CRYSTAL STRUCTURE OF B-12 DEPENDENT (CLASS II) RIBONUCLEOTIDE REDUCTASE
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 | B12-dependent (class II) ribonucleotide reductase | 8028585 | 4002265 | SCOP2 (2022-06-29) |
| A | SCOP2 Superfamily | PFL-like glycyl radical enzymes | 8040964 | 3001069 | SCOP2 (2022-06-29) |
| B | SCOP2B Superfamily | PFL-like glycyl radical enzymes | 8040964 | 3001069 | SCOP2B (2022-06-29) |
| D | SCOP2B Superfamily | PFL-like glycyl radical enzymes | 8040964 | 3001069 | SCOP2B (2022-06-29) |
| C | SCOP2B Superfamily | PFL-like glycyl radical enzymes | 8040964 | 3001069 | 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 | RTPR | e1l1lA1 | A: alpha arrays | X: Alpha helical domain of ribonucleotide reductases (From Topology) | H: Alpha helical domain of ribonucleotide reductases (From Topology) | T: Alpha helical domain of ribonucleotide reductases | F: RTPR | ECOD (1.6) |
| A | Ribonuc_red_lgC_1 | e1l1lA2 | A: a+b three layers | X: B12-dependent (class II) ribonucleotide reductase, insertion domain (From Topology) | H: B12-dependent (class II) ribonucleotide reductase, insertion domain (From Topology) | T: B12-dependent (class II) ribonucleotide reductase, insertion domain | F: Ribonuc_red_lgC_1 | ECOD (1.6) |
| A | Ribonuc_red_lgC | e1l1lA3 | A: a/b barrels | X: Ten stranded beta/alpha barrel (From Topology) | H: Ten stranded beta/alpha barrel (From Topology) | T: Ten stranded beta/alpha barrel | F: Ribonuc_red_lgC | ECOD (1.6) |
| B | RTPR | e1l1lB1 | A: alpha arrays | X: Alpha helical domain of ribonucleotide reductases (From Topology) | H: Alpha helical domain of ribonucleotide reductases (From Topology) | T: Alpha helical domain of ribonucleotide reductases | F: RTPR | ECOD (1.6) |
| B | Ribonuc_red_lgC_1 | e1l1lB2 | A: a+b three layers | X: B12-dependent (class II) ribonucleotide reductase, insertion domain (From Topology) | H: B12-dependent (class II) ribonucleotide reductase, insertion domain (From Topology) | T: B12-dependent (class II) ribonucleotide reductase, insertion domain | F: Ribonuc_red_lgC_1 | ECOD (1.6) |
| B | Ribonuc_red_lgC | e1l1lB3 | A: a/b barrels | X: Ten stranded beta/alpha barrel (From Topology) | H: Ten stranded beta/alpha barrel (From Topology) | T: Ten stranded beta/alpha barrel | F: Ribonuc_red_lgC | ECOD (1.6) |
| D | RTPR | e1l1lD1 | A: alpha arrays | X: Alpha helical domain of ribonucleotide reductases (From Topology) | H: Alpha helical domain of ribonucleotide reductases (From Topology) | T: Alpha helical domain of ribonucleotide reductases | F: RTPR | ECOD (1.6) |
| D | Ribonuc_red_lgC_1 | e1l1lD2 | A: a+b three layers | X: B12-dependent (class II) ribonucleotide reductase, insertion domain (From Topology) | H: B12-dependent (class II) ribonucleotide reductase, insertion domain (From Topology) | T: B12-dependent (class II) ribonucleotide reductase, insertion domain | F: Ribonuc_red_lgC_1 | ECOD (1.6) |
| D | Ribonuc_red_lgC | e1l1lD3 | A: a/b barrels | X: Ten stranded beta/alpha barrel (From Topology) | H: Ten stranded beta/alpha barrel (From Topology) | T: Ten stranded beta/alpha barrel | F: Ribonuc_red_lgC | ECOD (1.6) |
| C | RTPR | e1l1lC1 | A: alpha arrays | X: Alpha helical domain of ribonucleotide reductases (From Topology) | H: Alpha helical domain of ribonucleotide reductases (From Topology) | T: Alpha helical domain of ribonucleotide reductases | F: RTPR | ECOD (1.6) |
| C | Ribonuc_red_lgC_1 | e1l1lC2 | A: a+b three layers | X: B12-dependent (class II) ribonucleotide reductase, insertion domain (From Topology) | H: B12-dependent (class II) ribonucleotide reductase, insertion domain (From Topology) | T: B12-dependent (class II) ribonucleotide reductase, insertion domain | F: Ribonuc_red_lgC_1 | ECOD (1.6) |
| C | Ribonuc_red_lgC | e1l1lC3 | A: a/b barrels | X: Ten stranded beta/alpha barrel (From Topology) | H: Ten stranded beta/alpha barrel (From Topology) | T: Ten stranded beta/alpha barrel | F: Ribonuc_red_lgC | ECOD (1.6) |
Domain Annotation: CATH CATH Database Homepage
Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage
InterPro: Protein Family Classification InterPro Database Homepage
Structure Motif Annotation: Mechanism and Catalytic Site Atlas M-CSA Database Homepage
| Chains | Enzyme Name | Description | Catalytic Residues |
|---|---|---|---|
| ribonucleoside-triphosphate reductase (class II) M-CSA #140 | Ribonucleotide reductase (RNR) is the enzyme responsible for the conversion of the four standard ribonucleotides, 5V -di(or tri)-phospho -adenosine, -cytidine, -guanosine, and -uridine, to their 2V -deoxyribonucleotide counterparts and thereby provides the precursors needed for both synthesis and repair of DNA. Class II enzymes are found in bacteria that can live under both aerobic and anaerobic conditions, and also in some of their phages. The prototype from this class is the monomeric enzyme from Lactobacillus leichmannii , but as more and more members of this class have been found that are predominately homodimers, the Lactobacillus enzyme seems to be rather an extreme of the class. They all, however, utilize a cobaltous cofactor, adenosylcobalamin, a vitamin B12 derivative, that interacts directly with an active site cysteine to form the reactive cysteine radical needed for ribonucleotide reduction. | Defined by 7 residues: CYS:A-119ASN:A-406CYS:A-408GLU:A-410CYS:A-419CYS:A-731CYS:A-736 EC: 1.17.4.2 (PDB Primary Data) |














