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(-) Description

Title :  CRYSTAL STRUCTURE OF TRANSCRIPTION FACTOR AXXA-PF0095 FROM PYROCOCCUS FURIOSUS
 
Authors :  H. Yang, G. L. Lipscomb, R. A. Scott, J. P. Rose, B. C. Wang
Date :  05 Aug 07  (Deposition) - 05 Aug 08  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.80
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Mutant, Transcription Factor, Pyrococcus Furiosus, Transcription (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. Yang, G. L. Lipscomb, R. A. Scott, J. P. Rose, B. C. Wang
Crystal Structure Of Transcription Factor Axxa-Pf0095 From Pyrococcus Furiosus
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - TRANSCRIPTION FACTOR PF0095
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET24D
    Expression System Strain: BL21-CODONPLUS (DE3)-RIPL
    Expression System Vector Type: PLASMID
    Gene: PF0095
    Mutation: YES
    Organism Scientific: PYROCOCCUS FURIOSUS
    Other Details: N-TERMINAL 6X HIS TAG AND TEV PROTEASE SITE

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric/Biological Unit (1, 2)
No.NameCountTypeFull Name
1GOL2Ligand/IonGLYCEROL

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:15 , ASP B:4 , LEU B:5 , PHE B:6 , TYR B:80 , TYR B:91BINDING SITE FOR RESIDUE GOL B 233
2AC2SOFTWAREPRO A:3 , ASP A:4 , LEU A:5 , PHE A:6 , TYR A:80 , TYR A:91 , ARG B:15BINDING SITE FOR RESIDUE GOL A 233

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (5, 5)

Asymmetric/Biological Unit
No.Residues
1Glu A:25 -Ala A:26
2Tyr A:27 -Phe A:28
3Phe A:28 -Ser A:29
4Ser A:109 -Gly A:110
5Ser B:109 -Gly B:110

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 2QUF)

(-) 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:214
 aligned with Q8U4J2_PYRFU | Q8U4J2 from UniProtKB/TrEMBL  Length:232

    Alignment length:223
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221   
         Q8U4J2_PYRFU     2 EPDLFYILGNKVRRDLLSHLTCMECYFSLLSSKVSVSSTAVAKHLKIMEREGVLQSYEKEERFIGPTKKYYKISIAKSYVFTLTPEMFWYKGLDLGDAELRDFEISLSGLDTEPSTLKEMITDFIKANKELEKVLEAFKTIESYRSSLMRKIKEAYLKEIGDMTQLAILHYLLLNGRATVEELSDRLNLKEREVREKISEMARFVPVKIINDNTVVLDEDQIL 224
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhh...............hhhhhhhhhhhhhhh..eeee.---------..eeee...eeeeeee....eeeeeee........eee............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhh.eeehhhhhhhhh.hhhhhhhhhhhhh....eeee...eeeehhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2quf A   2 EPDLFYILGNKVRRDLLSHLTAMEAYFSLLSSKVSVSSTAVAKHLKIMEREGVLQSYE---------KKYYKISIAKSYVFTLTPEMFWYKGLDLGDAELRDFEISLSGLDTEPSTLKEMITDFIKANKELEKVLEAFKTIESYRSSLMRKIKEAYLKEIGDMTQLAILHYLLLNGRATVEELSDRLNLKEREVREKISEMARFVPVKIINDNTVVLDEDQIL 224
                                    11        21        31        41        51       | -       |71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221   
                                                                                    59        69                                                                                                                                                           


Chain B from PDB  Type:PROTEIN  Length:210
 aligned with Q8U4J2_PYRFU | Q8U4J2 from UniProtKB/TrEMBL  Length:232

    Alignment length:223
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221   
         Q8U4J2_PYRFU     2 EPDLFYILGNKVRRDLLSHLTCMECYFSLLSSKVSVSSTAVAKHLKIMEREGVLQSYEKEERFIGPTKKYYKISIAKSYVFTLTPEMFWYKGLDLGDAELRDFEISLSGLDTEPSTLKEMITDFIKANKELEKVLEAFKTIESYRSSLMRKIKEAYLKEIGDMTQLAILHYLLLNGRATVEELSDRLNLKEREVREKISEMARFVPVKIINDNTVVLDEDQIL 224
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) -HTH_20-2qufB01 B:3-57                                  ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains (1)
           Pfam domains (2) -HTH_20-2qufB02 B:3-57                                  ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains (2)
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhh...............hhhhhhhhhhhhhh...ee.-------------..ee...eeeeeeee..eeeeeeee........eee..........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhheeehhhhhhhhh.hhhhhhhhhhhhhh...eeee...eeeehhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2quf B   2 EPDLFYILGNKVRRDLLSHLTAMEAYFSLLSSKVSVSSTAVAKHLKIMEREGVLQS-------------YYKISIAKSYVFTLTPEMFWYKGLDLGDAELRDFEISLSGLDTEPSTLKEMITDFIKANKELEKVLEAFKTIESYRSSLMRKIKEAYLKEIGDMTQLAILHYLLLNGRATVEELSDRLNLKEREVREKISEMARFVPVKIINDNTVVLDEDQIL 224
                                    11        21        31        41        51     |   -        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221   
                                                                                  57            71
   Legend:   → Mismatch (orange background)
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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 2QUF)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2QUF)

(-) Pfam Domains  (1, 2)

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

(-) Gene Ontology  (2, 2)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (Q8U4J2_PYRFU | Q8U4J2)
molecular function
    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.

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 Related Entries

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

UniProtKB/TrEMBL
        Q8U4J2_PYRFU | Q8U4J2: 2qlz

(-) Related Entries Specified in the PDB File

2qlz CRYSTAL STRUCTURE OF TRANSCRIPTION FACTOR PF0095 FROM PYROCOCCUS FURIOSUS