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(-) Description

Title :  SEMET STRUCTURE OF A NOVEL CARBOHYDRATE BINDING MODULE FROM GLYCOSIDE HYDROLASE FAMILY 5 GLUCANASE FROM RUMINOCOCCUS FLAVEFACIENS FD-1
 
Authors :  I. Venditto, M. S. J. Centeno, L. M. A. Ferreira, C. M. G. A. Fontes, S. Naj
Date :  25 Sep 14  (Deposition) - 20 Jan 16  (Release) - 13 Jul 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.28
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Sugar Binding Protein, Cellulosome (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  I. Venditto, A. S. Luis, M. Rydahl, J. Schuckel, V. O. Fernandes, S. Vidal-Melgosa, P. Bule, A. Goyal, V. M. R. Pires, C. G. Dourado, L. M. A. Ferreira, P. M. Coutinho, B. Henrissat, J. P. Knox, A. Basle, S. Najmudin, H. J. Gilbert, W. G. T. Willats, C. M. G. A. Fontes
Complexity Of The Ruminococcus Flavefaciens Cellulosome Reflects An Expansion In Glycan Recognition.
Proc. Natl. Acad. Sci. Usa V. 113 7136 2016
PubMed-ID: 27298375  |  Reference-DOI: 10.1073/PNAS.1601558113
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - CARBOHYDRATE BINDING MODULE
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET-28A
    Expression System Strain: B834(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: CARBOHYDRATE BINDING MODULE, RESIDUES 436-594
    Organism Scientific: RUMINOCOCCUS FLAVEFACIENS
    Organism Taxid: 641112
    Other Details: SELENOMETHIONINE DERIVATIVE
    Strain: FD-1

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 4)

Asymmetric/Biological Unit (1, 4)
No.NameCountTypeFull Name
1MSE4Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (0, 0)

(no "Site" information available for 4V18)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4V18)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Asp A:565 -Pro A:566
2Asp B:565 -Pro B:566

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4V18)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4V18)

(-) Exons   (0, 0)

(no "Exon" information available for 4V18)

(-) 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:151
                                                                                                                                                                                       
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhh.eee.ee....eee.......eeeeeeee...eeeeeeeeeeeeee..eeeeeeeeeee...eeeeee.....eeeeee..eeee..hhhhhhhhhhhhh...eeeeeeeeeee.......hhhh.eeeeeeeeehhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4v18 A 437 GLAPLADGEKLYGKKGSEGTVTFTKAIGDNAFVEIKTGADTGFmNGCLGFSESIDGKNYWVAYVWQTKKSDTISIDmSSPVQIAEIIGTETQEVTDADTIKKLTDKIKTEKSALLQVWYASDKTGKQIDPADSASESIEVYIPSASADEAL 587
                                   446       456       466       476   |   486       496       506      |516       526       536       546       556       566       576       586 
                                                                     480-MSE                          513-MSE                                                                      


Chain B from PDB  Type:PROTEIN  Length:148
                                                                                                                                                                                    
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eee.ee....eee.......eeeeeeee...eeeeeeeeeeeeee..eeeeeeeeeee...eeeeee.....eeeeee..eeee..hhhhhhhhhhhhh...eeeeeeeeeee.......hhhh.eeeeeeeeehhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4v18 B 439 APLADGEKLYGKKGSEGTVTFTKAIGDNAFVEIKTGADTGFmNGCLGFSESIDGKNYWVAYVWQTKKSDTISIDmSSPVQIAEIIGTETQEVTDADTIKKLTDKIKTEKSALLQVWYASDKTGKQIDPADSASESIEVYIPSASADEA 586
                                   448       458       468       478 |     488       498       508    |  518       528       538       548       558       568       578        
                                                                   480-MSE                          513-MSE
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  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  (0, 0)

(no "SCOP Domain" information available for 4V18)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4V18)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4V18)

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 4V18)

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  Cis Peptide Bonds
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    Asp B:565 - Pro B:566   [ RasMol ]  
 

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  4v18
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 Related Entries

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

UniProtKB/TrEMBL
        A0A140UH28_R | A0A140UH28: 4v17 4v1b 4v1i

(-) Related Entries Specified in the PDB File

4v17 STRUCTURE OF A NOVEL CARBOHYDRATE BINDING MODULE FROM GLYCOSIDE HYDROLASE FAMILY 5 GLUCANASE FROM RUMINOCOCCUS FLAVEFACIENS FD-1
4v1b STRUCTURE OF A NOVEL CARBOHYDRATE BINDING MODULE FROM GLYCOSIDE HYDROLASE FAMILY 5 GLUCANASE FROM RUMINOCOCCUS FLAVEFACIENS FD-1 COLLECTED AT THE ZN EDGE
4v1i STRUCTURE OF A NOVEL CARBOHYDRATE BINDING MODULE FROM GLYCOSIDE HYDROLASE FAMILY 5 GLUCANASE FROM RUMINOCOCCUS FLAVEFACIENS FD-1 AT MEDIUM RESOLUTION
4v1k SEMET STRUCTURE OF A NOVEL CARBOHYDRATE BINDING MODULE FROM GLYCOSIDE HYDROLASE FAMILY 9 (CEL9A) FROM RUMINOCOCCUS FLAVEFACIENS FD-1
4v1l HIGH RESOLUTION STRUCTURE OF A NOVEL CARBOHYDRATE BINDING MODULE FROM GLYCOSIDE HYDROLASE FAMILY 9 (CEL9A ) FROM RUMINOCOCCUS FLAVEFACIENS FD-1