3NZP
Crystal Structure of the Biosynthetic Arginine decarboxylase SpeA from Campylobacter jejuni, Northeast Structural Genomics Consortium Target BR53
Domain Annotation: ECOD Classification ECOD Database Homepage
Chains | Family Name | Domain Identifier | Architecture | Possible Homology | Homology | Topology | Family | Provenance Source (Version) |
---|---|---|---|---|---|---|---|---|
A | Orn_DAP_Arg_deC_C | e3nzpA2 | A: beta barrels | X: cradle loop barrel | H: RIFT-related | T: Alanine racemase-C | F: Orn_DAP_Arg_deC_C | ECOD (1.6) |
A | SpeA_1st | e3nzpA3 | A: alpha bundles | X: Spectrin repeat-like | H: Helical bundle domain in arginine decarboxylase (From Topology) | T: Helical bundle domain in arginine decarboxylase | F: SpeA_1st | ECOD (1.6) |
A | SpeA_2nd_2 | e3nzpA1 | A: alpha bundles | X: Arginine decarboxylase C-terminal helical extension (From Topology) | H: Arginine decarboxylase C-terminal helical extension (From Topology) | T: Arginine decarboxylase C-terminal helical extension | F: SpeA_2nd_2 | ECOD (1.6) |
A | Orn_DAP_Arg_deC_N | e3nzpA4 | A: a/b barrels | X: TIM beta/alpha-barrel | H: TIM barrels (From Topology) | T: TIM barrels | F: Orn_DAP_Arg_deC_N | ECOD (1.6) |
B | Orn_DAP_Arg_deC_C | e3nzpB1 | A: beta barrels | X: cradle loop barrel | H: RIFT-related | T: Alanine racemase-C | F: Orn_DAP_Arg_deC_C | ECOD (1.6) |
B | SpeA_1st | e3nzpB3 | A: alpha bundles | X: Spectrin repeat-like | H: Helical bundle domain in arginine decarboxylase (From Topology) | T: Helical bundle domain in arginine decarboxylase | F: SpeA_1st | ECOD (1.6) |
B | SpeA_2nd_2 | e3nzpB4 | A: alpha bundles | X: Arginine decarboxylase C-terminal helical extension (From Topology) | H: Arginine decarboxylase C-terminal helical extension (From Topology) | T: Arginine decarboxylase C-terminal helical extension | F: SpeA_2nd_2 | ECOD (1.6) |
B | Orn_DAP_Arg_deC_N | e3nzpB2 | A: a/b barrels | X: TIM beta/alpha-barrel | H: TIM barrels (From Topology) | T: TIM barrels | F: Orn_DAP_Arg_deC_N | ECOD (1.6) |
Domain Annotation: CATH CATH Database Homepage
Chain | Domain | Class | Architecture | Topology | Homology | Provenance Source (Version) |
---|---|---|---|---|---|---|
A | 2.40.37.10 | Mainly Beta | Beta Barrel | Lyase, Ornithine Decarboxylase | Chain A, domain 1 | CATH (4.3.0) |
A | 3.20.20.10 | Alpha Beta | Alpha-Beta Barrel | TIM Barrel | Alanine racemase | CATH (4.3.0) |
A | 1.20.58.930 | Mainly Alpha | Up-down Bundle | Methane Monooxygenase Hydroxylase | Chain G, domain 1 | CATH (4.3.0) |
A | 1.10.287.3440 | Mainly Alpha | Orthogonal Bundle | Helix Hairpins | CATH (4.3.0) | |
B | 2.40.37.10 | Mainly Beta | Beta Barrel | Lyase, Ornithine Decarboxylase | Chain A, domain 1 | CATH (4.3.0) |
B | 3.20.20.10 | Alpha Beta | Alpha-Beta Barrel | TIM Barrel | Alanine racemase | CATH (4.3.0) |
B | 1.20.58.930 | Mainly Alpha | Up-down Bundle | Methane Monooxygenase Hydroxylase | Chain G, domain 1 | CATH (4.3.0) |
B | 1.10.287.3440 | Mainly Alpha | Orthogonal Bundle | Helix Hairpins | CATH (4.3.0) |
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
PF17810 | Arginine decarboxylase helical bundle domain (Arg_decarb_HB) | Arginine decarboxylase helical bundle domain | This entry represents a helical bundle domain that is found between the two enzymatic domains of the arginine decarboxylases [1]. | Domain | |
PF02784 | Pyridoxal-dependent decarboxylase, pyridoxal binding domain (Orn_Arg_deC_N) | Pyridoxal-dependent decarboxylase, pyridoxal binding domain | These pyridoxal-dependent decarboxylases acting on ornithine, lysine, arginine and related substrates This domain has a TIM barrel fold. | Domain |
Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage
InterPro: Protein Family Classification InterPro Database Homepage
Chains | Accession | Name | Type |
---|---|---|---|
IPR029066 | PLP-binding barrel | Homologous Superfamily | |
IPR002985 | Arginine decarboxylase | Family | |
IPR041128 | Arginine decarboxylase, C-terminal helical | Domain | |
IPR022644 | Orn/DAP/Arg decarboxylase 2, N-terminal | Domain | |
IPR022653 | Orn/DAP/Arg decarboxylase 2, pyridoxal-phosphate binding site | Binding Site | |
IPR040634 | Arginine decarboxylase, helical bundle domain | Domain | |
IPR009006 | Alanine racemase/group IV decarboxylase, C-terminal | Homologous Superfamily | |
IPR000183 | Ornithine/DAP/Arg decarboxylase | Family |