2R78 - JenaLib

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Title :   CRYSTAL STRUCTURE OF A DOMAIN OF THE SENSORY BOX SENSOR HISTIDINE KINASE/RESPONSE REGULATOR FROM GEOBACTER SULFURREDUCENS

Authors :   R. Zhang, A. Sather, S. Clancy, A. Joachimiak, Midwest Center For Structural Genomics (Mcsg)

Date :   07 Sep 07 (Deposition) - 25 Sep 07 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.60

Chains :   Asym. Unit : A,B,C,D
Biol. Unit 1: A,B  (1x)
Biol. Unit 2: C,D  (1x)

Keywords :   Sensory Box Sensor Histidine Kinase/Response Regulator, Structural Genomics, Psi, Mcsg, Protein Structure Initiative, Midwest Center For Structural Genomics, Phosphorylation, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   R. Zhang, A. Sather, S. Clancy, A. Joachimiak
The Crystal Structure Of A Domain Of The Sensory Box Sensor Histidine Kinase/Response Regulator From Geobacter Sulfurreducens.
To Be Published
PubMed: search
(for further references see the PDB file header)

Molecule 1 - SENSOR PROTEIN
	Atcc	:	51573
	Chains	:	A, B, C, D
	EC Number	:	2.7.13.3
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21
	Expression System Plasmid	:	PDM68
	Expression System Strain	:	BL21
	Expression System Taxid	:	511693
	Expression System Vector Type	:	PLASMID
	Gene	:	GSU1285
	Organism Scientific	:	GEOBACTER SULFURREDUCENS PCA
	Organism Taxid	:	243231
	Strain	:	PCA, DSM 12127

		1	2	3	4
Asymmetric Unit	:	A	B	C	D
Biological Unit 1 (1x)	:	A	B
Biological Unit 2 (1x)	:			C	D

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 14)

No.	Name	Count	Type	Full Name
1	ACT	10	Ligand/Ion	ACETATE ION
2	MSE	4	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 1 (2, 7)

No.	Name	Count	Type	Full Name
1	ACT	5	Ligand/Ion	ACETATE ION
2	MSE	2	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 2 (2, 7)

No.	Name	Count	Type	Full Name
1	ACT	5	Ligand/Ion	ACETATE ION
2	MSE	2	Mod. Amino Acid	SELENOMETHIONINE

(no "Site" information available for 2R78)

(no "SS Bond" information available for 2R78)

(no "Cis Peptide Bond" information available for 2R78)

(no "SAP(SNP)/Variant" information available for 2R78)

(no "PROSITE Motif" information available for 2R78)

(no "Exon" information available for 2R78)

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:114
 aligned with Q74DN1_GEOSL | Q74DN1 from UniProtKB/TrEMBL  Length:772

    Alignment length:142
                                                                 40                                                                                                       
                                                               39 |                                                                                                       
                                    12        22        32      | 41        51        61        71        81        91       101       111       121       131       141  
         Q74DN1_GEOSL     3 GSLVTYLKKCAASVLGAPYTLLCRLLPRITADLRYGS-GYRALFEHAIDGIFIMDAEGHYLDVNPAICSAIGYTRDEFLALDWGVLSRGVDSGWAAASLARIVGGEPLREERTVWTRNGDQLTVELSAHLLPDGKILGIARD 143
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 2                            r78A00 A:5-118  [code=3.30.450.20, no name defined]                                                               CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .----------------------------..hhhhhhhhhhhhhhhh..eeeee.....eeeehhhhhhhhh.hhhhhh.............hhhhhhhhhhhh...eeeeeeee.....eeeeeeeeee.....eeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2r78 A   5 G----------------------------TENLYFQSNAYRALFEHAIDGIFImDAEGHYLDVNPAICSAIGYTRDEFLALDWGVLSRGVDSGWAAASLARIVGGEPLREERTVWTRNGDQLTVELSAHLLPDGKILGIARD 118
                            |        -         -         6        16        26   |    36        46        56        66        76        86        96       106       116  
                            |                            6                      30-MSE                                                                                    
                            5

Chain B from PDB  Type:PROTEIN  Length:115
 aligned with Q74DN1_GEOSL | Q74DN1 from UniProtKB/TrEMBL  Length:772

    Alignment length:143
                                                                 40                                                                                                        
                                                               39 |                                                                                                        
                                    12        22        32      | 41        51        61        71        81        91       101       111       121       131       141   
         Q74DN1_GEOSL     3 GSLVTYLKKCAASVLGAPYTLLCRLLPRITADLRYGS-GYRALFEHAIDGIFIMDAEGHYLDVNPAICSAIGYTRDEFLALDWGVLSRGVDSGWAAASLARIVGGEPLREERTVWTRNGDQLTVELSAHLLPDGKILGIARDV 144
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 2                            r78B00 B:5-119  [code=3.30.450.20, no name defined]                                                                CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .----------------------------..hhhhhhhhhhhhhhhh..eeeee.....eeeehhhhhhhhh.hhhhhh.............hhhhhhhhhhhh...eeeeeeee.....eeeeeeeeee.....eeeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2r78 B   5 G----------------------------TENLYFQSNAYRALFEHAIDGIFImDAEGHYLDVNPAICSAIGYTRDEFLALDWGVLSRGVDSGWAAASLARIVGGEPLREERTVWTRNGDQLTVELSAHLLPDGKILGIARDV 119
                            |        -         -         6        16        26   |    36        46        56        66        76        86        96       106       116   
                            5                            6                      30-MSE

Chain C from PDB  Type:PROTEIN  Length:116
 aligned with Q74DN1_GEOSL | Q74DN1 from UniProtKB/TrEMBL  Length:772

    Alignment length:129
                                                   40                                                                                                        
                                                 39 |                                                                                                        
                                    26        36  | |   45        55        65        75        85        95       105       115       125       135         
         Q74DN1_GEOSL    17 LGAPYTLLCRLLPRITADLRYGS-GYRALFEHAIDGIFIMDAEGHYLDVNPAICSAIGYTRDEFLALDWGVLSRGVDSGWAAASLARIVGGEPLREERTVWTRNGDQLTVELSAHLLPDGKILGIARDV 144
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 2r             78C00 C:4-119  [code=3.30.450.20, no name defined]                                                                 CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..-------------..hhhhhhhhhhhhhhhh..eeeee.....eeeehhhhhhhhh.hhhhhh.............hhhhhhhhhhhh...eeeeeeee.....eeeeeeeeee.....eeeeeeee Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2r78 C   4 LG-------------TENLYFQSNAYRALFEHAIDGIFImDAEGHYLDVNPAICSAIGYTRDEFLALDWGVLSRGVDSGWAAASLARIVGGEPLREERTVWTRNGDQLTVELSAHLLPDGKILGIARDV 119
                             |       -     |  10        20        30        40        50        60        70        80        90       100       110         
                             5             6                      30-MSE

Chain D from PDB  Type:PROTEIN  Length:115
 aligned with Q74DN1_GEOSL | Q74DN1 from UniProtKB/TrEMBL  Length:772

    Alignment length:143
                                                                 40                                                                                                        
                                                               39 |                                                                                                        
                                    12        22        32      | 41        51        61        71        81        91       101       111       121       131       141   
         Q74DN1_GEOSL     3 GSLVTYLKKCAASVLGAPYTLLCRLLPRITADLRYGS-GYRALFEHAIDGIFIMDAEGHYLDVNPAICSAIGYTRDEFLALDWGVLSRGVDSGWAAASLARIVGGEPLREERTVWTRNGDQLTVELSAHLLPDGKILGIARDV 144
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 2                            r78D00 D:5-119  [code=3.30.450.20, no name defined]                                                                CATH domains
           Pfam domains (1) -----------------------------------------------PAS_9-2r78D01 D:24-119                                                                           Pfam domains (1)
           Pfam domains (2) -----------------------------------------------PAS_9-2r78D02 D:24-119                                                                           Pfam domains (2)
           Pfam domains (3) -----------------------------------------------PAS_9-2r78D03 D:24-119                                                                           Pfam domains (3)
           Pfam domains (4) -----------------------------------------------PAS_9-2r78D04 D:24-119                                                                           Pfam domains (4)
         Sec.struct. author .----------------------------..hhhhhhhhhhhhhhhh..eeeee.....eeeehhhhhhhhh.hhhhhh.............hhhhhhhhhhhh...eeeeeeee.....eeeeeeeeee.....eeeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2r78 D   5 G----------------------------TENLYFQSNAYRALFEHAIDGIFImDAEGHYLDVNPAICSAIGYTRDEFLALDWGVLSRGVDSGWAAASLARIVGGEPLREERTVWTRNGDQLTVELSAHLLPDGKILGIARDV 119
                            |        -         -         6        16        26   |    36        46        56        66        76        86        96       106       116   
                            5                            6                      30-MSE

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 '\|'

(no "SCOP Domain" information available for 2R78)

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 2-Layer Sandwich (8480)

Topology: Beta-Lactamase (202)

Homologous Superfamily: [code=3.30.450.20, no name defined] (117)

Geobacter sulfurreducens pca. Organism_taxid: 243231. Strain: pca, dsm12127. (1)

1a	2r78C00	C:4-119
1b	2r78B00	B:5-119
1c	2r78D00	D:5-119
1d	2r78A00	A:5-118

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: PAS_Fold (84)

Family: PAS_9 (29)

Geobacter sulfurreducens (1)

1a	PAS_9-2r78D01	D:24-119
1b	PAS_9-2r78D02	D:24-119
1c	PAS_9-2r78D03	D:24-119
1d	PAS_9-2r78D04	D:24-119

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D (Q74DN1_GEOSL | Q74DN1)

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:0004871	signal transducer activity	Conveys a signal across a cell to trigger a change in cell function or state. A signal is a physical entity or change in state that is used to transfer information in order to trigger a response.
	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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	2r78
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Description

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