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 | 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 | 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 | 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 | 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 | TRANSMEM: Helical => ECO:0000255 |
Chain | Residue | Details |
A | GLY237-LEU257 | |
B | GLY237-LEU257 | |
C | GLY237-LEU257 | |
D | GLY237-LEU257 |