6QSC
Crystal Structure of Arg470His mutant of Human Prolidase with Mn ions and GlyPro ligand
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0004181 | molecular_function | metallocarboxypeptidase activity |
| A | 0005515 | molecular_function | protein binding |
| A | 0006508 | biological_process | proteolysis |
| A | 0006520 | biological_process | amino acid metabolic process |
| A | 0008233 | molecular_function | peptidase activity |
| A | 0008235 | molecular_function | metalloexopeptidase activity |
| A | 0008237 | molecular_function | metallopeptidase activity |
| A | 0016787 | molecular_function | hydrolase activity |
| A | 0016805 | molecular_function | dipeptidase activity |
| A | 0030145 | molecular_function | manganese ion binding |
| A | 0030574 | biological_process | collagen catabolic process |
| A | 0043069 | biological_process | negative regulation of programmed cell death |
| A | 0046872 | molecular_function | metal ion binding |
| A | 0070006 | molecular_function | metalloaminopeptidase activity |
| A | 0070062 | cellular_component | extracellular exosome |
| A | 0102009 | molecular_function | proline dipeptidase activity |
| B | 0004181 | molecular_function | metallocarboxypeptidase activity |
| B | 0005515 | molecular_function | protein binding |
| B | 0006508 | biological_process | proteolysis |
| B | 0006520 | biological_process | amino acid metabolic process |
| B | 0008233 | molecular_function | peptidase activity |
| B | 0008235 | molecular_function | metalloexopeptidase activity |
| B | 0008237 | molecular_function | metallopeptidase activity |
| B | 0016787 | molecular_function | hydrolase activity |
| B | 0016805 | molecular_function | dipeptidase activity |
| B | 0030145 | molecular_function | manganese ion binding |
| B | 0030574 | biological_process | collagen catabolic process |
| B | 0043069 | biological_process | negative regulation of programmed cell death |
| B | 0046872 | molecular_function | metal ion binding |
| B | 0070006 | molecular_function | metalloaminopeptidase activity |
| B | 0070062 | cellular_component | extracellular exosome |
| B | 0102009 | molecular_function | proline dipeptidase activity |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 6 |
| Details | binding site for residue MN A 499 |
| Chain | Residue |
| A | ASP287 |
| A | HIS370 |
| A | GLU412 |
| A | GLU452 |
| A | MH2500 |
| A | GLY506 |
| site_id | AC2 |
| Number of Residues | 8 |
| Details | binding site for residue MH2 A 500 |
| Chain | Residue |
| A | GLU412 |
| A | GLU452 |
| A | MN499 |
| A | GLY506 |
| A | PRO507 |
| A | TYR241 |
| A | ASP276 |
| A | ASP287 |
| site_id | AC3 |
| Number of Residues | 6 |
| Details | binding site for residue GOL A 503 |
| Chain | Residue |
| A | THR152 |
| A | ARG388 |
| A | HOH626 |
| A | HOH653 |
| A | HOH736 |
| A | HOH978 |
| site_id | AC4 |
| Number of Residues | 12 |
| Details | binding site for residue GOL A 504 |
| Chain | Residue |
| A | GLU227 |
| A | ARG237 |
| A | HIS238 |
| A | SER239 |
| A | HOH607 |
| A | HOH614 |
| A | HOH623 |
| A | HOH659 |
| A | HOH682 |
| A | HOH761 |
| A | HOH963 |
| B | GLU227 |
| site_id | AC5 |
| Number of Residues | 9 |
| Details | binding site for residue GOL A 505 |
| Chain | Residue |
| A | PHE9 |
| A | TRP10 |
| A | LEU11 |
| A | LYS120 |
| A | HOH603 |
| A | HOH609 |
| A | HOH655 |
| A | HOH894 |
| B | ASP264 |
| site_id | AC6 |
| Number of Residues | 9 |
| Details | binding site for residue GLY A 506 |
| Chain | Residue |
| A | TYR241 |
| A | ASP276 |
| A | ASP287 |
| A | HIS370 |
| A | HIS377 |
| A | MN499 |
| A | MH2500 |
| A | PRO507 |
| A | HOH845 |
| site_id | AC7 |
| Number of Residues | 12 |
| Details | binding site for residue PRO A 507 |
| Chain | Residue |
| A | LEU254 |
| A | HIS255 |
| A | ASP276 |
| A | HIS366 |
| A | HIS377 |
| A | ARG398 |
| A | GLU412 |
| A | ARG450 |
| A | MH2500 |
| A | GLY506 |
| A | HOH750 |
| A | HOH892 |
| site_id | AC8 |
| Number of Residues | 6 |
| Details | binding site for residue MN B 499 |
| Chain | Residue |
| B | ASP287 |
| B | HIS370 |
| B | GLU412 |
| B | GLU452 |
| B | MH2500 |
| B | GLY509 |
| site_id | AC9 |
| Number of Residues | 8 |
| Details | binding site for residue MH2 B 500 |
| Chain | Residue |
| B | ASP276 |
| B | ASP287 |
| B | THR289 |
| B | GLU412 |
| B | GLU452 |
| B | MN499 |
| B | GLY509 |
| B | PRO510 |
| site_id | AD1 |
| Number of Residues | 3 |
| Details | binding site for residue GOL B 503 |
| Chain | Residue |
| B | GLU387 |
| B | ARG388 |
| B | HOH772 |
| site_id | AD2 |
| Number of Residues | 6 |
| Details | binding site for residue GOL B 504 |
| Chain | Residue |
| A | ARG314 |
| B | ARG35 |
| B | VAL40 |
| B | ASP89 |
| B | HOH626 |
| B | HOH701 |
| site_id | AD3 |
| Number of Residues | 6 |
| Details | binding site for residue GOL B 505 |
| Chain | Residue |
| B | TYR83 |
| B | VAL129 |
| B | PHE163 |
| B | ASP164 |
| B | HOH742 |
| B | HOH987 |
| site_id | AD4 |
| Number of Residues | 8 |
| Details | binding site for residue GOL B 506 |
| Chain | Residue |
| A | ALA105 |
| B | GLU249 |
| B | ALA252 |
| B | ILE418 |
| B | ASP419 |
| B | HOH894 |
| B | HOH959 |
| B | HOH962 |
| site_id | AD5 |
| Number of Residues | 9 |
| Details | binding site for residue GOL B 507 |
| Chain | Residue |
| A | ASP264 |
| B | PHE9 |
| B | TRP10 |
| B | LEU11 |
| B | LYS120 |
| B | HOH606 |
| B | HOH609 |
| B | HOH702 |
| B | HOH735 |
| site_id | AD6 |
| Number of Residues | 6 |
| Details | binding site for residue GOL B 508 |
| Chain | Residue |
| B | GLU14 |
| B | TYR197 |
| B | LYS200 |
| B | HOH619 |
| B | HOH639 |
| B | HOH785 |
| site_id | AD7 |
| Number of Residues | 9 |
| Details | binding site for residue GLY B 509 |
| Chain | Residue |
| B | TYR241 |
| B | ASP276 |
| B | ASP287 |
| B | HIS370 |
| B | HIS377 |
| B | MN499 |
| B | MH2500 |
| B | PRO510 |
| B | HOH936 |
| site_id | AD8 |
| Number of Residues | 11 |
| Details | binding site for residue PRO B 510 |
| Chain | Residue |
| B | LEU254 |
| B | HIS255 |
| B | HIS366 |
| B | HIS377 |
| B | ARG398 |
| B | GLU412 |
| B | ARG450 |
| B | MH2500 |
| B | GLY509 |
| B | HOH783 |
| B | HOH871 |
Functional Information from PROSITE/UniProt
| site_id | PS00491 |
| Number of Residues | 13 |
| Details | PROLINE_PEPTIDASE Aminopeptidase P and proline dipeptidase signature. HGLGHfLGIdVHD |
| Chain | Residue | Details |
| A | HIS366-ASP378 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 6 |
| Details | Binding site: {"evidences":[{"source":"PubMed","id":"28677335","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"5M4J","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5M4L","evidenceCode":"ECO:0007744"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI2 |
| Number of Residues | 10 |
| Details | Binding site: {"evidences":[{"source":"PubMed","id":"28677335","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"5M4G","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5M4L","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5M4Q","evidenceCode":"ECO:0007744"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI3 |
| Number of Residues | 2 |
| Details | Modified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"24275569","evidenceCode":"ECO:0007744"}]} |
| Chain | Residue | Details |
