2Z9X
Crystal structure of pyridoxamine-pyruvate aminotransferase complexed with pyridoxyl-L-alanine
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0004760 | molecular_function | L-serine-pyruvate transaminase activity |
| A | 0008453 | molecular_function | alanine-glyoxylate transaminase activity |
| A | 0008483 | molecular_function | transaminase activity |
| A | 0016740 | molecular_function | transferase activity |
| A | 0019265 | biological_process | glycine biosynthetic process, by transamination of glyoxylate |
| A | 0030170 | molecular_function | pyridoxal phosphate binding |
| A | 0047300 | molecular_function | pyridoxamine-pyruvate transaminase activity |
| B | 0004760 | molecular_function | L-serine-pyruvate transaminase activity |
| B | 0008453 | molecular_function | alanine-glyoxylate transaminase activity |
| B | 0008483 | molecular_function | transaminase activity |
| B | 0016740 | molecular_function | transferase activity |
| B | 0019265 | biological_process | glycine biosynthetic process, by transamination of glyoxylate |
| B | 0030170 | molecular_function | pyridoxal phosphate binding |
| B | 0047300 | molecular_function | pyridoxamine-pyruvate transaminase activity |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE SO4 A 1602 |
| Chain | Residue |
| A | PRO5 |
| A | GLU6 |
| A | HIS7 |
| site_id | AC2 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE SO4 A 1603 |
| Chain | Residue |
| A | LYS219 |
| A | ARG226 |
| A | HOH1714 |
| A | HOH1729 |
| A | HOH1840 |
| site_id | AC3 |
| Number of Residues | 7 |
| Details | BINDING SITE FOR RESIDUE SO4 A 1605 |
| Chain | Residue |
| A | GLU24 |
| A | ARG27 |
| A | ARG31 |
| A | THR32 |
| A | HOH1800 |
| B | HOH2839 |
| A | PRO23 |
| site_id | AC4 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE SO4 A 1606 |
| Chain | Residue |
| A | GLU24 |
| A | ARG27 |
| A | ARG31 |
| A | HOH1883 |
| site_id | AC5 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE SO4 B 2602 |
| Chain | Residue |
| B | ARG3 |
| B | PRO5 |
| B | GLU6 |
| B | HIS7 |
| site_id | AC6 |
| Number of Residues | 7 |
| Details | BINDING SITE FOR RESIDUE SO4 B 2604 |
| Chain | Residue |
| B | ARG310 |
| B | PRO312 |
| B | ASP313 |
| B | ARG374 |
| B | HOH2699 |
| B | HOH2756 |
| B | HOH2768 |
| site_id | AC7 |
| Number of Residues | 7 |
| Details | BINDING SITE FOR RESIDUE SO4 B 2605 |
| Chain | Residue |
| A | ASP9 |
| A | HOH1817 |
| B | PRO23 |
| B | GLU24 |
| B | ARG27 |
| B | ARG31 |
| B | THR32 |
| site_id | AC8 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE SO4 B 2606 |
| Chain | Residue |
| B | GLU24 |
| B | ARG27 |
| B | ARG31 |
| B | HOH2825 |
| B | HOH2825 |
| site_id | AC9 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE CL A 1608 |
| Chain | Residue |
| A | PRO69 |
| A | ASN196 |
| A | LYS197 |
| site_id | BC1 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE CL B 2608 |
| Chain | Residue |
| B | PRO69 |
| B | GLY194 |
| B | PRO195 |
| B | ASN196 |
| B | LYS197 |
| B | HOH2665 |
| site_id | BC2 |
| Number of Residues | 7 |
| Details | BINDING SITE FOR RESIDUE ALA A 1502 |
| Chain | Residue |
| A | TYR95 |
| A | THR146 |
| A | ARG345 |
| A | GOL957 |
| A | PXL1503 |
| A | HOH1642 |
| B | THR248 |
| site_id | BC3 |
| Number of Residues | 9 |
| Details | BINDING SITE FOR RESIDUE PXL A 1503 |
| Chain | Residue |
| A | GLU68 |
| A | TYR95 |
| A | HIS144 |
| A | THR146 |
| A | ASP171 |
| A | VAL173 |
| A | LYS197 |
| A | ALA1502 |
| A | HOH1645 |
| site_id | BC4 |
| Number of Residues | 7 |
| Details | BINDING SITE FOR RESIDUE ALA B 2502 |
| Chain | Residue |
| A | THR248 |
| B | TYR95 |
| B | THR146 |
| B | ARG345 |
| B | GOL958 |
| B | PXL2503 |
| B | HOH2622 |
| site_id | BC5 |
| Number of Residues | 9 |
| Details | BINDING SITE FOR RESIDUE PXL B 2503 |
| Chain | Residue |
| B | GLU68 |
| B | TYR95 |
| B | HIS144 |
| B | THR146 |
| B | ASP171 |
| B | VAL173 |
| B | LYS197 |
| B | ALA2502 |
| B | HOH2642 |
| site_id | BC6 |
| Number of Residues | 2 |
| Details | BINDING SITE FOR RESIDUE GOL A 953 |
| Chain | Residue |
| A | ASP299 |
| A | SER300 |
| site_id | BC7 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE GOL B 954 |
| Chain | Residue |
| B | SER298 |
| B | ASP299 |
| B | SER300 |
| site_id | BC8 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE GOL A 955 |
| Chain | Residue |
| A | VAL94 |
| A | TYR95 |
| A | GLY98 |
| A | ARG336 |
| A | HOH1630 |
| A | HOH1871 |
| site_id | BC9 |
| Number of Residues | 7 |
| Details | BINDING SITE FOR RESIDUE GOL B 956 |
| Chain | Residue |
| B | HOH2794 |
| B | HOH2876 |
| B | VAL94 |
| B | TYR95 |
| B | TRP102 |
| B | ARG336 |
| B | HOH2736 |
| site_id | CC1 |
| Number of Residues | 8 |
| Details | BINDING SITE FOR RESIDUE GOL A 957 |
| Chain | Residue |
| A | SER334 |
| A | GLY335 |
| A | ARG336 |
| A | ARG345 |
| A | ALA1502 |
| B | TYR35 |
| B | TYR37 |
| B | HOH2676 |
| site_id | CC2 |
| Number of Residues | 9 |
| Details | BINDING SITE FOR RESIDUE GOL B 958 |
| Chain | Residue |
| A | TYR35 |
| A | TYR37 |
| A | HOH1613 |
| B | SER334 |
| B | GLY335 |
| B | ARG336 |
| B | ARG345 |
| B | ALA2502 |
| B | HOH2694 |
| site_id | CC3 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE GOL A 959 |
| Chain | Residue |
| A | ILE12 |
| A | THR13 |
| A | ASN20 |
| A | PRO351 |
| A | TYR357 |
| site_id | CC4 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE GOL B 960 |
| Chain | Residue |
| B | ILE12 |
| B | THR13 |
| B | ASN20 |
| B | PRO351 |
| B | TYR357 |
| site_id | CC5 |
| Number of Residues | 10 |
| Details | BINDING SITE FOR RESIDUE GOL B 961 |
| Chain | Residue |
| A | VAL70 |
| A | TRP102 |
| A | HOH1662 |
| B | ALA227 |
| B | SER228 |
| B | MET229 |
| B | ASP234 |
| B | PHE247 |
| B | HOH2640 |
| B | HOH2701 |
| site_id | CC6 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE GOL B 962 |
| Chain | Residue |
| B | GLU114 |
| B | LYS219 |
| B | ARG226 |
| B | HOH2776 |
| B | HOH2883 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 8 |
| Details | Binding site: {"evidences":[{"source":"PubMed","id":"17989071","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI2 |
| Number of Residues | 2 |
| Details | Modified residue: {"description":"N6-(pyridoxal phosphate)lysine","evidences":[{"source":"PubMed","id":"17989071","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
Catalytic Information from CSA
| site_id | CSA1 |
| Number of Residues | 3 |
| Details | Annotated By Reference To The Literature 1b8g |
| Chain | Residue | Details |
| A | TYR95 | |
| A | ASP171 | |
| A | LYS217 |
| site_id | CSA2 |
| Number of Residues | 3 |
| Details | Annotated By Reference To The Literature 1b8g |
| Chain | Residue | Details |
| B | TYR95 | |
| B | ASP171 | |
| B | LYS217 |
| site_id | CSA3 |
| Number of Residues | 3 |
| Details | Annotated By Reference To The Literature 1b8g |
| Chain | Residue | Details |
| A | TYR95 | |
| A | LYS197 | |
| A | ASP171 |
| site_id | CSA4 |
| Number of Residues | 3 |
| Details | Annotated By Reference To The Literature 1b8g |
| Chain | Residue | Details |
| B | TYR95 | |
| B | LYS197 | |
| B | ASP171 |
