAKSFKQ
ARGRGGFVRSSWQEVNELIAASNVYTIKNYGPDRVAGFSPIPAMSMVSYA
SGARYLSLIGGTCLSFYDWYCDLPPASPQTWGEQTDVPESADWYNSSYII
AWGSNVPQTRTPDAHFFTEVRYKGTKTVAVTPDYAEIAKLCDLWLAPKQG
TDAAMALAMGHVMLREFHLDNPSQYFTDYVRRYTDMPMLVMLEERDGYYA
AGRMLRAADLVDALGQENNPEWKTVAFNTNGEMVAPNGSIGFRWGEKGKW
NLEQRDGKTGEETELQLSLLGSQDEIAEVGFPYFGGDGTEHFNKVELENV
LLHKLPVKRLQLADGSTALVTTVYDLTLANYGLERGLNDVNCATSYDDVK
AYTPAWAEQITGVSRSQIIRIAREFADNADKTHGRSMIIVGAGLNHWYHL
DMNYRGLINMLIFCGCVGQSGGGWAHYVGQEKLRPQTGWQPLAFALDWQR
PARHMNSTSYFYNHSSQWRYETVTAEELLSPMADKSRYTGHLIDFNVRAE
RMGWLPSAPQLGTNPLTIAGEAEKAGMNPVDYTVKSLKEGSIRFAAEQPE
NGKNHPRNLFIWRSNLLGSSGKGHEFMLKYLLGTEHGIQGKDLGQQGGVK
PEEVDWQDNGLEGKLDLVVTLDFRLSSTCLYSDIILPTATWYEKDDMNTS
DMHPFIHPLSAAVDPAWEAKSDWEIYKAIAKKFSEVCVGHLGKETDIVTL
PIQHDSAAELAQPLDVKDWKKGECDLIPGKTAPHIMVVERDYPATYERFT
SIGPLMEKIGNGGKGIAWNTQSEMDLLRKLNYTKAEGPAKGQPMLNTAID
AAEMILTLAPETNGQVAVKAWAALSEFTGRDHTHLALNKEDEKIRFRDIQ
AQPRKIISSPTWSGLEDEHVSYNAGYTNVHELIPWRTLSGRQQLYQDHQW
MRDFGESLLVYRPPIDTRSVKEVIGQKSNGNQEKALNFLTPHQKWGIHST
YSDNLLMLTLGRGGPVVWLSEADAKDLGIADNDWIEVFNSNGALTARAVV
SQRVPAGMTMMYHAQERIVNLPGSEITQQRGGIHNSVTRITPKPTHMIGG
YAHLAYGFNYYGTVGSNRDEFVVVRKMKNIDWLDGEGNDQVQES
Ligand information
Ligand IDSF4
InChIInChI=1S/4Fe.4S
InChIKeyLJBDFODJNLIPKO-UHFFFAOYSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 2.0.7[S]12[Fe]3[S]4[Fe]1[S]5[Fe]2[S]3[Fe]45
CACTVS 3.385S1[Fe]S[Fe]1.S2[Fe]S[Fe]2
FormulaFe4 S4
NameIRON/SULFUR CLUSTER
ChEMBL
DrugBank
ZINC
PDB chain1y5l Chain A Residue 1801 [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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PDB1y5l Structural and Biochemical Characterization of a Quinol Binding Site of Escherichia coli Nitrate Reductase A
Resolution2.5 Å
Binding residue
(original residue number in PDB)		H49 V51 C53 G55 C57 W59 G91 C92 G95 P262
Binding residue
(residue number reindexed from 1)		H49 V51 C53 G55 C57 W59 G91 C92 G95 P262
Annotation score1
Enzymatic activity
Catalytic site (original residue number in PDB) R94 P190 W219 Y220 P224 Q580
Catalytic site (residue number reindexed from 1) R94 P190 W219 Y220 P224 Q580
Enzyme Commision number 1.7.5.1: nitrate reductase (quinone).
Gene Ontology
Molecular Function
GO:0005515 protein binding
GO:0008940 nitrate reductase activity
GO:0009055 electron transfer activity
GO:0016491 oxidoreductase activity
GO:0043546 molybdopterin cofactor binding
GO:0046872 metal ion binding
GO:0051539 4 iron, 4 sulfur cluster binding
GO:0160182 nitrate reductase (quinone) activity
Biological Process
GO:0009061 anaerobic respiration
GO:0019645 anaerobic electron transport chain
GO:0042126 nitrate metabolic process
GO:0042128 nitrate assimilation
GO:0045333 cellular respiration
Cellular Component
GO:0005886 plasma membrane
GO:0009325 nitrate reductase complex
GO:0016020 membrane
GO:0044799 NarGHI complex
GO:1990204 oxidoreductase complex

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Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:1y5l, PDBe:1y5l, PDBj:1y5l
PDBsum1y5l
PubMed15615728
UniProtP09152|NARG_ECOLI Respiratory nitrate reductase 1 alpha chain (Gene Name=narG)

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