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(-) Description

Title :  THE CRYSTAL STRUCTURE OF THE C-TERMINAL DOMAIN OF THE TWO-COMPONENT RESPONSE REGULATOR YESN FROM FUSOBACTERIUM NUCLEATUM SUBSP. NUCLEATUM ATCC 25586
 
Authors :  K. Tan, E. Rakowski, S. Clancy, A. Joachimiak, Midwest Center For Structural Genomics (Mcsg)
Date :  12 Feb 10  (Deposition) - 23 Feb 10  (Release) - 23 Feb 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.05
Chains :  Asym. Unit :  A,B,C,D,E
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Biol. Unit 3:  E  (1x)
Keywords :  Structural Genomics, Psi-2, Protein Structure Initiative, Mcsg, Midwest Center For Structural Genomics, Dna-Binding, Transcription, Transcription Regulation, Transcription Regulator (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. Tan, E. Rakowski, S. Clancy, A. Joachimiak
The Crystal Structure Of The C-Terminal Domain Of The Two-Component Response Regulator Yesn From Fusobacterium Nucleatum Subsp. Nucleatum Atcc 25586
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - TWO-COMPONENT RESPONSE REGULATOR YESN
    Chains: A, B, C, D, E
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PMCSG19B
    Expression System Strain: PPK1037
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: C-TERMINAL DOMAIN RESIDUES 154-261
    Gene: FN0189
    Organism Scientific: FUSOBACTERIUM NUCLEATUM
    Organism Taxid: 76856
    Strain: ATCC 25586

 Structural Features

(-) Chains, Units

  12345
Asymmetric Unit : ABCDE
Biological Unit 1 (1x): AB   
Biological Unit 2 (1x):   CD 
Biological Unit 3 (1x):     E

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 11)

Asymmetric Unit (2, 11)
No.NameCountTypeFull Name
1MSE10Mod. Amino AcidSELENOMETHIONINE
2PO41Ligand/IonPHOSPHATE ION
Biological Unit 1 (2, 5)
No.NameCountTypeFull Name
1MSE4Mod. Amino AcidSELENOMETHIONINE
2PO41Ligand/IonPHOSPHATE ION
Biological Unit 2 (1, 4)
No.NameCountTypeFull Name
1MSE4Mod. Amino AcidSELENOMETHIONINE
2PO4-1Ligand/IonPHOSPHATE ION
Biological Unit 3 (1, 2)
No.NameCountTypeFull Name
1MSE2Mod. Amino AcidSELENOMETHIONINE
2PO4-1Ligand/IonPHOSPHATE ION

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHOH A:142 , TYR A:235 , LYS A:239 , HOH A:284 , HOH A:285 , HOH A:291 , TYR B:235 , LYS B:239BINDING SITE FOR RESIDUE PO4 A 1

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3LSG)

(-) 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 A from PDB  Type:PROTEIN  Length:103
 aligned with Q8RGT8_FUSNN | Q8RGT8 from UniProtKB/TrEMBL  Length:261

    Alignment length:103
                                   160       170       180       190       200       210       220       230       240       250   
         Q8RGT8_FUSNN   151 NNYKELIQNIIEESYTDSQFTLSVLSEKLDLSSGYLSIMFKKNFGIPFQDYLLQKRMEKAKLLLLTTELKNYEIAEQVGFEDVNYFITKFKKYYQITPKQYRE 253
               SCOP domains ------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhh.....hhhhhhhhh..hhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhh..hhhhhhhhh...hhhhhhhhhhhhhh.hhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------- Transcript
                 3lsg A 151 SNAKELIQNIIEESYTDSQFTLSVLSEKLDLSSGYLSImFKKNFGIPFQDYLLQKRmEKAKLLLLTTELKNYEIAEQVGFEDVNYFITKFKKYYQITPKQYRE 253
                                   160       170       180       190       200      |210       220       230       240       250   
                                                                189-MSE           207-MSE                                          


Chain B from PDB  Type:PROTEIN  Length:103
 aligned with Q8RGT8_FUSNN | Q8RGT8 from UniProtKB/TrEMBL  Length:261

    Alignment length:103
                                   160       170       180       190       200       210       220       230       240       250   
         Q8RGT8_FUSNN   151 NNYKELIQNIIEESYTDSQFTLSVLSEKLDLSSGYLSIMFKKNFGIPFQDYLLQKRMEKAKLLLLTTELKNYEIAEQVGFEDVNYFITKFKKYYQITPKQYRE 253
               SCOP domains ------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhh.....hhhhhhhhhh.hhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhh..hhhhhhhhh...hhhhhhhhhhhhhh.hhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------- Transcript
                 3lsg B 151 SNAKELIQNIIEESYTDSQFTLSVLSEKLDLSSGYLSImFKKNFGIPFQDYLLQKRmEKAKLLLLTTELKNYEIAEQVGFEDVNYFITKFKKYYQITPKQYRE 253
                                   160       170       180       190       200      |210       220       230       240       250   
                                                                189-MSE           207-MSE                                          


Chain C from PDB  Type:PROTEIN  Length:102
 aligned with Q8RGT8_FUSNN | Q8RGT8 from UniProtKB/TrEMBL  Length:261

    Alignment length:102
                                   161       171       181       191       201       211       221       231       241       251  
         Q8RGT8_FUSNN   152 NYKELIQNIIEESYTDSQFTLSVLSEKLDLSSGYLSIMFKKNFGIPFQDYLLQKRMEKAKLLLLTTELKNYEIAEQVGFEDVNYFITKFKKYYQITPKQYRE 253
               SCOP domains ------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author hhhhhhhhhhhhhh.....hhhhhhhhh..hhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhh..hhhhhhhhh...hhhhhhhhhhhhhh.hhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------ Transcript
                 3lsg C 152 NAKELIQNIIEESYTDSQFTLSVLSEKLDLSSGYLSImFKKNFGIPFQDYLLQKRmEKAKLLLLTTELKNYEIAEQVGFEDVNYFITKFKKYYQITPKQYRE 253
                                   161       171       181       191       201     | 211       221       231       241       251  
                                                               189-MSE           207-MSE                                          


Chain D from PDB  Type:PROTEIN  Length:95
 aligned with Q8RGT8_FUSNN | Q8RGT8 from UniProtKB/TrEMBL  Length:261

    Alignment length:95
                                   160       170       180       190       200       210       220       230       240     
         Q8RGT8_FUSNN   151 NNYKELIQNIIEESYTDSQFTLSVLSEKLDLSSGYLSIMFKKNFGIPFQDYLLQKRMEKAKLLLLTTELKNYEIAEQVGFEDVNYFITKFKKYYQ 245
               SCOP domains ----------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhh.......hhhhhhhhhh.hhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhh..hhhhhhhhh...hhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------- Transcript
                 3lsg D 151 SNAKELIQNIIEESYTDSQFTLSVLSEKLDLSSGYLSImFKKNFGIPFQDYLLQKRmEKAKLLLLTTELKNYEIAEQVGFEDVNYFITKFKKYYQ 245
                                   160       170       180       190       200      |210       220       230       240     
                                                                189-MSE           207-MSE                                  


Chain E from PDB  Type:PROTEIN  Length:97
 aligned with Q8RGT8_FUSNN | Q8RGT8 from UniProtKB/TrEMBL  Length:261

    Alignment length:97
                                   160       170       180       190       200       210       220       230       240       
         Q8RGT8_FUSNN   151 NNYKELIQNIIEESYTDSQFTLSVLSEKLDLSSGYLSIMFKKNFGIPFQDYLLQKRMEKAKLLLLTTELKNYEIAEQVGFEDVNYFITKFKKYYQIT 247
               SCOP domains ------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) ------------------------HTH_18-3lsgE01 E:175-247                                                  Pfam domains (1)
           Pfam domains (2) ------------------------HTH_18-3lsgE02 E:175-247                                                  Pfam domains (2)
           Pfam domains (3) ------------------------HTH_18-3lsgE03 E:175-247                                                  Pfam domains (3)
           Pfam domains (4) ------------------------HTH_18-3lsgE04 E:175-247                                                  Pfam domains (4)
           Pfam domains (5) ------------------------HTH_18-3lsgE05 E:175-247                                                  Pfam domains (5)
         Sec.struct. author hhhhhhhhhhhhhhh.....hhhhhhhhh..hhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhh..hhhhhhhhh...hhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------- Transcript
                 3lsg E 151 SNAKELIQNIIEESYTDSQFTLSVLSEKLDLSSGYLSImFKKNFGIPFQDYLLQKRmEKAKLLLLTTELKNYEIAEQVGFEDVNYFITKFKKYYQIT 247
                                   160       170       180       190       200      |210       220       230       240       
                                                                189-MSE           207-MSE
   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 3LSG)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (1, 5)

Asymmetric Unit
(-)
Clan: HTH (544)

(-) Gene Ontology  (7, 7)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D,E   (Q8RGT8_FUSNN | Q8RGT8)
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:0000160    phosphorelay signal transduction system    A conserved series of molecular signals found in prokaryotes and eukaryotes; involves autophosphorylation of a histidine kinase and the transfer of the phosphate group to an aspartate that then acts as a phospho-donor to response regulator proteins.
    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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