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(-) Description

Title :  MUTANT D416A OF THE CELLOBIOHYDROLASE CEL6A FROM HUMICOLA INSOLENS IN COMPLEX WITH A CELLOBIO-DERIVED ISOFAGOMINE AT 1.3 ANGSTROM RESOLUTION
 
Authors :  A. Varrot, J. Macdonald, R. V. Stick, G. Pell, H. J. Gilbert, G. J. Davies
Date :  09 Feb 03  (Deposition) - 22 May 03  (Release) - 15 Jul 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.31
Chains :  Asym./Biol. Unit :  A
Keywords :  Hydrolase, Cellulose Degradation, Cellobiohydrolase, Cellulase, Glycoside Hydrolase Family 6 (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Varrot, J. Macdonald, R. V. Stick, G. Pell, H. J. Gilbert, G. J. Davies
Distortion Of A Cellobio-Derived Isofagomine Highlights The Potential Conformational Itinerary Of Inverting Beta-Glucosidases
Chem. Commun. (Camb. ) V. 21 946 2003
PubMed-ID: 12744312  |  Reference-DOI: 10.1039/B301592K

(-) Compounds

Molecule 1 - CELLOBIOHYDROLASE II
    Chains: A
    EC Number: 3.2.1.91
    Engineered: YES
    Expression System: ASPERGILLUS ORYZAE
    Expression System Plasmid: UNDER CONTROL OF THE FUNGAL AMYLASE PROMOTER AND AMYLOGLUCOSIDASE TERMINATOR
    Expression System Taxid: 5062
    Fragment: CATALYTIC CORE DOMAIN, RESIDUES 89-450
    Mutation: YES
    Organism Scientific: HUMICOLA INSOLENS
    Organism Taxid: 34413
    Other Details: N-LINKED N-ACETYLGLUCOSAMINE ON RESIDUE ASN 141
    Synonym: CELLULASE, CEL6A

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 7)

Asymmetric/Biological Unit (4, 7)
No.NameCountTypeFull Name
1BGC2Ligand/IonBETA-D-GLUCOSE
2CA2Ligand/IonCALCIUM ION
3IFM2Ligand/Ion5-HYDROXYMETHYL-3,4-DIHYDROXYPIPERIDINE
4NAG1Ligand/IonN-ACETYL-D-GLUCOSAMINE

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHOH A:2006 , HOH A:2255 , HOH A:2420 , HOH A:2421 , HOH A:2429BINDING SITE FOR RESIDUE CA A 456
2AC2SOFTWAREASN A:447 , HOH A:2299 , HOH A:2508 , HOH A:2509BINDING SITE FOR RESIDUE CA A 457
3AC3SOFTWAREASN A:141 , ASP A:145 , ASN A:199 , HOH A:2087 , HOH A:2089 , HOH A:2199 , HOH A:2517BINDING SITE FOR MONO-SACCHARIDE NAG A 451 BOUND TO ASN A 141
4AC4SOFTWARETRP A:137 , ASP A:139 , TYR A:174 , SER A:186 , ALA A:309 , LYS A:399 , PRO A:400 , GLU A:403 , ASP A:405 , GLY A:432 , BGC A:455 , HOH A:2257 , HOH A:2438 , HOH A:2439 , HOH A:2459BINDING SITE FOR POLY-SACCHARIDE RESIDUES IFM A 452 THROUGH BGC A 453
5AC5SOFTWAREASP A:180 , ASP A:226 , ASN A:234 , HIS A:271 , ASN A:310 , TRP A:371 , IFM A:452 , HOH A:2164 , HOH A:2165 , HOH A:2264 , HOH A:2404 , HOH A:2519 , HOH A:2520 , HOH A:2521BINDING SITE FOR POLY-SACCHARIDE RESIDUES IFM A 454 THROUGH BGC A 455

(-) SS Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1A:181 -A:240
2A:372 -A:419

(-) Cis Peptide Bonds  (5, 5)

Asymmetric/Biological Unit
No.Residues
1Asn A:164 -Pro A:165
2Ser A:324 -Pro A:325
3Gln A:361 -Pro A:362
4Lys A:426 -Pro A:427
5Asn A:447 -Pro A:448

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (2, 2)

Asymmetric/Biological Unit (2, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1GLYCOSYL_HYDROL_F6_1PS00655 Glycosyl hydrolases family 6 signature 1.GUX6_HUMIN198-214  1A:172-188
2GLYCOSYL_HYDROL_F6_2PS00656 Glycosyl hydrolases family 6 signature 2.GUX6_HUMIN246-255  1A:220-229

(-) Exons   (0, 0)

(no "Exon" information available for 1OCN)

(-) 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:360
 aligned with GUX6_HUMIN | Q9C1S9 from UniProtKB/Swiss-Prot  Length:476

    Alignment length:360
                                   126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426       436       446       456       466       476
           GUX6_HUMIN   117 GNPFEGVQLWANNYYRSEVHTLAIPQITDPALRAAASAVAEVPSFQWLDRNVTVDTLLVETLSEIRAANQAGANPPYAAQIVVYDLPDRDCAAAASNGEWAIANNGANNYKGYINRIREILISFSDVRTILVIEPDSLANMVTNMNVAKCSGAASTYRELTIYALKQLDLPHVAMYMDAGHAGWLGWPANIQPAAELFAKIYEDAGKPRAVRGLATNVANYNAWSISSPPPYTSPNPNYDEKHYIEAFRPLLEARGFPAQFIVDQGRSGKQPTGQKEWGHWCNAIGTGFGMRPTANTGHQYVDAFVWVKPGGECDGTSDTTAARYDYHCGLEDALKPAPEAGQWFQAYFEQLLRNANPPF 476
               SCOP domains d1ocna_ A: Cellobiohydrolase II (Cel6)                                                                                                                                                                                                                                                                                                                                   SCOP domains
               CATH domains 1ocnA00 A:91-450 7-stranded glycosidases (cellulases)                                                                                                                                                                                                                                                                                                                    CATH domains
               Pfam domains ----------Glyco_hydro_6-1ocnA01 A:101-417                                                                                                                                                                                                                                                                                              --------------------------------- Pfam domains
         Sec.struct. author .......ee..hhhhhhhhhhhhhhhh.hhhhhhhhhhhh.....eee.hhhhh.hhhhhhhhhhhhhhhh.....eeeeeee.................hhhhhhhhhhhhhhhhhhhhhhhh....eeeee..hhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhh....eeeeee........hhhhhhhhhhhhhhhhhhh.....eeeeee.............hhhhh.....hhhhhhhhhhhhhhhh....eeeee.....................................eeeee...................hhhhhh.............hhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------GLYCOSYL_HYDROL_F-------------------------------GLYCOSYL_H----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1ocn A  91 GNPFEGVQLWANNYYRSEVHTLAIPQITDPALRAAASAVAEVPSFQWLDRNVTVDTLLVQTLSEIREANQAGANPQYAAQIVVYDLPDRDCAAAASNGEWAIANNGVNNYKAYINRIREILISFSDVRTILVIEPDSLANMVTNMNVPKCSGAASTYRELTIYALKQLDLPHVAMYMDAGHAGWLGWPANIQPAAELFAKIYEDAGKPRAVRGLATNVANYNAWSVSSPPPYTSPNPNYDEKHYIEAFRPLLEARGFPAQFIVDQGRSGKQPTGQKEWGHWCNAIGTGFGMRPTANTGHQYVDAFVWVKPGGECDGTSDTTAARYAYHCGLEDALKPAPEAGQWFNEYFIQLLRNANPPF 450
                                   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       370       380       390       400       410       420       430       440       450
   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: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: no clan defined [family: Glyco_hydro_6] (10)

(-) Gene Ontology  (10, 10)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (GUX6_HUMIN | Q9C1S9)
molecular function
    GO:0016162    cellulose 1,4-beta-cellobiosidase activity    Catalysis of the hydrolysis of (1->4)-beta-D-glucosidic linkages in cellulose and cellotetraose, releasing cellobiose from the non-reducing ends of the chains.
    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.
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.
cellular component
    GO:0005576    extracellular region    The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.

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 Related Entries

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

UniProtKB/Swiss-Prot
        GUX6_HUMIN | Q9C1S9: 1bvw 1gz1 1oc5 1oc6 1oc7 1ocb 1ocj 2bvw 4i5r 4i5u

(-) Related Entries Specified in the PDB File

1bvw CELLOBIOHYDROLASE II (CEL6A) FROM HUMICOLA INSOLENS
1gz1 MUTANT D416A OF THE CELLOBIOHYDROLASE CEL6A FROM HUMICOLA INSOLENS IN COMPLEX WITH METHYL-CELLOBIOSYL-4-DEOXY-4-THIO-BETA-D- CELLOBIOSIDE
1hgw CEL6A D175A MUTANT
1hgy CEL6A D221A MUTANT
1oc5 D405N MUTANT OF THE CELLOBIOHYDROLASE CEL6A FROM HUMICOLA INSOLENS IN COMPLEX WITH METHYL-CELLOBIOSYL-4-DEOXY-4-THIO-BETA-D- CELLOBIOSIDE
1oc6 STRUCTURE NATIVE OF THE D405N MUTANT OF THE CELLOBIOHYDROLASE CEL6A FROM HUMICOLA INSOLENS AT 1.5 ANGSTROM RESOLUTION
1oc7 D405N MUTANT OF THE CELLOBIOHYDROLASE CEL6A FROM HUMICOLA INSOLENS IN COMPLEX WITH METHYL-TETRATHIO-ALPHA-D-CELLOPENTOSIDE AT 1 .1 ANGSTROM RESOLUTION
1ocb STRUCTURE OF THE WILD-TYPE CELLOBIOHYDROLASE CEL6A FROM HUMICOLAS INSOLENS IN COMPLEX WITH A FLUORESCENT SUBSTRATE
1ocj MUTANT D416A OF THE CELLOBIOHYDROLASE CEL6A FROM HUMICOLA INSOLENS IN COMPLEX WITH A THIOPENTASACCHARIDE AT 1.3 ANGSTROM RESOLUTION
1ocn MUTANT D416A OF THE CELLOBIOHYDROLASE CEL6A FROM HUMICOLA INSOLENS IN COMPLEX WITH A CELLOBIO-DERIVED ISOFAGOMINE AT 1.3 ANGSTROM RESOLUTION
1qjw CEL6A (Y169F) WITH A NON-HYDROLYSABLE CELLOTETRAOSE
1qk0 CEL6A (Y169F) WITH A NON-HYDROLYSABLE CELLOTETRAOSE
1qk2 WILD TYPE CEL6A WITH A NON-HYDROLYSABLE CELLOTETRAOSE
2bvw CELLOBIOHYDROLASE II (CEL6A) FROM HUMICOLA INSOLENS IN COMPLEX WITH GLUCOSE AND CELLOTETRAOSE