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(-) Description

Title :  CRYSTAL STRUCTURES OF AN ACTIVATED YYCF HOMOLOGUE, THE ESSENTIAL RESPONSE REGULATOR FROM S.PNEUMONIAE IN COMPLEX WITH BEF3 AND THE EFFECT OF PH ON BEF3 BINDING, POSSIBLE PHOSPHATE IN THE ACTIVE SITE
 
Authors :  A. Riboldi-Tunnicliffe, N. W. Isaacs, T. J. Mitchell
Date :  12 Jul 05  (Deposition) - 26 Sep 06  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.65
Chains :  Asym./Biol. Unit :  A
Keywords :  Response Regulator, Essential Protein, Yycf/Yycg Homolog, S. Pneumoniae, Signaling Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Riboldi-Tunnicliffe, N. W. Isaacs, T. J. Mitchell
Crystal Structures Of An Activated Yycf Homologue, The Essential Response Regulator From S. Pneumoniae In Complex With Bef3 And The Effect Of Ph On Bef3 Binding, Possible Phosphate In The Active Site.
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - RESPONSE REGULATOR
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: RECEIVER DOMAIN (RESIDUES 1-120)
    Organism Scientific: STREPTOCOCCUS PNEUMONIAE
    Organism Taxid: 1313

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (2, 2)
No.NameCountTypeFull Name
1BEF1Ligand/IonBERYLLIUM TRIFLUORIDE ION
2MN1Ligand/IonMANGANESE (II) ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:9 , ASP A:52 , MET A:54 , BEF A:201 , HOH A:270BINDING SITE FOR RESIDUE MN A 202
2AC2SOFTWAREASP A:52 , LEU A:53 , MET A:54 , SER A:79 , ALA A:80 , LYS A:101 , MN A:202 , HOH A:205BINDING SITE FOR RESIDUE BEF A 201

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2A9O)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Lys A:101 -Pro A:102

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2A9O)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2A9O)

(-) Exons   (0, 0)

(no "Exon" information available for 2A9O)

(-) 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:117
 aligned with Q9S1K0_STREE | Q9S1K0 from UniProtKB/TrEMBL  Length:234

    Alignment length:117
                                    11        21        31        41        51        61        71        81        91       101       111       
         Q9S1K0_STREE     2 KKILIVDDEKPISDIIKFNMTKEGYEVVTAFNGREALEQFEAEQPDIIILDLMLPEIDGLEVAKTIRKTSSVPILMLSAKDSEFDKVIGLELGADDYVTKPFSNRELQARVKALLRR 118
               SCOP domains d2a9oa_ A: DNA-binding response regulator MicA, N-terminal domain                                                     SCOP domains
               CATH domains 2a9oA00 A:2-118  [code=3.40.50.2300, no name defined]                                                                 CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee..hhhhhhhhhhhhhhh..eeeee.hhhhhhhhhhhhh..eeee.......hhhhhhhhhhhhh...eeeee...hhhhhhhhhhhh..eeee...hhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------- Transcript
                 2a9o A   2 KKILIVDDEKPISDIIKFNMTKEGYEVVTAFNGREALEQFEAEQPDIIILDLMLPEIDGLEVAKTIRKTSSVPILMLSAKDSEFDKVIGLELGADDYVTKPFSNRELQARVKALLRR 118
                                    11        21        31        41        51        61        71        81        91       101       111
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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/Biological Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2A9O)

(-) Gene Ontology  (6, 6)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (Q9S1K0_STREE | Q9S1K0)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
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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 Related Entries

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

UniProtKB/TrEMBL
        Q9S1K0_STREE | Q9S1K0: 1nxo 1nxp 1nxs 1nxt 1nxv 1nxw 1nxx 2a9p 2a9q 2a9r

(-) Related Entries Specified in the PDB File

1nxo 1nxp 1nxs 1nxt 1nxv 1nxw 2a9p 2a9q