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(-) Description

Title :  RR02-REC PHOSPHATE IN THE ACTIVE SITE
 
Authors :  A. Riboldi-Tunnicliffe
Date :  12 Jul 05  (Deposition) - 26 Sep 06  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.34
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Yycf, Yycg, Response Regulator, S. Pneumoniae, Essential Protein, Signaling Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Riboldi-Tunnicliffe
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

(-) Compounds

Molecule 1 - DNA-BINDING RESPONSE REGULATOR
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PET33B
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: N-TERMINAL DOMAIN, RESIDUES 1-120
    Organism Scientific: STREPTOCOCCUS PNEUMONIAE
    Organism Taxid: 170187
    Strain: TIGR4

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (2x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 3)

Asymmetric Unit (3, 3)
No.NameCountTypeFull Name
1MG1Ligand/IonMAGNESIUM ION
2PHD1Mod. Amino AcidASPARTYL PHOSPHATE
3XE1Ligand/IonXENON
Biological Unit 1 (1, 2)
No.NameCountTypeFull Name
1MG-1Ligand/IonMAGNESIUM ION
2PHD2Mod. Amino AcidASPARTYL PHOSPHATE
3XE-1Ligand/IonXENON

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREILE A:6 , ASP A:8 , SER A:14 , ALA A:31BINDING SITE FOR RESIDUE MG A 121

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2A9R)

(-) Cis Peptide Bonds  (1, 1)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2A9R)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2A9R)

(-) Exons   (0, 0)

(no "Exon" information available for 2A9R)

(-) 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:118
 aligned with Q9S1K0_STREE | Q9S1K0 from UniProtKB/TrEMBL  Length:234

    Alignment length:118
                                    11        21        31        41        51        61        71        81        91       101       111        
         Q9S1K0_STREE     2 KKILIVDDEKPISDIIKFNMTKEGYEVVTAFNGREALEQFEAEQPDIIILDLMLPEIDGLEVAKTIRKTSSVPILMLSAKDSEFDKVIGLELGADDYVTKPFSNRELQARVKALLRRS 119
               SCOP domains d2a9ra_ A: DNA-binding response regulator MicA, N-terminal domain                                                      SCOP domains
               CATH domains 2a9rA00 A:2-119  [code=3.40.50.2300, no name defined]                                                                  CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee..hhhhhhhhhhhhhhh..eeeee.hhhhhhhhhhhhh..eeeee......hhhhhhhhhhhhh...eeeee...hhhhhhhhhhh...eeee...hhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------- Transcript
                 2a9r A   2 KKILIVDDEKPISDIIKFNMTKEGYEVVTAFNGREALEQFEAEQPDIIILdLMLPEIDGLEVAKTIRKTSSVPILMLSAKDSEFDKVIGLELGADDYVTKPFSNRELQARVKALLRRS 119
                                    11        21        31        41        51|       61        71        81        91       101       111        
                                                                             52-PHD
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 Classification and Annotation

(-) SCOP Domains  (1, 1)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (1, 1)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2A9R)

(-) Gene Ontology  (6, 6)

Asymmetric 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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  2a9r
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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 2a9o 2a9p 2a9q

(-) Related Entries Specified in the PDB File

2a9o CRYSTAL STRUCTURES OF AN ACTIVATED YYCF HOMOLOGUE, THE ESSENTIAL RESPONSE REGULATOR FROM S.PNEUMONIAE IN COMPLEX WITH BEF3
2a9p CRYSTAL STRUCTURE OF BEF3 BOUND RR02-REC AT MEDIUM RESOLUTION
2a9q CRYSTAL STRUCTURE OF RR02-REC BEF3 BOUND AT LOW RESOLUTION