2VL4
Structural and biochemical evidence for a boat-like transition state in beta-mannosidases
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0004553 | molecular_function | hydrolase activity, hydrolyzing O-glycosyl compounds |
| A | 0004567 | molecular_function | beta-mannosidase activity |
| A | 0005576 | cellular_component | extracellular region |
| A | 0005764 | cellular_component | lysosome |
| A | 0005975 | biological_process | carbohydrate metabolic process |
| A | 0006516 | biological_process | glycoprotein catabolic process |
| A | 0016787 | molecular_function | hydrolase activity |
| A | 0016798 | molecular_function | hydrolase activity, acting on glycosyl bonds |
| B | 0004553 | molecular_function | hydrolase activity, hydrolyzing O-glycosyl compounds |
| B | 0004567 | molecular_function | beta-mannosidase activity |
| B | 0005576 | cellular_component | extracellular region |
| B | 0005764 | cellular_component | lysosome |
| B | 0005975 | biological_process | carbohydrate metabolic process |
| B | 0006516 | biological_process | glycoprotein catabolic process |
| B | 0016787 | molecular_function | hydrolase activity |
| B | 0016798 | molecular_function | hydrolase activity, acting on glycosyl bonds |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 12 |
| Details | BINDING SITE FOR RESIDUE MNM A 1865 |
| Chain | Residue |
| A | TRP198 |
| A | GLU555 |
| A | TRP645 |
| A | EDO1866 |
| A | ASP199 |
| A | TRP200 |
| A | TRP395 |
| A | CYS424 |
| A | ASN461 |
| A | GLU462 |
| A | TRP533 |
| A | TYR537 |
| site_id | AC2 |
| Number of Residues | 13 |
| Details | BINDING SITE FOR RESIDUE MNM B 1868 |
| Chain | Residue |
| B | TRP198 |
| B | ASP199 |
| B | TRP200 |
| B | TRP395 |
| B | CYS424 |
| B | ASN461 |
| B | GLU462 |
| B | TRP533 |
| B | TYR537 |
| B | GLU555 |
| B | TRP645 |
| B | TRP656 |
| B | EDO1882 |
| site_id | AC3 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE EDO A 1866 |
| Chain | Residue |
| A | ASN178 |
| A | ASP199 |
| A | CYS424 |
| A | GLU462 |
| A | TRP470 |
| A | MNM1865 |
| site_id | AC4 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE EDO B 1869 |
| Chain | Residue |
| B | GLN365 |
| B | ASN648 |
| B | ASP649 |
| B | ILE659 |
| B | ASP660 |
| B | HOH2372 |
| site_id | AC5 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE EDO B 1870 |
| Chain | Residue |
| B | TYR347 |
| B | HOH2349 |
| B | HOH2586 |
| B | HOH2743 |
| site_id | AC6 |
| Number of Residues | 8 |
| Details | BINDING SITE FOR RESIDUE EDO B 1871 |
| Chain | Residue |
| B | ILE328 |
| B | GLY329 |
| B | ARG449 |
| B | ASN450 |
| B | HIS451 |
| B | ALA452 |
| B | ARG507 |
| B | HOH2238 |
| site_id | AC7 |
| Number of Residues | 1 |
| Details | BINDING SITE FOR RESIDUE EDO B 1872 |
| Chain | Residue |
| B | TYR661 |
| site_id | AC8 |
| Number of Residues | 8 |
| Details | BINDING SITE FOR RESIDUE EDO A 1867 |
| Chain | Residue |
| A | ILE328 |
| A | GLY329 |
| A | ARG449 |
| A | ASN450 |
| A | HIS451 |
| A | ALA452 |
| A | ARG507 |
| A | HOH2693 |
| site_id | AC9 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE EDO A 1868 |
| Chain | Residue |
| A | GLN365 |
| A | ASN648 |
| A | ASP649 |
| A | ILE659 |
| A | ASP660 |
| site_id | BC1 |
| Number of Residues | 7 |
| Details | BINDING SITE FOR RESIDUE EDO B 1873 |
| Chain | Residue |
| B | PHE42 |
| B | SER43 |
| B | GLN44 |
| B | THR47 |
| B | LYS49 |
| B | HOH2020 |
| B | HOH2744 |
| site_id | BC2 |
| Number of Residues | 8 |
| Details | BINDING SITE FOR RESIDUE EDO B 1874 |
| Chain | Residue |
| B | PHE356 |
| B | ARG633 |
| B | ARG636 |
| B | ILE695 |
| B | SER696 |
| B | ASP697 |
| B | ASN733 |
| B | THR734 |
| site_id | BC3 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE EDO A 1869 |
| Chain | Residue |
| A | SER43 |
| A | GLN44 |
| A | THR47 |
| A | LYS49 |
| A | HOH2689 |
| site_id | BC4 |
| Number of Residues | 7 |
| Details | BINDING SITE FOR RESIDUE EDO B 1875 |
| Chain | Residue |
| B | SER43 |
| B | GLN44 |
| B | SER45 |
| B | GLY46 |
| B | THR47 |
| B | GLU48 |
| B | GLU90 |
| site_id | BC5 |
| Number of Residues | 7 |
| Details | BINDING SITE FOR RESIDUE EDO B 1876 |
| Chain | Residue |
| B | HIS326 |
| B | ARG327 |
| B | ASN450 |
| B | HIS451 |
| B | HOH2332 |
| B | HOH2448 |
| B | HOH2746 |
| site_id | BC6 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE EDO A 1870 |
| Chain | Residue |
| A | GLU608 |
| A | HOH2690 |
| A | ARG597 |
| A | PRO607 |
| site_id | BC7 |
| Number of Residues | 7 |
| Details | BINDING SITE FOR RESIDUE EDO A 1871 |
| Chain | Residue |
| A | GLU465 |
| A | LYS468 |
| A | TYR469 |
| A | PRO514 |
| A | LEU516 |
| A | ALA517 |
| A | ASN518 |
| site_id | BC8 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE EDO B 1877 |
| Chain | Residue |
| B | TRP519 |
| B | TRP533 |
| B | TYR537 |
| B | HOH2454 |
| B | HOH2747 |
| site_id | BC9 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE EDO B 1878 |
| Chain | Residue |
| B | ARG626 |
| B | HIS774 |
| B | PHE775 |
| B | EDO1891 |
| B | HOH2669 |
| B | HOH2748 |
| site_id | CC1 |
| Number of Residues | 8 |
| Details | BINDING SITE FOR RESIDUE EDO A 1872 |
| Chain | Residue |
| A | TRP525 |
| A | SER530 |
| A | ASN532 |
| A | ASP548 |
| A | LEU549 |
| A | PRO550 |
| A | MET553 |
| A | HOH2473 |
| site_id | CC2 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE EDO A 1873 |
| Chain | Residue |
| A | ARG331 |
| A | ARG507 |
| A | HOH2691 |
| A | HOH2692 |
| A | HOH2693 |
| site_id | CC3 |
| Number of Residues | 7 |
| Details | BINDING SITE FOR RESIDUE EDO B 1879 |
| Chain | Residue |
| B | ASN337 |
| B | VAL510 |
| B | HIS511 |
| B | TYR515 |
| B | HOH2361 |
| B | HOH2749 |
| B | HOH2750 |
| site_id | CC4 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE EDO B 1880 |
| Chain | Residue |
| A | HIS157 |
| A | ARG161 |
| B | ASP88 |
| B | HIS157 |
| B | GLN162 |
| B | HOH2751 |
| site_id | CC5 |
| Number of Residues | 7 |
| Details | BINDING SITE FOR RESIDUE EDO A 1874 |
| Chain | Residue |
| A | SER43 |
| A | GLN44 |
| A | SER45 |
| A | GLY46 |
| A | THR47 |
| A | GLU48 |
| A | GLU90 |
| site_id | CC6 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE EDO B 1881 |
| Chain | Residue |
| B | GLU465 |
| B | LYS468 |
| B | TYR469 |
| B | PRO514 |
| B | LEU516 |
| B | ALA517 |
| site_id | CC7 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE EDO B 1882 |
| Chain | Residue |
| B | ASN178 |
| B | ASP199 |
| B | CYS424 |
| B | GLU462 |
| B | TRP470 |
| B | MNM1868 |
| site_id | CC8 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE EDO A 1875 |
| Chain | Residue |
| A | GLN685 |
| A | PHE775 |
| A | PHE776 |
| A | ARG777 |
| A | LYS778 |
| A | HOH2694 |
| site_id | CC9 |
| Number of Residues | 7 |
| Details | BINDING SITE FOR RESIDUE EDO B 1883 |
| Chain | Residue |
| B | ASN300 |
| B | TRP302 |
| B | PHE356 |
| B | LYS358 |
| B | ASN390 |
| B | ASP697 |
| B | HOH2752 |
| site_id | DC1 |
| Number of Residues | 7 |
| Details | BINDING SITE FOR RESIDUE EDO A 1876 |
| Chain | Residue |
| A | ASN300 |
| A | TRP302 |
| A | PHE356 |
| A | ASN390 |
| A | ASP697 |
| A | HOH2345 |
| A | HOH2609 |
| site_id | DC2 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE EDO A 1877 |
| Chain | Residue |
| A | HIS326 |
| A | ARG327 |
| A | ASN450 |
| A | HIS451 |
| A | HOH2318 |
| A | HOH2418 |
| site_id | DC3 |
| Number of Residues | 2 |
| Details | BINDING SITE FOR RESIDUE BR A 1878 |
| Chain | Residue |
| A | ILE107 |
| A | LYS142 |
| site_id | DC4 |
| Number of Residues | 1 |
| Details | BINDING SITE FOR RESIDUE BR A 1879 |
| Chain | Residue |
| A | HIS284 |
| site_id | DC5 |
| Number of Residues | 2 |
| Details | BINDING SITE FOR RESIDUE BR B 1884 |
| Chain | Residue |
| B | ILE107 |
| B | LYS142 |
| site_id | DC6 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE BR A 1880 |
| Chain | Residue |
| A | HIS627 |
| A | ILE684 |
| A | GLN685 |
| A | HIS774 |
| A | HOH2579 |
| site_id | DC7 |
| Number of Residues | 2 |
| Details | BINDING SITE FOR RESIDUE BR B 1885 |
| Chain | Residue |
| B | GLN685 |
| B | ASP688 |
| site_id | DC8 |
| Number of Residues | 1 |
| Details | BINDING SITE FOR RESIDUE BR A 1881 |
| Chain | Residue |
| A | HOH2458 |
| site_id | DC9 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE BR B 1886 |
| Chain | Residue |
| B | HOH2478 |
| B | HOH2480 |
| B | HOH2750 |
| site_id | EC1 |
| Number of Residues | 1 |
| Details | BINDING SITE FOR RESIDUE BR A 1882 |
| Chain | Residue |
| A | GLN108 |
| site_id | EC2 |
| Number of Residues | 2 |
| Details | BINDING SITE FOR RESIDUE BR A 1883 |
| Chain | Residue |
| A | GLN685 |
| A | ASP688 |
| site_id | EC3 |
| Number of Residues | 1 |
| Details | BINDING SITE FOR RESIDUE BR B 1887 |
| Chain | Residue |
| B | GLN108 |
| site_id | EC4 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE EDO A 1884 |
| Chain | Residue |
| A | TRP519 |
| A | HOH2695 |
| A | HOH2696 |
| A | HOH2697 |
| site_id | EC5 |
| Number of Residues | 2 |
| Details | BINDING SITE FOR RESIDUE CL A 1889 |
| Chain | Residue |
| A | ASN77 |
| A | HOH2044 |
| site_id | EC6 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE EDO B 1888 |
| Chain | Residue |
| A | ALA168 |
| B | ARG92 |
| B | TYR153 |
| B | HOH2753 |
| B | HOH2754 |
| site_id | EC7 |
| Number of Residues | 2 |
| Details | BINDING SITE FOR RESIDUE CL A 1885 |
| Chain | Residue |
| A | ASN402 |
| A | HOH2041 |
| site_id | EC8 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE CL B 1889 |
| Chain | Residue |
| B | ILE684 |
| B | GLN685 |
| B | EDO1891 |
| B | HOH2609 |
| site_id | EC9 |
| Number of Residues | 7 |
| Details | BINDING SITE FOR RESIDUE EDO B 1890 |
| Chain | Residue |
| B | ARG382 |
| B | ARG823 |
| B | TYR824 |
| B | SER825 |
| B | ILE840 |
| B | THR842 |
| B | HOH2755 |
| site_id | FC1 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE BR A 1886 |
| Chain | Residue |
| A | PHE476 |
| A | THR477 |
| A | HOH2430 |
| site_id | FC2 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE EDO A 1887 |
| Chain | Residue |
| A | ASN293 |
| A | HOH2224 |
| A | HOH2698 |
| B | GLY266 |
| B | THR267 |
| site_id | FC3 |
| Number of Residues | 7 |
| Details | BINDING SITE FOR RESIDUE EDO B 1891 |
| Chain | Residue |
| B | GLN685 |
| B | PHE775 |
| B | PHE776 |
| B | ARG777 |
| B | LYS778 |
| B | EDO1878 |
| B | CL1889 |
| site_id | FC4 |
| Number of Residues | 1 |
| Details | BINDING SITE FOR RESIDUE EDO B 1892 |
| Chain | Residue |
| B | SER143 |
| site_id | FC5 |
| Number of Residues | 7 |
| Details | BINDING SITE FOR RESIDUE EDO B 1893 |
| Chain | Residue |
| B | VAL372 |
| B | THR374 |
| B | TYR377 |
| B | ASN402 |
| B | LEU404 |
| B | HOH2756 |
| B | HOH2757 |
| site_id | FC6 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE CL B 1894 |
| Chain | Residue |
| B | GLN230 |
| B | HOH2239 |
| B | HOH2243 |
| site_id | FC7 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE EDO A 1888 |
| Chain | Residue |
| A | HIS774 |
| A | PHE775 |
| A | HOH2634 |
| A | HOH2699 |
| A | HOH2700 |
| site_id | FC8 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE EDO B 1895 |
| Chain | Residue |
| B | CYS737 |
| B | ARG740 |
| B | HOH2758 |
| site_id | FC9 |
| Number of Residues | 2 |
| Details | BINDING SITE FOR RESIDUE CL B 1896 |
| Chain | Residue |
| A | HOH2353 |
| B | ASP797 |
Catalytic Information from CSA
| site_id | CSA1 |
| Number of Residues | 2 |
| Details | Annotated By Reference To The Literature 1bgl |
| Chain | Residue | Details |
| A | GLU462 | |
| A | GLU555 |
| site_id | CSA2 |
| Number of Residues | 2 |
| Details | Annotated By Reference To The Literature 1bgl |
| Chain | Residue | Details |
| B | GLU462 | |
| B | GLU555 |
