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(-) Description

Title :  STRUCTURAL BASIS FOR THE EXOCELLULASE ACTIVITY OF THE CELLOBIOHYDROLASE CBHA FROM C. THERMOCELLUM
 
Authors :  F. D. Schubot, I. A. Kataeva, J. Chang, A. K. Shah, L. G. Ljungdahl, J. P. Rose, B. C. Wang
Date :  04 Dec 03  (Deposition) - 30 Mar 04  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.40
Chains :  Asym./Biol. Unit :  A
Keywords :  Cellobiohydrolase, Cbha, Exocellulase, Family 9 (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  F. D. Schubot, I. A. Kataeva, J. Chang, A. K. Shah, L. G. Ljungdahl, J. P. Rose, B. C. Wang
Structural Basis For The Exocellulase Activity Of The Cellobiohydrolase Cbha From Clostridium Thermocellum
Biochemistry V. 43 1163 2004
PubMed-ID: 14756552  |  Reference-DOI: 10.1021/BI030202I
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - CELLOBIOHYDROLASE
    Chains: A
    EC Number: 3.2.1.91
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21
    Expression System Plasmid: PET-21B
    Expression System Strain: BL-21
    Expression System Taxid: 511693
    Expression System Vector Type: PLASMID
    Mutation: YES
    Organism Scientific: CLOSTRIDIUM THERMOCELLUM
    Organism Taxid: 1515

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 3)

Asymmetric/Biological Unit (2, 3)
No.NameCountTypeFull Name
1CA2Ligand/IonCALCIUM ION
2CTT1Ligand/IonBETA-D-GLUCOPYRANOSYL-(1->4)-BETA-D-GLUCOPYRANOSYL-(1->4)-BETA-D-GLUCOPYRANOSYL-(1->4)-BETA-D-GLUCOPYRANOSE

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:557 , TYR A:559 , ASP A:562 , GLU A:563 , GLY A:617 , HOH A:1133BINDING SITE FOR RESIDUE CA A 818
2AC2SOFTWAREASP A:421 , GLU A:428 , ASN A:431 , TYR A:433 , ASP A:435 , ASP A:438BINDING SITE FOR RESIDUE CA A 819
3AC3SOFTWARETRP A:473 , THR A:474 , LEU A:476 , GLY A:546 , SER A:547 , GLY A:553 , TYR A:555 , GLU A:606 , TRP A:616 , TRP A:678 , HIS A:737 , ARG A:739 , GLN A:795 , THR A:797 , TRP A:800 , HOH A:866 , HOH A:890 , HOH A:954 , HOH A:1076 , HOH A:1092 , HOH A:1135 , HOH A:1139 , HOH A:1180BINDING SITE FOR RESIDUE CTT A 820

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1RQ5)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Glu A:348 -Pro A:349

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1RQ5)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1RQ5)

(-) Exons   (0, 0)

(no "Exon" information available for 1RQ5)

(-) 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:602
 aligned with Q59325_CLOTM | Q59325 from UniProtKB/TrEMBL  Length:1230

    Alignment length:608
                                   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        
         Q59325_CLOTM   208 ILPQPDVRVNQVGYLPEGKKVATVVCNSTQPVKWQLKNAAGVVVLEGYTEPKGLDKDSQDYVHWLDFSDFATEGIGYYFELPTVNSPTNYSHPFDIRKDIYTQMKYDALAFFYHKRSGIPIEMPYAGGEQWTRPAGHIGIEPNKGDTNVPTWPQDDEYAGIPQKNYTKDVTGGWYDAGDHGKYVVNGGIAVWTLMNMYERAKIRGLDNWGPYRDGGMNIPEQNNGYPDILDEARWEIEFFKKMQVTEKEDPSIAGMVHHKIHDFRWTALGMLPHEDPQPRYLRPVSTAATLNFAATLAQSARLWKDYDPTFAADCLEKAEIAWQAALKHPDIYAEYTPGSGGPGGGPYNDDYVGDEFYWAACELYVTTGKDEYKNYLMNSPHYLEMPAKMGENGGANGEDNGLWGCFTWGTTQGLGTITLALVENGLPATDIQKARNNIAKAADRWLENIEEQGYRLPIKQAEDERGGYPWGSNSFILNQMIVMGYAYDFTGDSKYLDGMFDGISYLLGRNAMDQSYVTGYGERPLQNPHDRFWTPQTSKRFPAPPPGIISGGPNSRFEDPTINAAVKKDTPPQKCFIDHTDSWSTNEITVNWNAPFAWVTAYLDEQY 815
               SCOP domains d1rq5a2 A:208-305 Cellulose 1,4-beta-cellobiosidase CbhA, precatalytic domain                     d1rq5a1 A:306-815 Cellulose 1,4-beta-cellobiosidase CbhA                                                                                                                                                                                                                                                                                                                                                                                                                                                                       SCOP domains
               CATH domains 1rq5A01 A:208-305 Immunoglobulins                                                                 1rq5A02 A:306-815  [code=1.50.10.10, no name defined]                                                                                                                                                                                                                                                                                                                                                                                                                                                                          CATH domains
               Pfam domains CelD_N-1rq5A02 A:208-294                                                               ------------Glyco_hydro_9-1rq5A01 A:307-810                                                                                                                                                                                                                                                                                                                                                                                                                                                                                         ----- Pfam domains
         Sec.struct. author ......ee....ee......eeeee.......ee............ee.eeeeee....eeeeeee.......eeee................eee....hhhhhhhhhhhhhhh............hhhhh................ee................ee.............eehhhhhhhhhhhhhhhhhhhhhh...hhhhh.............hhhhhhhhhhhhhhhhhh.....hhhhh.....eeee........hhhhh...eee...hhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhh.......................hhhhhhhhhhhhhhhhhhhhhhhhhhh............------................hhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhh..................hhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhh...................................................hhhhhhhh....hhhhh.............hhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1rq5 A 208 ILPQPDVRVNQVGYLPEGKKVATVVCNSTQPVKWQLKNAAGVVVLEGYTEPKGLDKDSQDYVHWLDFSDFATEGIGYYFELPTVNSPTNYSHPFDIRKDIYTQMKYDALAFFYHKRSGIPIEMPYAGGEQWTRPAGHIGIEPNKGDTNVPTWPQDDEYAGIPQKNYTKDVTGGWYDAGDHGKYVVNGGIAVWTLMNMYERAKIRGLDNWGPYRDGGMNIPEQNNGYPDILDEARWEIEFFKKMQVTEKEDPSIAGMVHHKIHDFRWTALGMLPHEDPQPRYLRPVSTAATLNFAATLAQSARLWKDYDPTFAADCLEKAEIAWQAALKHPDIYAEYTPGSGGPGGGPYNDDYVGDEFYWAACELYVTTGKDEYKNYLMNSPHYLEMPAKMG------GEDNGLWGCFTWGTTQGLGTITLALVENGLPATDIQKARNNIAKAADRWLENIEEQGYRLPIKQAEDERGGYPWGSNSFILNQMIVMGYAYDFTGDSKYLDGMFDGISYLLGRNAMDQSYVTGYGERPLQNPHDRFWTPQTSKRFPAPPPGIISGGPNSRFEDPTINAAVKKDTPPQKCFIDHTDSWGTNQITVNWNAPFAWVTAYLDEQY 815
                                   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        
                                                                                                                                                                                                                                                                                                                                                                                                                                598    605
   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  (2, 2)

Asymmetric/Biological Unit
(-)
Class: All alpha proteins (14657)
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (2, 2)

Asymmetric/Biological Unit
(-)
Class: Mainly Alpha (13335)
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (2, 2)

Asymmetric/Biological Unit
(-)
Clan: 6_Hairpin (120)
(-)
Clan: no clan defined [family: CelD_N] (3)

(-) Gene Ontology  (11, 11)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (Q59325_CLOTM | Q59325)
molecular function
    GO:0030246    carbohydrate binding    Interacting selectively and non-covalently with any carbohydrate, which includes monosaccharides, oligosaccharides and polysaccharides as well as substances derived from monosaccharides by reduction of the carbonyl group (alditols), by oxidation of one or more hydroxy groups to afford the corresponding aldehydes, ketones, or carboxylic acids, or by replacement of one or more hydroxy group(s) by a hydrogen atom. Cyclitols are generally not regarded as carbohydrates.
    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:0030248    cellulose binding    Interacting selectively and non-covalently with cellulose.
    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.
    GO:0016798    hydrolase activity, acting on glycosyl bonds    Catalysis of the hydrolysis of any glycosyl bond.
    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:0008152    metabolic process    The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.
    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

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UniProtKB/TrEMBL
        Q59325_CLOTM | Q59325: 2ylk 3zqx 4c8x

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