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(-) Description

Title :  CRYSTAL STRUCTURE OF A SEMET DERIVATIVE OF BLAI AT 2.0 A
 
Authors :  M. K. Safo, Q. Zhao, F. N. Musayev, H. Robinson, N. Scarsdale, G. L. Arche
Date :  13 Feb 04  (Deposition) - 10 Aug 04  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Blai, Meci, Repressor, Methicillin, B-Lactam, Dna Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. K. Safo, Q. Zhao, T. -P. Ko, F. N. Musayev, H. Robinson, N. Scarsdale, A. H. -J. Wang, G. L. Archer
Crystal Structures Of The Blai Repressor From Staphylococcu Aureus And Its Complex With Dna: Insights Into Transcriptional Regulation Of The Bla And Mec Operons
J. Bacteriol. V. 187 1833 2005
PubMed-ID: 15716455  |  Reference-DOI: 10.1128/JB.187.5.1833-1844.2005

(-) Compounds

Molecule 1 - PENICILLINASE REPRESSOR
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET3
    Expression System Strain: B834 (DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Organism Scientific: STAPHYLOCOCCUS AUREUS
    Organism Taxid: 1280
    Synonym: REGULATORY PROTEIN BLAI, BETA-LACTAMASE REPRESSOR PROTEIN

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 12)

Asymmetric/Biological Unit (2, 12)
No.NameCountTypeFull Name
1MSE8Mod. Amino AcidSELENOMETHIONINE
2SO44Ligand/IonSULFATE ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREVAL B:40 , SER B:41 , THR B:44 , HOH B:350 , HOH B:380 , HOH B:407BINDING SITE FOR RESIDUE SO4 B 301
2AC2SOFTWAREASN A:72 , LYS B:43 , ARG B:46BINDING SITE FOR RESIDUE SO4 B 303
3AC3SOFTWARELYS A:38 , THR B:85 , ASN B:88BINDING SITE FOR RESIDUE SO4 B 305
4AC4SOFTWARETHR A:85 , ASN A:88BINDING SITE FOR RESIDUE SO4 A 307

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1SD4)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1SD4)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1SD4)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1SD4)

(-) Exons   (0, 0)

(no "Exon" information available for 1SD4)

(-) Sequences/Alignments

Asymmetric/Biological 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:122
 aligned with BLAI_STAAU | P0A042 from UniProtKB/Swiss-Prot  Length:126

    Alignment length:122
                                    14        24        34        44        54        64        74        84        94       104       114       124  
           BLAI_STAAU     5 QVEISMAEWDVMNIIWGKKSVSANEIVVEIQKYKEVSDKTIRTLITRLYKKEIIKRYKSENIYFYSSNIKEDDIKMKTAKTFLNKLYGGDMKSLVLNFAKNEELNNKEIEELRDILNDISKK 126
               SCOP domains d1sd4a_ A: Penicillinase repressor BlaI                                                                                    SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhh..eehhhhhhhhhh....hhhhhhhhhhhhhhh..eeeeee..eeeeee..hhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhh...hhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------- Transcript
                 1sd4 A   5 QVEISmAEWDVmNIIWDKKSVSANEIVVEIQKYKEVSDKTIRTLITRLYKKEIIKRYKSENIYFYSSNIKEDDIKmKTAKTFLNKLYGGDmKSLVLNFAKNEELNNKEIEELRDILNDISKK 126
                                 |  14 |      24        34        44        54        64        74     |  84        94|      104       114       124  
                                 |     |                                                              80-MSE         95-MSE                           
                                10-MSE |                                                                                                              
                                      16-MSE                                                                                                          


Chain A from PDB  Type:PROTEIN  Length:122
 aligned with Q6UB84_STAAU | Q6UB84 from UniProtKB/TrEMBL  Length:126

    Alignment length:122
                                    14        24        34        44        54        64        74        84        94       104       114       124  
         Q6UB84_STAAU     5 QVEISMAEWDVMNIIWDKKSVSANEIVVEIQKYKEVSDKTIRTLITRLYKKEIIKRYKSENIYFYSSNIKEDDIKMKTAKTFLNKLYGGDMKSLVLNFAKNEELNNKEIEELRDILNDISKK 126
               SCOP domains d1sd4a_ A: Penicillinase repressor BlaI                                                                                    SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhh..eehhhhhhhhhh....hhhhhhhhhhhhhhh..eeeeee..eeeeee..hhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhh...hhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------- Transcript
                 1sd4 A   5 QVEISmAEWDVmNIIWDKKSVSANEIVVEIQKYKEVSDKTIRTLITRLYKKEIIKRYKSENIYFYSSNIKEDDIKmKTAKTFLNKLYGGDmKSLVLNFAKNEELNNKEIEELRDILNDISKK 126
                                 |  14 |      24        34        44        54        64        74     |  84        94|      104       114       124  
                                10-MSE |                                                              80-MSE         95-MSE                           
                                      16-MSE                                                                                                          


Chain B from PDB  Type:PROTEIN  Length:122
 aligned with BLAI_STAAU | P0A042 from UniProtKB/Swiss-Prot  Length:126

    Alignment length:122
                                    14        24        34        44        54        64        74        84        94       104       114       124  
           BLAI_STAAU     5 QVEISMAEWDVMNIIWGKKSVSANEIVVEIQKYKEVSDKTIRTLITRLYKKEIIKRYKSENIYFYSSNIKEDDIKMKTAKTFLNKLYGGDMKSLVLNFAKNEELNNKEIEELRDILNDISKK 126
               SCOP domains d1sd4b_ B: Penicillinase repressor BlaI                                                                                    SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhh.eehhhhhhhhhh....hhhhhhhhhhhhhhh..eeeeee..eeeeee..hhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhh...hhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------- Transcript
                 1sd4 B   5 QVEISmAEWDVmNIIWDKKSVSANEIVVEIQKYKEVSDKTIRTLITRLYKKEIIKRYKSENIYFYSSNIKEDDIKmKTAKTFLNKLYGGDmKSLVLNFAKNEELNNKEIEELRDILNDISKK 126
                                 |  14 |      24        34        44        54        64        74     |  84        94|      104       114       124  
                                10-MSE |                                                              80-MSE         95-MSE                           
                                      16-MSE                                                                                                          


Chain B from PDB  Type:PROTEIN  Length:122
 aligned with Q6UB84_STAAU | Q6UB84 from UniProtKB/TrEMBL  Length:126

    Alignment length:122
                                    14        24        34        44        54        64        74        84        94       104       114       124  
         Q6UB84_STAAU     5 QVEISMAEWDVMNIIWDKKSVSANEIVVEIQKYKEVSDKTIRTLITRLYKKEIIKRYKSENIYFYSSNIKEDDIKMKTAKTFLNKLYGGDMKSLVLNFAKNEELNNKEIEELRDILNDISKK 126
               SCOP domains d1sd4b_ B: Penicillinase repressor BlaI                                                                                    SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhh.eehhhhhhhhhh....hhhhhhhhhhhhhhh..eeeeee..eeeeee..hhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhh...hhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------- Transcript
                 1sd4 B   5 QVEISmAEWDVmNIIWDKKSVSANEIVVEIQKYKEVSDKTIRTLITRLYKKEIIKRYKSENIYFYSSNIKEDDIKmKTAKTFLNKLYGGDmKSLVLNFAKNEELNNKEIEELRDILNDISKK 126
                                 |  14 |      24        34        44        54        64        74     |  84        94|      104       114       124  
                                10-MSE |                                                              80-MSE         95-MSE                           
                                      16-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 '|'

 Classification and Annotation

(-) SCOP Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Class: All alpha proteins (14657)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1SD4)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1SD4)

(-) Gene Ontology  (7, 9)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (Q6UB84_STAAU | Q6UB84)
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:0045892    negative regulation of transcription, DNA-templated    Any process that stops, prevents, or reduces the frequency, rate or extent of cellular DNA-templated transcription.

Chain A,B   (BLAI_STAAU | P0A042)
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:0045892    negative regulation of transcription, DNA-templated    Any process that stops, prevents, or reduces the frequency, rate or extent of cellular DNA-templated transcription.
    GO:0010468    regulation of gene expression    Any process that modulates the frequency, rate or extent of gene expression. Gene expression is the process in which a gene's coding sequence is converted into a mature gene product or products (proteins or RNA). This includes the production of an RNA transcript as well as any processing to produce a mature RNA product or an mRNA or circRNA (for protein-coding genes) and the translation of that mRNA or circRNA into protein. Protein maturation is included when required to form an active form of a product from an inactive precursor form.
    GO:0006355    regulation of transcription, DNA-templated    Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
    GO:0046677    response to antibiotic    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an antibiotic stimulus. An antibiotic is a chemical substance produced by a microorganism which has the capacity to inhibit the growth of or to kill other microorganisms.
    GO:0006351    transcription, DNA-templated    The cellular synthesis of RNA on a template of DNA.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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 Related Entries

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

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(-) Related Entries Specified in the PDB File

1sd6 CRYSTAL STRUCTURE OF NATIVE MECI AT 2.65 A
1sd7 CRYSTAL STRUCTURE OF A SEMET DERIVATIVE OF MECI AT 2.65 A