2VMF
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 | 0005975 | biological_process | carbohydrate metabolic process |
A | 0006516 | biological_process | glycoprotein catabolic process |
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 | 0005975 | biological_process | carbohydrate metabolic process |
B | 0006516 | biological_process | glycoprotein catabolic process |
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 MVL A1865 |
Chain | Residue |
A | TRP198 |
A | TRP645 |
A | TRP656 |
A | EDO1876 |
A | ASP199 |
A | TRP200 |
A | TRP395 |
A | ASN461 |
A | GLU462 |
A | TRP533 |
A | TYR537 |
A | GLU555 |
site_id | AC2 |
Number of Residues | 5 |
Details | BINDING SITE FOR RESIDUE EDO A1866 |
Chain | Residue |
A | GLN365 |
A | ASN648 |
A | ASP649 |
A | ILE659 |
A | ASP660 |
site_id | AC3 |
Number of Residues | 8 |
Details | BINDING SITE FOR RESIDUE EDO A1867 |
Chain | Residue |
A | TRP519 |
A | TRP525 |
A | SER530 |
A | ASN532 |
A | ASP548 |
A | PRO550 |
A | MET553 |
A | HOH2461 |
site_id | AC4 |
Number of Residues | 6 |
Details | BINDING SITE FOR RESIDUE EDO A1868 |
Chain | Residue |
A | ILE328 |
A | GLY329 |
A | ASN450 |
A | HIS451 |
A | ALA452 |
A | ARG507 |
site_id | AC5 |
Number of Residues | 6 |
Details | BINDING SITE FOR RESIDUE EDO A1869 |
Chain | Residue |
A | GLN230 |
A | ARG331 |
A | ASP506 |
A | ARG507 |
A | HOH2462 |
A | HOH2463 |
site_id | AC6 |
Number of Residues | 7 |
Details | BINDING SITE FOR RESIDUE EDO A1870 |
Chain | Residue |
A | GLU465 |
A | LYS468 |
A | TYR469 |
A | PRO514 |
A | LEU516 |
A | ALA517 |
A | ASN518 |
site_id | AC7 |
Number of Residues | 7 |
Details | BINDING SITE FOR RESIDUE EDO A1871 |
Chain | Residue |
A | ARG597 |
A | PRO607 |
A | GLU608 |
A | SER609 |
A | PHE610 |
A | PHE613 |
A | HOH2336 |
site_id | AC8 |
Number of Residues | 5 |
Details | BINDING SITE FOR RESIDUE EDO A1872 |
Chain | Residue |
A | ASN337 |
A | HIS511 |
A | TYR515 |
A | HOH2464 |
A | HOH2465 |
site_id | AC9 |
Number of Residues | 4 |
Details | BINDING SITE FOR RESIDUE EDO A1873 |
Chain | Residue |
A | ARG634 |
A | GLN686 |
A | TYR693 |
A | HOH2321 |
site_id | BC1 |
Number of Residues | 3 |
Details | BINDING SITE FOR RESIDUE EDO A1874 |
Chain | Residue |
A | SER825 |
A | THR842 |
A | HOH2466 |
site_id | BC2 |
Number of Residues | 7 |
Details | BINDING SITE FOR RESIDUE EDO A1875 |
Chain | Residue |
A | SER43 |
A | GLN44 |
A | SER45 |
A | GLY46 |
A | THR47 |
A | GLU48 |
A | GLU90 |
site_id | BC3 |
Number of Residues | 6 |
Details | BINDING SITE FOR RESIDUE EDO A1876 |
Chain | Residue |
A | ASN178 |
A | ASP199 |
A | CYS424 |
A | GLU462 |
A | TRP470 |
A | MVL1865 |
site_id | BC4 |
Number of Residues | 2 |
Details | BINDING SITE FOR RESIDUE EDO A1877 |
Chain | Residue |
A | PHE775 |
A | PHE776 |
site_id | BC5 |
Number of Residues | 8 |
Details | BINDING SITE FOR RESIDUE EDO A1878 |
Chain | Residue |
A | HIS326 |
A | ARG327 |
A | ASP407 |
A | ASN450 |
A | HIS451 |
A | HOH2249 |
A | HOH2275 |
A | HOH2467 |
site_id | BC6 |
Number of Residues | 5 |
Details | BINDING SITE FOR RESIDUE EDO A1879 |
Chain | Residue |
A | PHE42 |
A | SER43 |
A | GLN44 |
A | THR47 |
A | LYS49 |
site_id | BC7 |
Number of Residues | 4 |
Details | BINDING SITE FOR RESIDUE EDO A1880 |
Chain | Residue |
A | ASP88 |
A | HIS157 |
A | ARG161 |
B | ARG161 |
site_id | BC8 |
Number of Residues | 1 |
Details | BINDING SITE FOR RESIDUE BR A1882 |
Chain | Residue |
A | HIS284 |
site_id | BC9 |
Number of Residues | 2 |
Details | BINDING SITE FOR RESIDUE BR A1881 |
Chain | Residue |
A | ILE107 |
A | LYS142 |
site_id | CC1 |
Number of Residues | 1 |
Details | BINDING SITE FOR RESIDUE BR A1882 |
Chain | Residue |
A | HIS284 |
site_id | CC2 |
Number of Residues | 1 |
Details | BINDING SITE FOR RESIDUE BR A1884 |
Chain | Residue |
A | GLN108 |
site_id | CC3 |
Number of Residues | 2 |
Details | BINDING SITE FOR RESIDUE BR A1885 |
Chain | Residue |
A | GLN685 |
A | ASP688 |
site_id | CC4 |
Number of Residues | 1 |
Details | BINDING SITE FOR RESIDUE BR A1886 |
Chain | Residue |
A | THR477 |
site_id | CC5 |
Number of Residues | 3 |
Details | BINDING SITE FOR RESIDUE CL A1887 |
Chain | Residue |
A | ILE684 |
A | GLN685 |
A | HOH2392 |
site_id | CC6 |
Number of Residues | 5 |
Details | BINDING SITE FOR RESIDUE EDO A1888 |
Chain | Residue |
A | TYR347 |
A | PRO637 |
A | MET640 |
A | HOH2370 |
A | HOH2468 |
site_id | CC7 |
Number of Residues | 3 |
Details | BINDING SITE FOR RESIDUE BR A1889 |
Chain | Residue |
A | GLN577 |
A | ILE578 |
A | GLU579 |
site_id | CC8 |
Number of Residues | 1 |
Details | BINDING SITE FOR RESIDUE BR A1890 |
Chain | Residue |
A | ASN402 |
site_id | CC9 |
Number of Residues | 2 |
Details | BINDING SITE FOR RESIDUE CL A1891 |
Chain | Residue |
A | ARG447 |
A | HOH2269 |
site_id | DC1 |
Number of Residues | 5 |
Details | BINDING SITE FOR RESIDUE EDO A1892 |
Chain | Residue |
A | GLU708 |
A | MET709 |
A | LYS710 |
A | LYS758 |
A | ILE760 |
site_id | DC2 |
Number of Residues | 3 |
Details | BINDING SITE FOR RESIDUE EDO A1893 |
Chain | Residue |
A | ASP105 |
A | VAL250 |
A | GLN252 |
site_id | DC3 |
Number of Residues | 1 |
Details | BINDING SITE FOR RESIDUE BR A1894 |
Chain | Residue |
A | ARG626 |
site_id | DC4 |
Number of Residues | 8 |
Details | BINDING SITE FOR RESIDUE EDO A1895 |
Chain | Residue |
A | ASP119 |
A | LYS129 |
A | HIS157 |
A | GLN162 |
B | ASP119 |
B | LYS129 |
B | HIS157 |
B | GLN162 |
site_id | DC5 |
Number of Residues | 4 |
Details | BINDING SITE FOR RESIDUE EDO A1896 |
Chain | Residue |
A | ARG296 |
A | MET298 |
A | THR304 |
A | THR306 |
site_id | DC6 |
Number of Residues | 3 |
Details | BINDING SITE FOR RESIDUE CL A1897 |
Chain | Residue |
A | ASN77 |
A | HOH2018 |
A | HOH2032 |
site_id | DC7 |
Number of Residues | 12 |
Details | BINDING SITE FOR RESIDUE MVL B1868 |
Chain | Residue |
B | TRP198 |
B | ASP199 |
B | TRP200 |
B | TRP395 |
B | ASN461 |
B | GLU462 |
B | TRP533 |
B | TYR537 |
B | GLU555 |
B | TRP645 |
B | TRP656 |
B | EDO1874 |
site_id | DC8 |
Number of Residues | 6 |
Details | BINDING SITE FOR RESIDUE EDO B1869 |
Chain | Residue |
B | TRP519 |
B | TRP525 |
B | SER530 |
B | ASN532 |
B | ASP548 |
B | PRO550 |
site_id | DC9 |
Number of Residues | 6 |
Details | BINDING SITE FOR RESIDUE EDO B1870 |
Chain | Residue |
B | ARG331 |
B | ASP506 |
B | ARG507 |
B | EDO1899 |
B | HOH2218 |
B | HOH2472 |
site_id | EC1 |
Number of Residues | 6 |
Details | BINDING SITE FOR RESIDUE EDO B1871 |
Chain | Residue |
B | SER43 |
B | GLN44 |
B | GLY46 |
B | THR47 |
B | GLU48 |
B | GLU90 |
site_id | EC2 |
Number of Residues | 5 |
Details | BINDING SITE FOR RESIDUE EDO B1872 |
Chain | Residue |
B | GLN365 |
B | ASN648 |
B | ASP649 |
B | ILE659 |
B | ASP660 |
site_id | EC3 |
Number of Residues | 7 |
Details | BINDING SITE FOR RESIDUE EDO B1873 |
Chain | Residue |
B | GLU465 |
B | LYS468 |
B | TYR469 |
B | PRO514 |
B | LEU516 |
B | ALA517 |
B | ASN518 |
site_id | EC4 |
Number of Residues | 6 |
Details | BINDING SITE FOR RESIDUE EDO B1874 |
Chain | Residue |
B | ASN178 |
B | ASP199 |
B | CYS424 |
B | GLU462 |
B | TRP470 |
B | MVL1868 |
site_id | EC5 |
Number of Residues | 8 |
Details | BINDING SITE FOR RESIDUE EDO B1875 |
Chain | Residue |
B | PHE356 |
B | ARG633 |
B | ARG636 |
B | ILE695 |
B | SER696 |
B | ASP697 |
B | ASN733 |
B | THR734 |
site_id | EC6 |
Number of Residues | 7 |
Details | BINDING SITE FOR RESIDUE EDO B1876 |
Chain | Residue |
B | ILE328 |
B | GLY329 |
B | ARG449 |
B | ASN450 |
B | HIS451 |
B | ALA452 |
B | ARG507 |
site_id | EC7 |
Number of Residues | 4 |
Details | BINDING SITE FOR RESIDUE EDO B1877 |
Chain | Residue |
B | PHE775 |
B | ARG777 |
B | LYS778 |
B | HOH2473 |
site_id | EC8 |
Number of Residues | 5 |
Details | BINDING SITE FOR RESIDUE EDO B1878 |
Chain | Residue |
B | PHE42 |
B | SER43 |
B | GLN44 |
B | THR47 |
B | LYS49 |
site_id | EC9 |
Number of Residues | 3 |
Details | BINDING SITE FOR RESIDUE BR B1879 |
Chain | Residue |
B | ILE107 |
B | LYS142 |
B | HOH2084 |
site_id | FC1 |
Number of Residues | 2 |
Details | BINDING SITE FOR RESIDUE BR B1880 |
Chain | Residue |
B | GLN685 |
B | ASP688 |
site_id | FC2 |
Number of Residues | 1 |
Details | BINDING SITE FOR RESIDUE BR B1881 |
Chain | Residue |
B | HOH2320 |
site_id | FC3 |
Number of Residues | 1 |
Details | BINDING SITE FOR RESIDUE BR B1882 |
Chain | Residue |
B | THR477 |
site_id | FC4 |
Number of Residues | 2 |
Details | BINDING SITE FOR RESIDUE CL B1883 |
Chain | Residue |
B | TYR443 |
B | ARG446 |
site_id | FC5 |
Number of Residues | 2 |
Details | BINDING SITE FOR RESIDUE CL B1884 |
Chain | Residue |
B | HIS181 |
B | HOH2116 |
site_id | FC6 |
Number of Residues | 1 |
Details | BINDING SITE FOR RESIDUE CL B1885 |
Chain | Residue |
B | GLN108 |
site_id | FC7 |
Number of Residues | 2 |
Details | BINDING SITE FOR RESIDUE CL B1886 |
Chain | Residue |
B | GLN685 |
B | HOH2404 |
site_id | FC8 |
Number of Residues | 2 |
Details | BINDING SITE FOR RESIDUE EDO B1888 |
Chain | Residue |
B | ARG376 |
B | TYR661 |
site_id | FC9 |
Number of Residues | 8 |
Details | BINDING SITE FOR RESIDUE EDO B1889 |
Chain | Residue |
B | HIS326 |
B | ARG327 |
B | ASP407 |
B | ASN450 |
B | HIS451 |
B | HOH2212 |
B | HOH2288 |
B | HOH2474 |
site_id | GC1 |
Number of Residues | 3 |
Details | BINDING SITE FOR RESIDUE EDO B1890 |
Chain | Residue |
B | PRO637 |
B | HOH2385 |
B | HOH2475 |
site_id | GC2 |
Number of Residues | 3 |
Details | BINDING SITE FOR RESIDUE BR B1891 |
Chain | Residue |
B | ASN300 |
B | ASN390 |
B | HOH2234 |
site_id | GC3 |
Number of Residues | 3 |
Details | BINDING SITE FOR RESIDUE CL B1892 |
Chain | Residue |
B | MET298 |
B | TRP302 |
B | ASN351 |
site_id | GC4 |
Number of Residues | 3 |
Details | BINDING SITE FOR RESIDUE CL B1893 |
Chain | Residue |
B | GLN324 |
B | SER325 |
B | HOH2209 |
site_id | GC5 |
Number of Residues | 2 |
Details | BINDING SITE FOR RESIDUE EDO B1894 |
Chain | Residue |
B | ASN261 |
B | HOH2477 |
site_id | GC6 |
Number of Residues | 2 |
Details | BINDING SITE FOR RESIDUE BR B1901 |
Chain | Residue |
B | ARG626 |
B | HOH2473 |
site_id | GC7 |
Number of Residues | 4 |
Details | BINDING SITE FOR RESIDUE EDO B1895 |
Chain | Residue |
B | LEU307 |
B | ASP309 |
B | ARG327 |
B | HOH2167 |
site_id | GC8 |
Number of Residues | 5 |
Details | BINDING SITE FOR RESIDUE EDO B1896 |
Chain | Residue |
B | LYS565 |
B | THR817 |
B | PRO818 |
B | HOH2354 |
B | HOH2478 |
site_id | GC9 |
Number of Residues | 2 |
Details | BINDING SITE FOR RESIDUE CL B1897 |
Chain | Residue |
B | GLN577 |
B | ILE578 |
site_id | HC1 |
Number of Residues | 3 |
Details | BINDING SITE FOR RESIDUE EDO B1898 |
Chain | Residue |
B | ILE282 |
B | HIS284 |
B | HOH2479 |
site_id | HC2 |
Number of Residues | 6 |
Details | BINDING SITE FOR RESIDUE EDO B1899 |
Chain | Residue |
B | GLN230 |
B | LEU231 |
B | THR332 |
B | ASP506 |
B | EDO1870 |
B | HOH2480 |
site_id | HC3 |
Number of Residues | 5 |
Details | BINDING SITE FOR RESIDUE EDO B1900 |
Chain | Residue |
B | TRP665 |
B | TYR670 |
B | ARG823 |
B | TYR824 |
B | HOH2481 |
site_id | HC4 |
Number of Residues | 7 |
Details | BINDING SITE FOR RESIDUE EDO A1899 |
Chain | Residue |
A | ASN300 |
A | TRP302 |
A | PHE356 |
A | LYS358 |
A | ASN390 |
A | ASP697 |
A | HOH2217 |
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 |