4L6D
Crystal structure of 5-carboxyvanillate decarboxylase from Sphingomonas paucimobilis complexed with vanillic acid
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0005737 | cellular_component | cytoplasm |
| A | 0005829 | cellular_component | cytosol |
| A | 0016787 | molecular_function | hydrolase activity |
| A | 0016829 | molecular_function | lyase activity |
| A | 0016831 | molecular_function | carboxy-lyase activity |
| A | 0019748 | biological_process | secondary metabolic process |
| A | 0046872 | molecular_function | metal ion binding |
| B | 0005737 | cellular_component | cytoplasm |
| B | 0005829 | cellular_component | cytosol |
| B | 0016787 | molecular_function | hydrolase activity |
| B | 0016829 | molecular_function | lyase activity |
| B | 0016831 | molecular_function | carboxy-lyase activity |
| B | 0019748 | biological_process | secondary metabolic process |
| B | 0046872 | molecular_function | metal ion binding |
| C | 0005737 | cellular_component | cytoplasm |
| C | 0005829 | cellular_component | cytosol |
| C | 0016787 | molecular_function | hydrolase activity |
| C | 0016829 | molecular_function | lyase activity |
| C | 0016831 | molecular_function | carboxy-lyase activity |
| C | 0019748 | biological_process | secondary metabolic process |
| C | 0046872 | molecular_function | metal ion binding |
| D | 0005737 | cellular_component | cytoplasm |
| D | 0005829 | cellular_component | cytosol |
| D | 0016787 | molecular_function | hydrolase activity |
| D | 0016829 | molecular_function | lyase activity |
| D | 0016831 | molecular_function | carboxy-lyase activity |
| D | 0019748 | biological_process | secondary metabolic process |
| D | 0046872 | molecular_function | metal ion binding |
| E | 0005737 | cellular_component | cytoplasm |
| E | 0005829 | cellular_component | cytosol |
| E | 0016787 | molecular_function | hydrolase activity |
| E | 0016829 | molecular_function | lyase activity |
| E | 0016831 | molecular_function | carboxy-lyase activity |
| E | 0019748 | biological_process | secondary metabolic process |
| E | 0046872 | molecular_function | metal ion binding |
| F | 0005737 | cellular_component | cytoplasm |
| F | 0005829 | cellular_component | cytosol |
| F | 0016787 | molecular_function | hydrolase activity |
| F | 0016829 | molecular_function | lyase activity |
| F | 0016831 | molecular_function | carboxy-lyase activity |
| F | 0019748 | biological_process | secondary metabolic process |
| F | 0046872 | molecular_function | metal ion binding |
| G | 0005737 | cellular_component | cytoplasm |
| G | 0005829 | cellular_component | cytosol |
| G | 0016787 | molecular_function | hydrolase activity |
| G | 0016829 | molecular_function | lyase activity |
| G | 0016831 | molecular_function | carboxy-lyase activity |
| G | 0019748 | biological_process | secondary metabolic process |
| G | 0046872 | molecular_function | metal ion binding |
| H | 0005737 | cellular_component | cytoplasm |
| H | 0005829 | cellular_component | cytosol |
| H | 0016787 | molecular_function | hydrolase activity |
| H | 0016829 | molecular_function | lyase activity |
| H | 0016831 | molecular_function | carboxy-lyase activity |
| H | 0019748 | biological_process | secondary metabolic process |
| H | 0046872 | molecular_function | metal ion binding |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE MN A 401 |
| Chain | Residue |
| A | GLU7 |
| A | HIS173 |
| A | ASP296 |
| A | VNL402 |
| A | HOH791 |
| site_id | AC2 |
| Number of Residues | 14 |
| Details | BINDING SITE FOR RESIDUE VNL A 402 |
| Chain | Residue |
| A | SER192 |
| A | ASP296 |
| A | TYR299 |
| A | MN401 |
| A | HOH525 |
| A | HOH527 |
| A | HOH565 |
| A | HOH628 |
| H | ASN244 |
| H | HOH900 |
| A | LEU34 |
| A | ARG45 |
| A | ALA77 |
| A | HIS173 |
| site_id | AC3 |
| Number of Residues | 9 |
| Details | BINDING SITE FOR RESIDUE VNL A 403 |
| Chain | Residue |
| A | THR89 |
| A | ARG90 |
| A | ARG93 |
| A | HOH797 |
| A | HOH817 |
| A | HOH928 |
| A | HOH931 |
| F | GLN13 |
| F | HOH596 |
| site_id | AC4 |
| Number of Residues | 9 |
| Details | BINDING SITE FOR RESIDUE VNL A 404 |
| Chain | Residue |
| A | LEU235 |
| A | TRP236 |
| A | ASP239 |
| A | HOH642 |
| A | HOH740 |
| E | VNL404 |
| H | SER275 |
| H | HOH526 |
| H | HOH557 |
| site_id | AC5 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE EPE A 405 |
| Chain | Residue |
| A | TYR240 |
| A | MET241 |
| A | GLY243 |
| A | ASN244 |
| A | HOH567 |
| site_id | AC6 |
| Number of Residues | 7 |
| Details | BINDING SITE FOR RESIDUE MN A 406 |
| Chain | Residue |
| A | ARG136 |
| A | HOH537 |
| A | HOH870 |
| A | HOH910 |
| A | HOH940 |
| A | HOH941 |
| A | HOH943 |
| site_id | AC7 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE MN B 401 |
| Chain | Residue |
| B | GLU7 |
| B | HIS173 |
| B | ASP296 |
| B | VNL402 |
| B | HOH950 |
| site_id | AC8 |
| Number of Residues | 14 |
| Details | BINDING SITE FOR RESIDUE VNL B 402 |
| Chain | Residue |
| B | LEU34 |
| B | ARG45 |
| B | ALA77 |
| B | HIS173 |
| B | SER192 |
| B | ASP296 |
| B | TYR299 |
| B | MN401 |
| B | HOH513 |
| B | HOH524 |
| B | HOH553 |
| B | HOH614 |
| G | ASN244 |
| G | HOH682 |
| site_id | AC9 |
| Number of Residues | 11 |
| Details | BINDING SITE FOR RESIDUE VNL B 403 |
| Chain | Residue |
| B | LEU235 |
| B | TRP236 |
| B | ASP239 |
| B | ARG263 |
| B | HOH567 |
| B | HOH596 |
| B | HOH700 |
| B | HOH897 |
| G | SER275 |
| G | HOH521 |
| H | VNL403 |
| site_id | BC1 |
| Number of Residues | 8 |
| Details | BINDING SITE FOR RESIDUE VNL B 404 |
| Chain | Residue |
| A | LYS253 |
| A | LEU254 |
| A | LYS255 |
| A | HOH689 |
| B | ARG24 |
| B | ASP41 |
| B | HOH828 |
| B | HOH965 |
| site_id | BC2 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE EPE B 405 |
| Chain | Residue |
| B | TYR240 |
| B | MET241 |
| B | GLY243 |
| B | ASN244 |
| site_id | BC3 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE MN C 401 |
| Chain | Residue |
| C | GLU7 |
| C | HIS173 |
| C | ASP296 |
| C | VNL402 |
| C | HOH897 |
| site_id | BC4 |
| Number of Residues | 14 |
| Details | BINDING SITE FOR RESIDUE VNL C 402 |
| Chain | Residue |
| C | HIS173 |
| C | SER192 |
| C | ASP296 |
| C | TYR299 |
| C | MN401 |
| C | HOH515 |
| C | HOH555 |
| C | HOH558 |
| C | HOH617 |
| F | ASN244 |
| F | HOH615 |
| C | LEU34 |
| C | ARG45 |
| C | ALA77 |
| site_id | BC5 |
| Number of Residues | 10 |
| Details | BINDING SITE FOR RESIDUE VNL C 403 |
| Chain | Residue |
| C | LEU235 |
| C | TRP236 |
| C | ASP239 |
| C | HOH547 |
| C | HOH587 |
| C | HOH729 |
| C | HOH813 |
| F | SER275 |
| F | HOH511 |
| G | VNL403 |
| site_id | BC6 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE EPE C 404 |
| Chain | Residue |
| C | TYR240 |
| C | MET241 |
| C | GLY243 |
| C | ASN244 |
| C | HOH810 |
| site_id | BC7 |
| Number of Residues | 7 |
| Details | BINDING SITE FOR RESIDUE GOL C 405 |
| Chain | Residue |
| C | PRO304 |
| C | PHE308 |
| C | THR311 |
| C | HOH574 |
| C | HOH614 |
| C | HOH722 |
| D | ARG263 |
| site_id | BC8 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE MN D 401 |
| Chain | Residue |
| D | GLU7 |
| D | HIS173 |
| D | ASP296 |
| D | VNL402 |
| D | HOH908 |
| site_id | BC9 |
| Number of Residues | 14 |
| Details | BINDING SITE FOR RESIDUE VNL D 402 |
| Chain | Residue |
| D | LEU34 |
| D | ARG45 |
| D | ALA77 |
| D | HIS173 |
| D | SER192 |
| D | ASP296 |
| D | TYR299 |
| D | MN401 |
| D | HOH533 |
| D | HOH545 |
| D | HOH565 |
| D | HOH606 |
| E | ASN244 |
| E | HOH595 |
| site_id | CC1 |
| Number of Residues | 11 |
| Details | BINDING SITE FOR RESIDUE VNL D 403 |
| Chain | Residue |
| D | LEU235 |
| D | TRP236 |
| D | ASP239 |
| D | ARG263 |
| D | HOH605 |
| D | HOH631 |
| D | HOH770 |
| D | HOH856 |
| E | SER275 |
| E | HOH532 |
| F | VNL403 |
| site_id | CC2 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE EPE D 404 |
| Chain | Residue |
| D | TYR240 |
| D | MET241 |
| D | GLY243 |
| D | ASN244 |
| site_id | CC3 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE MN E 401 |
| Chain | Residue |
| E | GLU7 |
| E | HIS173 |
| E | ASP296 |
| E | VNL402 |
| E | HOH915 |
| site_id | CC4 |
| Number of Residues | 14 |
| Details | BINDING SITE FOR RESIDUE VNL E 402 |
| Chain | Residue |
| D | ASN244 |
| D | HOH912 |
| E | LEU34 |
| E | ARG45 |
| E | ALA77 |
| E | HIS173 |
| E | SER192 |
| E | ASP296 |
| E | TYR299 |
| E | MN401 |
| E | HOH529 |
| E | HOH533 |
| E | HOH543 |
| E | HOH601 |
| site_id | CC5 |
| Number of Residues | 7 |
| Details | BINDING SITE FOR RESIDUE VNL E 403 |
| Chain | Residue |
| A | ARG93 |
| A | ASP97 |
| A | LEU98 |
| A | HOH793 |
| A | HOH861 |
| E | ARG126 |
| E | HOH838 |
| site_id | CC6 |
| Number of Residues | 11 |
| Details | BINDING SITE FOR RESIDUE VNL E 404 |
| Chain | Residue |
| A | VNL404 |
| D | SER275 |
| D | HOH530 |
| E | LEU235 |
| E | TRP236 |
| E | ASP239 |
| E | ARG263 |
| E | HOH556 |
| E | HOH610 |
| E | HOH747 |
| E | HOH752 |
| site_id | CC7 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE EPE E 405 |
| Chain | Residue |
| E | TYR240 |
| E | MET241 |
| E | GLY243 |
| E | ASN244 |
| site_id | CC8 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE PEG E 406 |
| Chain | Residue |
| E | PRO46 |
| E | ALA47 |
| G | ARG20 |
| G | HOH579 |
| site_id | CC9 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE MN F 401 |
| Chain | Residue |
| F | GLU7 |
| F | HIS173 |
| F | ASP296 |
| F | VNL402 |
| F | HOH909 |
| site_id | DC1 |
| Number of Residues | 14 |
| Details | BINDING SITE FOR RESIDUE VNL F 402 |
| Chain | Residue |
| C | ASN244 |
| C | HOH899 |
| F | LEU34 |
| F | ARG45 |
| F | ALA77 |
| F | HIS173 |
| F | SER192 |
| F | ASP296 |
| F | TYR299 |
| F | MN401 |
| F | HOH517 |
| F | HOH534 |
| F | HOH562 |
| F | HOH625 |
| site_id | DC2 |
| Number of Residues | 11 |
| Details | BINDING SITE FOR RESIDUE VNL F 403 |
| Chain | Residue |
| C | SER275 |
| C | HOH508 |
| D | VNL403 |
| F | LEU235 |
| F | TRP236 |
| F | ASP239 |
| F | ARG263 |
| F | HOH576 |
| F | HOH680 |
| F | HOH786 |
| F | HOH838 |
| site_id | DC3 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE EPE F 404 |
| Chain | Residue |
| F | TYR240 |
| F | MET241 |
| F | GLY243 |
| F | ASN244 |
| site_id | DC4 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE MN G 401 |
| Chain | Residue |
| G | GLU7 |
| G | HIS173 |
| G | ASP296 |
| G | VNL402 |
| G | HOH938 |
| site_id | DC5 |
| Number of Residues | 15 |
| Details | BINDING SITE FOR RESIDUE VNL G 402 |
| Chain | Residue |
| B | ASN244 |
| B | HOH956 |
| G | LEU34 |
| G | ARG45 |
| G | THR76 |
| G | ALA77 |
| G | HIS173 |
| G | SER192 |
| G | ASP296 |
| G | TYR299 |
| G | MN401 |
| G | HOH517 |
| G | HOH530 |
| G | HOH554 |
| G | HOH635 |
| site_id | DC6 |
| Number of Residues | 10 |
| Details | BINDING SITE FOR RESIDUE VNL G 403 |
| Chain | Residue |
| B | SER275 |
| C | VNL403 |
| G | LEU235 |
| G | TRP236 |
| G | ASP239 |
| G | HOH525 |
| G | HOH570 |
| G | HOH647 |
| G | HOH750 |
| G | HOH889 |
| site_id | DC7 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE VNL G 404 |
| Chain | Residue |
| F | LYS253 |
| F | LEU254 |
| F | LYS255 |
| G | ARG24 |
| G | ASP41 |
| G | HOH818 |
| site_id | DC8 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE EPE G 405 |
| Chain | Residue |
| G | TYR240 |
| G | MET241 |
| G | GLY243 |
| G | ASN244 |
| site_id | DC9 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE MN H 401 |
| Chain | Residue |
| H | GLU7 |
| H | HIS173 |
| H | ASP296 |
| H | VNL402 |
| H | HOH898 |
| site_id | EC1 |
| Number of Residues | 15 |
| Details | BINDING SITE FOR RESIDUE VNL H 402 |
| Chain | Residue |
| A | ASN244 |
| A | HOH926 |
| H | LEU34 |
| H | ARG45 |
| H | THR76 |
| H | ALA77 |
| H | HIS173 |
| H | SER192 |
| H | ASP296 |
| H | TYR299 |
| H | MN401 |
| H | HOH508 |
| H | HOH529 |
| H | HOH551 |
| H | HOH590 |
| site_id | EC2 |
| Number of Residues | 10 |
| Details | BINDING SITE FOR RESIDUE VNL H 403 |
| Chain | Residue |
| A | SER275 |
| A | HOH517 |
| A | HOH564 |
| B | VNL403 |
| H | LEU235 |
| H | TRP236 |
| H | ASP239 |
| H | HOH609 |
| H | HOH745 |
| H | HOH803 |
| site_id | EC3 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE EPE H 404 |
| Chain | Residue |
| H | TYR240 |
| H | MET241 |
| H | GLY243 |
| H | ASN244 |
