4LHD
Crystal structure of Synechocystis sp. PCC 6803 glycine decarboxylase (P-protein), holo form with pyridoxal-5'-phosphate and glycine, closed flexible loop
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0004375 | molecular_function | glycine dehydrogenase (decarboxylating) activity |
| A | 0005829 | cellular_component | cytosol |
| A | 0005960 | cellular_component | glycine cleavage complex |
| A | 0006544 | biological_process | glycine metabolic process |
| A | 0006546 | biological_process | glycine catabolic process |
| A | 0016491 | molecular_function | oxidoreductase activity |
| A | 0016594 | molecular_function | glycine binding |
| A | 0019464 | biological_process | glycine decarboxylation via glycine cleavage system |
| A | 0030170 | molecular_function | pyridoxal phosphate binding |
| B | 0004375 | molecular_function | glycine dehydrogenase (decarboxylating) activity |
| B | 0005829 | cellular_component | cytosol |
| B | 0005960 | cellular_component | glycine cleavage complex |
| B | 0006544 | biological_process | glycine metabolic process |
| B | 0006546 | biological_process | glycine catabolic process |
| B | 0016491 | molecular_function | oxidoreductase activity |
| B | 0016594 | molecular_function | glycine binding |
| B | 0019464 | biological_process | glycine decarboxylation via glycine cleavage system |
| B | 0030170 | molecular_function | pyridoxal phosphate binding |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE GLY A 1001 |
| Chain | Residue |
| A | TYR134 |
| A | CYS353 |
| A | HIS623 |
| A | TRP870 |
| A | HOH1321 |
| site_id | AC2 |
| Number of Residues | 8 |
| Details | BINDING SITE FOR RESIDUE GLY A 1002 |
| Chain | Residue |
| A | GLN939 |
| A | HOH1338 |
| A | HOH1551 |
| B | GLN939 |
| A | LEU928 |
| A | ILE929 |
| A | GLY931 |
| A | TRP933 |
| site_id | AC3 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE GLY A 1003 |
| Chain | Residue |
| A | GLN416 |
| A | HOH1664 |
| B | ILE565 |
| B | GLN569 |
| site_id | AC4 |
| Number of Residues | 10 |
| Details | BINDING SITE FOR RESIDUE GLY A 1004 |
| Chain | Residue |
| A | ASN647 |
| A | VAL677 |
| A | PHE678 |
| A | GLU679 |
| A | ALA680 |
| A | GLY827 |
| A | ASN828 |
| A | HOH1330 |
| A | HOH1425 |
| A | HOH1483 |
| site_id | AC5 |
| Number of Residues | 8 |
| Details | BINDING SITE FOR RESIDUE BCT A 1005 |
| Chain | Residue |
| A | PHE861 |
| A | GLY862 |
| A | PHE863 |
| A | GLU888 |
| A | ARG891 |
| A | TRP948 |
| A | HOH1255 |
| A | HOH1714 |
| site_id | AC6 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE BCT A 1006 |
| Chain | Residue |
| A | SER82 |
| A | TYR84 |
| A | HOH1312 |
| A | HOH1631 |
| B | THR447 |
| site_id | AC7 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE BCT A 1007 |
| Chain | Residue |
| A | ASP155 |
| A | ASP494 |
| A | SER973 |
| A | GLU975 |
| site_id | AC8 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE PO4 A 1008 |
| Chain | Residue |
| A | ASP581 |
| A | LYS745 |
| A | SER746 |
| A | HIS747 |
| A | HOH1576 |
| site_id | AC9 |
| Number of Residues | 7 |
| Details | BINDING SITE FOR RESIDUE PO4 A 1009 |
| Chain | Residue |
| A | GLN76 |
| A | LEU77 |
| A | PRO78 |
| A | TRP573 |
| A | HOH1419 |
| B | GLN416 |
| B | HOH1473 |
| site_id | BC1 |
| Number of Residues | 7 |
| Details | BINDING SITE FOR RESIDUE EDO A 1010 |
| Chain | Residue |
| A | ASP894 |
| A | PRO945 |
| A | ALA946 |
| A | PRO947 |
| A | HOH1267 |
| A | HOH1703 |
| A | HOH1769 |
| site_id | BC2 |
| Number of Residues | 9 |
| Details | BINDING SITE FOR RESIDUE EDO A 1011 |
| Chain | Residue |
| A | PRO294 |
| A | THR544 |
| A | TRP545 |
| A | PRO546 |
| A | GLY549 |
| A | LYS550 |
| A | HOH1135 |
| A | HOH1252 |
| A | HOH1627 |
| site_id | BC3 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE EDO A 1012 |
| Chain | Residue |
| A | GLY126 |
| A | TRP127 |
| A | ARG142 |
| A | ASP517 |
| A | HOH1333 |
| site_id | BC4 |
| Number of Residues | 8 |
| Details | BINDING SITE FOR RESIDUE EDO A 1013 |
| Chain | Residue |
| A | LEU34 |
| A | ASP55 |
| A | GLN797 |
| A | GLY798 |
| A | LYS801 |
| A | HOH1245 |
| A | HOH1643 |
| A | HOH1673 |
| site_id | BC5 |
| Number of Residues | 7 |
| Details | BINDING SITE FOR RESIDUE EDO A 1014 |
| Chain | Residue |
| A | GLY53 |
| A | PHE54 |
| A | ASP55 |
| A | ASP59 |
| A | GLN63 |
| A | SER74 |
| A | GLN797 |
| site_id | BC6 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE EDO A 1015 |
| Chain | Residue |
| A | ASN811 |
| A | GLU818 |
| A | ARG826 |
| A | GLU830 |
| A | LEU831 |
| A | HOH1718 |
| site_id | BC7 |
| Number of Residues | 7 |
| Details | BINDING SITE FOR RESIDUE EDO A 1016 |
| Chain | Residue |
| A | THR56 |
| A | ASP59 |
| A | GLN797 |
| A | HOH1290 |
| A | HOH1574 |
| A | HOH1655 |
| A | ASP55 |
| site_id | BC8 |
| Number of Residues | 8 |
| Details | BINDING SITE FOR RESIDUE EDO A 1017 |
| Chain | Residue |
| A | ASP62 |
| A | GLN63 |
| A | PHE71 |
| A | PRO72 |
| A | ARG73 |
| A | HOH1151 |
| A | HOH1364 |
| A | HOH1638 |
| site_id | BC9 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE GLY B 1001 |
| Chain | Residue |
| B | TYR134 |
| B | HIS623 |
| B | TRP870 |
| B | HOH1372 |
| site_id | CC1 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE GLY B 1002 |
| Chain | Residue |
| B | THR151 |
| B | ASP155 |
| B | ASP494 |
| B | SER973 |
| B | GLU975 |
| B | HOH1205 |
| site_id | CC2 |
| Number of Residues | 8 |
| Details | BINDING SITE FOR RESIDUE BCT B 1003 |
| Chain | Residue |
| B | PHE861 |
| B | GLY862 |
| B | PHE863 |
| B | GLU888 |
| B | ARG891 |
| B | TRP948 |
| B | HOH1251 |
| B | HOH1653 |
| site_id | CC3 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE PO4 B 1004 |
| Chain | Residue |
| B | ASP581 |
| B | LYS745 |
| B | SER746 |
| B | HIS747 |
| B | HOH1385 |
| site_id | CC4 |
| Number of Residues | 7 |
| Details | BINDING SITE FOR RESIDUE PO4 B 1005 |
| Chain | Residue |
| A | GLN416 |
| A | HOH1228 |
| B | GLN76 |
| B | LEU77 |
| B | PRO78 |
| B | TRP573 |
| B | HOH1406 |
| site_id | CC5 |
| Number of Residues | 9 |
| Details | BINDING SITE FOR RESIDUE EDO B 1006 |
| Chain | Residue |
| B | PRO294 |
| B | THR544 |
| B | PRO546 |
| B | GLY549 |
| B | HOH1112 |
| B | HOH1614 |
| B | HOH1634 |
| B | HOH1704 |
| B | HOH1774 |
| site_id | CC6 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE EDO B 1007 |
| Chain | Residue |
| B | ASP894 |
| B | PRO945 |
| B | ALA946 |
| B | PRO947 |
| B | HOH1268 |
| B | HOH1727 |
| site_id | CC7 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE EDO B 1008 |
| Chain | Residue |
| B | SER229 |
| B | HIS257 |
| B | GLN258 |
| B | HOH1479 |
| B | HOH1673 |
| site_id | CC8 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE EDO B 1009 |
| Chain | Residue |
| B | ILE69 |
| B | PHE71 |
| B | PRO72 |
| B | CYS710 |
| B | ARG711 |
| B | ASP714 |
| site_id | CC9 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE EDO B 1010 |
| Chain | Residue |
| B | SER92 |
| B | SER95 |
| B | HOH1402 |
| B | HOH1695 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 2 |
| Details | Modified residue: {"description":"N6-(pyridoxal phosphate)lysine","evidences":[{"source":"HAMAP-Rule","id":"MF_00711","evidenceCode":"ECO:0000255"}]} |
| Chain | Residue | Details |
