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(-) Description

Title :  THE STRUCTURE OF ASPERGILLUS NIGER ENDOGLUCANASE-PALLADIUM COMPLEX
 
Authors :  S. Khademi, D. Zhang, S. M. Swanson, A. Wartenberg, C. Witte, E. F. Meyer
Date :  10 Jan 02  (Deposition) - 21 Jan 03  (Release) - 01 Feb 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.50
Chains :  Asym./Biol. Unit :  A
Keywords :  Endoglucanase, Cellulase, Aspergillus Niger, Family 9, (Alpha/Alpha) 6, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Khademi, D. Zhang, S. M. Swanson, A. Wartenberg, K. Witte, E. F. Meye
Determination Of The Structure Of An Endoglucanase From Aspergillus Niger And Its Mode Of Inhibition By Palladium Chloride.
Acta Crystallogr. , Sect. D V. 58 660 2002
PubMed-ID: 11914491  |  Reference-DOI: 10.1107/S0907444902003360

(-) Compounds

Molecule 1 - ENDOGLUCANASE A
    Chains: A
    EC Number: 3.2.1.4
    Fragment: ASPERGILLUS NIGER ENDOGLUCANASE
    Organism Scientific: ASPERGILLUS NIGER
    Organism Taxid: 5061
    Strain: CBS 554.65

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 3)

Asymmetric/Biological Unit (1, 3)
No.NameCountTypeFull Name
1PD3Ligand/IonPALLADIUM ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:116 , MET A:118 , GLU A:204BINDING SITE FOR RESIDUE PD A 224
2AC2SOFTWARETYR A:34 , HIS A:46BINDING SITE FOR RESIDUE PD A 225
3AC3SOFTWAREGLN A:1 , THR A:2 , MET A:3 , CYS A:4 , CYS A:32 , VAL A:33 , TYR A:34BINDING SITE FOR RESIDUE PD A 226

(-) SS Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1A:4 -A:32

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Pro A:13 -Pro A:14
2Gly A:209 -Pro A:210

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1KS4)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1KS4)

(-) Exons   (0, 0)

(no "Exon" information available for 1KS4)

(-) 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:223
 aligned with O74705_ASPNG | O74705 from UniProtKB/TrEMBL  Length:239

    Alignment length:223
                                    26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236   
         O74705_ASPNG    17 QTMCSQYDSASSPPYSVNQNLWGEYQGTGSQCVYVDKLSSSGASWHTEWTWSGGEGTVKSYSNSGVTFNKKLVSDVSSIPTSVEWKQDNTNVNADVAYDLFTAANVDHATSSGDYELMIWLARYGNIQPIGKQIATATVGGKSWEVWYGSTTQAGAEQRTYSFVSESPINSYSGDINAFFSYLTQNQGFPASSQYLINLQFGTEAFTGGPATFTVDNWTASVN 239
               SCOP domains d1ks4a_ A: Family 12 endo-1,4-beta-glucanase (cellulase) catalytic domain                                                                                                                                                       SCOP domains
               CATH domains 1ks4A00 A:1-223  [code=2.60.120.180, no name defined]                                                                                                                                                                           CATH domains
               Pfam domains -----------------------------------------------------------------Glyco_hydro_12-1ks4A01 A:66-223                                                                                                                                Pfam domains
         Sec.struct. author .ee...eeeeee..eeeeee..hhhhheeeeeeeeeeee..eeeeeeeeeee.......eeeeeee....ee.hhh...eeeeeeeee....eeeeeeeeeee...........eeeeee.eee.......eeeeeeee..eeeeeeeeeeee..eeeeeeeee......eeeeehhhhhhhhhhhh..hhhh.eeeeeeeeeeee...eeeeeeeeeee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ks4 A   1 QTMCSQYDSASSPPYSVNQNLWGEYQGTGSQCVYVDKLSSSGASWHTEWTWSGGEGTVKSYSNSGVTFNKKLVSDVSSIPTSVEWKQDNTNVNADVAYDLFTAANVDHATSSGDYELMIWLARYGNIQPIGKQIATATVGGKSWEVWYGSTTQAGAEQRTYSFVSESPINSYSGDINAFFSYLTQNQGFPASSQYLINLQFGTEAFTGGPATFTVDNWTASVN 223
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220
   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 beta proteins (24004)

(-) CATH Domains  (1, 1)

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

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: Concanavalin (293)

(-) Gene Ontology  (7, 7)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (O74705_ASPNG | O74705)
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.
    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: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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  1ks4
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  3.2.1.4
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 Related Entries

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

UniProtKB/TrEMBL
        O74705_ASPNG | O74705: 1ks5

(-) Related Entries Specified in the PDB File

1ks5 STRUCTURE OF ASPERGILLUS NIGER ENDOGLUCANASE