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(-) Description

Title :  BERRYLIUM FLUORIDE ACTIVATED RECEIVER DOMAIN OF E.COLI PHOP
 
Authors :  P. Bachhawat
Date :  18 Apr 07  (Deposition) - 22 May 07  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Chey-Like Fold, Response Regulator, Beryllium Fluoride, Transcription Factor, Phop, Activated, Virulence, Phob Family, Transcriptional Regulator (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  P. Bachhawat, A. M. Stock
Crystal Structures Of The Receiver Domain Of The Response Regulator Phop From Escherichia Coli In The Absence And Presence Of The Phosphoryl Analog Beryllofluoride.
J. Bacteriol. V. 189 5987 2007
PubMed-ID: 17545283  |  Reference-DOI: 10.1128/JB.00049-07
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - TRANSCRIPTIONAL REGULATORY PROTEIN PHOP
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21
    Expression System Plasmid: PEF31
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Expression System Vector Type: PJES307
    Fragment: N-TERMINAL REGULATORY DOMAIN (RESIDUES 1-121)
    Gene: PHOP
    Mutation: YES
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 9)

Asymmetric Unit (4, 9)
No.NameCountTypeFull Name
1BEF1Ligand/IonBERYLLIUM TRIFLUORIDE ION
2MG1Ligand/IonMAGNESIUM ION
3MSE4Mod. Amino AcidSELENOMETHIONINE
4PT3Ligand/IonPLATINUM (II) ION
Biological Unit 1 (2, 10)
No.NameCountTypeFull Name
1BEF2Ligand/IonBERYLLIUM TRIFLUORIDE ION
2MG-1Ligand/IonMAGNESIUM ION
3MSE8Mod. Amino AcidSELENOMETHIONINE
4PT-1Ligand/IonPLATINUM (II) ION

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:15 , HOH A:271 , HOH A:282 , HOH A:283BINDING SITE FOR RESIDUE PT A 201
2AC2SOFTWAREMSE A:109 , MSE A:112BINDING SITE FOR RESIDUE PT A 202
3AC3SOFTWAREHIS A:25 , MSE A:116BINDING SITE FOR RESIDUE PT A 203
4AC4SOFTWAREASP A:8 , ASP A:51 , GLY A:53 , BEF A:205 , HOH A:291 , HOH A:292BINDING SITE FOR RESIDUE MG A 204
5AC5SOFTWAREASP A:51 , LEU A:52 , GLY A:53 , THR A:79 , ALA A:80 , LYS A:101 , MG A:204 , HOH A:247 , HOH A:284 , HOH A:291 , HOH A:294BINDING SITE FOR RESIDUE BEF A 205

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2PL1)

(-) 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 2PL1)

(-) PROSITE Motifs  (2, 2)

Asymmetric Unit (2, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1RESPONSE_REGULATORYPS50110 Response regulatory domain profile.PHOP_ECOLI2-116  1A:2-116
2OMPR_PHOBPS51755 OmpR/PhoB-type DNA-binding domain profile.PHOP_ECOLI124-222  1A:121-121
Biological Unit 1 (2, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1RESPONSE_REGULATORYPS50110 Response regulatory domain profile.PHOP_ECOLI2-116  2A:2-116
2OMPR_PHOBPS51755 OmpR/PhoB-type DNA-binding domain profile.PHOP_ECOLI124-222  2A:121-121

(-) Exons   (0, 0)

(no "Exon" information available for 2PL1)

(-) 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:121
 aligned with PHOP_ECOLI | P23836 from UniProtKB/Swiss-Prot  Length:223

    Alignment length:125
                                    10        20        30        40        50        60        70        80        90       100       110       120     
           PHOP_ECOLI     1 MRVLVVEDNALLRHHLKVQIQDAGHQVDDAEDAKEADYYLNEHIPDIAIVDLGLPDEDGLSLIRRWRSNDVSLPILVLTARESWQDKVEVLSAGADDYVTKPFHIEEVMARMQALMRRNSGLASQ 125
               SCOP domains d2pl1a_ A: PhoP receiver domain                                                                                               SCOP domains
               CATH domains -2pl1A00 A:2-121  [code=3.40.50.2300, no name defined]                                                                        CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee..hhhhhhhhhhhhhhh..eeeee.hhhhhhhhhhhh...eeee.......hhhhhhhhhhhh.....eeeee...hhhhhhhhhhh...eeee...hhhhhhhhhhhhhhhhh----. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -RESPONSE_REGULATORY  PDB: A:2-116 UniProt: 2-116                                                                   -------OM PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------- Transcript
                 2pl1 A   1 mRVLVVEDNALLRHHLKVQIQDAGHQVDDAEDAKEADYYLNEHIPDIAIVDLGLPDEDGLSLIRRWRSNDVSLPILVLTARESWQDKVEVLSAGADDYVTKPFHIEEVmARmQALmRRNS----Q 121
                            |       10        20        30        40        50        60        70        80        90       100       110 |   | 120    |
                            |                                                                                                         109-MSE  | 120  121
                            1-MSE                                                                                                        112-MSE         
                                                                                                                                             116-MSE
   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  (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 2PL1)

(-) Gene Ontology  (7, 7)

Asymmetric Unit(hide GO term definitions)
Chain A   (PHOP_ECOLI | P23836)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0042802    identical protein binding    Interacting selectively and non-covalently with an identical protein or proteins.
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:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.

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 Related Entries

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

UniProtKB/Swiss-Prot
        PHOP_ECOLI | P23836: 2pkx

(-) Related Entries Specified in the PDB File

2pkx UNACTIVATED E.COLI PHOP RECEIVER DOMAIN