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(-)Asym./Biol. Unit
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Asym./Biol. Unit  (Jmol Viewer)

(-) Description

Title :  E. COLI ISCR-DNA COMPLEX
 
Authors :  J. A. Santos, S. Macedo-Ribeiro, P. J. B. Pereira
Date :  04 Dec 13  (Deposition) - 28 May 14  (Release) - 25 Jun 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.49
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Transcription, Transcription Regulation, Dna Recognition, Helix-Turn-Helix Motif, Rrf2-Like Regulator (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. A. Santos, N. Alonso-Garcia, S. Macedo-Ribeiro, P. J. B. Pereira
The Unique Regulation Of Iron-Sulfur Cluster Biogenesis In A Gram-Positive Bacterium.
Proc. Natl. Acad. Sci. Usa V. 111 E2251 2014
PubMed-ID: 24847070  |  Reference-DOI: 10.1073/PNAS.1322728111

(-) Compounds

Molecule 1 - HTH-TYPE TRANSCRIPTIONAL REGULATOR ISCR
    Atcc: 29425
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PETZ2_1A
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Variant: STAR
    Expression System Vector Type: PLASMID
    Mutation: YES
    Organism Scientific: ESCHERICHIA COLI K-12
    Organism Taxid: 83333
    Synonym: ISCR
 
Molecule 2 - HYA PROMOTER FRAGMENT
    Atcc: 29425
    Chains: C
    Organism Scientific: ESCHERICHIA COLI K-12
    Organism Taxid: 83333
    Synthetic: YES
 
Molecule 3 - HYA PROMOTER FRAGMENT
    Atcc: 29425
    Chains: D
    Organism Scientific: ESCHERICHIA COLI K-12
    Organism Taxid: 83333
    Synthetic: YES

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 4CHU)

(-) Sites  (0, 0)

(no "Site" information available for 4CHU)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Gly B:62 -Gly B:63

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4CHU)

(-) 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:126
 aligned with C3SZN7_ECOLX | C3SZN7 from UniProtKB/TrEMBL  Length:162

    Alignment length:140
                            1 2                                                                                                                                         
                            | |      9        19        29        39        49        59        69        79        89        99       109       119       129       139
         C3SZN7_ECOLX     1 M-RLTSKGRYAVTAMLDVALNSEAGPVPLADISERQGISLSYLEQLFSRLRKNGLVSSVRGPGGGYLLGKDASSIAVGEVISAVDESVDATRCQGKGGCQGGDKCLTHALWRDLSDRLTGFLNNITLGELVNNQEVLDVS 139
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhhh......hhhhhhhhhh.hhhhhhhhhhhhhhh..eeee.....eeee..hhhhhhhhhhhhhhhh...--------------..hhhhhhhhhhhhhhhhhhh.hhhhhhh........ Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4chu A   0 MGRLTSKGRYAVTAMLDVALNSEAGPVPLADISERQGISLSYLEQLFSRLRKNGLVSSVRGPGGGYLLGKDASSIAVGEVISAVDESVD--------------KSLTHALWRDLSDRLTGFLNNITLGELVNNQEVLDVS 139
                                     9        19        29        39        49        59        69        79        |-         -   |   109       119       129       139
                                                                                                                   88            103                                    


Chain B from PDB  Type:PROTEIN  Length:127
 aligned with C3SZN7_ECOLX | C3SZN7 from UniProtKB/TrEMBL  Length:162

    Alignment length:135
                                    10        20        30        40        50        60        70        80        90       100       110       120       130     
         C3SZN7_ECOLX     1 MRLTSKGRYAVTAMLDVALNSEAGPVPLADISERQGISLSYLEQLFSRLRKNGLVSSVRGPGGGYLLGKDASSIAVGEVISAVDESVDATRCQGKGGCQGGDKCLTHALWRDLSDRLTGFLNNITLGELVNNQEV 135
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhh.....hhhhhhhhhh.hhhhhhhhhhhhhhh..eeee.....eeee..hhhhhhhhhhhhhhh--------...hhhhh.hhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4chu B   1 GRLTSKGRYAVTAMLDVALNSEAGPVPLADISERQGISLSYLEQLFSRLRKNGLVSSVRGPGGGYLLGKDASSIAVGEVISAVD--------QGKGGSQGGDKSLTHALWRDLSDRLTGFLNNITLGELVNNQEV 135
                                    10        20        30        40        50        60        70        80   |     -  |    100       110       120       130     
                                                                                                              84       93                                          


Chain C from PDB  Type:DNA  Length:27
                                                           
                 4chu C   1 GAAATCCACACAGTTTGTATTGTTTTG  27
                                    10        20       


Chain D from PDB  Type:DNA  Length:27
                                                           
                 4chu D   1 CCAAAACAATACAAACTGTGTGGATTT  27
                                    10        20
   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 4CHU)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (9, 9)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (C3SZN7_ECOLX | C3SZN7)
molecular function
    GO:0051537    2 iron, 2 sulfur cluster binding    Interacting selectively and non-covalently with a 2 iron, 2 sulfur (2Fe-2S) cluster; this cluster consists of two iron atoms, with two inorganic sulfur atoms found between the irons and acting as bridging ligands.
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0003690    double-stranded DNA binding    Interacting selectively and non-covalently with double-stranded DNA.
    GO:0005506    iron ion binding    Interacting selectively and non-covalently with iron (Fe) ions.
    GO:0051536    iron-sulfur cluster binding    Interacting selectively and non-covalently with an iron-sulfur cluster, a combination of iron and sulfur atoms.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    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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  Cis Peptide Bonds
    Gly B:62 - Gly B:63   [ RasMol ]  
 

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  4chu
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 Related Entries

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

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(-) Related Entries Specified in the PDB File

4cic T. POTENS ISCR