2JIM
A New Catalytic Mechanism of Periplasmic Nitrate Reductase from Desulfovibrio desulfuricans ATCC 27774 from Crystallographic and EPR Data and based on detailed analysis of the sixth ligand
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0005506 | molecular_function | iron ion binding |
| A | 0006777 | biological_process | Mo-molybdopterin cofactor biosynthetic process |
| A | 0008940 | molecular_function | nitrate reductase activity |
| A | 0009055 | molecular_function | electron transfer activity |
| A | 0016491 | molecular_function | oxidoreductase activity |
| A | 0030151 | molecular_function | molybdenum ion binding |
| A | 0042128 | biological_process | nitrate assimilation |
| A | 0042597 | cellular_component | periplasmic space |
| A | 0043546 | molecular_function | molybdopterin cofactor binding |
| A | 0046872 | molecular_function | metal ion binding |
| A | 0050140 | molecular_function | nitrate reductase (cytochrome) activity |
| A | 0051539 | molecular_function | 4 iron, 4 sulfur cluster binding |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 10 |
| Details | BINDING SITE FOR RESIDUE SF4 A 800 |
| Chain | Residue |
| A | CYS13 |
| A | VAL183 |
| A | TYR15 |
| A | CYS16 |
| A | THR18 |
| A | GLY19 |
| A | CYS20 |
| A | LEU46 |
| A | CYS47 |
| A | PRO182 |
| site_id | AC2 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE MO A 810 |
| Chain | Residue |
| A | CYS140 |
| A | MGD811 |
| A | MGD812 |
| A | UNX813 |
| site_id | AC3 |
| Number of Residues | 33 |
| Details | BINDING SITE FOR RESIDUE MGD A 811 |
| Chain | Residue |
| A | ARG14 |
| A | GLN111 |
| A | ASN136 |
| A | CYS140 |
| A | GLN312 |
| A | GLN346 |
| A | GLU416 |
| A | THR417 |
| A | ASN418 |
| A | THR422 |
| A | ILE443 |
| A | GLU444 |
| A | ALA445 |
| A | PHE446 |
| A | ALA449 |
| A | PRO461 |
| A | ALA462 |
| A | PHE463 |
| A | SER615 |
| A | ARG617 |
| A | TRP622 |
| A | HIS623 |
| A | THR624 |
| A | THR626 |
| A | PHE689 |
| A | ASN697 |
| A | TYR713 |
| A | LYS714 |
| A | MO810 |
| A | MGD812 |
| A | UNX813 |
| A | HOH2300 |
| A | HOH2452 |
| site_id | AC4 |
| Number of Residues | 37 |
| Details | BINDING SITE FOR RESIDUE MGD A 812 |
| Chain | Residue |
| A | CYS16 |
| A | LYS49 |
| A | CYS140 |
| A | ILE173 |
| A | GLY174 |
| A | SER175 |
| A | ASN176 |
| A | GLU179 |
| A | ALA180 |
| A | ASP204 |
| A | PRO205 |
| A | ARG206 |
| A | PRO222 |
| A | GLY223 |
| A | ASP225 |
| A | CYS307 |
| A | MET308 |
| A | GLY309 |
| A | ILE310 |
| A | ARG313 |
| A | GLY345 |
| A | GLN346 |
| A | THR614 |
| A | MET616 |
| A | ARG617 |
| A | VAL618 |
| A | ILE619 |
| A | HIS621 |
| A | TRP622 |
| A | HIS623 |
| A | LYS714 |
| A | MO810 |
| A | MGD811 |
| A | UNX813 |
| A | HOH2124 |
| A | HOH2384 |
| A | HOH2453 |
| site_id | AC5 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE UNX A 813 |
| Chain | Residue |
| A | CYS140 |
| A | GLN346 |
| A | MO810 |
| A | MGD811 |
| A | MGD812 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 13 |
| Details | BINDING: BINDING => ECO:0000255|HAMAP-Rule:MF_01630, ECO:0000269|PubMed:10368307, ECO:0000269|PubMed:18327621, ECO:0007744|PDB:2JIM, ECO:0007744|PDB:2JIO, ECO:0007744|PDB:2JIP, ECO:0007744|PDB:2JIQ, ECO:0007744|PDB:2JIR, ECO:0007744|PDB:2NAP, ECO:0007744|PDB:2V3V, ECO:0007744|PDB:2V45 |
| Chain | Residue | Details |
| A | CYS13 | |
| A | ASN418 | |
| A | SER615 | |
| A | ASN697 | |
| A | LYS714 | |
| A | CYS16 | |
| A | CYS20 | |
| A | CYS47 | |
| A | GLN111 | |
| A | ASN136 | |
| A | CYS140 | |
| A | GLY223 | |
| A | MET308 |
| site_id | SWS_FT_FI2 |
| Number of Residues | 1 |
| Details | BINDING: BINDING => ECO:0000255|HAMAP-Rule:MF_01630, ECO:0000269|PubMed:10368307, ECO:0000269|PubMed:18327621, ECO:0007744|PDB:2JIM, ECO:0007744|PDB:2JIP, ECO:0007744|PDB:2JIR, ECO:0007744|PDB:2NAP, ECO:0007744|PDB:2V3V, ECO:0007744|PDB:2V45 |
| Chain | Residue | Details |
| A | LYS49 |
| site_id | SWS_FT_FI3 |
| Number of Residues | 3 |
| Details | BINDING: BINDING => ECO:0000269|PubMed:10368307, ECO:0000269|PubMed:18327621, ECO:0007744|PDB:2JIM, ECO:0007744|PDB:2JIO, ECO:0007744|PDB:2JIP, ECO:0007744|PDB:2JIQ, ECO:0007744|PDB:2JIR, ECO:0007744|PDB:2NAP, ECO:0007744|PDB:2V3V, ECO:0007744|PDB:2V45 |
| Chain | Residue | Details |
| A | ASN176 | |
| A | ASP204 | |
| A | ILE443 |
| site_id | SWS_FT_FI4 |
| Number of Residues | 1 |
| Details | BINDING: BINDING => ECO:0000255|HAMAP-Rule:MF_01630, ECO:0000269|PubMed:10368307, ECO:0000269|PubMed:18327621, ECO:0007744|PDB:2JIM, ECO:0007744|PDB:2JIP, ECO:0007744|PDB:2JIQ, ECO:0007744|PDB:2JIR, ECO:0007744|PDB:2NAP, ECO:0007744|PDB:2V3V, ECO:0007744|PDB:2V45 |
| Chain | Residue | Details |
| A | GLN312 |
| site_id | SWS_FT_FI5 |
| Number of Residues | 1 |
| Details | BINDING: BINDING => ECO:0000305|PubMed:18327621, ECO:0007744|PDB:2JIQ, ECO:0007744|PDB:2JIR |
| Chain | Residue | Details |
| A | MET616 |
| site_id | SWS_FT_FI6 |
| Number of Residues | 1 |
| Details | BINDING: BINDING => ECO:0000255|HAMAP-Rule:MF_01630, ECO:0000305|PubMed:18327621, ECO:0007744|PDB:2JIQ, ECO:0007744|PDB:2JIR |
| Chain | Residue | Details |
| A | PHE689 |
Catalytic Information from CSA
| site_id | CSA1 |
| Number of Residues | 1 |
| Details | Annotated By Reference To The Literature 1tmo |
| Chain | Residue | Details |
| A | CYS140 |
| site_id | CSA2 |
| Number of Residues | 1 |
| Details | Annotated By Reference To The Literature 1tmo |
| Chain | Residue | Details |
| A | ARG138 |
