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(-) Description

Title :  STRUCTURE OF THE CRO PROTEIN FROM PROPHAGE PFL 6 IN PSEUDOMONAS FLUORESCENS PF-5
 
Authors :  C. G. Roessler, S. A. Roberts, W. R. Montfort, M. H. J. Cordes
Date :  13 Apr 07  (Deposition) - 04 Mar 08  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.70
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Transcription Factor, Helix-Turn-Helix, Prophage, Structural Evolution, Transcription (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  C. G. Roessler, B. M. Hall, W. J. Anderson, W. M. Ingram, S. A. Roberts, W. R. Montfort, M. H. Cordes
Transitive Homology-Guided Structural Studies Lead To Discovery Of Cro Proteins With 40% Sequence Identity But Different Folds.
Proc. Natl. Acad. Sci. Usa V. 105 2343 2008
PubMed-ID: 18227506  |  Reference-DOI: 10.1073/PNAS.0711589105

(-) Compounds

Molecule 1 - PROPHAGE PFL 6 CRO
    ChainsA, B
    EngineeredYES
    Expression SystemESCHERICHIA COLI BL21(DE3)
    Expression System PlasmidPET21B
    Expression System StrainBL21(DE3)
    Expression System Taxid469008
    Expression System Vector TypePLASMID
    GenePROPHAGE PFL 6 CRO
    Organism ScientificPSEUDOMONAS FLUORESCENS
    Organism Taxid220664
    StrainPF-5

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 10)

Asymmetric/Biological Unit (4, 10)
No.NameCountTypeFull Name
1BCT1Ligand/IonBICARBONATE ION
2DTT1Ligand/Ion2,3-DIHYDROXY-1,4-DITHIOBUTANE
3MSE4Mod. Amino AcidSELENOMETHIONINE
4SO44Ligand/IonSULFATE ION

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:35 , TYR B:45 , GLU B:46 , HOH B:717BINDING SITE FOR RESIDUE SO4 B 501
2AC2SOFTWARELYS A:3 , LYS B:3 , SER B:31 , ARG B:35BINDING SITE FOR RESIDUE SO4 A 502
3AC3SOFTWARELYS B:3 , GLN B:32 , ARG B:35 , HOH B:711BINDING SITE FOR RESIDUE SO4 B 503
4AC4SOFTWAREARG A:56 , ILE A:58 , LYS B:8 , ARG B:38 , HOH B:722BINDING SITE FOR RESIDUE SO4 B 504
5AC5SOFTWAREASN A:26 , GLN A:27 , SER A:28 , HOH A:627BINDING SITE FOR RESIDUE BCT A 601
6AC6SOFTWARESER B:7 , GLY B:24 , ASN B:26 , HOH B:726 , HOH B:727BINDING SITE FOR RESIDUE DTT B 701

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Ile A:58 -Pro A:59
2Ile B:58 -Pro B:59

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 2PIJ)

(-) 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
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Chain A from PDB  Type:PROTEIN  Length:59
 aligned with J3IU59_9PSED | J3IU59 from UniProtKB/TrEMBL  Length:67

    Alignment length:59
                                    10        20        30        40        50         
          J3IU59_9PSED    1 MKKIPLSKYLEEHGTQAALAAALGVNQSAISQMVRAGRSIEITLHNDGRIEANEIRPIP 59
               SCOP domains d2pija_ A: automated matches                                SCOP domains
               CATH domains -2pijA00 A:2-59 lambda repressor-like DNA-binding domains   CATH domains
               Pfam domains ----------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeehhhhhhhh.hhhhhhhhhh.hhhhhhhhhhh...eeeee.....eeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------- Transcript
                  2pij A  1 mKKIPLSKYLEEHGTQSALAAALGVNQSAISQmVRAGRSIEITLYEDGRVEANEIRPIP 59
                            |       10        20        30  |     40        50         
                            |                              33-MSE                      
                            1-MSE                                                      

Chain B from PDB  Type:PROTEIN  Length:60
 aligned with J3IU59_9PSED | J3IU59 from UniProtKB/TrEMBL  Length:67

    Alignment length:60
                                    10        20        30        40        50        60
          J3IU59_9PSED    1 MKKIPLSKYLEEHGTQAALAAALGVNQSAISQMVRAGRSIEITLHNDGRIEANEIRPIPA 60
               SCOP domains d2pijb_ B: automated matches                                 SCOP domains
               CATH domains -2pijB00 B:2-60 lambda repressor-like DNA-binding domains    CATH domains
               Pfam domains ------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeehhhhhhhh.hhhhhhhhhh.hhhhhhhhhhh...eeeee.....eeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------ Transcript
                  2pij B  1 mKKIPLSKYLEEHGTQSALAAALGVNQSAISQmVRAGRSIEITLYEDGRVEANEIRPIPA 60
                            |       10        20        30  |     40        50        60
                            1-MSE                          33-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  (1, 2)

Asymmetric/Biological Unit

(-) CATH Domains  (1, 2)

Asymmetric/Biological Unit

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (2, 2)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (J3IU59_9PSED | J3IU59)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
biological process
    GO:0006355    regulation of transcription, DNA-templated    Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.

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3bd1 STRUCTURE OF A HOMOLOGOUS PROTEIN WITH A DIFFERENT FOLD