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(-) Description

Title :  STAPHYLOCOCCUS EPIDERMIDIS TCAR IN COMPLEX WITH SALICYLATE
 
Authors :  Y. M. Chang, C. K. Chen, Y. J. Yeh, A. H. Wang
Date :  15 Nov 09  (Deposition) - 29 Sep 10  (Release) - 29 Sep 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.45
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Multiple Drug Resistance, Biofilm, Transcription Regulation, Dna Binding, Antibiotics, Transcription, Transcription Regulator (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. M. Chang, W. Y. Jeng, T. P. Ko, Y. J. Yeh, C. K. Chen, A. H. Wang
Structural Study Of Tcar And Its Complexes With Multiple Antibiotics From Staphylococcus Epidermidis.
Proc. Natl. Acad. Sci. Usa V. 107 8617 2010
PubMed-ID: 20421503  |  Reference-DOI: 10.1073/PNAS.0913302107

(-) Compounds

Molecule 1 - TRANSCRIPTIONAL REGULATOR TCAR
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET 21A
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: SERP1949, SE_1937, TCAR
    Organism Scientific: STAPHYLOCOCCUS EPIDERMIDIS RP62A
    Organism Taxid: 176279
    Strain: ATCC 35984

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 9)

Asymmetric/Biological Unit (2, 9)
No.NameCountTypeFull Name
1CAC1Ligand/IonCACODYLATE ION
2SAL8Ligand/Ion2-HYDROXYBENZOIC ACID

(-) Sites  (9, 9)

Asymmetric Unit (9, 9)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:8 , PHE A:11 , LEU A:12 , ILE B:130 , VAL B:133 , ARG B:134BINDING SITE FOR RESIDUE SAL A 3002
2AC2SOFTWAREASN A:20 , THR A:23 , GLN A:31 , ALA A:38 , SER A:41 , HIS A:42 , ARG A:110 , HOH A:1073BINDING SITE FOR RESIDUE SAL A 3005
3AC3SOFTWARESER B:37 , GLU B:39 , GLN B:40 , ARG B:70 , ARG B:71 , LYS B:74BINDING SITE FOR RESIDUE CAC B 2001
4AC4SOFTWAREGLU A:13 , LYS A:14 , ASN A:17 , HIS B:42 , ASN B:45 , MET B:46 , ILE B:49 , LYS B:60 , HOH B:1024BINDING SITE FOR RESIDUE SAL B 3001
5AC5SOFTWAREILE A:130 , ARG A:134 , LEU A:137 , HIS B:8 , LEU B:12BINDING SITE FOR RESIDUE SAL B 3003
6AC6SOFTWARELYS A:132 , ILE A:139 , PHE B:125 , ASP B:126 , GLU B:129 , LYS B:132BINDING SITE FOR RESIDUE SAL B 3004
7AC7SOFTWAREASN A:45 , MET A:46 , ILE A:49 , GLU B:13 , LYS B:14 , ASN B:17BINDING SITE FOR RESIDUE SAL B 3006
8AC8SOFTWAREASN B:20 , ALA B:24 , GLN B:31 , ALA B:38 , SER B:41 , HIS B:42 , ARG B:110BINDING SITE FOR RESIDUE SAL B 3007
9AC9SOFTWAREGLU B:39 , HIS B:42 , VAL B:43 , GLN B:61 , VAL B:63 , ARG B:71BINDING SITE FOR RESIDUE SAL B 3008

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3KP6)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3KP6)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3KP6)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3KP6)

(-) Exons   (0, 0)

(no "Exon" information available for 3KP6)

(-) 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:139
 aligned with Q5HLN6_STAEQ | Q5HLN6 from UniProtKB/TrEMBL  Length:151

    Alignment length:150
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151
         Q5HLN6_STAEQ     2 VRRIEDHISFLEKFINDVNTLTAKLLKDLQTEYGISAEQSHVLNMLSIEALTVGQITEKQGVNKAAVSRRVKKLLNAELVKLEKPDSNTDQRLKIIKLSNKGKKYIKERKAIMSHIASDMTSDFDSKEIEKVRQVLEIIDYRIQSYTSKL 151
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhh....hhhhhhhhhh......hhhhhhhhh...ee.-----------...eehhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3kp6 A   2 VRRIEDHISFLEKFINDVNTLTAKLLKDLQTEYGISAEQSHVLNMLSIEALTVGQITEKQGVNKAAVSRRVKKLLNAELVKL-----------KIIKLSNKGKKYIKERKAIMSHIASDMTSDFDSKEIEKVRQVLEIIDYRIQSYTSKL 151
                                    11        21        31        41        51        61        71        81 |       -   |   101       111       121       131       141       151
                                                                                                            83          95                                                        


Chain B from PDB  Type:PROTEIN  Length:137
 aligned with Q5HLN6_STAEQ | Q5HLN6 from UniProtKB/TrEMBL  Length:151

    Alignment length:147
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       
         Q5HLN6_STAEQ     5 IEDHISFLEKFINDVNTLTAKLLKDLQTEYGISAEQSHVLNMLSIEALTVGQITEKQGVNKAAVSRRVKKLLNAELVKLEKPDSNTDQRLKIIKLSNKGKKYIKERKAIMSHIASDMTSDFDSKEIEKVRQVLEIIDYRIQSYTSKL 151
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) -----------------------------MarR_2-3kp6B01 B:34-84                             ------------------------------------------------------------------- Pfam domains (1)
           Pfam domains (2) -----------------------------MarR_2-3kp6B02 B:34-84                             ------------------------------------------------------------------- Pfam domains (2)
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhh...eehhhhhhhhh.hhhhhhhhhhhhhhh..ee..----------.eeeehhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3kp6 B   5 IEDHISFLEKFINDVNTLTAKLLKDLQTEYGISAEQSHVLNMLSIEALTVGQITEKQGVNKAAVSRRVKKLLNAELVKLE----------KIIKLSNKGKKYIKERKAIMSHIASDMTSDFDSKEIEKVRQVLEIIDYRIQSYTSKL 151
                                    14        24        34        44        54        64        74        84         -|      104       114       124       134       144       
                                                                                                          84         95
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  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 3KP6)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3KP6)

(-) Pfam Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Clan: HTH (544)

(-) Gene Ontology  (4, 4)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (Q5HLN6_STAEQ | Q5HLN6)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0003700    transcription factor activity, sequence-specific DNA binding    Interacting selectively and non-covalently with a specific DNA sequence in order to modulate transcription. The transcription factor may or may not also interact selectively with a protein or macromolecular complex.
biological process
    GO:0006355    regulation of transcription, DNA-templated    Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
    GO:0006351    transcription, DNA-templated    The cellular synthesis of RNA on a template of DNA.

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 Related Entries

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

UniProtKB/TrEMBL
        Q5HLN6_STAEQ | Q5HLN6: 3kp2 3kp3 3kp4 3kp5 3kp7 4ejt 4eju 4ejv 4ejw

(-) Related Entries Specified in the PDB File

3kp2 3kp3 3kp4 3kp5 3kp7