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(-) Description

Title :  THE CRYSTAL STRUCTURE OF THE GAF DOMAIN OF A TWO-COMPONENT SENSOR HISTIDINE KINASE FROM BACILLUS HALODURANS TO 2.45A
 
Authors :  A. J. Stein, J. Mack, K. Buck, A. Joachimiak, Midwest Center For Stru Genomics (Mcsg)
Date :  28 Jul 10  (Deposition) - 11 Aug 10  (Release) - 11 Aug 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.45
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  A,B  (1x)
Keywords :  Gaf Domain, Sensor, Histidine, Kinase, Psi, Mcsg, Structural Genomics, Midwest Center For Structural Genomics, Protein Structure Initiative, Transcription Regulator (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  A. J. Stein, J. Mack, K. Buck, A. Joachimiak
The Crystal Structure Of The Gaf Domain Of A Two-Component Sensor Histidine Kinase From Bacillus Halodurans To 2. 45A
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - SENSOR PROTEIN
    ChainsA, B
    EC Number2.7.13.3
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System StrainBL21(DE3)
    Expression System Taxid562
    Expression System Vector TypePLASMID
    GeneCCKA, BH0536
    Organism ScientificBACILLUS HALODURANS
    Organism Taxid86665
    StrainC

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit AB
Biological Unit 1 (1x)A 
Biological Unit 2 (1x) B
Biological Unit 3 (1x)AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 7)

Asymmetric Unit (2, 7)
No.NameCountTypeFull Name
1ACT3Ligand/IonACETATE ION
2MSE4Mod. Amino AcidSELENOMETHIONINE
Biological Unit 1 (2, 3)
No.NameCountTypeFull Name
1ACT1Ligand/IonACETATE ION
2MSE2Mod. Amino AcidSELENOMETHIONINE
Biological Unit 2 (2, 4)
No.NameCountTypeFull Name
1ACT2Ligand/IonACETATE ION
2MSE2Mod. Amino AcidSELENOMETHIONINE
Biological Unit 3 (2, 7)
No.NameCountTypeFull Name
1ACT3Ligand/IonACETATE ION
2MSE4Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:29 , SER A:31 , TYR A:66BINDING SITE FOR RESIDUE ACT A 2
2AC2SOFTWARETRP A:126 , ALA B:7 , SER B:9 , ASP B:12BINDING SITE FOR RESIDUE ACT B 1
3AC3SOFTWAREARG B:29 , SER B:31 , TYR B:66 , HOH B:173BINDING SITE FOR RESIDUE ACT B 3

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3O5Y)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Tyr A:46 -Pro A:47
2Tyr B:46 -Pro B:47

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3O5Y)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3O5Y)

(-) Exons   (0, 0)

(no "Exon" information available for 3O5Y)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
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  UniProt sequence: complete  aligned part    
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SAPs(SNPs) PROSITE motifs Exons
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Chain A from PDB  Type:PROTEIN  Length:142
 aligned with Q9KFE5_BACHD | Q9KFE5 from UniProtKB/TrEMBL  Length:502

    Alignment length:142
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147  
         Q9KFE5_BACHD     8 MSLDDIINNMIDKLKLLVHFDRISFLLLANETLKLSHVYPKGSHSLDIGSTIPKEQSLYWSALDQRQTIFRSLTDTQDNFYEKQYLAILDLKSILVIPIYSKNKRVGVLSIGRKQQIDWSLDDLAFLEQLTDHLAVSIENVE 149
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhh...eeeeeeee..eeeeeeee...........ee....hhhhhhhhhh..eeee.........hhhhhhh....eeeeeeee....eeeeeeeee......hhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3o5y A   8 mSLDDIINNmIDKLKLLVHFDRISFLLLANETLKLSHVYPKGSHSLDIGSTIPKEQSLYWSALDQRQTIFRSLTDTQDNFYEKQYLAILDLKSILVIPIYSKNKRVGVLSIGRKQQIDWSLDDLAFLEQLTDHLAVSIENVE 149
                            |       17        27        37        47        57        67        77        87        97       107       117       127       137       147  
                            |       17-MSE                                                                                                                                
                            8-MSE                                                                                                                                         

Chain B from PDB  Type:PROTEIN  Length:147
 aligned with Q9KFE5_BACHD | Q9KFE5 from UniProtKB/TrEMBL  Length:502

    Alignment length:147
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       
         Q9KFE5_BACHD     7 DMSLDDIINNMIDKLKLLVHFDRISFLLLANETLKLSHVYPKGSHSLDIGSTIPKEQSLYWSALDQRQTIFRSLTDTQDNFYEKQYLAILDLKSILVIPIYSKNKRVGVLSIGRKQQIDWSLDDLAFLEQLTDHLAVSIENVELYGQ 153
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) --GAF-3o5yB01 B:9-145                                                                                                                      -------- Pfam domains (1)
           Pfam domains (2) --GAF-3o5yB02 B:9-145                                                                                                                      -------- Pfam domains (2)
         Sec.struct. author ..hhhhhhhhhhhhhhhhh...eeeeeee....eeeeeee...........ee....hhhhhhhhhh..eeee.........hhhhhhh....eeeeeeee....eeeeeeeee......hhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3o5y B   7 AmSLDDIINNmIDKLKLLVHFDRISFLLLANETLKLSHVYPKGSHSLDIGSTIPKEQSLYWSALDQRQTIFRSLTDTQDNFYEKQYLAILDLKSILVIPIYSKNKRVGVLSIGRKQQIDWSLDDLAFLEQLTDHLAVSIENVELYGQ 153
                             |      16|       26        36        46        56        66        76        86        96       106       116       126       136       146       
                             8-MSE   17-MSE                                                                                                                                    

   Legend:   → Mismatch (orange background)
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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  (0, 0)

(no "SCOP Domain" information available for 3O5Y)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3O5Y)

(-) Pfam Domains  (1, 2)

Asymmetric Unit
(-)
Clan: GAF (44)
(-)
Family: GAF (30)

(-) Gene Ontology  (9, 9)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (Q9KFE5_BACHD | Q9KFE5)
molecular function
    GO:0016301    kinase activity    Catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule.
    GO:0000155    phosphorelay sensor kinase activity    Catalysis of the phosphorylation of a histidine residue in response to detection of an extracellular signal such as a chemical ligand or change in environment, to initiate a change in cell state or activity. The two-component sensor is a histidine kinase that autophosphorylates a histidine residue in its active site. The phosphate is then transferred to an aspartate residue in a downstream response regulator, to trigger a response.
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
    GO:0016772    transferase activity, transferring phosphorus-containing groups    Catalysis of the transfer of a phosphorus-containing group from one compound (donor) to another (acceptor).
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:0016310    phosphorylation    The process of introducing a phosphate group into a molecule, usually with the formation of a phosphoric ester, a phosphoric anhydride or a phosphoric amide.
    GO:0007165    signal transduction    The cellular process in which a signal is conveyed to trigger a change in the activity or state of a cell. Signal transduction begins with reception of a signal (e.g. a ligand binding to a receptor or receptor activation by a stimulus such as light), or for signal transduction in the absence of ligand, signal-withdrawal or the activity of a constitutively active receptor. Signal transduction ends with regulation of a downstream cellular process, e.g. regulation of transcription or regulation of a metabolic process. Signal transduction covers signaling from receptors located on the surface of the cell and signaling via molecules located within the cell. For signaling between cells, signal transduction is restricted to events at and within the receiving cell.
    GO:0023014    signal transduction by protein phosphorylation    A process in which the transfer of one or more phosphate groups to a substrate transmits a signal to the phosphorylated substrate.
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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