2XSQ
Crystal structure of human Nudix motif 16 (NUDT16) in complex with IMP and magnesium
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0000166 | molecular_function | nucleotide binding |
| A | 0000287 | molecular_function | magnesium ion binding |
| A | 0003723 | molecular_function | RNA binding |
| A | 0003729 | molecular_function | mRNA binding |
| A | 0005634 | cellular_component | nucleus |
| A | 0005654 | cellular_component | nucleoplasm |
| A | 0005730 | cellular_component | nucleolus |
| A | 0005737 | cellular_component | cytoplasm |
| A | 0006402 | biological_process | mRNA catabolic process |
| A | 0008235 | molecular_function | metalloexopeptidase activity |
| A | 0009117 | biological_process | nucleotide metabolic process |
| A | 0016077 | biological_process | sno(s)RNA catabolic process |
| A | 0016787 | molecular_function | hydrolase activity |
| A | 0017110 | molecular_function | nucleoside diphosphate phosphatase activity |
| A | 0030145 | molecular_function | manganese ion binding |
| A | 0030515 | molecular_function | snoRNA binding |
| A | 0031404 | molecular_function | chloride ion binding |
| A | 0035863 | biological_process | dITP catabolic process |
| A | 0035870 | molecular_function | dITP diphosphatase activity |
| A | 0042802 | molecular_function | identical protein binding |
| A | 0042803 | molecular_function | protein homodimerization activity |
| A | 0046872 | molecular_function | metal ion binding |
| A | 0050897 | molecular_function | cobalt ion binding |
| A | 0090068 | biological_process | positive regulation of cell cycle process |
| A | 0097383 | molecular_function | dIDP phosphatase activity |
| A | 0110153 | molecular_function | RNA NAD-cap (NMN-forming) hydrolase activity |
| A | 0110155 | biological_process | NAD-cap decapping |
| A | 0140933 | molecular_function | 5'-(N(7)-methylguanosine 5'-triphospho)-[mRNA] hydrolase activity |
| A | 1990003 | molecular_function | IDP phosphatase activity |
| A | 1990174 | molecular_function | phosphodiesterase decapping endonuclease activity |
| A | 2000233 | biological_process | negative regulation of rRNA processing |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 16 |
| Details | BINDING SITE FOR RESIDUE IMP A 1183 |
| Chain | Residue |
| A | VAL22 |
| A | HOH2228 |
| A | HOH2231 |
| A | HOH2232 |
| A | HOH2233 |
| A | HOH2234 |
| A | HOH2235 |
| A | HOH2236 |
| A | HIS24 |
| A | ARG50 |
| A | PHE57 |
| A | PHE61 |
| A | ILE164 |
| A | GLN170 |
| A | HOH2099 |
| A | HOH2227 |
| site_id | AC2 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE MG A 1184 |
| Chain | Residue |
| A | GLY59 |
| A | GLU80 |
| A | HOH2100 |
| A | HOH2120 |
| A | HOH2127 |
| A | HOH2128 |
| site_id | AC3 |
| Number of Residues | 7 |
| Details | BINDING SITE FOR RESIDUE MG A 1185 |
| Chain | Residue |
| A | GLU76 |
| A | HOH2100 |
| A | HOH2118 |
| A | HOH2119 |
| A | HOH2120 |
| A | HOH2186 |
| A | HOH2194 |
| site_id | AC4 |
| Number of Residues | 2 |
| Details | BINDING SITE FOR RESIDUE CL A 1186 |
| Chain | Residue |
| A | ARG38 |
| A | ARG149 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 155 |
| Details | Domain: {"description":"Nudix hydrolase","evidences":[{"source":"PROSITE-ProRule","id":"PRU00794","evidenceCode":"ECO:0000255"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI2 |
| Number of Residues | 21 |
| Details | Motif: {"description":"Nudix box"} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI3 |
| Number of Residues | 4 |
| Details | Binding site: {"evidences":[{"source":"PubMed","id":"26121039","evidenceCode":"ECO:0000305"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI4 |
| Number of Residues | 1 |
| Details | Binding site: {"evidences":[{"source":"PubMed","id":"32432673","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"26121039","evidenceCode":"ECO:0000305"},{"source":"PDB","id":"6X7U","evidenceCode":"ECO:0007744"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI5 |
| Number of Residues | 2 |
| Details | Binding site: {"evidences":[{"source":"UniProtKB","id":"Q6TEC1","evidenceCode":"ECO:0000250"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI6 |
| Number of Residues | 2 |
| Details | Binding site: {"evidences":[{"source":"PubMed","id":"32432673","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"6X7U","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"6X7V","evidenceCode":"ECO:0007744"}]} |
| Chain | Residue | Details |
