PDB: 1gdh Compound: D-glycerate dehydrogenase (apo form) Classification: OXIDOREDUCTASE(CHOH (D)-NAD(P)+ (A)) Entry date in PDB: 1994-01-31 Resolution [Å]: 2.40 R-Factor: 0.189

CHAIN: A SWISS-PROT/TREMBL: P36234    KEYWORD: 3D-structure    NAD    Oxidoreductase    EC: 1.1.1.29 SCOP: c.2.1.4 Alpha and beta proteins (a/b)    NAD(P)-binding Rossmann-fold domains    NAD(P)-binding Rossmann-fold domains    Formate/glycerate dehydrogenases, NAD-domain    D-glycerate dehydrogenase    Hyphomicrobium methylovorum SCOP: c.23.12.1 Alpha and beta proteins (a/b)    Flavodoxin-like    Formate/glycerate dehydrogenase catalytic domain-like    Formate/glycerate dehydrogenases, substrate-binding domain    D-glycerate dehydrogenase    Hyphomicrobium methylovorum SCOP: c.23.12.1 Alpha and beta proteins (a/b)    Flavodoxin-like    Formate/glycerate dehydrogenase catalytic domain-like    Formate/glycerate dehydrogenases, substrate-binding domain    D-glycerate dehydrogenase    Hyphomicrobium methylovorum GO:  oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor    L-serine biosynthesis    CHAIN: B SWISS-PROT/TREMBL: P36234    KEYWORD: 3D-structure    NAD    Oxidoreductase    EC: 1.1.1.29 SCOP: c.2.1.4 Alpha and beta proteins (a/b)    NAD(P)-binding Rossmann-fold domains    NAD(P)-binding Rossmann-fold domains    Formate/glycerate dehydrogenases, NAD-domain    D-glycerate dehydrogenase    Hyphomicrobium methylovorum SCOP: c.23.12.1 Alpha and beta proteins (a/b)    Flavodoxin-like    Formate/glycerate dehydrogenase catalytic domain-like    Formate/glycerate dehydrogenases, substrate-binding domain    D-glycerate dehydrogenase    Hyphomicrobium methylovorum SCOP: c.23.12.1 Alpha and beta proteins (a/b)    Flavodoxin-like    Formate/glycerate dehydrogenase catalytic domain-like    Formate/glycerate dehydrogenases, substrate-binding domain    D-glycerate dehydrogenase    Hyphomicrobium methylovorum GO:  oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor    L-serine biosynthesis

Image Source: PDB

Loops in ArchDB40 clusters

1gdh_A_192 - EH => SUBCLASS : 2.1.2
1gdh_A_192 - EH => SUBCLASS : 2.1.18
1gdh_A_149 - EH => SUBCLASS : 3.32.1
1gdh_A_172 - EH => SUBCLASS : 5.3.1
1gdh_A_172 - EH => SUBCLASS : 5.3.2
1gdh_A_233 - EH => SUBCLASS : 8.14.1
1gdh_A_206 - EH => SUBCLASS : 13.1.1
1gdh_A_102 - HH => SUBCLASS : 1.3.1

Loops in ArchDB95 clusters

1gdh_A_192 - EH => SUBCLASS : 2.1.3
1gdh_A_149 - EH => SUBCLASS : 3.39.1
1gdh_A_172 - EH => SUBCLASS : 5.4.1
1gdh_A_4 - EH => SUBCLASS : 5.10.2
1gdh_A_172 - EH => SUBCLASS : 5.31.1
1gdh_A_233 - EH => SUBCLASS : 8.17.1
1gdh_A_206 - EH => SUBCLASS : 13.3.1
1gdh_A_102 - HH => SUBCLASS : 1.3.1
1gdh_A_13 - HE => SUBCLASS : 0.1.30
1gdh_A_84 - HE => SUBCLASS : 1.1.1
1gdh_A_157 - HE => SUBCLASS : 1.1.1
1gdh_A_183 - HE => SUBCLASS : 1.1.1
1gdh_A_183 - HE => SUBCLASS : 2.1.3
1gdh_A_36 - HE => SUBCLASS : 2.2.1
1gdh_A_197 - HE => SUBCLASS : 2.2.1
1gdh_A_36 - HE => SUBCLASS : 2.3.4
1gdh_A_246 - HE => SUBCLASS : 2.4.1
1gdh_A_13 - HE => SUBCLASS : 2.6.2
1gdh_A_223 - HE => SUBCLASS : 4.59.1
1gdh_A_59 - HE => SUBCLASS : 6.44.1

Loops in ArchDB-EC clusters

1gdh_A_102 - HH => SUBCLASS : 1.3.1

Loops not clustered in ArchDB

1gdh_A_24 - EH
1gdh_A_48 - EH
1gdh_A_71 - EH
1gdh_A_93 - EH
1gdh_A_282 - EH
1gdh_A_258 - HA
1gdh_A_258 - HA
1gdh_A_120 - HE

1gdh A - percentage of sequence identity: 100
1gdh B - percentage of sequence identity: 100