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4DPQ

The structure of dihydrodipicolinate synthase 2 from Arabidopsis thaliana in complex with (S)-lysine

Functional Information from GO Data
ChainGOidnamespacecontents
A0008840molecular_function4-hydroxy-tetrahydrodipicolinate synthase activity
A0009085biological_processlysine biosynthetic process
A0009089biological_processlysine biosynthetic process via diaminopimelate
A0009507cellular_componentchloroplast
A0016829molecular_functionlyase activity
A0019877biological_processdiaminopimelate biosynthetic process
B0008840molecular_function4-hydroxy-tetrahydrodipicolinate synthase activity
B0009085biological_processlysine biosynthetic process
B0009089biological_processlysine biosynthetic process via diaminopimelate
B0009507cellular_componentchloroplast
B0016829molecular_functionlyase activity
B0019877biological_processdiaminopimelate biosynthetic process
Functional Information from PDB Data
site_idAC1
Number of Residues8
DetailsBINDING SITE FOR RESIDUE NA A 401
ChainResidue
APHE345
AVAL346
AGLY347
ANA402
AHOH542
AHOH545
AHOH553
AHOH588

site_idAC2
Number of Residues6
DetailsBINDING SITE FOR RESIDUE NA A 402
ChainResidue
ANA401
AHOH542
AHOH553
AHOH588
AHOH647
AGLU343

site_idAC3
Number of Residues5
DetailsBINDING SITE FOR RESIDUE NA A 403
ChainResidue
AARG252
AHOH525
AHOH532
AHOH543
AHOH565

site_idAC4
Number of Residues11
DetailsBINDING SITE FOR RESIDUE LYS A 404
ChainResidue
AGLY111
AGLN112
AMET114
ATRP116
AHIS119
ATYR169
AHOH509
AHOH548
BASN143
BGLU147
BLYS403

site_idAC5
Number of Residues8
DetailsBINDING SITE FOR RESIDUE NA B 401
ChainResidue
BPHE345
BVAL346
BGLY347
BNA402
BHOH520
BHOH556
BHOH557
BHOH617

site_idAC6
Number of Residues6
DetailsBINDING SITE FOR RESIDUE NA B 402
ChainResidue
BGLU343
BNA401
BHOH520
BHOH556
BHOH617
BHOH629

site_idAC7
Number of Residues12
DetailsBINDING SITE FOR RESIDUE LYS B 403
ChainResidue
AASN143
AGLU147
ALYS404
BGLY111
BGLN112
BMET114
BTRP116
BHIS119
BTYR169
BHOH515
BHOH528
BHOH588

Functional Information from PROSITE/UniProt
site_idPS00665
Number of Residues18
DetailsDHDPS_1 Dihydrodipicolinate synthase signature 1. GVIvgGTTGEGqlmswdE
ChainResidueDetails
AGLY101-GLU118

site_idPS00666
Number of Residues31
DetailsDHDPS_2 Dihydrodipicolinate synthase signature 2. YNVPgrTgqdIppraifklsqnpn.LaGVKEC
ChainResidueDetails
ATYR194-CYS224

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues2
DetailsACT_SITE: Proton donor/acceptor => ECO:0000250
ChainResidueDetails
ATYR194
BTYR194

site_idSWS_FT_FI2
Number of Residues2
DetailsACT_SITE: Schiff-base intermediate with substrate => ECO:0000250
ChainResidueDetails
ALYS222
BLYS222

site_idSWS_FT_FI3
Number of Residues4
DetailsBINDING: BINDING => ECO:0000250
ChainResidueDetails
ATHR108
AILE261
BTHR108
BILE261

site_idSWS_FT_FI4
Number of Residues4
DetailsSITE: Part of a proton relay during catalysis => ECO:0000250
ChainResidueDetails
ATHR107
ATYR170
BTHR107
BTYR170

224004

PDB entries from 2024-08-21

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