2RDM - JenaLib

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Title :   CRYSTAL STRUCTURE OF RESPONSE REGULATOR RECEIVER PROTEIN FROM SINORHIZOBIUM MEDICAE WSM419

Authors :   Y. Patskovsky, Q. Yan, C. Zhan, R. Toro, A. J. Meyer, M. Gilmore, S. Hu, C. L. Rodgers, J. M. Sauder, S. K. Burley, S. C. Almo, New York Sgx Resea Center For Structural Genomics (Nysgxrc)

Date :   24 Sep 07 (Deposition) - 09 Oct 07 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.76

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

Keywords :   Structural Genomics, Unknown Function, Psi-2, Protein Structure Initiative, New York Sgx Research Center For Structural Genomics, Nysgxrc (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   Y. Patskovsky, Q. Yan, C. Zhan, R. Toro, A. J. Meyer, M. Gilmore, S. Hu, C. Groshong, L. Rodgers, J. M. Sauder, S. K. Burley, S. C. Almo
Crystal Structure Of Response Regulator Receiver Protein From Sinorhizobium Medicae Wsm419.
To Be Published
PubMed: search

Molecule 1 - RESPONSE REGULATOR RECEIVER PROTEIN
	Chains	:	A, B, C
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21(DE3)
	Expression System Plasmid	:	BC-PSGX3(BC)
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Vector	:	PET
	Expression System Vector Type	:	PLASMID
	Gene	:	SMED_4830
	Mutation	:	YES
	Organism Scientific	:	SINORHIZOBIUM MEDICAE
	Organism Taxid	:	366394
	Strain	:	WSM419

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 9)

No.	Name	Count	Type	Full Name
1	GOL	3	Ligand/Ion	GLYCEROL
2	MSE	6	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 1 (2, 18)

No.	Name	Count	Type	Full Name
1	GOL	6	Ligand/Ion	GLYCEROL
2	MSE	12	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 2 (0, 0)

No.	Name	Count	Type	Full Name
1	GOL	-1	Ligand/Ion	GLYCEROL
2	MSE	-1	Mod. Amino Acid	SELENOMETHIONINE

Asymmetric Unit (3, 3)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASP A:55 , ILE A:56 , ARG A:57 , ILE A:83 , GLY A:85 , LYS A:104 , HOH A:191	BINDING SITE FOR RESIDUE GOL A 131
2	AC2	SOFTWARE	ARG A:72 , PRO A:76 , ASP A:98 , HOH A:143 , TRP B:91 , ALA B:92	BINDING SITE FOR RESIDUE GOL A 132
3	AC3	SOFTWARE	GLU A:123 , PRO C:76 , ASN C:77 , ALA C:92 , ASP C:98 , HOH C:146	BINDING SITE FOR RESIDUE GOL C 131

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

Asymmetric Unit

No.	Residues
1	Pro A:61	-	Pro A:62
2	Lys A:104	-	Pro A:105
3	Pro B:61	-	Pro B:62
4	Lys B:104	-	Pro B:105
5	Pro C:61	-	Pro C:62
6	Lys C:104	-	Pro C:105

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

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

(no "Exon" information available for 2RDM)

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:124
 aligned with A6UIY7_SINMW | A6UIY7 from UniProtKB/TrEMBL  Length:131

    Alignment length:124
                             1                                                                                                                          
                             |       9        19        29        39        49        59        69        79        89        99       109       119    
         A6UIY7_SINMW     - -MEAVTILLADDEAILLLDFESTLTDAGFLVTAVSSGAKAIELLKSGAAIDGVVTDIRFCQPPDGWQVARVAREIDPNMPIVYISGHAALEWASNGVPDSIILEKPFTSAQLITAVSQLLNARP 123
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 2rdmA00 A:0-123  [code=3.40.50.2300, no name defined]                                                                        CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeee..hhhhhhhhhhhhhhh..eeeee.hhhhhhhhhhh.....eeeee.......hhhhhhhhhhhhh....eeeee.....hhhhhh....eeee...hhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------- Transcript
                 2rdm A   0 SLEAVTILLADDEAILLLDFESTLTDAGFLVTAVSSGAKAIEmLKSGAAIDGVVTDIRFCQPPDGWQVARVAREIDPNmPIVYISGHAALEWASNGVPDSIILEKPFTSAQLITAVSQLLNARE 123
                                     9        19        29        39  |     49        59        69        79        89        99       109       119    
                                                                     42-MSE                              78-MSE

Chain B from PDB  Type:PROTEIN  Length:122
 aligned with A6UIY7_SINMW | A6UIY7 from UniProtKB/TrEMBL  Length:131

    Alignment length:122
                                    11        21        31        41        51        61        71        81        91       101       111       121  
         A6UIY7_SINMW     2 EAVTILLADDEAILLLDFESTLTDAGFLVTAVSSGAKAIELLKSGAAIDGVVTDIRFCQPPDGWQVARVAREIDPNMPIVYISGHAALEWASNGVPDSIILEKPFTSAQLITAVSQLLNARP 123
               SCOP domains -------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 2rdmB00 B:2-123  [code=3.40.50.2300, no name defined]                                                                      CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeee..hhhhhhhhhhhhhhh..eeeee.hhhhhhhhhhh.....eeeee.......hhhhhhhhhhhhh....eeeee.....hhhhhh....eeee...hhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------- Transcript
                 2rdm B   2 EAVTILLADDEAILLLDFESTLTDAGFLVTAVSSGAKAIEmLKSGAAIDGVVTDIRFCQPPDGWQVARVAREIDPNmPIVYISGHAALEWASNGVPDSIILEKPFTSAQLITAVSQLLNARE 123
                                    11        21        31        41|       51        61        71      | 81        91       101       111       121  
                                                                   42-MSE                              78-MSE

Chain C from PDB  Type:PROTEIN  Length:123
 aligned with A6UIY7_SINMW | A6UIY7 from UniProtKB/TrEMBL  Length:131

    Alignment length:123
                                    10        20        30        40        50        60        70        80        90       100       110       120   
         A6UIY7_SINMW     1 MEAVTILLADDEAILLLDFESTLTDAGFLVTAVSSGAKAIELLKSGAAIDGVVTDIRFCQPPDGWQVARVAREIDPNMPIVYISGHAALEWASNGVPDSIILEKPFTSAQLITAVSQLLNARP 123
               SCOP domains --------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 2rdmC00 C:1-123  [code=3.40.50.2300, no name defined]                                                                       CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeee..hhhhhhhhhhhhhhh..eeeee.hhhhhhhhhhhh....eeeee.......hhhhhhhhhhhhh....eeeee..hhhhhhhhh....eeee...hhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------- Transcript
                 2rdm C   1 LEAVTILLADDEAILLLDFESTLTDAGFLVTAVSSGAKAIEmLKSGAAIDGVVTDIRFCQPPDGWQVARVAREIDPNmPIVYISGHAALEWASNGVPDSIILEKPFTSAQLITAVSQLLNARE 123
                                    10        20        30        40 |      50        60        70       |80        90       100       110       120   
                                                                    42-MSE                              78-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 2RDM)

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 3-Layer(aba) Sandwich (12045)

Topology: Rossmann fold (7312)

Homologous Superfamily: [code=3.40.50.2300, no name defined] (308)

Sinorhizobium medicae wsm419. Organism_taxid: 366394. Strain: wsm419. (1)

1a	2rdmA00	A:0-123
1b	2rdmC00	C:1-123
1c	2rdmB00	B:2-123

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

Asymmetric Unit(hide GO term definitions)

Chain A,B,C (A6UIY7_SINMW | A6UIY7)

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.
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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		Lys A:104 - Pro A:105	[ RasMol ]
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		Pro A:61 - Pro A:62	[ RasMol ]
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Description

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Ligands, Modified Residues, Ions (2, 9)

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