Structure of PDB 1arz Chain B Binding Site BS01
Receptor Information
>1arz Chain B (length=269) Species:
83333
(Escherichia coli K-12) [
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NIRVAIAGAGGRMGRQLIQAALALEGVQLGAALEREGSSLLGSDAGELAG
AGKTGVTVQSSLDAVKDDFDVFIDFTRPEGTLNHLAFCRQHGKGMVIGTT
GFDEAGKQAIRDAAADIAIVFAANFSVGVNVMLKLLEKAAKVMGDYTDIE
IIEAHHRHKVDAPSGTALAMGEAIAHALDKDLKDCAVYSREGHTGERVPG
TIGFATVRAGDIVGEHTAMFADIGERLEITHKASSRMTFANGAVRSALWL
SGKESGLFDMRDVLDLNNL
Ligand information
Ligand ID
NAI
InChI
InChI=1S/C21H29N7O14P2/c22-17-12-19(25-7-24-17)28(8-26-12)21-16(32)14(30)11(41-21)6-39-44(36,37)42-43(34,35)38-5-10-13(29)15(31)20(40-10)27-3-1-2-9(4-27)18(23)33/h1,3-4,7-8,10-11,13-16,20-21,29-32H,2,5-6H2,(H2,23,33)(H,34,35)(H,36,37)(H2,22,24,25)/t10-,11-,13-,14-,15-,16-,20-,21-/m1/s1
InChIKey
BOPGDPNILDQYTO-NNYOXOHSSA-N
SMILES
Software
SMILES
OpenEye OEToolkits 1.5.0
c1nc(c2c(n1)n(cn2)C3C(C(C(O3)COP(=O)(O)OP(=O)(O)OCC4C(C(C(O4)N5C=CCC(=C5)C(=O)N)O)O)O)O)N
CACTVS 3.341
NC(=O)C1=CN(C=CC1)[C@@H]2O[C@H](CO[P@@](O)(=O)O[P@](O)(=O)OC[C@H]3O[C@H]([C@H](O)[C@@H]3O)n4cnc5c(N)ncnc45)[C@@H](O)[C@H]2O
OpenEye OEToolkits 1.5.0
c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)CO[P@](=O)(O)O[P@@](=O)(O)OC[C@@H]4[C@H]([C@H]([C@@H](O4)N5C=CCC(=C5)C(=O)N)O)O)O)O)N
CACTVS 3.341
NC(=O)C1=CN(C=CC1)[CH]2O[CH](CO[P](O)(=O)O[P](O)(=O)OC[CH]3O[CH]([CH](O)[CH]3O)n4cnc5c(N)ncnc45)[CH](O)[CH]2O
Formula
C21 H29 N7 O14 P2
Name
1,4-DIHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE;
NADH
ChEMBL
CHEMBL1234616
DrugBank
DB00157
ZINC
ZINC000008215403
PDB chain
1arz Chain B Residue 302 [
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Receptor-Ligand Complex Structure
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PDB
1arz
Three-dimensional structure of Escherichia coli dihydrodipicolinate reductase in complex with NADH and the inhibitor 2,6-pyridinedicarboxylate.
Resolution
2.6 Å
Binding residue
(original residue number in PDB)
G12 G14 G15 R16 M17 E38 F79 T80 R81 G84 H88 G102 T104 A127 N128 F129 F243
Binding residue
(residue number reindexed from 1)
G8 G10 G11 R12 M13 E34 F75 T76 R77 G80 H84 G98 T100 A123 N124 F125 F239
Annotation score
4
Enzymatic activity
Catalytic site (original residue number in PDB)
H159 K163
Catalytic site (residue number reindexed from 1)
H155 K159
Enzyme Commision number
1.17.1.8
: 4-hydroxy-tetrahydrodipicolinate reductase.
Gene Ontology
Molecular Function
GO:0008839
4-hydroxy-tetrahydrodipicolinate reductase
GO:0016491
oxidoreductase activity
GO:0016726
oxidoreductase activity, acting on CH or CH2 groups, NAD or NADP as acceptor
GO:0042802
identical protein binding
GO:0050661
NADP binding
GO:0051287
NAD binding
Biological Process
GO:0008652
amino acid biosynthetic process
GO:0009085
lysine biosynthetic process
GO:0009089
lysine biosynthetic process via diaminopimelate
GO:0019877
diaminopimelate biosynthetic process
Cellular Component
GO:0005737
cytoplasm
GO:0005829
cytosol
View graph for
Molecular Function
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Biological Process
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Cellular Component
External links
PDB
RCSB:1arz
,
PDBe:1arz
,
PDBj:1arz
PDBsum
1arz
PubMed
9398235
UniProt
P04036
|DAPB_ECOLI 4-hydroxy-tetrahydrodipicolinate reductase (Gene Name=dapB)
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