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(-) Description

Title :  X-RAY CRYSTAL STRUCTURE OF CHITOSAN-BINDING MODULE 2 IN COMPLEX WITH CHITOTRIOSE DERIVED FROM CHITOSANASE/GLUCANASE FROM PAENIBACILLUS SP. IK-5
 
Authors :  S. Shinya, H. Oi, Y. Kitaoku, T. Ohnuma, T. Numata, T. Fukamizo
Date :  22 May 15  (Deposition) - 13 Apr 16  (Release) - 20 Apr 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.65
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Chitosan, Cbm32, Chitosanase/Glucanase, B-Sandwich, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Shinya, S. Nishimura, Y. Kitaoku, T. Numata, H. Kimoto, H. Kusaoke, T. Ohnuma, T. Fukamizo
Mechanism Of Chitosan Recognition By Cbm32 Carbohydrate-Binding Modules From A Paenibacillus Sp. Ik-5 Chitosanase/Glucanase
Biochem. J. V. 473 1085 2016
PubMed-ID: 26936968  |  Reference-DOI: 10.1042/BCJ20160045

(-) Compounds

Molecule 1 - GLUCANASE/CHITOSANASE
    Chains: A, B
    EC Number: 3.2.1.4, 3.2.1.132
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 666-796
    Organism Scientific: PAENIBACILLUS FUKUINENSIS
    Organism Taxid: 170835
    Other Details: PAENIBACILLUS FUKUINENSIS HAS BEEN RENAMED TO PAENIBACILLUS SP. IK-5.

 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  (3, 11)

Asymmetric Unit (3, 11)
No.NameCountTypeFull Name
1EDO3Ligand/Ion1,2-ETHANEDIOL
2GCS3Ligand/IonD-GLUCOSAMINE
3SO45Ligand/IonSULFATE ION
Biological Unit 1 (3, 10)
No.NameCountTypeFull Name
1EDO3Ligand/Ion1,2-ETHANEDIOL
2GCS3Ligand/IonD-GLUCOSAMINE
3SO44Ligand/IonSULFATE ION
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
1EDO-1Ligand/Ion1,2-ETHANEDIOL
2GCS-1Ligand/IonD-GLUCOSAMINE
3SO41Ligand/IonSULFATE ION

(-) Sites  (9, 9)

Asymmetric Unit (9, 9)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:18 , ARG A:31 , ARG A:116 , HOH A:332 , HOH A:379 , HOH A:384 , HOH A:399binding site for residue SO4 A 201
2AC2SOFTWAREARG A:110 , HOH A:310 , HOH A:314 , HOH A:325 , HIS B:18 , ARG B:31binding site for residue SO4 A 202
3AC3SOFTWAREGLY A:77 , SER A:78 , THR A:79 , HOH A:320 , HOH A:324 , HOH A:369 , TRP B:42 , TYR B:112binding site for residue SO4 A 203
4AC4SOFTWAREALA A:38 , THR A:114 , THR A:115 , ARG A:116 , HOH A:313 , HOH A:387 , HOH A:418binding site for residue SO4 A 204
5AC5SOFTWAREALA A:7 , TYR A:44 , ASN A:46 , SER A:78 , PHE A:108 , THR B:10 , SER B:11binding site for residue EDO A 205
6AC6SOFTWARELYS A:6 , ALA A:7 , THR A:8 , ASP A:21 , GCS A:210 , HOH A:301binding site for residue EDO A 206
7AC7SOFTWARESER A:39 , PRO A:40 , HOH A:304 , HOH A:310 , ALA B:29 , THR B:30binding site for residue EDO A 207
8AC8SOFTWARESER B:39 , THR B:115 , ARG B:116 , HOH B:304 , HOH B:364binding site for residue SO4 B 201
9AC9SOFTWAREGLU A:14 , ASP A:21 , LYS A:22 , ARG A:31 , TYR A:36 , GLU A:61 , ASP A:62 , ALA A:63 , TYR A:120 , EDO A:206 , HOH A:302 , HOH A:321 , HOH A:330 , HOH A:352 , HOH A:358 , HOH A:381 , HOH A:396 , HOH A:397 , HOH B:319binding site for Poly-Saccharide residues GCS A 208 through GCS A 210

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4ZZ8)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Ser B:39 -Pro B:40

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4ZZ8)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4ZZ8)

(-) Exons   (0, 0)

(no "Exon" information available for 4ZZ8)

(-) 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:132
                                                                                                                                                                    
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .......eeee........hhhhhh.......ee.......eeeeeeeeeeeeeeeeeeee....eeeeeeeee..........eeeeee......eeeeeeeeeeeeeeeeeeeee......eeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4zz8 A   0 HNLALNKATATSSIETAGHEGDKAVDGNAATRWASAYGASPQWIYINLGSTQSISRVKLNWEDAYATAYSIQVSNDSGSTPTNWTTVYSTTTGDGAIDDITFAATNAKFVRVYATTRATAYGYSLWEFEVYG 131
                                     9        19        29        39        49        59        69        79        89        99       109       119       129  


Chain B from PDB  Type:PROTEIN  Length:131
                                                                                                                                                                   
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeee........hhhhhh.......ee.......eeeeeeeeeeeeeeeeeeee....eeeeeeeee..........eeeeee......eeeeeeeeeeeeeeeeeeeee......eeeeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4zz8 B   1 NLALNKATATSSIETAGHEGDKAVDGNAATRWASAYGASPQWIYINLGSTQSISRVKLNWEDAYATAYSIQVSNDSGSTPTNWTTVYSTTTGDGAIDDITFAATNAKFVRVYATTRATAYGYSLWEFEVYG 131
                                    10        20        30        40        50        60        70        80        90       100       110       120       130
   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 4ZZ8)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4ZZ8)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4ZZ8)

(-) Gene Ontology  (7, 7)

Asymmetric Unit(hide GO term definitions)

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    Ser B:39 - Pro B:40   [ RasMol ]  
 
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 Related Entries

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

UniProtKB/TrEMBL
        Q93IE7_9BACL | Q93IE7: 2rv9 2rva 4zxe 4zy9 4zz5

(-) Related Entries Specified in the PDB File

2rv9 2RV CONTAINS THE NMR STRUCTURE OF CHITOSAN-BINDING MODULE DERIVED FROM THE SAME ENZYME.
2rva 2RVA CONTAINS THE NMR STRUCTURE OF THE SAME PROTEIN MOLECULE.
4zxe 4ZXE CONTAINS THE X-RAY CRYSTAL STRUCTURE OF CHITOSAN-BINDING MODULE DERIVED FROM THE SAME ENZYME.
4zy9 4ZXE CONTAINS THE X-RAY CRYSTAL STRUCTURE OF SELENOMETHIONINE LABELLED V110M MUTANT OF CHITOSAN-BINDING MODULE DERIVED FROM THE SAME ENZYME.
4zz5 4ZZ5 CONTAINS THE X-RAY CRYSTAL STRUCTURE OF THE SAME PROTEIN MOLECULE WITHOUT LIGAND.