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(-) Description

Title :  CRYSTAL STRUCTURE OF A PUTATIVE DNA-BINDING PROTEIN FROM BACTEROIDES FRAGILIS
 
Authors :  M. E. Cuff, L. Bigelow, S. Clancy, A. Joachimiak, Midwest Center For Structural Genomics (Mcsg)
Date :  21 Dec 07  (Deposition) - 15 Jan 08  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.65
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Dna-Binding, Xre-Family, Structural Genomics, Psi-2, Protein Structure Initiative, Midwest Center For Structural Genomics, Mcsg, Dna Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. E. Cuff, L. Bigelow, S. Clancy, A. Joachimiak
The Structure Of A Putative Dna-Binding Protein From Bacteroides Fragilis.
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - PUTATIVE DNA-BINDING PROTEIN
    Atcc: 25285
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PMCSG7
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: BF1076
    Organism Scientific: BACTEROIDES FRAGILIS
    Organism Taxid: 272559
    Strain: NCTC 9343

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (2x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 6)

Asymmetric Unit (3, 6)
No.NameCountTypeFull Name
1EDO1Ligand/Ion1,2-ETHANEDIOL
2MSE4Mod. Amino AcidSELENOMETHIONINE
3SO41Ligand/IonSULFATE ION
Biological Unit 1 (3, 12)
No.NameCountTypeFull Name
1EDO2Ligand/Ion1,2-ETHANEDIOL
2MSE8Mod. Amino AcidSELENOMETHIONINE
3SO42Ligand/IonSULFATE ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELYS A:32 , SER A:33 , THR A:36 , HOH A:176BINDING SITE FOR RESIDUE SO4 A 101
2AC2SOFTWAREARG A:24 , ARG A:64BINDING SITE FOR RESIDUE EDO A 102

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3BS3)

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 Sequence-Structure Mapping

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(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
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SAPs(SNPs) PROSITE motifs Exons
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Chain A from PDB  Type:PROTEIN  Length:62
 aligned with Q5LGD2_BACFN | Q5LGD2 from UniProtKB/TrEMBL  Length:73

    Alignment length:62
                                    16        26        36        46        56        66  
          Q5LGD2_BACFN    7 MMLNRIKVVLAEKQRTNRWLAEQMGKSENTISRWCSNKSQPSLDMLVKVAELLNVDPRQLIN 68
               SCOP domains -------------------------------------------------------------- SCOP domains
               CATH domains --3bs3A00 A:9-68 lambda repressor-like DNA-binding domains     CATH domains
               Pfam domains -------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eehhhhhhhhh..hhhhhhhhhh.hhhhhhhhhh.....hhhhhhhhhhhhh.hhhh.ee Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------- Transcript
                  3bs3 A  7 mmLNRIKVVLAEKQRTNRWLAEQmGKSENTISRWCSNKSQPSLDmLVKVAELLNVDPRQLIN 68
                            ||      16        26   |    36        46    |   56        66  
                            ||                    30-MSE               51-MSE             
                            7-MSE                                                         
                             8-MSE
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 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 3BS3)

(-) CATH Domains  (1, 1)

Asymmetric Unit
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3BS3)

(-) Gene Ontology  (2, 2)

Asymmetric Unit(hide GO term definitions)
Chain A   (Q5LGD2_BACFN | Q5LGD2)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0043565    sequence-specific DNA binding    Interacting selectively and non-covalently with DNA of a specific nucleotide composition, e.g. GC-rich DNA binding, or with a specific sequence motif or type of DNA e.g. promotor binding or rDNA binding.

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