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(-) Description

Title :  E. COLI TRP HOLOREPRESSOR, ORTHORHOMBIC CRYSTAL FORM
 
Authors :  C. L. Lawson, P. B. Sigler
Date :  25 Feb 07  (Deposition) - 06 Mar 07  (Release) - 08 Feb 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.65
Chains :  Asym. Unit :  R
Biol. Unit 1:  R  (2x)
Keywords :  Dna Binding Regulatory Protein, Dna Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. L. Lawson, R. G. Zhang, R. W. Schevitz, Z. Otwinowski, A. Joachimiak P. B. Sigler
Flexibility Of The Dna-Binding Domains Of Trp Repressor.
Proteins V. 3 18 1988
PubMed-ID: 3375234  |  Reference-DOI: 10.1002/PROT.340030103
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - TRP OPERON REPRESSOR
    Chains: R
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PRLK18 (MODIFIED PBR322)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: TRPR, RTRY
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (3, 3)
No.NameCountTypeFull Name
1NA1Ligand/IonSODIUM ION
2SO41Ligand/IonSULFATE ION
3TRP1Mod. Amino AcidTRYPTOPHAN
Biological Unit 1 (2, 4)
No.NameCountTypeFull Name
1NA-1Ligand/IonSODIUM ION
2SO42Ligand/IonSULFATE ION
3TRP2Mod. Amino AcidTRYPTOPHAN

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU R:60 , GLY R:64 , GLU R:65 , MET R:66NULL
2AC2SOFTWAREHIS R:16 , TRP R:19 , LEU R:36 , ASN R:40 , ARG R:63 , LYS R:106 , ASP R:108NULL
3AC3SOFTWAREASN R:40 , LEU R:41 , LEU R:43 , THR R:44 , PRO R:45 , ARG R:54 , THR R:81 , ARG R:84 , GLY R:85 , SER R:88 , HOH R:223NULL
4HTHSOFTWAREGLN R:68 , ARG R:69 , GLU R:70 , LEU R:71 , LYS R:72 , ASN R:73 , GLU R:74 , LEU R:75 , GLY R:76 , ALA R:77 , GLY R:78 , ILE R:79 , ALA R:80 , THR R:81 , ILE R:82 , THR R:83 , ARG R:84 , GLY R:85 , SER R:86 , ASN R:87 , SER R:88 , LEU R:89 , LYS R:90 , ALA R:91NULL

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2OZ9)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2OZ9)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2OZ9)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2OZ9)

(-) Exons   (0, 0)

(no "Exon" information available for 2OZ9)

(-) Sequences/Alignments

Asymmetric 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 R from PDB  Type:PROTEIN  Length:105
 aligned with TRPR_ECOLI | P0A881 from UniProtKB/Swiss-Prot  Length:108

    Alignment length:105
                                                                                                                                 108 
                                    14        24        34        44        54        64        74        84        94       104   | 
           TRPR_ECOLI     5 SPYSAAMAEQRHQEWLRFVDLLKNAYQNDLHLPLLNLMLTPDEREALGTRVRIVEELLRGEMSQRELKNELGAGIATITRGSNSLKAAPVELRQWLEEVLLKSD-   -
               SCOP domains d2oz9r_ R: Trp repressor, TrpR                                                                            SCOP domains
               CATH domains 2oz9R00 R:5-108 Trp Operon Repressor; Chain A                                                           - CATH domains
               Pfam domains ------------Trp_repressor-2oz9R01 R:17-104                                                          ----- Pfam domains
         Sec.struct. author .......hhhhhhhhhhhhhhhhhhhh...hhhhhhhh...hhhhhhhhhhhhhhhhhh....hhhhhhh....hhhhhhhhhhhhh..hhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------- Transcript
                 2oz9 R   5 SPYSAAMAEQRHQEWLRFVDLLKNAYQNDLHLPLLNLMLTPDEREALGTRVRIVEELLRGEMSQRELKNELGAGIATITRGSNSLKAAPVELRQWLEEVLLKSDW   1
                                    14        24        34        44        54        64        74        84        94       104   ||
                                                                                                                                 108|
                                                                                                                                    1
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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 1)

Asymmetric Unit
(-)
Class: All alpha proteins (14657)

(-) CATH Domains  (1, 1)

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

(-) Pfam Domains  (1, 1)

Asymmetric Unit
(-)
Clan: HTH (544)

(-) Gene Ontology  (8, 8)

Asymmetric Unit(hide GO term definitions)
Chain R   (TRPR_ECOLI | P0A881)
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.
    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:0045892    negative regulation of transcription, DNA-templated    Any process that stops, prevents, or reduces the frequency, rate or extent of cellular DNA-templated transcription.
    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.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0005622    intracellular    The living contents of a cell; the matter contained within (but not including) the plasma membrane, usually taken to exclude large vacuoles and masses of secretory or ingested material. In eukaryotes it includes the nucleus and cytoplasm.

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 Related Entries

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

UniProtKB/Swiss-Prot
        TRPR_ECOLI | P0A881: 1co0 1jhg 1mi7 1rcs 1tro 1trr 1wrp 1wrs 1wrt 1zt9 3ssw 3ssx 3wrp

(-) Related Entries Specified in the PDB File

1wrp E. COLI TRP HOLOREPRESSOR, TRIGONAL CRYSTAL FORM