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(-) Description

Title :  ENDOGLUCANASE A FROM CLOSTRIDIUM THERMOCELLUM AT ATOMIC RESOLUTION
 
Authors :  A. Schmidt, A. Gonzalez, R. J. Morris, M. Costabel, P. M. Alzari, V. S. Lamzin
Date :  26 Nov 01  (Deposition) - 04 Sep 02  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.03
Chains :  Asym./Biol. Unit :  A
Keywords :  Endoglucanase Family 8, Hg Derivative, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Schmidt, A. Gonzalez, R. J. Morris, M. Costabel, P. M. Alzari, V. S. Lamzin
Advantages Of High-Resolution Phasing: Mad To Atomic Resolution.
Acta Crystallogr. , Sect. D V. 58 1433 2002
PubMed-ID: 12198299  |  Reference-DOI: 10.1107/S0907444902011368
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - ENDOGLUCANASE A
    Chains: A
    EC Number: 3.2.1.4
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: RESIDUES 1-363
    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, 13)

Asymmetric/Biological Unit (2, 13)
No.NameCountTypeFull Name
1CL7Ligand/IonCHLORIDE ION
2HG6Ligand/IonMERCURY (II) ION

(-) Sites  (13, 13)

Asymmetric Unit (13, 13)
No.NameEvidenceResiduesDescription
01AC1SOFTWARETHR A:254 , ALA A:266 , CYS A:270 , CL A:1007 , HOH A:1194BINDING SITE FOR RESIDUE HG A 1001
02AC2SOFTWAREILE A:211 , CYS A:229 , THR A:230 , CL A:1012BINDING SITE FOR RESIDUE HG A 1002
03AC3SOFTWAREPHE A:184 , CYS A:208 , CL A:1011 , CL A:1013BINDING SITE FOR RESIDUE HG A 1003
04AC4SOFTWARELEU A:70 , CYS A:74 , LEU A:350 , PHE A:356 , HG A:1005 , CL A:1009BINDING SITE FOR RESIDUE HG A 1004
05AC5SOFTWARELEU A:70 , VAL A:73 , CYS A:74 , HG A:1004 , CL A:1010BINDING SITE FOR RESIDUE HG A 1005
06AC6SOFTWARETHR A:119 , CYS A:159 , ASP A:171 , CL A:1014 , HOH A:1424 , HOH A:1738BINDING SITE FOR RESIDUE HG A 1006
07AC7SOFTWARETYR A:250 , THR A:254 , ALA A:266 , ASN A:269 , HG A:1001BINDING SITE FOR RESIDUE CL A 1007
08AC8SOFTWARELEU A:347 , LEU A:350 , PHE A:356 , HG A:1004BINDING SITE FOR RESIDUE CL A 1009
09AC9SOFTWARELEU A:70 , VAL A:73 , PHE A:131 , HG A:1005BINDING SITE FOR RESIDUE CL A 1010
10BC1SOFTWARETYR A:165 , LEU A:167 , VAL A:204 , LYS A:207 , CYS A:208 , HG A:1003 , CL A:1013BINDING SITE FOR RESIDUE CL A 1011
11BC2SOFTWARETHR A:179 , ILE A:211 , THR A:230 , ALA A:231 , HG A:1002BINDING SITE FOR RESIDUE CL A 1012
12BC3SOFTWAREVAL A:166 , LEU A:167 , PHE A:184 , HG A:1003 , CL A:1011BINDING SITE FOR RESIDUE CL A 1013
13BC4SOFTWAREALA A:117 , ALA A:118 , THR A:119 , GLY A:170 , ASP A:171 , HG A:1006 , HOH A:1424BINDING SITE FOR RESIDUE CL A 1014

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1IS9)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1IS9)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1IS9)

(-) PROSITE Motifs  (1, 1)

Asymmetric/Biological Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1GLYCOSYL_HYDROL_F8PS00812 Glycosyl hydrolases family 8 signature.GUNA_CLOTH150-168  1A:118-136

(-) Exons   (0, 0)

(no "Exon" information available for 1IS9)

(-) 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:358
 aligned with GUNA_CLOTH | A3DC29 from UniProtKB/Swiss-Prot  Length:477

    Alignment length:363
                                    42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392   
           GUNA_CLOTH    33 AGVPFNTKYPYGPTSIADNQSEVTAMLKAEWEDWKSKRITSNGAGGYKRVQRDASTNYDTVSEGMGYGLLLAVCFNEQALFDDLYRYVKSHFNGNGLMHWHIDANNNVTSHDGGDGAATDADEDIALALIFADKLWGSSGAINYGQEARTLINNLYNHCVEHGSYVLKPGDRWGGSSVTNPSYFAPAWYKVYAQYTGDTRWNQVADKCYQIVEEVKKYNNGTGLVPDWCTASGTPASGQSYDYKYDATRYGWRTAVDYSWFGDQRAKANCDMLTKFFARDGAKGIVDGYTIQGSKISNNHNASFIGPVAAASMTGYDLNFAKELYRETVAVKDSEYYGYYGNSLRLLTLLYITGNFPNPLSDL 395
               SCOP domains d1is9a_ A: CelA c     ellulase                                                                                                                                                                                                                                                                                                                                              SCOP domains
               CATH domains 1is9A00 A:1-363       [code=1.50.10.10, no name defined]                                                                                                                                                                                                                                                                                                                    CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .................-----hhhhhhhhhhhhhhhhee........ee..hhhhh..eehhhhhhhhhhhhhh.hhhhhhhhhhhhhh..........ee...............hhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhh...................hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhh.............................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..................hhhhhhhhhh...hhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhh.......... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------GLYCOSYL_HYDROL_F8 ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1is9 A   1 AGVPFNTKYPYGPTSIA-----VTAMLKAEWEDWKSKRITSNGAGGYKRVQRDASTNYDTVSEGMGYGLLLAVCFNEQALFDDLYRYVKSHFNGNGLMHWHIDANNNVTSHDGGDGAATDADEDIALALIFADKQWGSSGAINYGQEARTLINNLYNHCVEHGSYVLKPGDRWGGSSVTNPSYFAPAWYKVYAQYTGDTRWNQVADKCYQIVEEVKKYNNGTGLVPDWCTASGTPASGQSYDYKYDATRYGWRTAVDYSWFGDQRAKANCDMLTKFFARDGAKGIVDGYTIQGSKISNNHNASFIGPVAAASMTGYDLNFAKELYRETVAVKDSEYYGYYGNSLRLLTLLYITGNFPNPLSDL 363
                                    10      |  -  |     30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360   
                                           17    23                                                                                                                                                                                                                                                                                                                                                    


Chain A from PDB  Type:PROTEIN  Length:358
 aligned with GUNA_CLOTM | P0C2S2 from UniProtKB/Swiss-Prot  Length:14

    Alignment length:358
                                        14                                                                                                                                                                                                                                                                                                                                                        
                                    10   |     -         -         -         -         -         -         -         -         -         -         -         -         -         -         -         -         -         -         -         -         -         -         -         -         -         -         -         -         -         -         -         -         -         -        
           GUNA_CLOTM     1 AGVPFNTKTPYGPT--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------   -
               SCOP domains d1is9a_ A: CelA cellulase                                                                                                                                                                                                                                                                                                                                              SCOP domains
               CATH domains 1is9A00 A:1-363  [code=1.50.10.10, no name defined]                                                                                                                                                                                                                                                                                                                    CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .................hhhhhhhhhhhhhhhhee........ee..hhhhh..eehhhhhhhhhhhhhh.hhhhhhhhhhhhhh..........ee...............hhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhh...................hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhh.............................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..................hhhhhhhhhh...hhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhh.......... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1is9 A   1 AGVPFNTKYPYGPTSIAVTAMLKAEWEDWKSKRITSNGAGGYKRVQRDASTNYDTVSEGMGYGLLLAVCFNEQALFDDLYRYVKSHFNGNGLMHWHIDANNNVTSHDGGDGAATDADEDIALALIFADKQWGSSGAINYGQEARTLINNLYNHCVEHGSYVLKPGDRWGGSSVTNPSYFAPAWYKVYAQYTGDTRWNQVADKCYQIVEEVKKYNNGTGLVPDWCTASGTPASGQSYDYKYDATRYGWRTAVDYSWFGDQRAKANCDMLTKFFARDGAKGIVDGYTIQGSKISNNHNASFIGPVAAASMTGYDLNFAKELYRETVAVKDSEYYGYYGNSLRLLTLLYITGNFPNPLSDL 363
                                    10      ||25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355        
                                           17|                                                                                                                                                                                                                                                                                                                                                    
                                            23
   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  (1, 1)

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

(-) CATH Domains  (1, 1)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1IS9)

(-) Gene Ontology  (9, 16)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (GUNA_CLOTM | P0C2S2)
molecular function
    GO:0008810    cellulase activity    Catalysis of the endohydrolysis of (1->4)-beta-D-glucosidic linkages in cellulose, lichenin and cereal beta-D-glucans.
    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.
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:0030245    cellulose catabolic process    The chemical reactions and pathways resulting in the breakdown of cellulose, a linear beta1-4 glucan of molecular mass 50-400 kDa with the pyranose units in the -4C1 conformation.
    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.

Chain A   (GUNA_CLOTH | A3DC29)
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: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.
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:0030245    cellulose catabolic process    The chemical reactions and pathways resulting in the breakdown of cellulose, a linear beta1-4 glucan of molecular mass 50-400 kDa with the pyranose units in the -4C1 conformation.
    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

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

UniProtKB/Swiss-Prot
        GUNA_CLOTH | A3DC29: 1cem 1kwf
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(-) Related Entries Specified in the PDB File

1cem 1CEM CONTAINS ENDOGLUCANASE A FROM CLOSTRIDIUM THERMOCELLUM