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(-) Description

Title :  CRYSTAL STRUCTURE OF KLEBSIELLA PNEUMONIAE PMRA IN COMPLEX WITH PMRA BOX DNA
 
Authors :  C. D. Hsiao, T. H. Weng, Y. C. Li
Date :  30 Dec 14  (Deposition) - 11 Nov 15  (Release) - 25 Nov 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.80
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Two-Component System, Response Regulator, Pmra, Transcription-Dna Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  Y. C. Lou, T. H. Weng, Y. C. Li, Y. F. Kao, W. F. Lin, H. L. Peng, S. H. Chou, C. D. Hsiao, C. Chen
Structure And Dynamics Of Polymyxin-Resistance-Associated Response Regulator Pmra In Complex With Promoter Dna.
Nat Commun V. 6 8838 2015
PubMed-ID: 26564787  |  Reference-DOI: 10.1038/NCOMMS9838

(-) Compounds

Molecule 1 - DNA-BINDING TRANSCRIPTIONAL REGULATOR BASR
    ChainsA, B
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPET29B(+)
    Expression System StrainBL21(DE3)
    Expression System Taxid469008
    Expression System Vector TypePLASMID
    GeneN559_3529
    MutationYES
    Organism ScientificKLEBSIELLA PNEUMONIAE
    Organism Taxid1380908
    StrainJM45
 
Molecule 2 - DNA (26-MER)
    ChainsC
    EngineeredYES
    Organism ScientificSYNTHETIC CONSTRUCT
    Organism Taxid32630
    Other DetailsLEADING STRAND
    SyntheticYES
 
Molecule 3 - DNA (26-MER)
    ChainsD
    EngineeredYES
    Organism ScientificSYNTHETIC CONSTRUCT
    Organism Taxid32630
    Other DetailsLAGGING STRAND
    SyntheticYES

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric/Biological Unit (2, 4)
No.NameCountTypeFull Name
1BEF2Ligand/IonBERYLLIUM TRIFLUORIDE ION
2MG2Ligand/IonMAGNESIUM ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:51 , GLY A:53 , THR A:79 , ALA A:80 , LYS A:101 , MG A:302BINDING SITE FOR RESIDUE BEF A 301
2AC2SOFTWAREASP A:8 , ASP A:51 , GLY A:53 , BEF A:301BINDING SITE FOR RESIDUE MG A 302
3AC3SOFTWAREASP B:51 , THR B:79 , ALA B:80 , LYS B:101 , MG B:302BINDING SITE FOR RESIDUE BEF B 301
4AC4SOFTWAREASP B:8 , ASP B:51 , GLY B:53 , BEF B:301BINDING SITE FOR RESIDUE MG B 302

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4S05)

(-) Cis Peptide Bonds  (6, 6)

Asymmetric/Biological Unit
No.Residues
1Thr A:93 -Gly A:94
2Lys A:101 -Pro A:102
3Asn A:125 -Glu A:126
4Lys A:203 -Ser A:204
5Lys B:101 -Pro B:102
6Gly B:144 -Glu B:145

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4S05)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4S05)

(-) Exons   (0, 0)

(no "Exon" information available for 4S05)

(-) 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:219
                                                                                                                                                                                                                                                           
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee..hhhhhhhhhhhhhhhh.eeeee.hhhhhhhhhhhh...eee........hhhhhhhhhhhh.............hhhhhhhhhh...........hhhhhhhhhhhhhhhhh......eee..eeee....eeee.......hhhhhhhhhhhhhh.....hhhhhhhhhhhhhhh...hhhhhhhhhhhhh.....eee.....eee... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4s05 A   1 MKILVIEDDALLLQGLILAMQSEGYVCDGVSTAHEAALSLASNHYSLIVLDLGLPDEDGLHFLSRMRREKMTQPVLILTARDTLEDRISGLDTGADDYLVKPFALEELNARIRALLRRHNNQGDNEISVGNLRLNVTRRLVWLGETALDLTPKEYALLSRLMMKAGSPVHREILYNDIYSGDNEPATNTLEVHIHNLREKIGKSRIRTVRGFGYMLANN 219
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210         

Chain B from PDB  Type:PROTEIN  Length:219
                                                                                                                                                                                                                                                           
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee..hhhhhhhhhhhhhhh..eeeee.hhhhhhhhhhhh...eeee.......hhhhhhhhhhhh.....eeeee...hhhhhhhhhhh...eeee...hhhhhhhhhhhhhhhhhh....eeee..eeee....eeee.......hhhhhhhhhhhhhh.....hhhhhhhh..hhhhh....hhhhhhhhhhh......eee.....eee... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4s05 B   1 MKILVIEDDALLLQGLILAMQSEGYVCDGVSTAHEAALSLASNHYSLIVLDLGLPDEDGLHFLSRMRREKMTQPVLILTARDTLEDRISGLDTGADDYLVKPFALEELNARIRALLRRHNNQGDNEISVGNLRLNVTRRLVWLGETALDLTPKEYALLSRLMMKAGSPVHREILYNDIYSGDNEPATNTLEVHIHNLREKIGKSRIRTVRGFGYMLANN 219
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210         

Chain C from PDB  Type:DNA  Length:26
                                                          
                 4s05 C   1 ATTTCTTAATATTATCCTAAGCAAGG  26
                                    10        20      

Chain D from PDB  Type:DNA  Length:26
                                                          
                 4s05 D   1 CTTGCTTAGGATAATATTAAGAAATC  26
                                    10        20      

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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 4S05)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4S05)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4S05)

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 4S05)

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  Cis Peptide Bonds
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    Lys A:101 - Pro A:102   [ RasMol ]  
    Lys A:203 - Ser A:204   [ RasMol ]  
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    Thr A:93 - Gly A:94   [ RasMol ]  
 

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 Related Entries

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

UniProtKB/TrEMBL
        A0A0R4I965_K | A0A0R4I9654s04

(-) Related Entries Specified in the PDB File

4s04