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(-) Description

Title :  CRYSTAL STRUCTURE OF PUTATIVE TRANSCRIPTIONAL REGULATOR RHA1_RO06953 (ICLR-FAMILY) FROM RHODOCOCCUS SP.
 
Authors :  M. Chruszcz, S. Wang, T. Skarina, O. Onopriyenko, M. Cymborowski, A. Sa A. Edwards, A. Joachimiak, W. Minor, Midwest Center For Structura Genomics (Mcsg)
Date :  28 Nov 06  (Deposition) - 26 Dec 06  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Biol. Unit 3:  A (1x),B (1x),C (1x),D (1x)
Biol. Unit 4:  A,B,C,D  (1x)
Keywords :  Transcriptional Regulator, Iclr-Family, Structural Genomics, Psi-2, Protein Structure Initiative, Midwest Center For Structural Genomics, Mcsg, Transcription (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Chruszcz, S. Wang, T. Skarina, O. Onopriyenko, M. Cymborowski, A. Savchenko, A. Edwards, W. Minor
Crystal Structure Of Putative Transcriptional Regul 2 Rha1_ro06953(Iclr-Family) From Rhodococcus Sp.
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - TRANSCRIPTIONAL REGULATOR
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: P15TV LIC
    Expression System Strain: BL21-CODONPLUS(DE3)-RP
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: RHA00472
    Organism Scientific: RHODOCOCCUS SP.
    Organism Taxid: 1831

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): AB  
Biological Unit 2 (1x):   CD
Biological Unit 3 (1x): A (1x)B (1x)C (1x)D (1x)
Biological Unit 4 (1x): ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 12)

Asymmetric Unit (1, 12)
No.NameCountTypeFull Name
1MSE12Mod. Amino AcidSELENOMETHIONINE
Biological Unit 1 (1, 6)
No.NameCountTypeFull Name
1MSE6Mod. Amino AcidSELENOMETHIONINE
Biological Unit 2 (1, 6)
No.NameCountTypeFull Name
1MSE6Mod. Amino AcidSELENOMETHIONINE
Biological Unit 3 (1, 6)
No.NameCountTypeFull Name
1MSE6Mod. Amino AcidSELENOMETHIONINE
Biological Unit 4 (1, 12)
No.NameCountTypeFull Name
1MSE12Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (0, 0)

(no "Site" information available for 2O0Y)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2O0Y)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2O0Y)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2O0Y)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2O0Y)

(-) Exons   (0, 0)

(no "Exon" information available for 2O0Y)

(-) 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:242
 aligned with Q0S167_RHOJR | Q0S167 from UniProtKB/TrEMBL  Length:260

    Alignment length:242
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257  
         Q0S167_RHOJR    18 GVRSVTRVIDLLELFDAAHPTRSLKELVEGTKLPKTTVVRLVATMCARSVLTSRADGSYSLGPEMLRWVRLAGRTWAPPEEVVDIMRQLSADTGETVNLYIRQGLSRVVVAQCESTATVRSVIPLGVPYPLWAGAAGKILLLAAPELIDDVAADSPHGPEFADQLREKVEDGRERGYQLVHGERELGSSGLSFPLVDSHGTVVAALTLGGPTGRFTEDRTPHYIECTRAAAEEISAIGLPGL 259
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 2o0yA01 A:18-79 'winged helix' repressor DNA binding domain   2o0yA02 A:80-259  [code=3.30.450.40, no name defined]                                                                                                                                CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhh.........hhhhhhhhhh.hhhhhhhhhhhhhhh..eee.....eeehhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhh.eeeeeeee..eeeeeeee...............ee...hhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh.eeee......eeeeeeeee.....eeeeeeeeee.hhh...hhhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2o0y A  18 GVRSVTRVIDLLELFDAAHPTRSLKELVEGTKLPKTTVVRLVATmCARSVLTSRADGSYSLGPEmLRWVRLAGRTWAPPEEVVDImRQLSADTGETVNLYIRQGLSRVVVAQCESTATVRSVIPLGVPYPLWAGAAGKILLLAAPELIDDVAADSPHGPEFADQLREKVEDGRERGYQLVHGERELGSSGLSFPLVDSHGTVVAALTLGGPTGRFTEDRTPHYIECTRAAAEEISAIGLPGL 259
                                    27        37        47        57    |   67        77    |   87        97     | 107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257  
                                                                       62-MSE              82-MSE              103-MSE                                                                                                                                                        


Chain B from PDB  Type:PROTEIN  Length:244
 aligned with Q0S167_RHOJR | Q0S167 from UniProtKB/TrEMBL  Length:260

    Alignment length:244
                                    26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256    
         Q0S167_RHOJR    17 AGVRSVTRVIDLLELFDAAHPTRSLKELVEGTKLPKTTVVRLVATMCARSVLTSRADGSYSLGPEMLRWVRLAGRTWAPPEEVVDIMRQLSADTGETVNLYIRQGLSRVVVAQCESTATVRSVIPLGVPYPLWAGAAGKILLLAAPELIDDVAADSPHGPEFADQLREKVEDGRERGYQLVHGERELGSSGLSFPLVDSHGTVVAALTLGGPTGRFTEDRTPHYIECTRAAAEEISAIGLPGLD 260
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 2o0yB01 B:17-81 'winged helix' repressor DNA binding domain      --2o0yB02 B:84-260  [code=3.30.450.40, no name defined]                                                                                                                             CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhh.......eehhhhhhhhhh.hhhhhhhhhhhhhhh..eee.....eee.hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhh.eeeeeeee..eeeeeeee...............ee...hhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhh.eeee......eeeeeeeee.....eeeeeeeeee.hhh...hhhhhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2o0y B  17 AGVRSVTRVIDLLELFDAAHPTRSLKELVEGTKLPKTTVVRLVATmCARSVLTSRADGSYSLGPEmLRWVRLAGRTWAPPEEVVDImRQLSADTGETVNLYIRQGLSRVVVAQCESTATVRSVIPLGVPYPLWAGAAGKILLLAAPELIDDVAADSPHGPEFADQLREKVEDGRERGYQLVHGERELGSSGLSFPLVDSHGTVVAALTLGGPTGRFTEDRTPHYIECTRAAAEEISAIGLPGLD 260
                                    26        36        46        56     |  66        76     |  86        96      |106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256    
                                                                        62-MSE              82-MSE              103-MSE                                                                                                                                                         


Chain C from PDB  Type:PROTEIN  Length:255
 aligned with Q0S167_RHOJR | Q0S167 from UniProtKB/TrEMBL  Length:260

    Alignment length:255
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255     
         Q0S167_RHOJR     6 TDSAEKPAVADAGVRSVTRVIDLLELFDAAHPTRSLKELVEGTKLPKTTVVRLVATMCARSVLTSRADGSYSLGPEMLRWVRLAGRTWAPPEEVVDIMRQLSADTGETVNLYIRQGLSRVVVAQCESTATVRSVIPLGVPYPLWAGAAGKILLLAAPELIDDVAADSPHGPEFADQLREKVEDGRERGYQLVHGERELGSSGLSFPLVDSHGTVVAALTLGGPTGRFTEDRTPHYIECTRAAAEEISAIGLPGLD 260
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 2o0yC01 C:6-79 'winged helix' repressor DNA binding domain                2o0yC02 C:80-260  [code=3.30.450.40, no name defined]                                                                                                                                 CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .............hhhhhhhhhhhhh........hhhhhhhhhh.hhhhhhhhhhhhhhh..eee.....eeehhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhh.eeeeeeee..eeeeeeee..............eee...hhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh.eeee......eeeeeeeee.....eeeeeeeeee.hhh...hhhhhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2o0y C   6 TDSAEKPAVADAGVRSVTRVIDLLELFDAAHPTRSLKELVEGTKLPKTTVVRLVATmCARSVLTSRADGSYSLGPEmLRWVRLAGRTWAPPEEVVDImRQLSADTGETVNLYIRQGLSRVVVAQCESTATVRSVIPLGVPYPLWAGAAGKILLLAAPELIDDVAADSPHGPEFADQLREKVEDGRERGYQLVHGERELGSSGLSFPLVDSHGTVVAALTLGGPTGRFTEDRTPHYIECTRAAAEEISAIGLPGLD 260
                                    15        25        35        45        55      | 65        75      | 85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255     
                                                                                   62-MSE              82-MSE              103-MSE                                                                                                                                                         


Chain D from PDB  Type:PROTEIN  Length:253
 aligned with Q0S167_RHOJR | Q0S167 from UniProtKB/TrEMBL  Length:260

    Alignment length:253
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257   
         Q0S167_RHOJR     8 SAEKPAVADAGVRSVTRVIDLLELFDAAHPTRSLKELVEGTKLPKTTVVRLVATMCARSVLTSRADGSYSLGPEMLRWVRLAGRTWAPPEEVVDIMRQLSADTGETVNLYIRQGLSRVVVAQCESTATVRSVIPLGVPYPLWAGAAGKILLLAAPELIDDVAADSPHGPEFADQLREKVEDGRERGYQLVHGERELGSSGLSFPLVDSHGTVVAALTLGGPTGRFTEDRTPHYIECTRAAAEEISAIGLPGLD 260
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 2o0yD01 D:8-81 'winged helix' repressor DNA binding domain                --2o0yD02 D:84-260  [code=3.30.450.40, no name defined]                                                                                                                             CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........hhhhhhhhhhhhh.......eehhhhhhhhhh.hhhhhhhhhhhhhhh..eee.....eee.hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhh.eeeeeeee..eeeeeeee...............ee...hhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh.eeee......eeeeeeeee.....eeeeeeeeee.hhh...hhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2o0y D   8 SAEKPAVADAGVRSVTRVIDLLELFDAAHPTRSLKELVEGTKLPKTTVVRLVATmCARSVLTSRADGSYSLGPEmLRWVRLAGRTWAPPEEVVDImRQLSADTGETVNLYIRQGLSRVVVAQCESTATVRSVIPLGVPYPLWAGAAGKILLLAAPELIDDVAADSPHGPEFADQLREKVEDGRERGYQLVHGERELGSSGLSFPLVDSHGTVVAALTLGGPTGRFTEDRTPHYIECTRAAAEEISAIGLPGLD 260
                                    17        27        37        47        57    |   67        77    |   87        97     | 107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257   
                                                                                 62-MSE              82-MSE              103-MSE
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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 2O0Y)

(-) CATH Domains  (2, 8)

Asymmetric Unit
(-)
Class: Alpha Beta (26913)
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2O0Y)

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D   (Q0S167_RHOJR | Q0S167)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
biological process
    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.

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