1ZQ1
Structure of GatDE tRNA-Dependent Amidotransferase from Pyrococcus abyssi
Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
Chains | Type | Family Name | Domain Identifier | Family Identifier | Provenance Source (Version) |
---|---|---|---|---|---|
A | SCOP2 Family | GatD N-terminal domain-like | 8023749 | 4001791 | SCOP2 (2022-06-29) |
A | SCOP2 Family | Glutaminase/Asparaginase | 8023751 | 4000833 | SCOP2 (2022-06-29) |
A | SCOP2 Superfamily | GatD N-terminal domain-like | 8036129 | 3000389 | SCOP2 (2022-06-29) |
A | SCOP2 Superfamily | Glutaminase/Asparaginase | 8036131 | 3001625 | SCOP2 (2022-06-29) |
B | SCOP2B Superfamily | GatD N-terminal domain-like | 8036129 | 3000389 | SCOP2B (2022-06-29) |
B | SCOP2B Superfamily | Glutaminase/Asparaginase | 8036131 | 3001625 | SCOP2B (2022-06-29) |
C | SCOP2 Family | GatB/GatE C-terminal domain-like | 8023754 | 4001495 | SCOP2 (2022-06-29) |
C | SCOP2 Family | GAD domain | 8023755 | 4001480 | SCOP2 (2022-06-29) |
C | SCOP2 Family | GatB/GatE catalytic domain-like | 8023756 | 4003972 | SCOP2 (2022-06-29) |
C | SCOP2 Superfamily | GatB/YqeY motif | 8036134 | 3001497 | SCOP2 (2022-06-29) |
C | SCOP2 Superfamily | GAD domain-like | 8036135 | 3000108 | SCOP2 (2022-06-29) |
C | SCOP2 Superfamily | Glutamine synthetase/guanido kinase | 8036136 | 3000676 | SCOP2 (2022-06-29) |
D | SCOP2B Superfamily | Glutamine synthetase/guanido kinase | 8036136 | 3000676 | SCOP2B (2022-06-29) |
D | SCOP2B Superfamily | GAD domain-like | 8036135 | 3000108 | SCOP2B (2022-06-29) |
D | SCOP2B Superfamily | Glutamine synthetase/guanido kinase | 8036136 | 3000676 | SCOP2B (2022-06-29) |
D | SCOP2B Superfamily | GatB/YqeY motif | 8036134 | 3001497 | SCOP2B (2022-06-29) |
Domain Annotation: ECOD Classification ECOD Database Homepage
Chains | Family Name | Domain Identifier | Architecture | Possible Homology | Homology | Topology | Family | Provenance Source (Version) |
---|---|---|---|---|---|---|---|---|
A | GatD | e1zq1A1 | A: beta barrels | X: SH3 | H: GatD N-terminal domain-like (From Topology) | T: GatD N-terminal domain-like | F: GatD | ECOD (1.6) |
A | PRK04183 | e1zq1A4 | A: a/b three-layered sandwiches | X: Glutaminase/Asparaginase C-terminal domain (From Topology) | H: Glutaminase/Asparaginase C-terminal domain (From Topology) | T: Glutaminase/Asparaginase C-terminal domain | F: PRK04183 | ECOD (1.6) |
A | Asparaginase | e1zq1A3 | A: a/b three-layered sandwiches | X: Glutaminase/Asparaginase N-terminal domain (From Topology) | H: Glutaminase/Asparaginase N-terminal domain (From Topology) | T: Glutaminase/Asparaginase N-terminal domain | F: Asparaginase | ECOD (1.6) |
B | GatD | e1zq1B1 | A: beta barrels | X: SH3 | H: GatD N-terminal domain-like (From Topology) | T: GatD N-terminal domain-like | F: GatD | ECOD (1.6) |
B | PRK04183 | e1zq1B3 | A: a/b three-layered sandwiches | X: Glutaminase/Asparaginase C-terminal domain (From Topology) | H: Glutaminase/Asparaginase C-terminal domain (From Topology) | T: Glutaminase/Asparaginase C-terminal domain | F: PRK04183 | ECOD (1.6) |
B | Asparaginase | e1zq1B4 | A: a/b three-layered sandwiches | X: Glutaminase/Asparaginase N-terminal domain (From Topology) | H: Glutaminase/Asparaginase N-terminal domain (From Topology) | T: Glutaminase/Asparaginase N-terminal domain | F: Asparaginase | ECOD (1.6) |
C | PRK04028 | e1zq1C1 | A: alpha arrays | X: ERP29 C domain-like | H: GatB/GatE C-terminal domain (From Topology) | T: GatB/GatE C-terminal domain | F: PRK04028 | ECOD (1.6) |
C | GatB_N | e1zq1C2 | A: a+b two layers | X: Glutamine synthetase-like | H: Glutamine synthetase/guanido kinase (From Topology) | T: Glutamine synthetase/guanido kinase | F: GatB_N | ECOD (1.6) |
C | GAD | e1zq1C3 | A: a+b two layers | X: Prokaryotic AspRS, insert domain (From Topology) | H: Prokaryotic AspRS, insert domain (From Topology) | T: Prokaryotic AspRS, insert domain | F: GAD | ECOD (1.6) |
D | PRK04028 | e1zq1D1 | A: alpha arrays | X: ERP29 C domain-like | H: GatB/GatE C-terminal domain (From Topology) | T: GatB/GatE C-terminal domain | F: PRK04028 | ECOD (1.6) |
D | GatB_N | e1zq1D2 | A: a+b two layers | X: Glutamine synthetase-like | H: Glutamine synthetase/guanido kinase (From Topology) | T: Glutamine synthetase/guanido kinase | F: GatB_N | ECOD (1.6) |
D | GAD | e1zq1D3 | A: a+b two layers | X: Prokaryotic AspRS, insert domain (From Topology) | H: Prokaryotic AspRS, insert domain (From Topology) | T: Prokaryotic AspRS, insert domain | F: GAD | ECOD (1.6) |
Domain Annotation: CATH CATH Database Homepage
Chain | Domain | Class | Architecture | Topology | Homology | Provenance Source (Version) |
---|---|---|---|---|---|---|
A | 2.30.30.520 | Mainly Beta | Roll | SH3 type barrels. | CATH (4.3.0) | |
A | 3.40.50.1170 | Alpha Beta | 3-Layer(aba) Sandwich | Rossmann fold | L-asparaginase, N-terminal domain | CATH (4.3.0) |
A | 3.40.50.40 | Alpha Beta | 3-Layer(aba) Sandwich | Rossmann fold | CATH (4.3.0) | |
B | 2.30.30.520 | Mainly Beta | Roll | SH3 type barrels. | CATH (4.3.0) | |
B | 3.40.50.1170 | Alpha Beta | 3-Layer(aba) Sandwich | Rossmann fold | L-asparaginase, N-terminal domain | CATH (4.3.0) |
B | 3.40.50.40 | Alpha Beta | 3-Layer(aba) Sandwich | Rossmann fold | CATH (4.3.0) | |
C | 3.30.1360.30 | Alpha Beta | 2-Layer Sandwich | Gyrase A | domain 2 | CATH (4.3.0) |
C | 1.10.150.380 | Mainly Alpha | Orthogonal Bundle | DNA polymerase | domain 1 | CATH (4.3.0) |
D | 3.30.1360.30 | Alpha Beta | 2-Layer Sandwich | Gyrase A | domain 2 | CATH (4.3.0) |
D | 1.10.150.380 | Mainly Alpha | Orthogonal Bundle | DNA polymerase | domain 1 | CATH (4.3.0) |
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
PF00710 | Asparaginase, N-terminal (Asparaginase) | Asparaginase, N-terminal | This is the N-terminal domain of this enzyme. | Domain | |
PF18195 | GatD N-terminal domain (GatD_N) | GatD N-terminal domain | This is the N-terminal domain of GatD protein present in Pyrococcus abyssi. Two GatD and two GatE associate to form a tetramer complex. The tetramer complex is able to mature Glutamic acid-tRNA Glutamine into Glutamine-tRNA Glutamine, a necessary ste ... | Domain | |
PF17763 | Glutaminase/Asparaginase C-terminal domain (Asparaginase_C) | Glutaminase/Asparaginase C-terminal domain | This domain is found at the C-terminus of asparaginase enzymes. | Domain | |
PF02934 | GatB/GatE catalytic domain (GatB_N) | GatB/GatE catalytic domain | This domain is found in the GatB and GatE proteins [1]. | Domain | |
PF02637 | GatB domain (GatB_Yqey) | GatB domain | This domain is found in GatB. It is about 140 amino acid residues long. This domain is found at the C terminus of GatB Swiss:O30509 which transamidates Glu-tRNA to Gln-tRNA. | Domain | |
PF02938 | GAD domain (GAD) | GAD domain | This domain is found in some members of the GatB and aspartyl tRNA synthetases. | Domain |