3JR2
X-ray crystal structure of the Mg-bound 3-keto-L-gulonate-6-phosphate decarboxylase from Vibrio cholerae O1 biovar El Tor str. N16961
Functional Information from GO Data
Chain | GOid | namespace | contents |
A | 0004590 | molecular_function | orotidine-5'-phosphate decarboxylase activity |
A | 0006207 | biological_process | 'de novo' pyrimidine nucleobase biosynthetic process |
A | 0016829 | molecular_function | lyase activity |
A | 0019854 | biological_process | L-ascorbic acid catabolic process |
A | 0033982 | molecular_function | 3-dehydro-L-gulonate-6-phosphate decarboxylase activity |
A | 0046872 | molecular_function | metal ion binding |
B | 0004590 | molecular_function | orotidine-5'-phosphate decarboxylase activity |
B | 0006207 | biological_process | 'de novo' pyrimidine nucleobase biosynthetic process |
B | 0016829 | molecular_function | lyase activity |
B | 0019854 | biological_process | L-ascorbic acid catabolic process |
B | 0033982 | molecular_function | 3-dehydro-L-gulonate-6-phosphate decarboxylase activity |
B | 0046872 | molecular_function | metal ion binding |
C | 0004590 | molecular_function | orotidine-5'-phosphate decarboxylase activity |
C | 0006207 | biological_process | 'de novo' pyrimidine nucleobase biosynthetic process |
C | 0016829 | molecular_function | lyase activity |
C | 0019854 | biological_process | L-ascorbic acid catabolic process |
C | 0033982 | molecular_function | 3-dehydro-L-gulonate-6-phosphate decarboxylase activity |
C | 0046872 | molecular_function | metal ion binding |
D | 0004590 | molecular_function | orotidine-5'-phosphate decarboxylase activity |
D | 0006207 | biological_process | 'de novo' pyrimidine nucleobase biosynthetic process |
D | 0016829 | molecular_function | lyase activity |
D | 0019854 | biological_process | L-ascorbic acid catabolic process |
D | 0033982 | molecular_function | 3-dehydro-L-gulonate-6-phosphate decarboxylase activity |
D | 0046872 | molecular_function | metal ion binding |
Functional Information from PDB Data
site_id | AC1 |
Number of Residues | 4 |
Details | BINDING SITE FOR RESIDUE EDO A 901 |
Chain | Residue |
A | ILE113 |
A | TYR135 |
A | HIS136 |
A | HOH231 |
site_id | AC2 |
Number of Residues | 8 |
Details | BINDING SITE FOR RESIDUE GOL A 1001 |
Chain | Residue |
A | HOH246 |
A | HOH469 |
A | HOH724 |
A | ALA88 |
A | ALA90 |
A | ILE95 |
A | ASP121 |
A | TRP125 |
site_id | AC3 |
Number of Residues | 3 |
Details | BINDING SITE FOR RESIDUE GOL A 1002 |
Chain | Residue |
A | THR118 |
A | MSE119 |
A | GLN120 |
site_id | AC4 |
Number of Residues | 6 |
Details | BINDING SITE FOR RESIDUE GOL A 1003 |
Chain | Residue |
A | ARG51 |
A | PRO55 |
A | HIS57 |
A | ASP82 |
A | HOH498 |
A | HOH687 |
site_id | AC5 |
Number of Residues | 3 |
Details | BINDING SITE FOR RESIDUE EDO A 902 |
Chain | Residue |
A | ASN56 |
A | HOH245 |
A | HOH743 |
site_id | AC6 |
Number of Residues | 9 |
Details | BINDING SITE FOR RESIDUE SO4 A 501 |
Chain | Residue |
A | ASP67 |
A | GLY68 |
A | GLY69 |
A | ALA70 |
A | THR94 |
A | ALA97 |
A | HOH227 |
A | HOH271 |
B | ARG139 |
site_id | AC7 |
Number of Residues | 10 |
Details | BINDING SITE FOR RESIDUE SO4 A 502 |
Chain | Residue |
A | GLY170 |
A | GLY171 |
A | ALA190 |
A | GLY191 |
A | HOH242 |
A | HOH331 |
A | HOH382 |
A | HOH459 |
A | HOH483 |
A | HOH681 |
site_id | AC8 |
Number of Residues | 7 |
Details | BINDING SITE FOR RESIDUE MG A 3001 |
Chain | Residue |
A | GLU33 |
A | ASP62 |
A | GLU112 |
A | HOH249 |
A | HOH258 |
A | HOH284 |
A | HOH285 |
site_id | AC9 |
Number of Residues | 6 |
Details | BINDING SITE FOR RESIDUE MG A 3002 |
Chain | Residue |
A | HOH275 |
A | HOH790 |
A | HOH791 |
A | HOH792 |
A | HOH793 |
A | HOH794 |
site_id | BC1 |
Number of Residues | 12 |
Details | BINDING SITE FOR RESIDUE SO4 B 501 |
Chain | Residue |
A | ARG139 |
B | ASP67 |
B | GLY68 |
B | GLY69 |
B | ALA70 |
B | THR94 |
B | ALA97 |
B | HOH242 |
B | HOH467 |
B | HOH479 |
B | HOH503 |
B | HOH553 |
site_id | BC2 |
Number of Residues | 9 |
Details | BINDING SITE FOR RESIDUE SO4 B 502 |
Chain | Residue |
B | GLY171 |
B | ALA190 |
B | GLY191 |
B | HOH220 |
B | HOH258 |
B | HOH269 |
B | HOH337 |
B | HOH355 |
B | HOH435 |
site_id | BC3 |
Number of Residues | 7 |
Details | BINDING SITE FOR RESIDUE MG B 3001 |
Chain | Residue |
B | GLU33 |
B | ASP62 |
B | GLU112 |
B | HOH239 |
B | HOH249 |
B | HOH302 |
B | HOH304 |
site_id | BC4 |
Number of Residues | 6 |
Details | BINDING SITE FOR RESIDUE MG B 3002 |
Chain | Residue |
B | HIS52 |
B | HOH531 |
B | HOH774 |
B | HOH775 |
C | HOH266 |
C | HOH505 |
site_id | BC5 |
Number of Residues | 7 |
Details | BINDING SITE FOR RESIDUE EDO C 901 |
Chain | Residue |
C | ALA88 |
C | ALA90 |
C | ILE92 |
C | ILE95 |
C | ASP121 |
C | TRP125 |
C | HOH264 |
site_id | BC6 |
Number of Residues | 1 |
Details | BINDING SITE FOR RESIDUE EDO C 902 |
Chain | Residue |
C | ARG212 |
site_id | BC7 |
Number of Residues | 12 |
Details | BINDING SITE FOR RESIDUE SO4 C 501 |
Chain | Residue |
C | GLY68 |
C | GLY69 |
C | ALA70 |
C | ALA93 |
C | THR94 |
C | ALA97 |
C | HOH229 |
C | HOH438 |
C | HOH639 |
C | HOH642 |
D | ARG139 |
C | ASP67 |
site_id | BC8 |
Number of Residues | 9 |
Details | BINDING SITE FOR RESIDUE SO4 C 502 |
Chain | Residue |
C | GLY170 |
C | GLY171 |
C | ALA190 |
C | GLY191 |
C | HOH217 |
C | HOH396 |
C | HOH474 |
C | HOH500 |
C | HOH694 |
site_id | BC9 |
Number of Residues | 2 |
Details | BINDING SITE FOR RESIDUE SO4 C 503 |
Chain | Residue |
C | THR13 |
C | ASN14 |
site_id | CC1 |
Number of Residues | 6 |
Details | BINDING SITE FOR RESIDUE MG C 3002 |
Chain | Residue |
C | HIS136 |
C | HOH269 |
C | HOH272 |
C | HOH273 |
C | HOH274 |
C | HOH276 |
site_id | CC2 |
Number of Residues | 7 |
Details | BINDING SITE FOR RESIDUE MG C 3001 |
Chain | Residue |
C | GLU33 |
C | ASP62 |
C | GLU112 |
C | HOH230 |
C | HOH255 |
C | HOH258 |
C | HOH271 |
site_id | CC3 |
Number of Residues | 6 |
Details | BINDING SITE FOR RESIDUE GOL D 1001 |
Chain | Residue |
D | ILE113 |
D | TYR135 |
D | HIS136 |
D | SER138 |
D | HOH221 |
D | HOH231 |
site_id | CC4 |
Number of Residues | 8 |
Details | BINDING SITE FOR RESIDUE GOL D 1002 |
Chain | Residue |
C | ARG139 |
C | HOH269 |
D | ASP67 |
D | GLY68 |
D | GLY69 |
D | ALA70 |
D | THR94 |
D | HOH708 |
site_id | CC5 |
Number of Residues | 3 |
Details | BINDING SITE FOR RESIDUE EDO D 901 |
Chain | Residue |
D | ALA88 |
D | ALA90 |
D | TRP125 |
site_id | CC6 |
Number of Residues | 8 |
Details | BINDING SITE FOR RESIDUE SO4 D 501 |
Chain | Residue |
D | GLY170 |
D | GLY171 |
D | ALA190 |
D | GLY191 |
D | HOH236 |
D | HOH380 |
D | HOH395 |
D | HOH582 |
site_id | CC7 |
Number of Residues | 6 |
Details | BINDING SITE FOR RESIDUE MG D 3001 |
Chain | Residue |
D | GLU33 |
D | ASP62 |
D | HOH248 |
D | HOH249 |
D | HOH250 |
D | HOH251 |