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(-) Description

Title :  STRUCTURE OF PUTATIVE HTH-TYPE TRANSCRIPTIONAL REGULATOR PH1519/DNA COMPLEX
 
Authors :  H. Koike, M. Suzuki
Date :  24 Oct 06  (Deposition) - 04 Dec 07  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym. Unit :  A,B,D  (2x)
Biol. Unit 1:  A (1x),B (2x),D (2x)
Keywords :  Dna-Binding, Transcriptional Regulatory Protein, Archaeal, Transcription-Dna Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. Yokoyama, S. A. Ishijima, H. Koike, C. Kurihara, A. Shimowasa, M. Kabasawa, T. Kawashima, M. Suzuki
Feast/Famine Regulation By Transcription Factor Fl11 For Th Survival Of The Hyperthermophilic Archaeon Pyrococcus Ot3.
Structure V. 15 1542 2007
PubMed-ID: 18073105  |  Reference-DOI: 10.1016/J.STR.2007.10.015

(-) Compounds

Molecule 1 - PUTATIVE HTH-TYPE TRANSCRIPTIONAL REGULATOR PH1519
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PET28A
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: RESIDUES 24-170
    Organism Scientific: PYROCOCCUS HORIKOSHII
    Organism Taxid: 70601
    Strain: OT3
    Synonym: LRP/ASNC FAMILY PROTEIN
 
Molecule 2 - DNA (5'- D(*DAP*DGP*DTP*DGP*DAP*DAP*DAP*DAP*DTP*DTP*DTP*DTP*DTP*DCP*DAP*DCP*DA )-3')
    Chains: B
    Engineered: YES
    Synthetic: YES
 
Molecule 3 - DNA (5'- D(*DTP*DGP*DTP*DGP*DAP*DAP*DAP*DAP*DAP*DTP*DTP*DTP*DTP*DCP*DAP*DCP*DT )-3')
    Chains: D
    Engineered: YES
    Synthetic: YES

 Structural Features

(-) Chains, Units

  123
Asymmetric Unit (2x): ABD
Biological Unit 1 (2x): A (1x)B (2x)D (2x)

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 2E1C)

(-) Sites  (0, 0)

(no "Site" information available for 2E1C)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2E1C)

(-) Cis Peptide Bonds  (0, 0)

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 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2E1C)

(-) PROSITE Motifs  (1, 1)

Asymmetric Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1HTH_ASNC_2PS50956 AsnC-type HTH domain profile.REG6_PYRHO5-66  1A:25-86
Biological Unit 1 (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1HTH_ASNC_2PS50956 AsnC-type HTH domain profile.REG6_PYRHO5-66  1A:25-86

(-) Exons   (0, 0)

(no "Exon" information available for 2E1C)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
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  UniProt sequence: complete  aligned part    
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SAPs(SNPs) PROSITE motifs Exons
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Chain A from PDB  Type:PROTEIN  Length:147
 aligned with REG6_PYRHO | O59188 from UniProtKB/Swiss-Prot  Length:151

    Alignment length:147
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       
           REG6_PYRHO     4 PLDEIDKKIIKILQNDGKAPLREISKITGLAESTIHERIRKLRESGVIKKFTAIIDPEALGYSMLAFILVKVKAGKYSEVASNLAKYPEIVEVYETTGDYDMVVKIRTKNSEELNNFLDLIGSIPGVEGTHTMIVLKTHKETTELPI 150
               SCOP domains d2e1ca1 A:24-84 Putative transcriptional regulator PH1519    d2e1ca2 A:85-170 Putative transcriptional regulator PH1519                             SCOP domains
               CATH domains 2e1cA01 A:24-76                                      2e1cA02 A:77-170  [code=3.30.70.920, no name defined]                                          CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhh...hhhhhhhhhh.hhhhhhhhhhhhhhh..........hhhhhh..eeeeeeeee...hhhhhhhhhhh...eeeeee......eeeeeee.hhhhhhhhhhhhhhh..eeeeeeee............. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -HTH_ASNC_2  PDB: A:25-86 UniProt: 5-66                        ------------------------------------------------------------------------------------ PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2e1c A  24 PLDEIDKKIIKILQNDGKAPLREISKITGLAESTIHERIRKLRESGVIKKFTAIIDPEALGYSMLAFILVKVKAGKYSEVASNLAKYPEIVEVYETTGDYDMVVKIRTKNSEELNNFLDLIGSIPGVEGTHTMIVLKTHKETTELPI 170
                                    33        43        53        63        73        83        93       103       113       123       133       143       153       163       


Chain B from PDB  Type:DNA  Length:17
                                                 
                 2e1c B   1 AGTGAAAATTTTTCACA  17
                                    10       


Chain D from PDB  Type:DNA  Length:17
                                                 
                 2e1c D   1 TGTGAAAAATTTTCACT  17
                                    10
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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  (2, 2)

Asymmetric Unit
(-)
Class: All alpha proteins (14657)
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (2, 2)

Asymmetric Unit
(-)
Class: Alpha Beta (26913)
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2E1C)

(-) Gene Ontology  (6, 6)

Asymmetric Unit(hide GO term definitions)
Chain A   (REG6_PYRHO | O59188)
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: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: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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  2e1c
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  REG6_PYRHO | O59188
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 Related Entries

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

UniProtKB/Swiss-Prot
        REG6_PYRHO | O59188: 1ri7 2cyy 2zny 2znz

(-) Related Entries Specified in the PDB File

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