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(-) Description

Title :  STRUCTURE OF THE GH99 ENDO-ALPHA-MANNOSIDASE FROM BACTEROIDES XYLANISOLVENS IN COMPLEX WITH GLUCOSE-1,3-DEOXYMANNOJIRIMYCIN AND ALPHA-1,2-MANNOBIOSE
 
Authors :  A. J. Thompson, R. J. Williams, Z. Hakki, D. S. Alonzi, T. Wennekes, T. M. K. Songsrirote, J. E. Thomas-Oates, T. M. Wrodnigg, J. Spreitz, A. E. S T. D. Butters, S. J. Williams, G. J. Davies
Date :  21 Dec 11  (Deposition) - 01 Feb 12  (Release) - 29 Feb 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym./Biol. Unit :  A
Keywords :  Hydrolase, Endomannosidase, Glycoside Hydrolase, Gh99, Cazy, Enzyme-Carbohydrate Interaction, Mannose Glycosidase Inhibition (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. J. Thompson, R. J. Williams, Z. Hakki, D. S. Alonzi, T. Wennekes, T. M. Gloster, K. Songsrirote, J. E. Thomas-Oates, T. M. Wrodnigg, J. Spreitz, A. E. Stutz, T. D. Butters, S. J. Williams, G. J. Davies
Structural And Mechanistic Insight Into N-Glycan Processing By Endo-Alpha-Mannosidase.
Proc. Natl. Acad. Sci. Usa V. 109 781 2012
PubMed-ID: 22219371  |  Reference-DOI: 10.1073/PNAS.1111482109

(-) Compounds

Molecule 1 - GLYCOSYL HYDROLASE FAMILY 71
    Chains: A
    EC Number: 3.2.1.130
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Organism Scientific: BACTEROIDES XYLANISOLVENS
    Organism Taxid: 657309
    Strain: XB1A
    Synonym: ENDO-ALPHA-MANNOSIDASE

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 4)

Asymmetric/Biological Unit (3, 4)
No.NameCountTypeFull Name
1DMJ1Ligand/Ion1-DEOXYMANNOJIRIMYCIN
2GLC1Ligand/IonALPHA-D-GLUCOSE
3MAN2Ligand/IonALPHA-D-MANNOSE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETYR A:195 , ASP A:196 , TYR A:198 , PHE A:253 , PHE A:258 , THR A:259 , TYR A:289 , ARG A:295 , ASN A:298 , GLU A:336 , HOH A:2322 , HOH A:2364 , HOH A:2395 , HOH A:2446BINDING SITE FOR DI-SACCHARIDE MAN A 510 AND MAN A 511
2AC2SOFTWARETYR A:46 , TRP A:48 , HIS A:60 , HIS A:63 , TRP A:126 , HIS A:154 , GLU A:156 , TYR A:195 , TYR A:252 , ARG A:295 , GLU A:333 , HIS A:335 , GLU A:336 , HOH A:2157 , HOH A:2262 , HOH A:2441 , HOH A:2442 , HOH A:2443 , HOH A:2444BINDING SITE FOR LINKED RESIDUES A 500 A 501

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4AD5)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Thr A:329 -Ser A:330

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4AD5)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4AD5)

(-) Exons   (0, 0)

(no "Exon" information available for 4AD5)

(-) Sequences/Alignments

Asymmetric/Biological 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:348
 aligned with D6D1V7_9BACE | D6D1V7 from UniProtKB/TrEMBL  Length:380

    Alignment length:348
                                    41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371        
         D6D1V7_9BACE    32 NLGTELDYDTFCFYYDWYGSEAIDGQYRHWAHAIAPDPNGGSGQNPGTIPGTQESIASNFYPQLGRYSSSDPNILTKHMDMFVMARTGVLALTWWNEQDETEAKRIGLILDAADKKKIKVCFHLEPYPSRNVQNLRENIVKLITRYGNHPAFYRKDGKPLFFIYDSYLIEPSEWEKLLSPGGSITIRNTAYDALMIGLWTSSPTVQRPFILNAHFDGFYTYFAATGFTYGSTPTNWVSMQKWAKENGKIFIPSVGPGYIDTRIRPWNGSVIRTRTDGQYYDAMYRKAIEAGVSAISITSFNEWHEGSQIEPAVPYTSSEFTYLDYENREPDYYLTRTAYWVGKFRESK 379
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ......eeeeeeee.....hhhhhh......ee..............ee.....................hhhhhhhhhhhhhhhheeeeeeee....hhhhhhhhhhhhhhhhhh..eeeeee......hhhhhhhhhhhhhhhhh............eeee.hhhhhhhhhhhhhhh..............eeeee...hhhhhhhhhhhhh..eee............hhhhhhhhhhhhhhh..eee.ee............hhhhh..hhhhhhhhhhhhhhhhh....eee.................................hhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4ad5 A  32 NLGTELDYDTFCFYYDWYGSEAIDGQYRHWAHAIAPDPNGGSGQNPGTIPGTQESIASNFYPQLGRYSSSDPNILTKHMDMFVMARTGVLALTWWNEQDETEAKRIGLILDAADKKKIKVCFHLEPYPSRNVQNLRENIVKLITRYGNHPAFYRKDGKPLFFIYDSYLIEPSEWEKLLSPGGSITIRNTAYDALMIGLWTSSPTVQRPFILNAHFDGFYTYFAATGFTYGSTPTNWVSMQKWAKENGKIFIPSVGPGYIDTRIRPWNGSVIRTRTDGQYYDAMYRKAIEAGVSAISITSFNEWHEGSQIEPAVPYTSSEFTYLDYENREPDYYLTRTAYWVGKFRESK 379
                                    41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371
   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  (0, 0)

(no "SCOP Domain" information available for 4AD5)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4AD5)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4AD5)

(-) Gene Ontology  (1, 1)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (D6D1V7_9BACE | D6D1V7)
molecular function
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.

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  Cis Peptide Bonds
    Thr A:329 - Ser A:330   [ RasMol ]  
 

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 Related Entries

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

UniProtKB/TrEMBL
        D6D1V7_9BACE | D6D1V7: 4ad1 4ad2 4ad3 4ad4 4utf 4v27 4v28 5lyr 5m03 5m17 5m3w 5m5d 5mc8 5mel

(-) Related Entries Specified in the PDB File

4acy SELENOMETHIONINE DERIVATIVE OF THE GH99 ENDO-ALPHA- MANNOSIDASE FROM BACTEROIDES THETAIOTAOMICRON
4acz STRUCTURE OF THE GH99 ENDO-ALPHA-MANNOSIDASE FROM BACTEROIDES THETAIOTAOMICRON
4ad0 STRUCTURE OF THE GH99 ENDO-ALPHA-MANNOSIDASE FROM BACTERIODES THETAIOTAOMICRON IN COMPLEX WITH BIS-TRIS- PROPANE
4ad1 STRUCTURE OF THE GH99 ENDO-ALPHA-MANNOSIDASE FROM BACTEROIDES XYLANISOLVENS
4ad2 STRUCTURE OF THE GH99 ENDO-ALPHA-MANNOSIDASE FROM BACTEROIDES XYLANISOLVENS IN COMPLEX WITH GLUCOSE-1,3- ISOFAGOMINE
4ad3 STRUCTURE OF THE GH99 ENDO-ALPHA-MANNOSIDASE FROM BACTEROIDES XYLANISOLVENS IN COMPLEX WITH GLUCOSE-1,3- DEOXYMANNOJIRIMYCIN
4ad4 STRUCTURE OF THE GH99 ENDO-ALPHA-MANNOSIDASE FROM BACTEROIDES XYLANISOLVENS IN COMPLEX WITH GLUCOSE-1,3- ISOFAGOMINE AND ALPHA-1,2-MANNOBIOSE