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6RJ3

Crystal structure of PHGDH in complex with compound 15

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 Residues6
Detailsbinding site for residue SO4 A 401
ChainResidue
AARG53
ASER54
AARG74
AHOH592
AHOH596
BARG134

site_idAC2
Number of Residues18
Detailsbinding site for residue K58 A 402
ChainResidue
APRO175
AILE176
AILE177
AHIS205
ATHR206
APRO207
ATHR212
ALEU215
AHOH530
AHOH558
AHOH580
AHOH582
AHOH618
AHOH677
AHOH686
AGLY151
ATYR173
AASP174

site_idAC3
Number of Residues10
Detailsbinding site for residue SO4 B 401
ChainResidue
AARG134
BARG53
BSER54
BARG74
BALA285
BHOH515
BHOH536
BHOH543
BHOH648
BHOH658

site_idAC4
Number of Residues15
Detailsbinding site for residue K58 B 402
ChainResidue
BTYR173
BASP174
BPRO175
BILE176
BHIS205
BTHR206
BPRO207
BLEU209
BLEU215
BHOH530
BHOH533
BHOH572
BHOH597
BHOH667
BHOH672

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

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PDB entries from 2024-07-17

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