1RYA
Crystal Structure of the E. coli GDP-mannose mannosyl hydrolase in complex with GDP and MG
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0000287 | molecular_function | magnesium ion binding |
| A | 0008727 | molecular_function | GDP-mannose mannosyl hydrolase activity |
| A | 0009103 | biological_process | lipopolysaccharide biosynthetic process |
| A | 0016787 | molecular_function | hydrolase activity |
| A | 0030145 | molecular_function | manganese ion binding |
| A | 0042802 | molecular_function | identical protein binding |
| A | 0042803 | molecular_function | protein homodimerization activity |
| A | 0046872 | molecular_function | metal ion binding |
| A | 0047917 | molecular_function | GDP-glucosidase activity |
| B | 0000287 | molecular_function | magnesium ion binding |
| B | 0008727 | molecular_function | GDP-mannose mannosyl hydrolase activity |
| B | 0009103 | biological_process | lipopolysaccharide biosynthetic process |
| B | 0016787 | molecular_function | hydrolase activity |
| B | 0030145 | molecular_function | manganese ion binding |
| B | 0042802 | molecular_function | identical protein binding |
| B | 0042803 | molecular_function | protein homodimerization activity |
| B | 0046872 | molecular_function | metal ion binding |
| B | 0047917 | molecular_function | GDP-glucosidase activity |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE MG A 1001 |
| Chain | Residue |
| A | GLY50 |
| A | GLU70 |
| A | GLN123 |
| A | GDP770 |
| A | HOH1002 |
| site_id | AC2 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE MG B 1002 |
| Chain | Residue |
| B | HOH1004 |
| B | GLY50 |
| B | GLU70 |
| B | GLN123 |
| B | GDP771 |
| site_id | AC3 |
| Number of Residues | 2 |
| Details | BINDING SITE FOR RESIDUE CL B 1003 |
| Chain | Residue |
| B | SER28 |
| B | GLU114 |
| site_id | AC4 |
| Number of Residues | 25 |
| Details | BINDING SITE FOR RESIDUE GDP A 770 |
| Chain | Residue |
| A | PHE3 |
| A | LEU4 |
| A | PHE9 |
| A | ARG37 |
| A | ASN39 |
| A | GLY50 |
| A | GLY51 |
| A | ARG52 |
| A | GLU70 |
| A | PHE94 |
| A | TYR103 |
| A | GLN123 |
| A | TRS870 |
| A | MG1001 |
| A | HOH1002 |
| A | HOH1003 |
| A | HOH1010 |
| A | HOH1018 |
| A | HOH1040 |
| A | HOH1075 |
| A | HOH1078 |
| A | HOH1102 |
| A | HOH1103 |
| A | HOH1132 |
| A | HOH1153 |
| site_id | AC5 |
| Number of Residues | 25 |
| Details | BINDING SITE FOR RESIDUE GDP B 771 |
| Chain | Residue |
| B | PHE3 |
| B | LEU4 |
| B | PHE9 |
| B | ARG37 |
| B | ASN39 |
| B | GLY50 |
| B | GLY51 |
| B | ARG52 |
| B | GLU70 |
| B | PHE94 |
| B | TYR103 |
| B | GLN123 |
| B | TRS871 |
| B | MG1002 |
| B | HOH1004 |
| B | HOH1006 |
| B | HOH1007 |
| B | HOH1012 |
| B | HOH1034 |
| B | HOH1067 |
| B | HOH1082 |
| B | HOH1135 |
| B | HOH1164 |
| B | HOH1179 |
| B | HOH1189 |
| site_id | AC6 |
| Number of Residues | 9 |
| Details | BINDING SITE FOR RESIDUE TRS A 870 |
| Chain | Residue |
| A | SER20 |
| A | ASP22 |
| A | ARG37 |
| A | PHE47 |
| A | HIS88 |
| A | TYR90 |
| A | TYR103 |
| A | GDP770 |
| A | HOH1005 |
| site_id | AC7 |
| Number of Residues | 9 |
| Details | BINDING SITE FOR RESIDUE TRS B 871 |
| Chain | Residue |
| B | SER20 |
| B | ASP22 |
| B | ARG37 |
| B | PHE47 |
| B | HIS88 |
| B | TYR90 |
| B | TYR103 |
| B | GDP771 |
| B | HOH1009 |
Functional Information from PROSITE/UniProt
| site_id | PS00893 |
| Number of Residues | 22 |
| Details | NUDIX_BOX Nudix box signature. GrvqkdEtleaAFeRLTmAElG |
| Chain | Residue | Details |
| A | GLY51-GLY72 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 280 |
| Details | Domain: {"description":"Nudix hydrolase","evidences":[{"source":"HAMAP-Rule","id":"MF_00941","evidenceCode":"ECO:0000255"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI2 |
| Number of Residues | 42 |
| Details | Motif: {"description":"Nudix box"} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI3 |
| Number of Residues | 2 |
| Details | Binding site: {} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI4 |
| Number of Residues | 10 |
| Details | Binding site: {"evidences":[{"source":"HAMAP-Rule","id":"MF_00941","evidenceCode":"ECO:0000255"},{"source":"PubMed","id":"15274914","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"16981689","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI5 |
| Number of Residues | 2 |
| Details | Site: {"description":"Critical for catalysis"} |
| Chain | Residue | Details |
