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(-) Description

Title :  CELLOBIOHYDROLASE CEL7D (CBH 58) FROM PHANEROCHAETE CHRYSOSPORIUM. CATALYTIC MODULE AT 1.32 ANGSTROM RESOLUTION
 
Authors :  I. G. Munoz, S. L. Mowbray, J. Stahlberg
Date :  05 Nov 01  (Deposition) - 01 Jan 02  (Release) - 29 Mar 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.32
Chains :  Asym./Biol. Unit :  A
Keywords :  Hydrolase, Glycosidase, Cellulase, Beta-Glucanase, Glycoprotein, Cellulose Degradation, Enzyme, Reaction Center, Extracellular, Exoglucanase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  I. G. Munoz, W. Ubhayasekera, H. Henriksson, I. Szabo, G. Pettersson, G. Johansson, S. L. Mowbray, J. Stahlberg
Family 7 Cellobiohydrolases From Phanerochaete Chrysosporium: Crystal Structure Of The Catalytic Module Of Cel7D (Cbh58) At 1. 32 Angstrom Resolution And Homology Models Of The Isozymes.
J. Mol. Biol. V. 314 1097 2001
PubMed-ID: 11743726  |  Reference-DOI: 10.1006/JMBI.2000.5180

(-) Compounds

Molecule 1 - EXOGLUCANASE I
    Atcc: 32629
    Chains: A
    EC Number: 3.2.1.91
    Fragment: CATALYTIC MODULE, RESIDUES 19-450
    Organism Scientific: PHANEROCHAETE CHRYSOSPORIUM
    Organism Taxid: 5306
    Other Details: LINK NAG-ASN (NAG 435 AND ND2 ASN 286) CISPEP TYR 378, CISPEP PRO 379, SSBOND 1 CYS 19 CYS 25, SSBOND 2 CYS 50 CYS 71
    Other Details - Source: EXTRACELLULAR PROTEIN OBTAINED FROM THE FED-BATCH CULTIVATION OF P. CHRYSOSPORIUM STRAIN K3 USING CELLULOSE (AVICEL) AS A CARBON SOURCE
    Strain: K3
    Synonym: 1,4-BETA-D-GLUCAN CELLOBIOHYDROLASE CEL7D, EXOCELLOBIOHYDROLASE I, CELLOBIOHYDROLASE I, CBH58, CBH1, CBH I, CBH1.2

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (2, 2)
No.NameCountTypeFull Name
1NAG1Ligand/IonN-ACETYL-D-GLUCOSAMINE
2PCA1Mod. Amino AcidPYROGLUTAMIC ACID

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:259 , THR A:261 , PHE A:262 , THR A:268 , LEU A:282 , ASN A:286 , ARG A:296 , HOH A:2445 , HOH A:2447BINDING SITE FOR RESIDUE NAG A 435

(-) SS Bonds  (9, 9)

Asymmetric/Biological Unit
No.Residues
1A:19 -A:25
2A:50 -A:71
3A:61 -A:67
4A:135 -A:394
5A:169 -A:205
6A:173 -A:204
7A:225 -A:245
8A:233 -A:238
9A:250 -A:327

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Tyr A:378 -Pro A:379

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 1GPI)

(-) 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:431
 aligned with Q09431_PHACH | Q09431 from UniProtKB/TrEMBL  Length:511

    Alignment length:432
                                    28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348       358       368       378       388       398       408       418       428       438       448  
         Q09431_PHACH    19 QQAGTNTAENHPQLQSQQCTTSGGCKPLSTKVVLDSNWRWVHSTSGYTNCYTGNEWNTSLCPDGKTCAANCALDGADYSGTYGITSTGTALTLKFVTGSNVGSRVYLMADDTHYQLLKLLNQEFTFDVDMSNLPCGLNGALYLSAMDADGGMSKYPGNKAGAKYGTGYCDSQCPKDIKFINGEANVGNWTETGSNTGTGSYGTCCSEMDIWEANNDAAAFTPHPCTTTGQTRCSGDDCARNTGLCDHGDGCDFNSFRMGDKTFLGKGMTVDTSKPFTDVTQFLTNDNTSTGTLSEIRRIYIQNGKVIQNSVANIPGVDPVNSITDNFCAQQKTAFGDTNWFAQKGGLKQMGEALGNGMVLALSIWDDHAANMLWLDSDYPTDKDPSAPGVARGTCATTSGVPSDVESQVPNSQVVFSNIKFGDIGSTFSGTS 450
               SCOP domains d1gpia_ A: Cellobiohydrolase I (cellulase, Endoglucanase I, CBH1)                                                                                                                                                                                                                                                                                                                                                                                SCOP domains
               CATH domains -1gpiA00 A:2-431 1,4-Beta-D-Glucan Cellobiohydrolase I, subunit A                                                                                                                                                                                                                                                                                                                                                                                CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .ee............eeeee...eeeee..eeee.hhhh.eee.......ee..ee......hhhhhhhheee...hhhhhhheee...eeeee.ee..ee.eeeeeeee..ee.......eeeeeeee........eeeeeee...............hhhhhh.............ee..ee.....ee.....ee...eee..eeeeeeee..eeeeeee.......eeehhhhhh.......-................ee....ee....eeeeeeeee........eeeeeeeeee..eeee...............hhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh.eeeeeee......hhhhhh.......................hhhhhhhhh...eeeeeeeeeee......... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1gpi A   1 xQAGTNTAENHPQLQSQQCTTSGGCKPLSTKVVLDSNWRWVHSTSGYTNCYTGNEWDTSLCPDGKTCAANCALDGADYSGTYGITSTGTALTLKFVTGSNVGSRVYLMADDTHYQLLKLLNQEFTFDVDMSNLPCGLNGALYLSAMDADGGMSKYPGNKAGAKYGTGYCDSQCPKDIKFINGEANVGNWTETGSNTGTGSYGTCCSEMDIWEANNDAAAFTPHPCTTTGQTRCSGDDCARNTGLCD-GDGCDFNSFRMGDKTFLGKGMTVDTSKPFTVVTQFLTNDNTSTGTLSEIRRIYIQNGKVIQNSVANIPGVDPVNSITDNFCAQQKTAFGDTNWFAQKGGLKQMGEALGNGMVLALSIWDDHAANMLWLDSDYPTDKDPSAPGVARGTCATTSGVPSDVESQVPNSQVVFSNIKFGDIGSTFSGTS 431
                            |       10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240     | 249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399       409       419       429  
                            |                                                                                                                                                                                                                                                  246 |                                                                                                                                                                                        
                            1-PCA                                                                                                                                                                                                                                                247                                                                                                                                                                                        


Chain A from PDB  Type:PROTEIN  Length:431
 aligned with Q7LIJ0_PHACH | Q7LIJ0 from UniProtKB/TrEMBL  Length:510

    Alignment length:431
                                    28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348       358       368       378       388       398       408       418       428       438       448 
         Q7LIJ0_PHACH    19 QQAGTNTAENHPQLQSQQCTTSGGCKPLSTKVVLDSNWRWVHSTSGYTNCYTGNEWDTSLCPDGKTCAANCALDGADYSGTYGITSTGTALTLKFVTGSNVGSRVYLMADDTHYQLLKLLNQEFTFDVDMSNLPCGLNGALYLSAMDADGGMSKYPGNKAGAKYGTGYCDSQCPKDIKFINGEANVGNWTETGSNTGTGSYGTCCSEMDIWEANNDAAAFTPHPCTTTGQTRCSGDDCARNTGLCDGDGCDFNSFRMGDKTFLGKGMTVDTSKPFTVVTQFLTNDNTSTGTLSEIRRIYIQNGKVIQNSVANIPGVDPVNSITDNFCAQQKTAFGDTNWFAQKGGLKQMGEALGNGMVLALSIWDDHAANMLWLDSDYPTDKDPSAPGVARGTCATTSGVPSDVESQVPNSQVVFSNIKFGDIGSTFSGTS 449
               SCOP domains d1gpia_ A: Cellobiohydrolase I (cellulase, Endoglucanase I, CBH1)                                                                                                                                                                                                                                                                                                                                                                               SCOP domains
               CATH domains -1gpiA00 A:2-431 1,4-Beta-D-Glucan Cellobiohydrolase I, subunit A                                                                                                                                                                                                                                                                                                                                                                               CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .ee............eeeee...eeeee..eeee.hhhh.eee.......ee..ee......hhhhhhhheee...hhhhhhheee...eeeee.ee..ee.eeeeeeee..ee.......eeeeeeee........eeeeeee...............hhhhhh.............ee..ee.....ee.....ee...eee..eeeeeeee..eeeeeee.......eeehhhhhh.......................ee....ee....eeeeeeeee........eeeeeeeeee..eeee...............hhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh.eeeeeee......hhhhhh.......................hhhhhhhhh...eeeeeeeeeee......... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1gpi A   1 xQAGTNTAENHPQLQSQQCTTSGGCKPLSTKVVLDSNWRWVHSTSGYTNCYTGNEWDTSLCPDGKTCAANCALDGADYSGTYGITSTGTALTLKFVTGSNVGSRVYLMADDTHYQLLKLLNQEFTFDVDMSNLPCGLNGALYLSAMDADGGMSKYPGNKAGAKYGTGYCDSQCPKDIKFINGEANVGNWTETGSNTGTGSYGTCCSEMDIWEANNDAAAFTPHPCTTTGQTRCSGDDCARNTGLCDGDGCDFNSFRMGDKTFLGKGMTVDTSKPFTVVTQFLTNDNTSTGTLSEIRRIYIQNGKVIQNSVANIPGVDPVNSITDNFCAQQKTAFGDTNWFAQKGGLKQMGEALGNGMVLALSIWDDHAANMLWLDSDYPTDKDPSAPGVARGTCATTSGVPSDVESQVPNSQVVFSNIKFGDIGSTFSGTS 431
                            |       10        20        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       370       380       390       400       410       420       430 
                            1-PCA
   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  (0, 0)

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

(-) Gene Ontology  (9, 18)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (Q7LIJ0_PHACH | Q7LIJ0)
molecular function
    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.

Chain A   (Q09431_PHACH | Q09431)
molecular function
    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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  1gpi
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 Related Entries

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

UniProtKB/Swiss-Prot
        Q09431_PHACH | Q09431: 1h46
UniProtKB/TrEMBL
        Q7LIJ0_PHACH | Q7LIJ0: 1z3t 1z3v 1z3w

(-) Related Entries Specified in the PDB File

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