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(-) Description

Title :  STRUCTURAL AND BIOCHEMICAL EVIDENCE FOR A BOAT-LIKE TRANSITION STATE IN BETA-MANNOSIDASES
 
Authors :  L. E. Tailford, W. A. Offen, N. L. Smith, C. Dumon, C. Moreland, J. Gratien, M. P. Heck, R. V. Stick, Y. Bleriot, A. Vasella, H. J. Gilbert, G. J. Davies
Date :  18 Mar 08  (Deposition) - 08 Apr 08  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Linear Free Energy Relationship, Transition State Mimic, Hydrolase, Mannosidase, Glycoside Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. E. Tailford, W. A. Offen, N. L. Smith, C. Dumon, C. Morland, J. Gratien, M. P. Heck, R. V. Stick, Y. Bleriot, A. Vasella, H. J. Gilbert, G. J. Davies
Structural And Biochemical Evidence For A Boat-Like Transition State In Beta-Mannosidases.
Nat. Chem. Biol. V. 4 306 2008
PubMed-ID: 18408714  |  Reference-DOI: 10.1038/NCHEMBIO.81

(-) Compounds

Molecule 1 - BETA-MANNOSIDASE
    Atcc: 29148
    Chains: A, B
    EC Number: 3.2.1.25
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28A
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Fragment: RESIDUES 26-864
    Organism Scientific: BACTEROIDES THETAIOTAOMICRON
    Organism Taxid: 818
    Variant: VPI-5482

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 70)

Asymmetric Unit (4, 70)
No.NameCountTypeFull Name
115A2Ligand/Ion(2Z,3R,4S,5R,6R)-2-[(2-AMINOETHYL)IMINO]-6-(HYDROXYMETHYL)PIPERIDINE-3,4,5-TRIOL
2BR10Ligand/IonBROMIDE ION
3CL13Ligand/IonCHLORIDE ION
4EDO45Ligand/Ion1,2-ETHANEDIOL
Biological Unit 1 (2, 20)
No.NameCountTypeFull Name
115A1Ligand/Ion(2Z,3R,4S,5R,6R)-2-[(2-AMINOETHYL)IMINO]-6-(HYDROXYMETHYL)PIPERIDINE-3,4,5-TRIOL
2BR-1Ligand/IonBROMIDE ION
3CL-1Ligand/IonCHLORIDE ION
4EDO19Ligand/Ion1,2-ETHANEDIOL
Biological Unit 2 (2, 27)
No.NameCountTypeFull Name
115A1Ligand/Ion(2Z,3R,4S,5R,6R)-2-[(2-AMINOETHYL)IMINO]-6-(HYDROXYMETHYL)PIPERIDINE-3,4,5-TRIOL
2BR-1Ligand/IonBROMIDE ION
3CL-1Ligand/IonCHLORIDE ION
4EDO26Ligand/Ion1,2-ETHANEDIOL

(-) Sites  (67, 67)

Asymmetric Unit (67, 67)
No.NameEvidenceResiduesDescription
01AC1SOFTWARETRP B:198 , ASP B:199 , TRP B:200 , TRP B:395 , ASN B:461 , GLU B:462 , TRP B:470 , TRP B:533 , TYR B:537 , GLU B:555 , TRP B:645 , TRP B:656 , HOH B:2442 , HOH B:2443 , HOH B:2444BINDING SITE FOR RESIDUE 15A B1867
02AC2SOFTWARETRP A:198 , ASP A:199 , TRP A:200 , TRP A:395 , ASN A:461 , GLU A:462 , TRP A:470 , TRP A:533 , TYR A:537 , GLU A:555 , TRP A:645 , TRP A:656 , HOH A:2471BINDING SITE FOR RESIDUE 15A A1865
03AC3SOFTWAREGLN A:365 , ASN A:648 , ASP A:649 , ILE A:659 , ASP A:660 , HOH A:2223BINDING SITE FOR RESIDUE EDO A1866
04AC4SOFTWARETRP B:519 , TRP B:525 , SER B:530 , ASN B:532 , ASP B:548 , PRO B:550 , MET B:553 , HOH B:2445BINDING SITE FOR RESIDUE EDO B1868
05AC5SOFTWARETRP A:525 , SER A:530 , ASN A:532 , ASP A:548 , LEU A:549 , PRO A:550 , MET A:553 , HOH A:2316BINDING SITE FOR RESIDUE EDO A1867
06AC6SOFTWAREILE A:328 , GLY A:329 , ARG A:449 , ASN A:450 , HIS A:451 , ALA A:452 , ARG A:507 , HOH A:2137BINDING SITE FOR RESIDUE EDO A1868
07AC7SOFTWAREARG A:331 , ASP A:506 , ARG A:507 , HOH A:2472 , HOH A:2473BINDING SITE FOR RESIDUE EDO A1869
08AC8SOFTWAREGLU A:465 , LYS A:468 , TYR A:469 , PRO A:514 , LEU A:516 , ALA A:517 , ASN A:518BINDING SITE FOR RESIDUE EDO A1870
09AC9SOFTWAREARG A:597 , PRO A:607 , GLU A:608 , SER A:609 , PHE A:610 , PHE A:613 , HOH A:2342BINDING SITE FOR RESIDUE EDO A1871
10BC1SOFTWAREASN A:337 , HIS A:511 , TYR A:515 , HOH A:2209 , HOH A:2474BINDING SITE FOR RESIDUE EDO A1872
11BC2SOFTWAREASN B:337 , VAL B:510 , HIS B:511 , TYR B:515 , HOH B:2446BINDING SITE FOR RESIDUE EDO B1869
12BC3SOFTWAREHIS A:157 , ASP B:88 , HIS B:157 , ARG B:161 , GLN B:162 , HOH B:2447BINDING SITE FOR RESIDUE EDO B1870
13BC4SOFTWAREGLN A:623 , ARG A:626 , HIS A:774 , PHE A:775 , HOH A:2438 , HOH A:2475BINDING SITE FOR RESIDUE EDO A1873
14BC5SOFTWARETHR A:432 , HOH A:2262 , LEU B:126 , LYS B:129BINDING SITE FOR RESIDUE EDO B1871
15BC6SOFTWAREARG A:446 , HOH A:2061 , HOH A:2265BINDING SITE FOR RESIDUE EDO A1874
16BC7SOFTWARESER B:43 , GLN B:44 , GLY B:46 , THR B:47 , GLU B:48 , GLU B:90BINDING SITE FOR RESIDUE EDO B1872
17BC8SOFTWAREHIS B:326 , ARG B:327 , ASN B:450 , HIS B:451 , HOH B:2257 , HOH B:2448BINDING SITE FOR RESIDUE EDO B1873
18BC9SOFTWAREGLY B:471 , PHE B:472 , GLU B:473 , LYS B:474 , HOH B:2449BINDING SITE FOR RESIDUE EDO B1874
19CC1SOFTWARETYR A:824 , SER A:825 , ILE A:840 , THR A:842 , HOH A:2228 , HOH A:2455BINDING SITE FOR RESIDUE EDO A1875
20CC2SOFTWAREARG B:331 , ARG B:507 , EDO B:1899 , HOH B:2450BINDING SITE FOR RESIDUE EDO B1875
21CC3SOFTWARESER A:43 , GLN A:44 , GLY A:46 , THR A:47 , GLU A:48 , GLU A:90BINDING SITE FOR RESIDUE EDO A1876
22CC4SOFTWARESER A:224 , ILE A:245 , ARG A:446BINDING SITE FOR RESIDUE EDO A1877
23CC5SOFTWAREGLN B:365 , ASN B:648 , ASP B:649 , ILE B:659 , ASP B:660BINDING SITE FOR RESIDUE EDO B1876
24CC6SOFTWAREGLU B:465 , LYS B:468 , PRO B:514 , LEU B:516 , ALA B:517BINDING SITE FOR RESIDUE EDO B1877
25CC7SOFTWAREASN B:300 , TRP B:302 , PHE B:356 , LYS B:358 , ASN B:390 , ASP B:697 , HOH B:2451BINDING SITE FOR RESIDUE EDO B1878
26CC8SOFTWAREGLN B:623 , ARG B:626 , HIS B:774 , PHE B:775 , EDO B:1882 , HOH B:2343 , HOH B:2345 , HOH B:2452BINDING SITE FOR RESIDUE EDO B1879
27CC9SOFTWAREHIS A:326 , ARG A:327 , ASN A:450 , HIS A:451 , HOH A:2272BINDING SITE FOR RESIDUE EDO A1878
28DC1SOFTWAREPHE B:356 , ARG B:633 , ARG B:636 , ILE B:695 , SER B:696 , ASP B:697 , ASN B:733 , THR B:734BINDING SITE FOR RESIDUE EDO B1880
29DC2SOFTWAREPHE B:42 , SER B:43 , GLN B:44 , THR B:47 , LYS B:49BINDING SITE FOR RESIDUE EDO B1881
30DC3SOFTWAREARG A:161 , GLN A:162 , ASP B:119 , TYR B:121 , TYR B:155 , HIS B:157BINDING SITE FOR RESIDUE EDO A1879
31DC4SOFTWAREPHE B:775 , ARG B:777 , LYS B:778 , EDO B:1879 , CL B:1889 , HOH B:2453BINDING SITE FOR RESIDUE EDO B1882
32DC5SOFTWAREARG B:382 , ARG B:823 , SER B:825 , ILE B:840 , THR B:842 , HOH B:2454BINDING SITE FOR RESIDUE EDO B1883
33DC6SOFTWAREASP A:603 , TYR A:604 , LYS A:778 , THR A:779BINDING SITE FOR RESIDUE EDO A1880
34DC7SOFTWAREILE B:328 , GLY B:329 , ARG B:449 , ASN B:450 , HIS B:451 , ALA B:452 , ARG B:507BINDING SITE FOR RESIDUE EDO B1884
35DC8SOFTWARESER A:43 , GLN A:44 , THR A:47 , LYS A:49BINDING SITE FOR RESIDUE EDO A1881
36DC9SOFTWAREILE A:107 , LYS A:142BINDING SITE FOR RESIDUE BR A1882
37EC1SOFTWAREILE B:107 , LYS B:142BINDING SITE FOR RESIDUE BR B1885
38EC2SOFTWAREHIS A:284BINDING SITE FOR RESIDUE BR A1883
39EC3SOFTWAREHOH A:2474BINDING SITE FOR RESIDUE BR A1896
40EC4SOFTWAREGLN B:685 , ASP B:688BINDING SITE FOR RESIDUE BR B1886
41EC5SOFTWAREGLN A:108BINDING SITE FOR RESIDUE BR A1884
42EC6SOFTWAREHOH B:2446BINDING SITE FOR RESIDUE BR B1887
43EC7SOFTWAREASP A:688BINDING SITE FOR RESIDUE BR A1885
44EC8SOFTWAREGLN B:108BINDING SITE FOR RESIDUE CL B1888
45EC9SOFTWAREILE B:684 , GLN B:685 , HIS B:774 , EDO B:1882 , HOH B:2371BINDING SITE FOR RESIDUE CL B1889
46FC1SOFTWAREILE A:684 , GLN A:685 , HIS A:774 , HOH A:2396BINDING SITE FOR RESIDUE CL A1886
47FC2SOFTWAREASN A:402 , HOH A:2017BINDING SITE FOR RESIDUE CL A1887
48FC3SOFTWAREARG B:845 , GLU B:850BINDING SITE FOR RESIDUE EDO B1891
49FC4SOFTWARETYR B:347 , HOH B:2196 , HOH B:2353 , HOH B:2455BINDING SITE FOR RESIDUE EDO B1892
50FC5SOFTWAREGLU B:112 , GLY B:113 , MET B:133 , PHE B:134 , VAL B:135 , TRP B:210 , ARG B:211 , TYR B:443 , ASN B:444 , ARG B:447 , HOH B:2044 , HOH B:2457BINDING SITE FOR RESIDUE EDO B1893
51FC6SOFTWAREPHE A:346 , ARG A:551 , HOH A:2377BINDING SITE FOR RESIDUE CL A1888
52FC7SOFTWAREGLU B:271BINDING SITE FOR RESIDUE BR B1894
53FC8SOFTWARETYR B:661 , TYR B:662BINDING SITE FOR RESIDUE EDO B1895
54FC9SOFTWAREARG B:376 , LEU B:380 , ASP B:383 , GLY B:663 , HOH B:2205BINDING SITE FOR RESIDUE EDO B1896
55GC1SOFTWAREASN A:337BINDING SITE FOR RESIDUE CL A1889
56GC2SOFTWARELYS B:147BINDING SITE FOR RESIDUE CL A1898
57GC3SOFTWAREASN A:300 , TRP A:302 , PHE A:356 , ASN A:390 , ASP A:697 , HOH A:2212BINDING SITE FOR RESIDUE EDO A1890
58GC4SOFTWAREGLU A:502BINDING SITE FOR RESIDUE EDO A1891
59GC5SOFTWARETHR A:477BINDING SITE FOR RESIDUE CL A1892
60GC6SOFTWARETRP B:470 , ASN B:518 , HOH B:2288BINDING SITE FOR RESIDUE CL B1898
61GC7SOFTWAREGLN B:230 , THR B:332 , ASP B:506 , EDO B:1875 , HOH B:2458BINDING SITE FOR RESIDUE EDO B1899
62GC8SOFTWAREPRO B:541 , ARG B:602BINDING SITE FOR RESIDUE EDO B1900
63GC9SOFTWAREGLU A:708 , LYS A:710 , ILE A:760BINDING SITE FOR RESIDUE EDO A1893
64HC1SOFTWAREGLU B:708 , LYS B:710 , LYS B:758 , ILE B:760BINDING SITE FOR RESIDUE EDO B1901
65HC2SOFTWARELYS A:129 , HIS A:157 , LYS B:129 , HIS B:157BINDING SITE FOR RESIDUE BR A1894
66HC3SOFTWARELYS B:79 , LYS B:80 , GLN B:82 , TRP B:83BINDING SITE FOR RESIDUE EDO B1902
67HC4SOFTWAREARG A:634 , TYR A:693 , HOH A:2125 , HOH A:2375BINDING SITE FOR RESIDUE CL A1895

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2VQT)

(-) Cis Peptide Bonds  (10, 10)

Asymmetric Unit
No.Residues
1Val A:55 -Pro A:56
2Asp A:115 -Thr A:116
3Ser A:513 -Pro A:514
4Arg A:636 -Pro A:637
5Trp A:645 -Gln A:646
6Val B:55 -Pro B:56
7Asp B:115 -Thr B:116
8Ser B:513 -Pro B:514
9Arg B:636 -Pro B:637
10Trp B:645 -Gln B:646

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2VQT)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2VQT)

(-) Exons   (0, 0)

(no "Exon" information available for 2VQT)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:836
 aligned with Q8AAK6_BACTN | Q8AAK6 from UniProtKB/TrEMBL  Length:864

    Alignment length:837
                                    37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397       407       417       427       437       447       457       467       477       487       497       507       517       527       537       547       557       567       577       587       597       607       617       627       637       647       657       667       677       687       697       707       717       727       737       747       757       767       777       787       797       807       817       827       837       847       857       
         Q8AAK6_BACTN    28 NDTSEVMLLDTGWEFSQSGTEKWMPATVPGTVHQDLISHELLPNPFYGMNEKKIQWVENEDWEYRTSFIVSEEQLNRDGIQLIFEGLDTYADVYLNGSLLLKADNMFVGYTLPVKSVLRKGENHLYIYFHSPIRQTLPQYASNGFNYPADNDHHEKHLSVFSRKAPYSYGWDWGIRMVTSGVWRPVTLRFYDIATISDYYVRQLSLTDENARLSNELIVNQIVPQKIPAEVRVNVSLNGTTVTEVKQQVTLQPGINHITLPAEVTNPVRWMPNGWGTPTLYDFSAQIACGDRIVAEQSHRIGLRTIRVVNEKDKDGESFYFEVNGIPMFAKGANYIPQDALLPNVTTERYQTLFRDMKEANMNMVRIWGGGTYENNLFYDLADENGILVWQDFMFACTPYPSDPTFLKRVEAEAVYNIRRLRNHASLAMWCGNNEILEALKYWGFEKKFTPEVYQGLMHGYDKLFRELLPSTVKEFDSDRFYVHSSPYLANWGRPESWGTGDSHNWGVWYGKKPFESLDTDLPRFMSEFGFQSFPEMKTIAAFAAPEDYQIESEVMNAHQKSSIGNSLIRTYMERDYIIPESFEDFVYVGLVLQGQGMRHGLEAHRRNRPYCMGTLYWQLNDSWPVVSWSSIDYYGNWKALHYQAKRAFAPVLINPIQQNDSLSVYLISDRLDTMEQMTLEMKVVDFDGKTLGKKIQVHSLEVPANTSKCVYRAKLDGWLTPEDCRRSFLKLILKDKSGHQVAESVHFFRKTKDLQLPPTSVSYQMKQTDGKCELTLFSSMLAKDIFIETPLQGARYSDNFFDLLPGERKKVIITSPRIKKGEELPVNIKHIRETYK 864
               SCOP domains d2vqta4 A:28-219 automated matches                                                                                                                                                              d2vqta1 A:220-330 automated matches                                                                            d2vqta5 A:331-678 automated matches                                                                                                                                                                                                                                                                                                                         d2vqta3 A:679-783 automated matches                                                                      d2vqta2 A:784-864 automated matches                                               SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeee.....eeee......ee.....hhhhhhhh............hhhhhhhhhh.eeeeeeeeehhhhhh..eeeeee..ee.eeeeee..eeeeeee.....eeee.hhhh..eeeeeeeeeehhhhhhhhhhhh..............hhhhhh..hhhhhh..........ee...eeeeee..eeeeeeeeeeeee...eeeeeeeeeeee.....eeeeeeeeeee..eeeeeeeeeeee..eeeeeeeeeeee...............eeeeeeee..-.eeeeeeeee....eeee..ee..ee..eeee..eee.eeeeee.....hhhhhhhhhhhhhhhhhhhh...eeee.......hhhhhhhhhhh..eeeee..........hhhhhhhhhhhhhhhhhhhh....eeeee...hhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhh...eee..........hhhhh....ee...........hhhhhh....eee.......hhhhhhhhhhhhhh...hhhhhhh....hhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhh.....eeee.....................hhhhhhhhhhh..eeeeeeee..eeeeeeee.....eeeeeeeeeeee....eeeeeeeeeeeee...eeeeeeeee.....hhhhhh.eeeeeeee.....eeeeeeee..hhhhh.......eeeeeee..eeeeeee....eeeeeee......ee....eee.....eeeeee............eee.hhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2vqt A  28 NDTSEVMLLDTGWEFSQSGTEKWMPATVPGTVHQDLISHELLPNPFYGMNEKKIQWVENEDWEYRTSFIVSEEQLNRDGIQLIFEGLDTYADVYLNGSLLLKADNMFVGYTLPVKSVLRKGENHLYIYFHSPIRQTLPQYASNGFNYPADNDHHEKHLSVFSRKAPYSYGWDWGIRMVTSGVWRPVTLRFYDIATISDYYVRQLSLTDENARLSNELIVNQIVPQKIPAEVRVNVSLNGTTVTEVKQQVTLQPGINHITLPAEVTNPVRWMPNGWGTPTLYDFSAQIACG-RIVAEQSHRIGLRTIRVVNEKDKDGESFYFEVNGIPMFAKGANYIPQDALLPNVTTERYQTLFRDMKEANMNMVRIWGGGTYENNLFYDLADENGILVWQDFMFACTPYPSDPTFLKRVEAEAVYNIRRLRNHASLAMWCGNNEILEALKYWGFEKKFTPEVYQGLMHGYDKLFRELLPSTVKEFDSDRFYVHSSPYLANWGRPESWGTGDSHNWGVWYGKKPFESLDTDLPRFMSEFGFQSFPEMKTIAAFAAPEDYQIESEVMNAHQKSSIGNSLIRTYMERDYIIPESFEDFVYVGLVLQGQGMRHGLEAHRRNRPYCMGTLYWQLNDSWPVVSWSSIDYYGNWKALHYQAKRAFAPVLINPIQQNDSLSVYLISDRLDTMEQMTLEMKVVDFDGKTLGKKIQVHSLEVPANTSKCVYRAKLDGWLTPEDCRRSFLKLILKDKSGHQVAESVHFFRKTKDLQLPPTSVSYQMKQTDGKCELTLFSSMLAKDIFIETPLQGARYSDNFFDLLPGERKKVIITSPRIKKGEELPVNIKHIRETYK 864
                                    37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317 |     327       337       347       357       367       377       387       397       407       417       427       437       447       457       467       477       487       497       507       517       527       537       547       557       567       577       587       597       607       617       627       637       647       657       667       677       687       697       707       717       727       737       747       757       767       777       787       797       807       817       827       837       847       857       
                                                                                                                                                                                                                                                                                                                           317 |                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 
                                                                                                                                                                                                                                                                                                                             319                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 


Chain B from PDB  Type:PROTEIN  Length:839
 aligned with Q8AAK6_BACTN | Q8AAK6 from UniProtKB/TrEMBL  Length:864

    Alignment length:839
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              864  
                                    37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397       407       417       427       437       447       457       467       477       487       497       507       517       527       537       547       557       567       577       587       597       607       617       627       637       647       657       667       677       687       697       707       717       727       737       747       757       767       777       787       797       807       817       827       837       847       857      |  
         Q8AAK6_BACTN    28 NDTSEVMLLDTGWEFSQSGTEKWMPATVPGTVHQDLISHELLPNPFYGMNEKKIQWVENEDWEYRTSFIVSEEQLNRDGIQLIFEGLDTYADVYLNGSLLLKADNMFVGYTLPVKSVLRKGENHLYIYFHSPIRQTLPQYASNGFNYPADNDHHEKHLSVFSRKAPYSYGWDWGIRMVTSGVWRPVTLRFYDIATISDYYVRQLSLTDENARLSNELIVNQIVPQKIPAEVRVNVSLNGTTVTEVKQQVTLQPGINHITLPAEVTNPVRWMPNGWGTPTLYDFSAQIACGDRIVAEQSHRIGLRTIRVVNEKDKDGESFYFEVNGIPMFAKGANYIPQDALLPNVTTERYQTLFRDMKEANMNMVRIWGGGTYENNLFYDLADENGILVWQDFMFACTPYPSDPTFLKRVEAEAVYNIRRLRNHASLAMWCGNNEILEALKYWGFEKKFTPEVYQGLMHGYDKLFRELLPSTVKEFDSDRFYVHSSPYLANWGRPESWGTGDSHNWGVWYGKKPFESLDTDLPRFMSEFGFQSFPEMKTIAAFAAPEDYQIESEVMNAHQKSSIGNSLIRTYMERDYIIPESFEDFVYVGLVLQGQGMRHGLEAHRRNRPYCMGTLYWQLNDSWPVVSWSSIDYYGNWKALHYQAKRAFAPVLINPIQQNDSLSVYLISDRLDTMEQMTLEMKVVDFDGKTLGKKIQVHSLEVPANTSKCVYRAKLDGWLTPEDCRRSFLKLILKDKSGHQVAESVHFFRKTKDLQLPPTSVSYQMKQTDGKCELTLFSSMLAKDIFIETPLQGARYSDNFFDLLPGERKKVIITSPRIKKGEELPVNIKHIRETYK--   -
               SCOP domains d2vqtb4 B:28-219 automated matches                                                                                                                                                              d2vqtb1 B:220-330 automated matches                                                                            d2vqtb5 B:331-678 automated matches                                                                                                                                                                                                                                                                                                                         d2vqtb3 B:679-783 automated matches                                                                      d2vqtb2 B:784-866 automated matches                                                 SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) Glyco_hydro_2_N-2vqtB01 B:28-219                                                                                                                                                                -Glyco_hydro_2-2vqtB05 B:221-331                                                                                -------------Glyco_hydro_2_C-2vqtB03 B:345-478                                                                                                     ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains (1)
           Pfam domains (2) Glyco_hydro_2_N-2vqtB02 B:28-219                                                                                                                                                                -Glyco_hydro_2-2vqtB06 B:221-331                                                                                -------------Glyco_hydro_2_C-2vqtB04 B:345-478                                                                                                     ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains (2)
         Sec.struct. author ....eeee.....eeee......ee.....hhhhhhhh............hhhhhhhhhh.eeeeeeeeehhhhhh..eeeeee.....eeeeee..eeeeeee.....eeee.hhhh..eeeeeeeeeehhhhhhhhhhhhhh............hhhhhh..hhhhhh...............eeeeee..eeeeeeeeeeeee...eeeeeeeeeeee.....eeeeeeeeeee..eeeeeeeeeeee..eeeeeeeeeeee...............eeeeeeeee..eeeeeeeeee....eeee..ee..ee..eeee..eee.eeeeee.....hhhhhhhhhhhhhhhhhhhh...eeee.......hhhhhhhhhhhh.eeeee..........hhhhhhhhhhhhhhhhhhhh....eeeee...hhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhh...eee..........hhhhh....ee.........hhhhhhh.....eee.......hhhhhhhhhhhhhh...hhhhhhh....hhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhh.....eeee.....................hhhhhhhhhhh..eeeeeeee..eeeeeeee.....eeeeeeeeeeee....eeeeeeeeeeeee...eeeeeeeee.....hhhhhh.eeeeeeee.....eeeeeeee..hhhhh.......eeeee....eeeeeee....eeeeeee......ee....eee.....eeeeee............eeehhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2vqt B  28 NDTSEVMLLDTGWEFSQSGTEKWMPATVPGTVHQDLISHELLPNPFYGMNEKKIQWVENEDWEYRTSFIVSEEQLNRDGIQLIFEGLDTYADVYLNGSLLLKADNMFVGYTLPVKSVLRKGENHLYIYFHSPIRQTLPQYASNGFNYPADNDHHEKHLSVFSRKAPYSYGWDWGIRMVTSGVWRPVTLRFYDIATISDYYVRQLSLTDENARLSNELIVNQIVPQKIPAEVRVNVSLNGTTVTEVKQQVTLQPGINHITLPAEVTNPVRWMPNGWGTPTLYDFSAQIACGDRIVAEQSHRIGLRTIRVVNEKDKDGESFYFEVNGIPMFAKGANYIPQDALLPNVTTERYQTLFRDMKEANMNMVRIWGGGTYENNLFYDLADENGILVWQDFMFACTPYPSDPTFLKRVEAEAVYNIRRLRNHASLAMWCGNNEILEALKYWGFEKKFTPEVYQGLMHGYDKLFRELLPSTVKEFDSDRFYVHSSPYLANWGRPESWGTGDSHNWGVWYGKKPFESLDTDLPRFMSEFGFQSFPEMKTIAAFAAPEDYQIESEVMNAHQKSSIGNSLIRTYMERDYIIPESFEDFVYVGLVLQGQGMRHGLEAHRRNRPYCMGTLYWQLNDSWPVVSWSSIDYYGNWKALHYQAKRAFAPVLINPIQQNDSLSVYLISDRLDTMEQMTLEMKVVDFDGKTLGKKIQVHSLEVPANTSKCVYRAKLDGWLTPEDCRRSFLKLILKDKSGHQVAESVHFFRKTKDLQLPPTSVSYQMKQTDGKCELTLFSSMLAKDIFIETPLQGARYSDNFFDLLPGERKKVIITSPRIKKGEELPVNIKHIRETYKEH 866
                                    37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397       407       417       427       437       447       457       467       477       487       497       507       517       527       537       547       557       567       577       587       597       607       617       627       637       647       657       667       677       687       697       707       717       727       737       747       757       767       777       787       797       807       817       827       837       847       857
   Legend:   → Mismatch (orange background)
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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (3, 10)

Asymmetric Unit
(-)
Class: All beta proteins (24004)
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2VQT)

(-) Pfam Domains  (3, 6)

Asymmetric Unit
(-)
Clan: GBD (153)
(-)
Clan: Glyco_hydro_tim (488)
(-)
Clan: no clan defined [family: Glyco_hydro_2] (31)

(-) Gene Ontology  (4, 4)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (Q8AAK6_BACTN | Q8AAK6)
molecular function
    GO:0004567    beta-mannosidase activity    Catalysis of the hydrolysis of terminal, non-reducing beta-D-mannose residues in beta-D-mannosides.
    GO:0004553    hydrolase activity, hydrolyzing O-glycosyl compounds    Catalysis of the hydrolysis of any O-glycosyl bond.
biological process
    GO:0005975    carbohydrate metabolic process    The chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y. Includes the formation of carbohydrate derivatives by the addition of a carbohydrate residue to another molecule.
cellular component
    GO:0043231    intracellular membrane-bounded organelle    Organized structure of distinctive morphology and function, bounded by a single or double lipid bilayer membrane and occurring within the cell. Includes the nucleus, mitochondria, plastids, vacuoles, and vesicles. Excludes the plasma membrane.

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  2vqt
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  Q8AAK6_BACTN | Q8AAK6
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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/TrEMBL
        Q8AAK6_BACTN | Q8AAK6: 2je8 2vjx 2vl4 2vmf 2vo5 2vot 2vqu 2vr4 2wbk

(-) Related Entries Specified in the PDB File

2je8 STRUCTURE OF A BETA-MANNOSIDASE FROM BACTEROIDES THETAIOTAOMICRON
2vjx STRUCTURAL AND BIOCHEMICAL EVIDENCE FOR A BOAT-LIKE TRANSITION STATE IN BETA- MANNOSIDASES
2vl4 STRUCTURAL AND BIOCHEMICAL EVIDENCE FOR A BOAT-LIKE TRANSITION STATE IN BETA- MANNOSIDASES
2vmf STRUCTURAL AND BIOCHEMICAL EVIDENCE FOR A BOAT-LIKE TRANSITION STATE IN BETA- MANNOSIDASES
2vo5 STRUCTURAL AND BIOCHEMICAL EVIDENCE FOR A BOAT-LIKE TRANSITION STATE IN BETA- MANNOSIDASES
2vot STRUCTURAL AND BIOCHEMICAL EVIDENCE FOR A BOAT-LIKE TRANSITION STATE IN BETA- MANNOSIDASES
2vqt STRUCTURAL AND BIOCHEMICAL EVIDENCE FOR A BOAT-LIKE TRANSITION STATE IN BETA- MANNOSIDASES
2vqu STRUCTURAL AND BIOCHEMICAL EVIDENCE FOR A BOAT-LIKE TRANSITION STATE IN BETA- MANNOSIDASES
2vr4 TRANSITION-STATE MIMICRY IN MANNOSIDE HYDROLYSIS: CHARACTERISATION OF TWENTY SIX INHIBITORS AND INSIGHT INTO BINDING FROM LINEAR FREE ENERGY RELATIONSHIPS AND 3-D STRUCTURE