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(-) Description

Title :  CRYSTAL STRUCTURE OF TRANSCRIPTION ACTIVATOR BMRR, FROM B. SUBTILIS, BOUND TO 21 BASE PAIR BMR OPERATOR AND TPSB
 
Authors :  E. E. Zheleznova-Heldwein, R. G. Brennan
Date :  02 May 00  (Deposition) - 24 Jan 01  (Release) - 16 Nov 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.12
Chains :  Asym. Unit :  A,M
Biol. Unit 1:  A,M  (2x)
Keywords :  Protein-Dna Complex, Merr-Family Transcription Activator, Multidrug- Binding Protein, Transcription-Dna Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  E. E. Heldwein, R. G. Brennan
Crystal Structure Of The Transcription Activator Bmrr Bound To Dna And A Drug.
Nature V. 409 378 2001
PubMed-ID: 11201751  |  Reference-DOI: 10.1038/35053138

(-) Compounds

Molecule 1 - DNA (5'- D(*AP*CP*CP*CP*TP*CP*CP*CP*CP*TP*TP*AP*GP*GP*GP*GP*AP*GP*GP*GP*T)- 3')
    Chains: M
    Engineered: YES
    Synthetic: YES
 
Molecule 2 - MULTIDRUG-EFFLUX TRANSPORTER REGULATOR
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PBAD
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Organism Scientific: BACILLUS SUBTILIS
    Organism Taxid: 1423
    Synonym: TRANSCRIPTION ACTIVATOR BMRR

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 3)

Asymmetric Unit (2, 3)
No.NameCountTypeFull Name
11182Ligand/IonTETRAPHENYLANTIMONIUM ION
2ZN1Ligand/IonZINC ION
Biological Unit 1 (1, 4)
No.NameCountTypeFull Name
11184Ligand/IonTETRAPHENYLANTIMONIUM ION
2ZN-1Ligand/IonZINC ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:189BINDING SITE FOR RESIDUE ZN A 501
2AC2SOFTWAREPRO A:144 , GLU A:145 , VAL A:147 , LEU A:148 , ASN A:149 , PHE A:224 , TYR A:268BINDING SITE FOR RESIDUE 118 A 502
3AC3SOFTWAREGLU A:3 , TYR A:5 , TYR A:35 , TYR A:44 , PHE A:230 , GLN A:234 , LYS A:235BINDING SITE FOR RESIDUE 118 A 503

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1EXI)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1EXI)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1EXI)

(-) PROSITE Motifs  (2, 2)

Asymmetric Unit (2, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1HTH_MERR_2PS50937 MerR-type HTH domain profile.BMRR_BACSU5-75  1A:5-75
2HTH_MERR_1PS00552 MerR-type HTH domain signature.BMRR_BACSU9-31  1A:9-31
Biological Unit 1 (2, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1HTH_MERR_2PS50937 MerR-type HTH domain profile.BMRR_BACSU5-75  2A:5-75
2HTH_MERR_1PS00552 MerR-type HTH domain signature.BMRR_BACSU9-31  2A:9-31

(-) Exons   (0, 0)

(no "Exon" information available for 1EXI)

(-) 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:275
 aligned with BMRR_BACSU | P39075 from UniProtKB/Swiss-Prot  Length:278

    Alignment length:275
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272     
           BMRR_BACSU     3 ESYYSIGEVSKLANVSIKALRYYDKIDLFKPAYVDPDTSYRYYTDSQLIHLDLIKSLKYIGTPLEEMKKAQDLEMEELFAFYTEQERQIREKLDFLSALEQTISLVKKRMKRQMEYPALGEVFVLDEEEIRIIQTEAEGIGPENVLNASYSKLKKFIESADGFTNNSYGATFSFQPYTSIDEMTYRHIFTPVLTNKQISSITPDMEITTIPKGRYACIAYNFSPEHYFLNLQKLIKYIADRQLTVVSDVYELIIPIHYSPKKQEEYRVEMKIRIA 277
               SCOP domains d1exia1 A:3-120 Transcription activator BmrR                                                                          d1exia2 A:121-277 Multidrug-binding domain of transcription activator BmrR                                                                                    SCOP domains
               CATH domains 1exiA02 A:3-75  [code=1.10.1660.10, no name defined]                     1exiA03 A:76-119 Single helix bin           1exiA01 A:120-277 Multidrug-efflux Transporter 1 Regulator Bmrr; Chain                                                                                         CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeehhhhhhhh..hhhhhhhhhhh......ee......eeee...hhhhhhhhhhhhhh.hhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......eeeee.....eeeee.............hhhhhhhhhhhhh.....ee.................eeeee..............eee.....eeeee.ee.hhhhhhhhhhhhhhhhhhhh.ee......eeee..........eee..eeeee Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) --HTH_MERR_2  PDB: A:5-75 UniProt: 5-75                                  ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (1)
                PROSITE (2) ------HTH_MERR_1  PDB: A:9-31------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE (2)
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1exi A   3 ESYYSIGEVSKLANVSIKALRYYDKIDLFKPAYVDPDTSYRYYTDSQLIHLDLIKSLKYIGTPLEEMKKAQDLEMEELFAFYTEQERQIREKLDFLSALEQTISLVKKRMKRQMEYPALGEVFVLDEEEIRIIQTEAEGIGPENVLNASYSKLKKFIESADGFTNNSYGATFSFQPYTSIDEMTYRHIFTPVLTNKQISSITPDMEITTIPKGRYACIAYNFSPEHYFLNLQKLIKYIADRQLTVVSDVYELIIPIHYSPKKQEEYRVEMKIRIA 277
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272     


Chain M from PDB  Type:DNA  Length:21
                                                     
                 1exi M -11 ACCCTCCCCTTAGGGGAGGGT  11
                                    -2|       10 
                                    -2|          
                                      1
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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  (2, 2)

Asymmetric Unit
(-)
Class: All alpha proteins (14657)
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (3, 3)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1EXI)

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)
Chain A   (BMRR_BACSU | P39075)
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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  BMRR_BACSU | P39075
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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        BMRR_BACSU | P39075: 1bow 1exj 1r8e 2bow 3d6y 3d6z 3d70 3d71 3iao 3q1m 3q2y 3q3d 3q5p 3q5r 3q5s

(-) Related Entries Specified in the PDB File

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