5MWU
Crystal structure of the periplasmic nickel-binding protein NikA from Escherichia coli in complex with Ru(bpza)(CO)2Cl
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0005515 | molecular_function | protein binding |
| A | 0015675 | biological_process | nickel cation transport |
| A | 0015833 | biological_process | peptide transport |
| A | 0016020 | cellular_component | membrane |
| A | 0016151 | molecular_function | nickel cation binding |
| A | 0020037 | molecular_function | heme binding |
| A | 0030288 | cellular_component | outer membrane-bounded periplasmic space |
| A | 0042597 | cellular_component | periplasmic space |
| A | 0043190 | cellular_component | ATP-binding cassette (ABC) transporter complex |
| A | 0046914 | molecular_function | transition metal ion binding |
| A | 0050919 | biological_process | negative chemotaxis |
| A | 0051540 | molecular_function | metal cluster binding |
| A | 0055052 | cellular_component | ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing |
| A | 0055085 | biological_process | transmembrane transport |
| A | 0098716 | biological_process | nickel cation import across plasma membrane |
| A | 1904680 | molecular_function | peptide transmembrane transporter activity |
| B | 0005515 | molecular_function | protein binding |
| B | 0015675 | biological_process | nickel cation transport |
| B | 0015833 | biological_process | peptide transport |
| B | 0016020 | cellular_component | membrane |
| B | 0016151 | molecular_function | nickel cation binding |
| B | 0020037 | molecular_function | heme binding |
| B | 0030288 | cellular_component | outer membrane-bounded periplasmic space |
| B | 0042597 | cellular_component | periplasmic space |
| B | 0043190 | cellular_component | ATP-binding cassette (ABC) transporter complex |
| B | 0046914 | molecular_function | transition metal ion binding |
| B | 0050919 | biological_process | negative chemotaxis |
| B | 0051540 | molecular_function | metal cluster binding |
| B | 0055052 | cellular_component | ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing |
| B | 0055085 | biological_process | transmembrane transport |
| B | 0098716 | biological_process | nickel cation import across plasma membrane |
| B | 1904680 | molecular_function | peptide transmembrane transporter activity |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 3 |
| Details | binding site for residue ACT A 601 |
| Chain | Residue |
| A | ARG68 |
| A | ASP69 |
| A | ASP70 |
| site_id | AC2 |
| Number of Residues | 4 |
| Details | binding site for residue ACT A 602 |
| Chain | Residue |
| A | ASN261 |
| A | GLU262 |
| A | LEU263 |
| A | HOH932 |
| site_id | AC3 |
| Number of Residues | 5 |
| Details | binding site for residue ACT A 603 |
| Chain | Residue |
| A | GLN423 |
| A | HOH799 |
| A | HOH894 |
| A | ASN235 |
| A | ALA237 |
| site_id | AC4 |
| Number of Residues | 5 |
| Details | binding site for residue SO4 A 604 |
| Chain | Residue |
| A | ARG384 |
| A | ARG389 |
| A | HOH763 |
| B | LEU430 |
| B | ARG457 |
| site_id | AC5 |
| Number of Residues | 9 |
| Details | binding site for residue GOL A 605 |
| Chain | Residue |
| A | ASN220 |
| A | GLU247 |
| A | ARG396 |
| A | THR490 |
| A | GOL606 |
| A | HOH709 |
| A | HOH802 |
| A | HOH834 |
| A | HOH915 |
| site_id | AC6 |
| Number of Residues | 8 |
| Details | binding site for residue GOL A 606 |
| Chain | Residue |
| A | TRP10 |
| A | PRO11 |
| A | GLY219 |
| A | ASN220 |
| A | GLY222 |
| A | LEU223 |
| A | GOL605 |
| A | HOH792 |
| site_id | AC7 |
| Number of Residues | 7 |
| Details | binding site for residue GOL A 607 |
| Chain | Residue |
| A | GLU102 |
| A | ASN105 |
| A | LYS123 |
| A | ASP227 |
| A | THR228 |
| A | ARG231 |
| A | ARG412 |
| site_id | AC8 |
| Number of Residues | 2 |
| Details | binding site for residue FE A 608 |
| Chain | Residue |
| A | EDT609 |
| A | HOH703 |
| site_id | AC9 |
| Number of Residues | 14 |
| Details | binding site for residue EDT A 609 |
| Chain | Residue |
| A | TYR22 |
| A | MET27 |
| A | ARG97 |
| A | TRP100 |
| A | ARG137 |
| A | TRP398 |
| A | FE608 |
| A | HOH703 |
| A | HOH733 |
| A | HOH738 |
| A | HOH834 |
| A | HOH845 |
| A | HOH908 |
| A | HOH923 |
| site_id | AD1 |
| Number of Residues | 3 |
| Details | binding site for residue ACT A 610 |
| Chain | Residue |
| A | GLN361 |
| A | SER372 |
| A | LEU373 |
| site_id | AD2 |
| Number of Residues | 2 |
| Details | binding site for residue ACT A 611 |
| Chain | Residue |
| A | ASN149 |
| A | LYS157 |
| site_id | AD3 |
| Number of Residues | 3 |
| Details | binding site for residue ACT A 612 |
| Chain | Residue |
| A | LYS335 |
| A | HOH947 |
| B | ARG341 |
| site_id | AD4 |
| Number of Residues | 6 |
| Details | binding site for residue GOL A 613 |
| Chain | Residue |
| A | ALA158 |
| A | LEU167 |
| A | GLN168 |
| A | HOH759 |
| B | THR211 |
| B | ASP213 |
| site_id | AD5 |
| Number of Residues | 5 |
| Details | binding site for residue GOL A 614 |
| Chain | Residue |
| A | PRO327 |
| A | ALA328 |
| A | HOH863 |
| B | ARG365 |
| B | GLN366 |
| site_id | AD6 |
| Number of Residues | 3 |
| Details | binding site for residue GOL A 615 |
| Chain | Residue |
| A | LYS316 |
| A | HOH737 |
| B | LYS354 |
| site_id | AD7 |
| Number of Residues | 9 |
| Details | binding site for residue GOL A 616 |
| Chain | Residue |
| A | ARG89 |
| A | LEU92 |
| A | ARG95 |
| A | ILE107 |
| A | VAL108 |
| A | ASP109 |
| A | VAL110 |
| A | ASN281 |
| A | HOH957 |
| site_id | AD8 |
| Number of Residues | 4 |
| Details | binding site for residue ACT A 617 |
| Chain | Residue |
| A | THR23 |
| A | GLN26 |
| A | HOH795 |
| A | HOH920 |
| site_id | AD9 |
| Number of Residues | 4 |
| Details | binding site for residue ACT B 601 |
| Chain | Residue |
| A | ASN75 |
| A | GLY76 |
| B | PRO225 |
| B | ASP227 |
| site_id | AE1 |
| Number of Residues | 8 |
| Details | binding site for residue GOL B 602 |
| Chain | Residue |
| B | ALA486 |
| B | HOH703 |
| B | HOH710 |
| B | HOH731 |
| B | HOH743 |
| B | SER243 |
| B | ILE246 |
| B | TYR485 |
| site_id | AE2 |
| Number of Residues | 9 |
| Details | binding site for residue GOL B 603 |
| Chain | Residue |
| B | TRP10 |
| B | PRO11 |
| B | GLY219 |
| B | ASN220 |
| B | GLY222 |
| B | LEU223 |
| B | GOL604 |
| B | HOH725 |
| B | HOH884 |
| site_id | AE3 |
| Number of Residues | 8 |
| Details | binding site for residue GOL B 604 |
| Chain | Residue |
| B | ASN220 |
| B | GLU247 |
| B | ARG396 |
| B | ALA489 |
| B | THR490 |
| B | GOL603 |
| B | HOH706 |
| B | HOH709 |
| site_id | AE4 |
| Number of Residues | 1 |
| Details | binding site for residue ACT B 605 |
| Chain | Residue |
| B | HOH866 |
| site_id | AE5 |
| Number of Residues | 4 |
| Details | binding site for residue RU B 606 |
| Chain | Residue |
| B | CL607 |
| B | 6RP608 |
| B | CMO609 |
| B | CMO610 |
| site_id | AE6 |
| Number of Residues | 6 |
| Details | binding site for residue CL B 607 |
| Chain | Residue |
| B | RU606 |
| B | 6RP608 |
| B | CMO609 |
| B | CMO610 |
| B | HOH920 |
| B | HOH951 |
| site_id | AE7 |
| Number of Residues | 11 |
| Details | binding site for residue 6RP B 608 |
| Chain | Residue |
| B | TYR22 |
| B | MET27 |
| B | TRP100 |
| B | ARG137 |
| B | TRP398 |
| B | TYR402 |
| B | RU606 |
| B | CL607 |
| B | CMO609 |
| B | CMO610 |
| B | HOH769 |
| site_id | AE8 |
| Number of Residues | 5 |
| Details | binding site for residue CMO B 609 |
| Chain | Residue |
| B | ARG137 |
| B | RU606 |
| B | CL607 |
| B | 6RP608 |
| B | CMO610 |
| site_id | AE9 |
| Number of Residues | 4 |
| Details | binding site for residue CMO B 610 |
| Chain | Residue |
| B | RU606 |
| B | CL607 |
| B | 6RP608 |
| B | CMO609 |
| site_id | AF1 |
| Number of Residues | 8 |
| Details | binding site for residue GOL B 611 |
| Chain | Residue |
| B | ASN274 |
| B | LYS275 |
| B | LYS276 |
| B | SER308 |
| B | GLN309 |
| B | TYR310 |
| B | HOH702 |
| B | HOH859 |
| site_id | AF2 |
| Number of Residues | 5 |
| Details | binding site for residue CL B 612 |
| Chain | Residue |
| B | MET27 |
| B | PHE28 |
| B | THR490 |
| B | HOH943 |
| B | HOH976 |
| site_id | AF3 |
| Number of Residues | 3 |
| Details | binding site for residue ACT B 613 |
| Chain | Residue |
| B | THR23 |
| B | GLN26 |
| B | HOH951 |
| site_id | AF4 |
| Number of Residues | 5 |
| Details | binding site for residue GOL B 614 |
| Chain | Residue |
| A | THR23 |
| A | ARG97 |
| B | LYS314 |
| B | HOH701 |
| B | HOH707 |
Functional Information from PROSITE/UniProt
| site_id | PS01040 |
| Number of Residues | 23 |
| Details | SBP_BACTERIAL_5 Bacterial extracellular solute-binding proteins, family 5 signature. AkswthseDgkTWtFtLRDDVKF |
| Chain | Residue | Details |
| A | ALA51-PHE73 |
