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6CWA

CRYSTAL STRUCTURE PHGDH IN COMPLEX WITH NADH AND 3-PHOSPHOGLYCERATE AT 1.77 A RESOLUTION

Functional Information from GO Data
ChainGOidnamespacecontents
A0016616molecular_functionoxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor
A0051287molecular_functionNAD binding
B0016616molecular_functionoxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor
B0051287molecular_functionNAD binding
Functional Information from PDB Data
site_idAC1
Number of Residues14
Detailsbinding site for residue 3PG A 1001
ChainResidue
AARG53
ANAI1002
AHOH1107
AHOH1181
AHOH1208
BARG134
ASER54
AARG74
AGLY76
ATHR77
AASN101
AARG235
AHIS282
AALA285

site_idAC2
Number of Residues29
Detailsbinding site for residue NAI A 1002
ChainResidue
ATHR77
AASN101
AALA105
AGLY151
AGLY153
AARG154
AILE155
ATYR173
AASP174
APRO175
AILE176
AHIS205
ATHR206
APRO207
ATHR212
ACYS233
AALA234
AARG235
AASP259
AHIS282
AGLY284
AALA285
A3PG1001
AHOH1117
AHOH1125
AHOH1142
AHOH1144
AHOH1175
AHOH1183

site_idAC3
Number of Residues14
Detailsbinding site for residue 3PG B 1001
ChainResidue
AARG134
BARG53
BSER54
BARG74
BTHR77
BGLY78
BASN101
BARG235
BHIS282
BALA285
BNAI1002
BHOH1110
BHOH1120
BHOH1193

site_idAC4
Number of Residues30
Detailsbinding site for residue NAI B 1002
ChainResidue
BASN101
BALA105
BGLY151
BGLY153
BARG154
BILE155
BTYR173
BASP174
BPRO175
BILE176
BHIS205
BTHR206
BPRO207
BTHR212
BCYS233
BALA234
BARG235
BASP259
BHIS282
BGLY284
BALA285
B3PG1001
BHOH1104
BHOH1106
BHOH1157
BHOH1160
BHOH1174
BHOH1175
BHOH1206
BHOH1210

Functional Information from PROSITE/UniProt
site_idPS00065
Number of Residues28
DetailsD_2_HYDROXYACID_DH_1 D-isomer specific 2-hydroxyacid dehydrogenases NAD-binding signature. LGILGlGRIGrevatrmqsfgmk.TIgYD
ChainResidueDetails
ALEU147-ASP174

site_idPS00670
Number of Residues23
DetailsD_2_HYDROXYACID_DH_2 D-isomer specific 2-hydroxyacid dehydrogenases signature 2. IWplCDFItVHtPllpsTtgLlN
ChainResidueDetails
AILE195-ASN217

site_idPS00671
Number of Residues17
DetailsD_2_HYDROXYACID_DH_3 D-isomer specific 2-hydroxyacid dehydrogenases signature 3. CKkGvRVVNcARGgIVD
ChainResidueDetails
ACYS224-ASP240

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues2
DetailsACT_SITE:
ChainResidueDetails
AARG235
BARG235

site_idSWS_FT_FI2
Number of Residues2
DetailsACT_SITE: ACT_SITE => ECO:0000250
ChainResidueDetails
AGLU264
BGLU264

site_idSWS_FT_FI3
Number of Residues2
DetailsACT_SITE: Proton donor
ChainResidueDetails
AHIS282
BHIS282

site_idSWS_FT_FI4
Number of Residues14
DetailsBINDING: BINDING => ECO:0000269|Ref.21
ChainResidueDetails
ATHR77
BASP174
BTHR206
BCYS233
BASP259
BHIS282
AARG154
AASP174
ATHR206
ACYS233
AASP259
AHIS282
BTHR77
BARG154

site_idSWS_FT_FI5
Number of Residues2
DetailsMOD_RES: Phosphoserine => ECO:0007744|PubMed:24275569
ChainResidueDetails
ASER13
BSER13

site_idSWS_FT_FI6
Number of Residues2
DetailsMOD_RES: N6-acetyllysine; alternate => ECO:0000250|UniProtKB:Q61753
ChainResidueDetails
ALYS20
BLYS20

site_idSWS_FT_FI7
Number of Residues2
DetailsMOD_RES: N6-acetyllysine => ECO:0000250|UniProtKB:Q61753
ChainResidueDetails
ALYS57
BLYS57

site_idSWS_FT_FI8
Number of Residues2
DetailsMOD_RES: Phosphothreonine => ECO:0007744|PubMed:23186163, ECO:0007744|PubMed:24275569
ChainResidueDetails
ATHR77
BTHR77

site_idSWS_FT_FI9
Number of Residues4
DetailsCROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2); alternate => ECO:0007744|PubMed:25114211
ChainResidueDetails
ALYS20
BLYS20

224004

PDB entries from 2024-08-21

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