4D7A
Crystal structure of E. coli tRNA N6-threonylcarbamoyladenosine dehydratase, TcdA, in complex with AMP at 1.801 Angstroem resolution
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0000166 | molecular_function | nucleotide binding |
| A | 0005515 | molecular_function | protein binding |
| A | 0005524 | molecular_function | ATP binding |
| A | 0008641 | molecular_function | ubiquitin-like modifier activating enzyme activity |
| A | 0016020 | cellular_component | membrane |
| A | 0016874 | molecular_function | ligase activity |
| A | 0030955 | molecular_function | potassium ion binding |
| A | 0031402 | molecular_function | sodium ion binding |
| A | 0042803 | molecular_function | protein homodimerization activity |
| A | 0061503 | molecular_function | tRNA threonylcarbamoyladenosine dehydratase |
| A | 0061504 | biological_process | cyclic threonylcarbamoyladenosine biosynthetic process |
| B | 0000166 | molecular_function | nucleotide binding |
| B | 0005515 | molecular_function | protein binding |
| B | 0005524 | molecular_function | ATP binding |
| B | 0008641 | molecular_function | ubiquitin-like modifier activating enzyme activity |
| B | 0016020 | cellular_component | membrane |
| B | 0016874 | molecular_function | ligase activity |
| B | 0030955 | molecular_function | potassium ion binding |
| B | 0031402 | molecular_function | sodium ion binding |
| B | 0042803 | molecular_function | protein homodimerization activity |
| B | 0061503 | molecular_function | tRNA threonylcarbamoyladenosine dehydratase |
| B | 0061504 | biological_process | cyclic threonylcarbamoyladenosine biosynthetic process |
| C | 0000166 | molecular_function | nucleotide binding |
| C | 0005515 | molecular_function | protein binding |
| C | 0005524 | molecular_function | ATP binding |
| C | 0008641 | molecular_function | ubiquitin-like modifier activating enzyme activity |
| C | 0016020 | cellular_component | membrane |
| C | 0016874 | molecular_function | ligase activity |
| C | 0030955 | molecular_function | potassium ion binding |
| C | 0031402 | molecular_function | sodium ion binding |
| C | 0042803 | molecular_function | protein homodimerization activity |
| C | 0061503 | molecular_function | tRNA threonylcarbamoyladenosine dehydratase |
| C | 0061504 | biological_process | cyclic threonylcarbamoyladenosine biosynthetic process |
| D | 0000166 | molecular_function | nucleotide binding |
| D | 0005515 | molecular_function | protein binding |
| D | 0005524 | molecular_function | ATP binding |
| D | 0008641 | molecular_function | ubiquitin-like modifier activating enzyme activity |
| D | 0016020 | cellular_component | membrane |
| D | 0016874 | molecular_function | ligase activity |
| D | 0030955 | molecular_function | potassium ion binding |
| D | 0031402 | molecular_function | sodium ion binding |
| D | 0042803 | molecular_function | protein homodimerization activity |
| D | 0061503 | molecular_function | tRNA threonylcarbamoyladenosine dehydratase |
| D | 0061504 | biological_process | cyclic threonylcarbamoyladenosine biosynthetic process |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE K A 301 |
| Chain | Residue |
| A | GLN158 |
| A | GLN174 |
| A | SER206 |
| A | GLU208 |
| site_id | AC2 |
| Number of Residues | 17 |
| Details | BINDING SITE FOR RESIDUE AMP A 401 |
| Chain | Residue |
| A | ASP61 |
| A | ASP63 |
| A | ARG72 |
| A | GLN73 |
| A | LYS85 |
| A | PHE108 |
| A | VAL109 |
| A | ILE129 |
| A | ASP130 |
| A | PRO134 |
| A | HOH2042 |
| A | HOH2067 |
| A | VAL36 |
| A | GLY37 |
| A | GLY39 |
| A | GLY40 |
| A | ILE60 |
| site_id | AC3 |
| Number of Residues | 7 |
| Details | BINDING SITE FOR RESIDUE GOL A 501 |
| Chain | Residue |
| A | SER254 |
| A | HIS255 |
| A | LYS258 |
| A | HOH2131 |
| A | HOH2161 |
| B | ASP160 |
| B | PRO161 |
| site_id | AC4 |
| Number of Residues | 9 |
| Details | BINDING SITE FOR RESIDUE GOL A 502 |
| Chain | Residue |
| A | CYS142 |
| A | ILE147 |
| A | PRO148 |
| A | LEU149 |
| A | GLY200 |
| A | VAL201 |
| A | ASP202 |
| A | HOH2104 |
| A | HOH2162 |
| site_id | AC5 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE K B 301 |
| Chain | Residue |
| B | GLN158 |
| B | GLN174 |
| B | SER206 |
| B | GLU208 |
| B | HOH2136 |
| site_id | AC6 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE NA B 302 |
| Chain | Residue |
| A | THR162 |
| A | HOH2122 |
| A | HOH2125 |
| A | HOH2126 |
| B | THR162 |
| B | HOH2122 |
| site_id | AC7 |
| Number of Residues | 20 |
| Details | BINDING SITE FOR RESIDUE AMP B 401 |
| Chain | Residue |
| B | VAL36 |
| B | GLY37 |
| B | GLY39 |
| B | GLY40 |
| B | ILE60 |
| B | ASP61 |
| B | ASP63 |
| B | ARG72 |
| B | GLN73 |
| B | LYS85 |
| B | PHE108 |
| B | VAL109 |
| B | ALA128 |
| B | ILE129 |
| B | ASP130 |
| B | SER131 |
| B | PRO134 |
| B | HOH2065 |
| B | HOH2066 |
| B | HOH2171 |
| site_id | AC8 |
| Number of Residues | 7 |
| Details | BINDING SITE FOR RESIDUE GOL B 501 |
| Chain | Residue |
| B | ILE147 |
| B | PRO148 |
| B | LEU149 |
| B | GLY200 |
| B | VAL201 |
| B | ASP202 |
| B | HOH2107 |
| site_id | AC9 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE K C 301 |
| Chain | Residue |
| C | GLN158 |
| C | GLN174 |
| C | SER206 |
| C | GLU208 |
| site_id | BC1 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE NA C 302 |
| Chain | Residue |
| C | THR162 |
| C | HOH2147 |
| C | HOH2148 |
| C | HOH2150 |
| C | HOH2180 |
| D | THR162 |
| site_id | BC2 |
| Number of Residues | 8 |
| Details | BINDING SITE FOR RESIDUE PO4 C 401 |
| Chain | Residue |
| C | GLY39 |
| C | GLY40 |
| C | ARG72 |
| C | GLN73 |
| C | ASP130 |
| C | HOH2053 |
| C | HOH2075 |
| C | HOH2122 |
| site_id | BC3 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE K D 301 |
| Chain | Residue |
| D | GLN158 |
| D | GLN174 |
| D | SER206 |
| D | GLU208 |
| site_id | BC4 |
| Number of Residues | 18 |
| Details | BINDING SITE FOR RESIDUE AMP D 401 |
| Chain | Residue |
| D | GLY40 |
| D | ILE60 |
| D | ASP61 |
| D | ASP63 |
| D | ARG72 |
| D | GLN73 |
| D | LYS85 |
| D | PHE108 |
| D | VAL109 |
| D | ILE129 |
| D | ASP130 |
| D | SER131 |
| D | PRO134 |
| D | HOH2029 |
| D | HOH2037 |
| D | HOH2038 |
| D | GLY37 |
| D | GLY39 |
| site_id | BC5 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE GOL D 501 |
| Chain | Residue |
| C | HIS255 |
| C | LYS258 |
| C | HOH2153 |
| D | ASP160 |
| D | PRO161 |
| D | HOH2075 |
| site_id | BC6 |
| Number of Residues | 8 |
| Details | BINDING SITE FOR RESIDUE GOL D 502 |
| Chain | Residue |
| D | CYS142 |
| D | ILE147 |
| D | PRO148 |
| D | LEU149 |
| D | GLY200 |
| D | VAL201 |
| D | ASP202 |
| D | HOH2072 |
| site_id | BC7 |
| Number of Residues | 1 |
| Details | BINDING SITE FOR RESIDUE GOL D 503 |
| Chain | Residue |
| D | ILE147 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 80 |
| Details | Transmembrane: {"description":"Helical","evidences":[{"evidenceCode":"ECO:0000255"}]} |
| Chain | Residue | Details |
