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(-) Description

Title :  STRUCTURAL BASIS FOR THE PROMISCUOUS SPECIFICITY OF THE CARBOHYDRATE-BINDING MODULES FROM THE BETA-SANDWICH SUPER FAMILY
 
Authors :  S. Najmudin, C. I. P. D. Guerreiro, A. L. Carvalho, D. N. Bolam, J. A. M. Pr M. A. S. Correia, V. D. Alves, L. M. A. Ferreira, M. J. Romao, H. J. Gilber C. M. G. A. Fontes
Date :  25 Oct 05  (Deposition) - 27 Oct 05  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym./Biol. Unit :  A
Keywords :  Cellulase Ctcel9D-Cel44A, Pkd Domain, Cbm44, Carbohydrate Binding Module, Beta-Sandwich Proteins, Cellulosome, Semet Derivative, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Najmudin, C. I. P. D. Guerreiro, A. L. Carvalho, J. A. M. Prates, M. A. S. Correia, V. D. Alves, L. M. A. Ferreira, M. J. Romao, H. J. Gilbert, D. N. Bolam, C. M. G. A. Fontes
Xyloglucan Is Recognized By Carbohydrate-Binding Modules That Interact With Beta-Glucan Chains.
J. Biol. Chem. V. 281 8815 2006
PubMed-ID: 16314409  |  Reference-DOI: 10.1074/JBC.M510559200
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - ENDOGLUCANASE
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET21A
    Expression System Strain: B834 (DE3)
    Expression System Taxid: 562
    Fragment: C-TERMINAL PKD AND CBM44 DOMAINS, RESIDUES 1353-1601
    Mutation: YES
    Organism Scientific: CLOSTRIDIUM THERMOCELLUM
    Organism Taxid: 1515
    Other Details: CONTAINS 2 CALCIUM IONS
    Strain: YS
    Synonym: CTCEL9D-CEL44A

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 9)

Asymmetric/Biological Unit (3, 9)
No.NameCountTypeFull Name
1CA2Ligand/IonCALCIUM ION
2EDO3Ligand/Ion1,2-ETHANEDIOL
3MSE4Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASN A:4 , GLN A:5 , ASP A:33 , ASP A:35 , ASP A:76 , HOH A:2184BINDING SITE FOR RESIDUE CA A1252
2AC2SOFTWAREASP A:96 , ASN A:101 , GLU A:103 , LYS A:130 , ARG A:133 , ASP A:245BINDING SITE FOR RESIDUE CA A1253
3AC3SOFTWAREPHE A:11 , PHE A:84 , TRP A:194 , GLN A:231 , EDO A:1256 , HOH A:2380BINDING SITE FOR RESIDUE EDO A1254
4AC4SOFTWAREPHE A:100 , ASN A:101 , PHE A:102 , ASP A:104BINDING SITE FOR RESIDUE EDO A1255
5AC5SOFTWAREGLY A:48 , GLU A:148 , TYR A:181 , GLN A:227 , GLN A:231 , EDO A:1254 , HOH A:2286 , HOH A:2381BINDING SITE FOR RESIDUE EDO A1256

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2C4X)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Ser A:14 -Pro A:15
2Asp A:152 -Gly A:153

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2C4X)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2C4X)

(-) Exons   (0, 0)

(no "Exon" information available for 2C4X)

(-) 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:250
 aligned with P71140_CLOTM | P71140 from UniProtKB/TrEMBL  Length:1601

    Alignment length:250
                                                                                                                                                                                                                                                                                1601  
                                  1363      1373      1383      1393      1403      1413      1423      1433      1443      1453      1463      1473      1483      1493      1503      1513      1523      1533      1543      1553      1563      1573      1583      1593       | -
        P71140_CLOTM   1354 PENQAPKAIFTFSPEDPVTDENVVFNASNSIDEDGTIAYYAWDFGDGYEGTSTTPTITYKYKNPGTYKVKLIVTDNQGASSSFTATIKVTSATGDNSKFNFEDGTLGGFTTSGTNATGVVVNTTEKAFKGERGLKWTVTSEGEGTAELKLDGGTIVVPGTTMTFRIWIPSGAPIAAIQPYIMPHTPDWSEVLWNSTWKGYTMVKTDDWNEITLTLPEDVDPTWPQQMGIQVQTIDEGEFTIYVDAIDW--    -
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........eee.........eeee..........eeeeeee.....eeee...eeee.....eeeeeeeeeee....eeeeeeeeee....................eeeeeeeeeeeeee.........eeeeeeeeeeeeeeeeeee.........eeeeeeee.....eeeeeeeeee.................hhh...eeeeeeee..........eeeeeeeeeeeeeeeeeeeeeee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                2c4x A    2 PENQAPKAIFTFSPEDPVTDENVVFNASNSIDEDGTIAYYVWDFGDGYEGTSTTPTITYKYKNPGTYKVKLIVTDNQGASSSFTATIKVTSATGDNSKFNFEDGTLGGFTTSGTNATGVVVNTTEKAFKGERGLKWTVTSEGEGTAELKLDGGTIVVPGTTmTFRIWIPSGAPIAAIQPYImPHTPDWSEVLWNSTWKGYTmVKTDDWNEITLTLPEDVDPTWPQQmGIQVQTIDEGEFTIYVDAIDWLE  251
                                    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
                                                                                                                                                                                           163-MSE             183-MSE             203-MSE                  228-MSE
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  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 2C4X)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2C4X)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2C4X)

(-) Gene Ontology  (6, 6)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (P71140_CLOTM | P71140)
molecular function
    GO:0003824    catalytic activity    Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
    GO:0008810    cellulase activity    Catalysis of the endohydrolysis of (1->4)-beta-D-glucosidic linkages in cellulose, lichenin and cereal beta-D-glucans.
    GO:0004553    hydrolase activity, hydrolyzing O-glycosyl compounds    Catalysis of the hydrolysis of any O-glycosyl bond.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
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.
    GO:0000272    polysaccharide catabolic process    The chemical reactions and pathways resulting in the breakdown of a polysaccharide, a polymer of many (typically more than 10) monosaccharide residues linked glycosidically.

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 Related Entries

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

UniProtKB/Swiss-Prot
        P71140_CLOTM | P71140: 1wmx 2c26 2e0p 2eex 2ej1 2eqd
UniProtKB/TrEMBL
        P71140_CLOTM | P71140: 2c24 2e4t 2eo7

(-) Related Entries Specified in the PDB File

1wmx CRYSTAL STRUCTURE OF FAMILY 30 CARBOHYDRATE BINDING MODULE
1wzx CRYSTAL STRUCTURE OF FAMILY 30 CARBOHYDRATE BINDING MODULE.
2c24 FAMILY 30 CARBOHYDRATE-BINDING MODULE OF CELLULOSOMAL CELLULASE CEL9D-CEL44B OF CLOSTRIDIUM THERMOCELLUM
2c26 STRUCTURAL BASIS FOR THE PROMISCUOUS SPECIFICITY OF THE CARBOHYDRATE-BINDING MODULES FROM THE BETA-SANDWICH SUPER FAMILY