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(-) Description

Title :  STRUCTURE OF IODINATED CBM25 FROM BACILLUS HALODURANS AMYLASE
 
Authors :  A. B. Boraston, M. Healey, J. Klassen, E. Ficko-Blean, A. Lammerts Van Bueren, V. Law
Date :  12 Oct 05  (Deposition) - 17 Oct 05  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.39
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Carbohydrate-Binding Module, Starch Binding, Carbohydrate Binding, Glycoside Hydrolase, Amylose, Amylopectin, Malto-Oligosaccharide, Carbohydrate- Binding Module (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. B. Boraston, M. Healey, J. Klassen, E. Ficko-Blean, A. Lammerts Van Bueren, V. Law
A Structural And Functional Analysis Of Alpha- Glucan Recognition By Family 25 And 26 Carbohydrate-Binding Modules Reveals A Conserved Mode Of Starch Recognition
J. Biol. Chem. V. 281 587 2006
PubMed-ID: 16230347  |  Reference-DOI: 10.1074/JBC.M509958200

(-) Compounds

Molecule 1 - ALPHA-AMYLASE G-6
    Atcc: BAA-125
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET-BHCBM6
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector: PET 28A
    Fragment: CARBOHYDRATE-BINDING MODULE, RESIDUES 863-958
    Organism Scientific: BACILLUS HALODURANS
    Organism Taxid: 272558
    Strain: C-125
    Synonym: FAMILY 25 CARBOHYDRATE-BINDING MODULE
 
Molecule 2 - ALPHA-AMYLASE G-6
    Atcc: BAA-125
    Chains: B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET-BHCBM6
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector: PET 28A
    Fragment: CARBOHYDRATE-BINDING MODULE, RESIDUES 863-958
    Organism Scientific: BACILLUS HALODURANS
    Organism Taxid: 272558
    Strain: C-125
    Synonym: FAMILY 25 CARBOHYDRATE-BINDING MODULE

 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  (2, 5)

Asymmetric Unit (2, 5)
No.NameCountTypeFull Name
1IOD3Ligand/IonIODIDE ION
2TYI2Mod. Amino Acid3,5-DIIODOTYROSINE
Biological Unit 1 (1, 2)
No.NameCountTypeFull Name
1IOD-1Ligand/IonIODIDE ION
2TYI2Mod. Amino Acid3,5-DIIODOTYROSINE
Biological Unit 2 (1, 3)
No.NameCountTypeFull Name
1IOD3Ligand/IonIODIDE ION
2TYI-1Mod. Amino Acid3,5-DIIODOTYROSINE

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHOH A:2019 , HOH A:2020 , HOH A:2022 , PRO B:178 , HOH B:2079BINDING SITE FOR RESIDUE IOD B 1
2AC2SOFTWAREGLN A:150 , TYR B:92 , THR B:177 , HOH B:2038 , HOH B:2079BINDING SITE FOR RESIDUE IOD B 2
3AC3SOFTWARETYR B:127BINDING SITE FOR RESIDUE IOD B 3

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2C3V)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Leu A:114 -Pro A:115

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2C3V)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2C3V)

(-) Exons   (0, 0)

(no "Exon" information available for 2C3V)

(-) 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:94
 aligned with Q9KFR4_BACHD | Q9KFR4 from UniProtKB/TrEMBL  Length:958

    Alignment length:94
                                   873       883       893       903       913       923       933       943       953    
         Q9KFR4_BACHD   864 DATDITIYYKTGWTHPHIHYSLNQGAWTTLPGVPLTKSEYEGYVKVTIEAEEGSQLRAAFNNGSGQWDNNQGRDYDFSSGVHTLADGRILSGTP 957
               SCOP domains ---------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeee......eeeeee..........ee.ee.....eeeeee......eeeeeee.....eehhhhh.eeee.eeeeee..eeee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------- Transcript
                 2c3v A  85 DATDITIYYKTGWTHPHIHYSLNQGAWTTLPGVPLTKSEyEGyVKVTIEAEEGSQLRAAFNNGSGQWDNNQGRDYDFSSGVHTLADGRILSGTP 178
                                    94       104       114       124  |    134       144       154       164       174    
                                                                 124-TYI                                                  
                                                                    127-TYI                                               


Chain B from PDB  Type:PROTEIN  Length:94
 aligned with Q9KFR4_BACHD | Q9KFR4 from UniProtKB/TrEMBL  Length:958

    Alignment length:98
                                   869       879       889       899       909       919       929       939       949        
         Q9KFR4_BACHD   860 DRPGDATDITIYYKTGWTHPHIHYSLNQGAWTTLPGVPLTKSEYEGYVKVTIEAEEGSQLRAAFNNGSGQWDNNQGRDYDFSSGVHTLADGRILSGTP 957
               SCOP domains -------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........eeeee.......eeeeee..........ee.ee.----.eeeeee.....eeeeeee.....eehhhhh.eeee.eeeeee..eeee... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------- Transcript
                 2c3v B  81 MASGDATDITIYYKTGWTHPHIHYSLNQGAWTTLPGVPLTKS----YVKVTIEAEEGSQLRAAFNNGSGQWDNNQGRDYDFSSGVHTLADGRILSGTP 178
                                    90       100       110       120 |    |130       140       150       160       170        
                                                                   122  127
   Legend:   → Mismatch (orange background)
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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 2C3V)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2C3V)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2C3V)

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (Q9KFR4_BACHD | Q9KFR4)
molecular function
    GO:0003824    catalytic activity    Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
    GO:2001070    starch binding    Interacting selectively and non-covalently with starch.
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.

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 Related Entries

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

UniProtKB/TrEMBL
        Q9KFR4_BACHD | Q9KFR4: 2c3g 2c3h 2c3w 2c3x

(-) Related Entries Specified in the PDB File

2c3g STRUCTURE OF CBM26 FROM BACILLUS HALODURANS AMYLASE
2c3h STRUCTURE OF CBM26 FROM BACILLUS HALODURANS AMYLASE IN COMPLEX WITH MALTOSE
2c3w STRUCTURE OF CBM25 FROM BACILLUS HALODURANS AMYLASE IN COMPLEX WITH MALTOTETRAOSE
2c3x STRUCTURE OF IODINATED CBM25 FROM BACILLUS HALODURANS AMYLASE IN COMPLEX WITH MALTOTETRAOSE