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(-) Description

Title :  CRYSTAL STRUCTURE OF THE GAF DOMAIN OF A PUTATIVE SENSOR HISTIDINE KINASE FROM PSEUDOMONAS SYRINGAE PV. TOMATO
 
Authors :  M. E. Cuff, H. Li, J. Abdullah, A. Joachimiak, Midwest Center For Str Genomics (Mcsg)
Date :  11 Mar 08  (Deposition) - 13 May 08  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (2x)
Keywords :  Mega: 3. 30. 450. 40, Structural Genomics, Sensor Histidine Kinase, Pseudomonas Syringae, Psi-2, Protein Structure Initiative, Midwest Center For Structural Genomics, Mcsg, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. E. Cuff, H. Li, J. Abdullah, A. Joachimiak
Crystal Structure Of The Gaf Domain Of A Putative Sensor Histidine Kinase From Pseudomonas Syringae Pv. Tomato
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - SENSOR HISTIDINE KINASE
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PMCSG7
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: PSPTO_2131
    Organism Scientific: PSEUDOMONAS SYRINGAE PV. TOMATO
    Organism Taxid: 223283
    Strain: DC3000

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (2x): AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 17)

Asymmetric Unit (5, 17)
No.NameCountTypeFull Name
1BME1Ligand/IonBETA-MERCAPTOETHANOL
2EDO2Ligand/Ion1,2-ETHANEDIOL
3GOL6Ligand/IonGLYCEROL
4MSE4Mod. Amino AcidSELENOMETHIONINE
5SO44Ligand/IonSULFATE ION
Biological Unit 1 (5, 34)
No.NameCountTypeFull Name
1BME2Ligand/IonBETA-MERCAPTOETHANOL
2EDO4Ligand/Ion1,2-ETHANEDIOL
3GOL12Ligand/IonGLYCEROL
4MSE8Mod. Amino AcidSELENOMETHIONINE
5SO48Ligand/IonSULFATE ION

(-) Sites  (13, 13)

Asymmetric Unit (13, 13)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREARG A:53BINDING SITE FOR RESIDUE SO4 A 1
02AC2SOFTWAREARG B:24 , ARG B:27 , GLU B:143BINDING SITE FOR RESIDUE SO4 B 2
03AC3SOFTWARELYS A:83 , ARG B:105BINDING SITE FOR RESIDUE SO4 B 3
04AC4SOFTWAREILE A:137 , SER A:138 , TYR B:18 , GLN B:22BINDING SITE FOR RESIDUE SO4 B 4
05AC5SOFTWARELEU A:28 , ARG A:29 , ASP A:33 , GLU B:146BINDING SITE FOR RESIDUE EDO A 175
06AC6SOFTWAREASP A:94 , GLU B:37 , CYS B:49 , GLN B:52 , ARG B:53BINDING SITE FOR RESIDUE BME B 1
07AC7SOFTWARETHR B:88 , ARG B:105 , THR B:108 , HIS B:109BINDING SITE FOR RESIDUE EDO B 175
08AC8SOFTWAREALA B:59 , ASP B:61 , ASN B:133BINDING SITE FOR RESIDUE GOL B 176
09AC9SOFTWAREALA A:59 , ASP A:61 , ASN A:133 , ILE A:137BINDING SITE FOR RESIDUE GOL A 176
10BC1SOFTWAREGLU A:84 , ARG A:85 , HIS A:109 , ASP B:94 , LEU B:96 , PRO B:106 , GLY B:107 , PRO B:111BINDING SITE FOR RESIDUE GOL A 177
11BC2SOFTWAREGLU A:90 , THR A:92BINDING SITE FOR RESIDUE GOL A 178
12BC3SOFTWARECYS B:55 , ALA B:56 , ALA B:59 , HIS B:80BINDING SITE FOR RESIDUE GOL B 177
13BC4SOFTWAREPRO A:106 , TRP B:102 , GLU B:104BINDING SITE FOR RESIDUE GOL B 178

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3CIT)

(-) 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    
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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:155
 aligned with Q884G2_PSESM | Q884G2 from UniProtKB/TrEMBL  Length:394

    Alignment length:157
                                    25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       
         Q884G2_PSESM    16 NHYRQSQSRAARLRLLVDTGQELIQLPPEAMRKCVLQRACAFVAMDHGLLLEWGADNGVQTTARHGSKERLSTLETTADPLAIGPQWLERPGTHLPCVLLLPLRGADEGSFGTLVLANSVAISAPDGEDIESLQLLATLLAAHLENNRLLEALVARD 172
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 3citA00 A:16-172  [code=3.30.450.40, no name defined]                                                                                                         CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeeeee..--...eeeeee.hhhhhh.............eeee.......eeeeeee........eeeeeee.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3cit A  16 NAYRQSQSRAARLRLLVDTGQELIQLPPEAmRKCVLQRACAFVAmDHGLLLEWG--NGVQTTARHGSKERLSTLETTADPLAIGPQWLERPGTHLPCVLLLPLRGADEGSFGTLVLANSVAISAPDGEDIESLQLLATLLAAHLENNRLLEALVARD 172
                                    25        35        45|       55    |   65   |  | 75        85        95       105       115       125       135       145       155       165       
                                                         46-MSE        60-MSE   69 72                                                                                                    


Chain B from PDB  Type:PROTEIN  Length:150
 aligned with Q884G2_PSESM | Q884G2 from UniProtKB/TrEMBL  Length:394

    Alignment length:154
                                    25        35        45        55        65        75        85        95       105       115       125       135       145       155       165    
         Q884G2_PSESM    16 NHYRQSQSRAARLRLLVDTGQELIQLPPEAMRKCVLQRACAFVAMDHGLLLEWGADNGVQTTARHGSKERLSTLETTADPLAIGPQWLERPGTHLPCVLLLPLRGADEGSFGTLVLANSVAISAPDGEDIESLQLLATLLAAHLENNRLLEALV 169
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 3citB00 B:16-169  [code=3.30.450.40, no name defined]                                                                                                      CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhh...eeeeee...-...eeeeee.hhhhhhh.---........eeee.......eeeeeee........eeeeeee.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3cit B  16 NAYRQSQSRAARLRLLVDTGQELIQLPPEAmRKCVLQRACAFVAmDHGLLLEWGA-NGVQTTARHGSKERLSTL---ADPLAIGPQWLERPGTHLPCVLLLPLRGADEGSFGTLVLANSVAISAPDGEDIESLQLLATLLAAHLENNRLLEALV 169
                                    25        35        45|       55    |   65    | | 75        85   |   |95       105       115       125       135       145       155       165    
                                                         46-MSE        60-MSE    70 |               89  93                                                                            
                                                                                   72
   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 3CIT)

(-) CATH Domains  (1, 2)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3CIT)

(-) Gene Ontology  (9, 9)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (Q884G2_PSESM | Q884G2)
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:0046983    protein dimerization activity    The formation of a protein dimer, a macromolecular structure consists of two noncovalently associated identical or nonidentical subunits.
    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.
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: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:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    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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