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(-) Description

Title :  CRYSTAL STRUCTURE OF GH125 1,6-ALPHA-MANNOSIDASE MUTANT FROM CLOSTRIDIUM PERFRINGENS IN COMPLEX WITH 1,6-ALPHA-MANNOTRIOSE
 
Authors :  A. Males, S. Alonso-Gil, P. Fernandes, S. J. Williams, C. Rovira, G. J. D
Date :  28 Oct 16  (Deposition) - 30 Nov 16  (Release) - 08 Feb 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.55
Chains :  Asym./Biol. Unit :  A
Keywords :  Glycoside Hydrolase, Mannosidase, Carbohydrate, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Alonso-Gil, A. Males, P. Z. Fernandes, S. J. Williams, G. J. Davies, C. Rovira
Computational Design Of Experiment Unveils The Conformational Reaction Coordinate Of Gh125 Alpha-Mannosidases.
J. Am. Chem. Soc. V. 139 1085 2017
PubMed-ID: 28026180  |  Reference-DOI: 10.1021/JACS.6B11247

(-) Compounds

Molecule 1 - 1,6-ALPHA-MANNOSIDASE
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PET21A
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: CPE0426
    Mutation: YES
    Organism Scientific: CLOSTRIDIUM PERFRINGENS (STRAIN 13 / TYPE A)
    Organism Taxid: 195102
    Strain: 13 / TYPE A

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 5)

Asymmetric/Biological Unit (2, 5)
No.NameCountTypeFull Name
1MAN3Ligand/IonALPHA-D-MANNOSE
2MG2Ligand/IonMAGNESIUM ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:152 , HOH A:628 , HOH A:844 , HOH A:853binding site for residue MG A 504
2AC2SOFTWAREHOH A:610 , HOH A:888 , HOH A:892binding site for residue MG A 505
3AC3SOFTWARETHR A:55 , ILE A:58 , TRP A:62 , ARG A:64 , ASP A:65 , TRP A:116 , GLU A:129 , LYS A:131 , ARG A:188 , ASP A:195 , PRO A:218 , SER A:219 , ASN A:220 , ASN A:302 , HIS A:350 , TRP A:357 , ARG A:405 , PHE A:408 , TRP A:410 , LYS A:426 , HOH A:616 , HOH A:627 , HOH A:659 , HOH A:721binding site for Poly-Saccharide residues MAN A 501 through MAN A 503

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5M7Y)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Val A:303 -Pro A:304

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5M7Y)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5M7Y)

(-) Exons   (0, 0)

(no "Exon" information available for 5M7Y)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
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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:425
                                                                                                                                                                                                                                                                                                                                                                                                                                                                         
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhheeee..eeee.......eehhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhh....ee...................eee...hhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhh.hhhhhh.........hhhhhhhhhhh........................eehhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhheeee...eeee..ee.....ee...........hhhhhh.....hhhhhhhhhhhh......eee....eee........eeehhhhhhhhhh..hhhhhhhhhhhhhhh.........eee..eeeee....hhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5m7y A   2 SLSTNELKEIVRKIGKDLSGKIEDKKLQELFYNCFINTMDTTVEVSEGDAFVITGDIPAMWLRDSTSQVEHYLPFVKEYPELKAIFTGLINRQVKCIFIDPYANAFNKEPNGQKWDNDITKDSPWVWERKYEIDSLCYPVRLIHKYWKESGDETFFNDDIKKAFNMIIDLWRVEQYHREKSDYSFQRLNCSVTDTLSHEGLGTPVTYTGMTWSGFRPSNDACEYGYLIPANMFAVVALRYISEIAEKVYKDEELKEKADSLREEIDNAIEKHGKVYKEGFGEVYAYETDGMGNYNFMDDANVPSLLSIPYLEYKGIEDEVYQNTRKFILSKNNRFFFEGKAAKGIGSPHTPDQYIWHIALSMQGLTTNNQEEIDQLIKLLKETDAGTGYMHEGFHVDDPTKFTRDWFAWSNSLFSHFIYEKVINK 426
                                    11        21        31        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       381       391       401       411       421
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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 5M7Y)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5M7Y)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5M7Y)

(-) Gene Ontology  (1, 1)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/TrEMBL
        Q8XNB2_CLOPE | Q8XNB2: 2nvp 3qt3 3qt9 5m7i

(-) Related Entries Specified in the PDB File

5m7i 5M7I CONTAINS THE SAME PROTEIN BUT COMPLEXED WITH 1,6-ALPHA- MANNOBIOSE