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(-) Description

Title :  CRYSTAL STRUCTURES OF THERMOTOGA MARITIMA CEL5A IN COMPLEX WITH MANNOTRIOSE SUBSTRATE
 
Authors :  T. H. Wu, C. H. Huang, T. P. Ko, H. L. Lai, Y. Ma, Y. S. Cheng, J. R. Liu, R. T. G
Date :  27 Sep 10  (Deposition) - 10 Aug 11  (Release) - 05 Jun 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.29
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Glycosyl Hydrolase Family 5, Cellulase, Biofuel, Hyperthermostable, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. H. Wu, C. H. Huang, T. P. Ko, H. L. Lai, Y. Ma, C. C. Chen, Y. S. Cheng, J. R. Liu, R. T. Guo
Diverse Substrate Recognition Mechanism Revealed By Thermotoga Maritima Cel5A Structures In Complex With Cellotetraose, Cellobiose And Mannotriose
Biochim. Biophys. Acta V. 1814 1832 2011
PubMed-ID: 21839861  |  Reference-DOI: 10.1016/J.BBAPAP.2011.07.020

(-) Compounds

Molecule 1 - ENDOGLUCANASE
    Chains: A, B
    EC Number: 3.2.1.4
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET32 XA/LIC
    Expression System Strain: BL21
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: TM_1751
    Mutation: YES
    Organism Scientific: THERMOTOGA MARITIMA
    Organism Taxid: 243274
    Strain: MSB8

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (1, 3)
No.NameCountTypeFull Name
1BMA3Ligand/IonBETA-D-MANNOSE
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1BMA-1Ligand/IonBETA-D-MANNOSE
Biological Unit 2 (1, 3)
No.NameCountTypeFull Name
1BMA3Ligand/IonBETA-D-MANNOSE

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREALA A:62 , GLU A:99 , HIS A:107 , ASN B:20 , HIS B:95 , HIS B:96 , TYR B:198 , HIS B:205 , TRP B:210 , GLU B:253 , TRP B:286 , HOH B:318 , HOH B:343 , HOH B:424 , HOH B:454 , HOH B:458 , HOH B:463 , HOH B:508 , HOH B:513 , HOH B:600 , HOH B:727 , HOH B:730 , HOH B:839BINDING SITE FOR LINKED RESIDUES B 401 to 403

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3AOF)

(-) Cis Peptide Bonds  (6, 6)

Asymmetric Unit
No.Residues
1Pro A:64 -Pro A:65
2Asn A:199 -Pro A:200
3Trp A:286 -Glu A:287
4Pro B:64 -Pro B:65
5Asn B:199 -Pro B:200
6Trp B:286 -Glu B:287

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3AOF)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3AOF)

(-) Exons   (0, 0)

(no "Exon" information available for 3AOF)

(-) Sequences/Alignments

Asymmetric 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:308
 aligned with Q9X273_THEMA | Q9X273 from UniProtKB/TrEMBL  Length:317

    Alignment length:308
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303        
         Q9X273_THEMA     4 DPFERNKILGRGINIGNALEAPNEGDWGVVIKDEFFDIIKEAGFSHVRIPIRWSTHAYAFPPYKIMDRFFKRVDEVINGALKRGLAVVINIHHYEELMNDPEEHKERFLALWKQIADRYKDYPETLFFEILNEPHGNLTPEKWNELLEEALKVIRSIDKKHTIIIGTAEWGGISALEKLSVPKWEKNSIVTIHYYNPFEFTHQGAEWVEGSEKWLGRKWGSPDDQKHLIEEFNFIEEWSKKNKRPIYIGEFGAYRKADLESRIKWTSFVVREMEKRRWSWAYWEFCSGFGVYDTLRKTWNKDLLEALI 311
               SCOP domains d3aofa_ A: automated matches                                                                                                                                                                                                                                                                                         SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhheeee..................hhhhhhhhhhh..eeee..hhhhhh........hhhhhhhhhhhhhhhhhh..eeeee...hhhhhhhhhhhhhhhhhhhhhhhhhhh.....eeee.........hhhhhhhhhhhhhhhhhhhh....eee..hhhhh..hhhhh........eeeeee...hhhhhh.......hhhhhh.....hhhhhhhhhhhhhhhhhhhhhhh..eeeee.......hhhhhhhhhhhhhhhhhhh..eeee.........ee....eehhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3aof A   4 DPFERNKILGRGINIGNALEAPNEGDWGVVIKDEFFDIIKEAGFSHVRIPIRWSTHAYAFPPYKIMDRFFKRVDEVINGALKRGLAVVINIHHYEELMNDPEEHKERFLALWKQIADRYKDYPETLFFEILNAPHGNLTPEKWNELLEEALKVIRSIDKKHTIIIGTAEWGGISALEKLSVPKWEKNSIVTIHYYNPFEFTHQGAEWVEGSEKWLGRKWGSPDDQKHLIEEFNFIEEWSKKNKRPIYIGEFGAYRKADLESRIKWTSFVVREMEKRRWSLAYWEFCSGFGVYDTLRKTWNKDLLEALI 311
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303        


Chain B from PDB  Type:PROTEIN  Length:308
 aligned with Q9X273_THEMA | Q9X273 from UniProtKB/TrEMBL  Length:317

    Alignment length:308
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303        
         Q9X273_THEMA     4 DPFERNKILGRGINIGNALEAPNEGDWGVVIKDEFFDIIKEAGFSHVRIPIRWSTHAYAFPPYKIMDRFFKRVDEVINGALKRGLAVVINIHHYEELMNDPEEHKERFLALWKQIADRYKDYPETLFFEILNEPHGNLTPEKWNELLEEALKVIRSIDKKHTIIIGTAEWGGISALEKLSVPKWEKNSIVTIHYYNPFEFTHQGAEWVEGSEKWLGRKWGSPDDQKHLIEEFNFIEEWSKKNKRPIYIGEFGAYRKADLESRIKWTSFVVREMEKRRWSWAYWEFCSGFGVYDTLRKTWNKDLLEALI 311
               SCOP domains d3aofb_ B: automated matches                                                                                                                                                                                                                                                                                         SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhheeee...................hhhhhhhhhh..eeee..hhhhhh........hhhhhhhhhhhhhhhhhh..eeeee...hhhhhhhhhhhhhhhhhhhhhhhhhhh.....eeee.........hhhhhhhhhhhhhhhhhh......eee..hhhhh..hhhhh........eeeeeee..hhhhhh.......hhhhhh.....hhhhhhhhhhhhhhhhhhhhhhh..eeeeee......hhhhhhhhhhhhhhhhhhh..eeee.........ee....eehhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3aof B   4 DPFERNKILGRGINIGNALEAPNEGDWGVVIKDEFFDIIKEAGFSHVRIPIRWSTHAYAFPPYKIMDRFFKRVDEVINGALKRGLAVVINIHHYEELMNDPEEHKERFLALWKQIADRYKDYPETLFFEILNAPHGNLTPEKWNELLEEALKVIRSIDKKHTIIIGTAEWGGISALEKLSVPKWEKNSIVTIHYYNPFEFTHQGAEWVEGSEKWLGRKWGSPDDQKHLIEEFNFIEEWSKKNKRPIYIGEFGAYRKADLESRIKWTSFVVREMEKRRWSLAYWEFCSGFGVYDTLRKTWNKDLLEALI 311
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303
   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, 2)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3AOF)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3AOF)

(-) Gene Ontology  (10, 10)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (Q9X273_THEMA | Q9X273)
molecular function
    GO:0008422    beta-glucosidase activity    Catalysis of the hydrolysis of terminal, non-reducing beta-D-glucose residues with release of beta-D-glucose.
    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:0006073    cellular glucan metabolic process    The chemical reactions and pathways involving glucans, polysaccharides consisting only of glucose residues, occurring at the level of an individual cell.
    GO:0009251    glucan catabolic process    The chemical reactions and pathways resulting in the breakdown of glucans, polysaccharides consisting only of glucose residues.
    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:0009986    cell surface    The external part of the cell wall and/or plasma membrane.
    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/TrEMBL
        Q9X273_THEMA | Q9X273: 3amc 3amd 3amg 3azr 3azs 3azt 3mmu 3mmw

(-) Related Entries Specified in the PDB File

3amc 3amd 3amg 3azr 3azs 3azt