4NXO
Crystal Structure of Insulin Degrading Enzyme in complex with BDM44768
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0001618 | molecular_function | virus receptor activity |
| A | 0004175 | molecular_function | endopeptidase activity |
| A | 0004222 | molecular_function | metalloendopeptidase activity |
| A | 0005515 | molecular_function | protein binding |
| A | 0005524 | molecular_function | ATP binding |
| A | 0005576 | cellular_component | extracellular region |
| A | 0005615 | cellular_component | extracellular space |
| A | 0005634 | cellular_component | nucleus |
| A | 0005737 | cellular_component | cytoplasm |
| A | 0005739 | cellular_component | mitochondrion |
| A | 0005777 | cellular_component | peroxisome |
| A | 0005782 | cellular_component | peroxisomal matrix |
| A | 0005829 | cellular_component | cytosol |
| A | 0005886 | cellular_component | plasma membrane |
| A | 0006508 | biological_process | proteolysis |
| A | 0008237 | molecular_function | metallopeptidase activity |
| A | 0008270 | molecular_function | zinc ion binding |
| A | 0008286 | biological_process | insulin receptor signaling pathway |
| A | 0009897 | cellular_component | external side of plasma membrane |
| A | 0009986 | cellular_component | cell surface |
| A | 0010815 | biological_process | bradykinin catabolic process |
| A | 0010992 | biological_process | ubiquitin recycling |
| A | 0016323 | cellular_component | basolateral plasma membrane |
| A | 0019885 | biological_process | antigen processing and presentation of endogenous peptide antigen via MHC class I |
| A | 0030163 | biological_process | protein catabolic process |
| A | 0032092 | biological_process | positive regulation of protein binding |
| A | 0042277 | molecular_function | peptide binding |
| A | 0042447 | biological_process | hormone catabolic process |
| A | 0042803 | molecular_function | protein homodimerization activity |
| A | 0043171 | biological_process | peptide catabolic process |
| A | 0043559 | molecular_function | insulin binding |
| A | 0045732 | biological_process | positive regulation of protein catabolic process |
| A | 0046718 | biological_process | symbiont entry into host cell |
| A | 0046872 | molecular_function | metal ion binding |
| A | 0050435 | biological_process | amyloid-beta metabolic process |
| A | 0051603 | biological_process | proteolysis involved in protein catabolic process |
| A | 0070062 | cellular_component | extracellular exosome |
| A | 0097242 | biological_process | amyloid-beta clearance |
| A | 0150094 | biological_process | amyloid-beta clearance by cellular catabolic process |
| A | 1901142 | biological_process | insulin metabolic process |
| A | 1901143 | biological_process | insulin catabolic process |
| A | 1903715 | biological_process | regulation of aerobic respiration |
| B | 0001618 | molecular_function | virus receptor activity |
| B | 0004175 | molecular_function | endopeptidase activity |
| B | 0004222 | molecular_function | metalloendopeptidase activity |
| B | 0005515 | molecular_function | protein binding |
| B | 0005524 | molecular_function | ATP binding |
| B | 0005576 | cellular_component | extracellular region |
| B | 0005615 | cellular_component | extracellular space |
| B | 0005634 | cellular_component | nucleus |
| B | 0005737 | cellular_component | cytoplasm |
| B | 0005739 | cellular_component | mitochondrion |
| B | 0005777 | cellular_component | peroxisome |
| B | 0005782 | cellular_component | peroxisomal matrix |
| B | 0005829 | cellular_component | cytosol |
| B | 0005886 | cellular_component | plasma membrane |
| B | 0006508 | biological_process | proteolysis |
| B | 0008237 | molecular_function | metallopeptidase activity |
| B | 0008270 | molecular_function | zinc ion binding |
| B | 0008286 | biological_process | insulin receptor signaling pathway |
| B | 0009897 | cellular_component | external side of plasma membrane |
| B | 0009986 | cellular_component | cell surface |
| B | 0010815 | biological_process | bradykinin catabolic process |
| B | 0010992 | biological_process | ubiquitin recycling |
| B | 0016323 | cellular_component | basolateral plasma membrane |
| B | 0019885 | biological_process | antigen processing and presentation of endogenous peptide antigen via MHC class I |
| B | 0030163 | biological_process | protein catabolic process |
| B | 0032092 | biological_process | positive regulation of protein binding |
| B | 0042277 | molecular_function | peptide binding |
| B | 0042447 | biological_process | hormone catabolic process |
| B | 0042803 | molecular_function | protein homodimerization activity |
| B | 0043171 | biological_process | peptide catabolic process |
| B | 0043559 | molecular_function | insulin binding |
| B | 0045732 | biological_process | positive regulation of protein catabolic process |
| B | 0046718 | biological_process | symbiont entry into host cell |
| B | 0046872 | molecular_function | metal ion binding |
| B | 0050435 | biological_process | amyloid-beta metabolic process |
| B | 0051603 | biological_process | proteolysis involved in protein catabolic process |
| B | 0070062 | cellular_component | extracellular exosome |
| B | 0097242 | biological_process | amyloid-beta clearance |
| B | 0150094 | biological_process | amyloid-beta clearance by cellular catabolic process |
| B | 1901142 | biological_process | insulin metabolic process |
| B | 1901143 | biological_process | insulin catabolic process |
| B | 1903715 | biological_process | regulation of aerobic respiration |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE ZN A 1101 |
| Chain | Residue |
| A | HIS108 |
| A | HIS112 |
| A | GLU189 |
| A | 2H71102 |
| site_id | AC2 |
| Number of Residues | 12 |
| Details | BINDING SITE FOR RESIDUE 2H7 A 1102 |
| Chain | Residue |
| A | SER138 |
| A | ASN139 |
| A | GLU189 |
| A | ARG824 |
| A | TYR831 |
| A | VAL833 |
| A | ZN1101 |
| A | HIS108 |
| A | GLN111 |
| A | HIS112 |
| A | PHE115 |
| A | SER128 |
| site_id | AC3 |
| Number of Residues | 10 |
| Details | BINDING SITE FOR RESIDUE 1PE A 1103 |
| Chain | Residue |
| A | GLN323 |
| A | TYR326 |
| A | ASN329 |
| A | HIS332 |
| A | GLN363 |
| A | ASN418 |
| A | ALA452 |
| A | GLU453 |
| A | LEU456 |
| A | HOH1235 |
| site_id | AC4 |
| Number of Residues | 2 |
| Details | BINDING SITE FOR RESIDUE PEG A 1104 |
| Chain | Residue |
| A | ALA198 |
| A | TRP199 |
| site_id | AC5 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE PEG A 1105 |
| Chain | Residue |
| A | ILE832 |
| A | PHE834 |
| A | ARG847 |
| site_id | AC6 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE PEG A 1106 |
| Chain | Residue |
| A | SER590 |
| A | ILE624 |
| A | TYR666 |
| A | EDO1108 |
| site_id | AC7 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE EDO A 1107 |
| Chain | Residue |
| A | GLN323 |
| A | HOH1225 |
| A | HOH1235 |
| site_id | AC8 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE EDO A 1108 |
| Chain | Residue |
| A | SER669 |
| A | LYS697 |
| A | PEG1106 |
| site_id | AC9 |
| Number of Residues | 10 |
| Details | BINDING SITE FOR RESIDUE EPE A 1109 |
| Chain | Residue |
| A | GLN800 |
| A | ARG839 |
| A | ALA840 |
| A | ASN841 |
| A | GLY842 |
| A | ARG893 |
| A | GLU910 |
| A | GLN915 |
| A | ARG920 |
| A | HOH1245 |
| site_id | BC1 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE ZN B 1101 |
| Chain | Residue |
| B | HIS108 |
| B | HIS112 |
| B | GLU189 |
| B | 2H71102 |
| site_id | BC2 |
| Number of Residues | 14 |
| Details | BINDING SITE FOR RESIDUE 2H7 B 1102 |
| Chain | Residue |
| B | HIS108 |
| B | GLN111 |
| B | HIS112 |
| B | PHE115 |
| B | SER128 |
| B | SER138 |
| B | ASN139 |
| B | ALA140 |
| B | GLU189 |
| B | PHE820 |
| B | ARG824 |
| B | TYR831 |
| B | ZN1101 |
| B | HOH1253 |
| site_id | BC3 |
| Number of Residues | 9 |
| Details | BINDING SITE FOR RESIDUE 1PE B 1103 |
| Chain | Residue |
| B | GLN323 |
| B | TYR326 |
| B | ASN329 |
| B | HIS332 |
| B | GLN363 |
| B | ASN418 |
| B | ALA452 |
| B | GLU453 |
| B | HOH1265 |
| site_id | BC4 |
| Number of Residues | 2 |
| Details | BINDING SITE FOR RESIDUE PEG B 1104 |
| Chain | Residue |
| B | GLY361 |
| B | ILE374 |
| site_id | BC5 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE PEG B 1105 |
| Chain | Residue |
| B | LEU201 |
| B | GLU205 |
| B | ARG477 |
| B | ALA479 |
| B | HOH1288 |
| site_id | BC6 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE PEG B 1106 |
| Chain | Residue |
| B | SER590 |
| B | ASN622 |
| B | ILE624 |
| B | TYR666 |
| site_id | BC7 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE EDO B 1108 |
| Chain | Residue |
| B | GLU428 |
| B | ARG429 |
| B | LYS899 |
| site_id | BC8 |
| Number of Residues | 1 |
| Details | BINDING SITE FOR RESIDUE PEG B 1109 |
| Chain | Residue |
| B | TRP199 |
| site_id | BC9 |
| Number of Residues | 8 |
| Details | BINDING SITE FOR RESIDUE EPE B 1110 |
| Chain | Residue |
| B | SER913 |
| B | ARG920 |
| B | GLN800 |
| B | ARG839 |
| B | ALA840 |
| B | ASN841 |
| B | GLY842 |
| B | GLU910 |
| site_id | CC1 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE DIO B 1111 |
| Chain | Residue |
| B | ASN312 |
| B | THR358 |
| B | ASN376 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 2 |
| Details | ACT_SITE: Proton acceptor => ECO:0000255|PROSITE-ProRule:PRU10096, ECO:0000305|PubMed:10684867, ECO:0000305|PubMed:17051221, ECO:0000305|PubMed:19321446, ECO:0000305|PubMed:23922390 |
| Chain | Residue | Details |
| A | GLN111 | |
| B | GLN111 |
| site_id | SWS_FT_FI2 |
| Number of Residues | 6 |
| Details | BINDING: BINDING => ECO:0000255|PROSITE-ProRule:PRU10096, ECO:0000269|PubMed:17051221, ECO:0000269|PubMed:17613531, ECO:0000269|PubMed:18986166, ECO:0000269|PubMed:19321446, ECO:0007744|PDB:2G54, ECO:0007744|PDB:2JG4, ECO:0007744|PDB:3CWW, ECO:0007744|PDB:3N56, ECO:0007744|PDB:3N57 |
| Chain | Residue | Details |
| A | HIS108 | |
| A | HIS112 | |
| A | GLU189 | |
| B | HIS108 | |
| B | HIS112 | |
| B | GLU189 |
| site_id | SWS_FT_FI3 |
| Number of Residues | 2 |
| Details | BINDING: in the exosite |
| Chain | Residue | Details |
| A | HIS336 | |
| B | HIS336 |
| site_id | SWS_FT_FI4 |
| Number of Residues | 2 |
| Details | BINDING: BINDING => ECO:0000269|PubMed:18986166 |
| Chain | Residue | Details |
| A | LEU359 | |
| B | LEU359 |
| site_id | SWS_FT_FI5 |
| Number of Residues | 4 |
| Details | BINDING: BINDING => ECO:0000250|UniProtKB:P35559 |
| Chain | Residue | Details |
| A | ARG429 | |
| A | ASP895 | |
| B | ARG429 | |
| B | ASP895 |
| site_id | SWS_FT_FI6 |
| Number of Residues | 4 |
| Details | MOD_RES: N6-succinyllysine => ECO:0000250|UniProtKB:Q9JHR7 |
| Chain | Residue | Details |
| A | LYS192 | |
| A | LYS697 | |
| B | LYS192 | |
| B | LYS697 |
