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(-)Asym./Biol. Unit
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(-) Description

Title :  FAMILY GH5 ENDO-BETA-MANNANASE FROM LYCOPERSICON ESCULENTUM (TOMATO)
 
Authors :  A. J. Oakley, R. Bourgault, J. D. Bewley, M. C. J. Wilce
Date :  14 Nov 03  (Deposition) - 19 Apr 05  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.50
Chains :  Asym./Biol. Unit :  A
Keywords :  Endo-Beta-Mannase, Retaining, Glycoside Hydrolase Family 5, Mannan (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. Bourgault, A. J. Oakley, J. D. Bewley, M. C. Wilce
Three-Dimensional Structure Of (1, 4)-Beta-D-Mannan Mannanohydrolase From Tomato Fruit.
Protein Sci. V. 14 1233 2005
PubMed-ID: 15840830  |  Reference-DOI: 10.1110/PS.041260905
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - ENDO-BETA-MANNANASE
    Chains: A
    EC Number: 3.2.1.78
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PMAL-C2X
    Expression System Strain: DH5-ALPHA
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: RESIDUES 27-399
    Gene: LEMAN4A
    Organism Scientific: SOLANUM LYCOPERSICUM
    Organism Taxid: 4081

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 1RH9)

(-) Sites  (0, 0)

(no "Site" information available for 1RH9)

(-) SS Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1A:347 -A:354

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Trp A:360 -Gln A:361

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1RH9)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1RH9)

(-) Exons   (0, 0)

(no "Exon" information available for 1RH9)

(-) 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:370
 aligned with MAN4_SOLLC | Q8L5J1 from UniProtKB/Swiss-Prot  Length:399

    Alignment length:370
                                    39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399
           MAN4_SOLLC    30 NNFVYTDGTHFALNGKSLYINGFNAYWLMYIAYDPSTRIKVTNTFQQASKYKMNVARTWAFSHGGSRPLQSAPGVYNEQMFQGLDFVISEAKKYGIHLIMSLVNNWDAFGGKKQYVEWAVQRGQKLTSDDDFFTNPMVKGFYKNNVKVVLTRVNTITKVAYKDDPTILSWELINEPRCPSDLSGKTFQNWVLEMAGYLKSIDSNHLLEIGLEGFYGNDMRQYNPNSYIFGTNFISNNQVQGIDFTTIHMYPNQWLPGLTQEAQDKWASQWIQVHIDDSKMLKKPLLIAEFGKSTKTPGYTVAKRDNYFEKIYGTIFNCAKSGGPCGGGLFWQVLGQGMSSFDDGYQVVLQESPSTSRVILLQSLRLSKLS 399
               SCOP domains d1rh9a1 A:30-399 Beta-mannanase                                                                                                                                                                                                                                                                                                                                                    SCOP domains
               CATH domains 1rh9A00 A:30-399 Glycosidases                                                                                                                                                                                                                                                                                                                                                      CATH domains
               Pfam domains ------Cellulase-1rh9A01 A:36-350                                                                                                                                                                                                                                                                                                 ------------------------------------------------- Pfam domains
         Sec.struct. author ....eee..eeee..eee.eeeee..hhhhhhhh...hhhhhhhhhhhhhh...eeeee..........eee..eehhhhhhhhhhhhhhhhhh..eeeee.........hhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhh..eeeee............hhhhhhhhhhhhhhhhhhh...eee.......hhhhhhhhhhhh....hhhhhhh......eeee.hhhhhh...hhhhhhhhhhhhhhhhhhhhhhhh..eeeee..........hhhhhhhhhhhhhhhhhhhhhh...eeeeee.......hhhhh.....hhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1rh9 A  30 NNFVYTDGTHFALNGKSLYINGFNAYWLMYIAYDPSTRIKVTNTFQQASKYKMNVARTWAFSHGGSRPLQSAPGVYNEQMFQGLDFVISEAKKYGIHLIMSLVNNWDAFGGKKQYVEWAVQRGQKLTSDDDFFTNPMVKGFYKNNVKVVLTRVNTITKVAYKDDPTILSWELINEPRCPSDLSGKTFQNWVLEMAGYLKSIDSNHLLEIGLEGFYGNDMRQYNPNSYIFGTNFISNNQVQGIDFTTIHMYPNQWLPGLTQEAQDKWASQWIQVHIDDSKMLKKPLLIAEFGKSTKTPGYTVAKRDNYFEKIYGTIFNCAKSGGPCGGGLFWQVLGQGMSSFDDGYQVVLQESPSTSRVILLQSLRLSKLS 399
                                    39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399
   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: Glyco_hydro_tim (488)

(-) Gene Ontology  (8, 8)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (MAN4_SOLLC | Q8L5J1)
molecular function
    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:0016985    mannan endo-1,4-beta-mannosidase activity    Catalysis of the random hydrolysis of (1->4)-beta-D-mannosidic linkages in mannans, galactomannans, glucomannans, and galactoglucomannans.
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:0046355    mannan catabolic process    The chemical reactions and pathways resulting in the breakdown of mannan, the main hemicellulose of soft (coniferous) wood, made up of D-mannose, D-glucose and D-galactose.
    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.
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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    Trp A:360 - Gln A:361   [ RasMol ]  
 

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  1rh9
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 Related Entries

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

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(-) Related Entries Specified in the PDB File

1bqc FAMILY GH5 MANNANASE FROM THERMOMONOSPORA FUSCA
1qnp FAMILY GH5 MANNANASE FROM TRICHODERMA REESEI