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(-) Description

Title :  CRYSTAL STRUCTURE OF THE ACYLATED BETA-LACTAM SENSOR DOMAIN OF BLAR1 FROM S. AUREUS
 
Authors :  C. Birck, J. Y. Cha, J. Cross, C. Schulze-Briese, S. O. Meroueh, H. B. Schlegel, S. Mobashery, J. -P. Samama
Date :  30 Sep 04  (Deposition) - 30 Nov 04  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.75
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Keywords :  Beta-Lactam Receptor, Signal Transduction, Signaling Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. Birck, J. Y. Cha, J. Cross, C. Schulze-Briese, S. O. Meroueh, H. B. Schlegel, S. Mobashery, J. -P. Samama
X-Ray Crystal Structure Of The Acylated Beta-Lactam Sensor Domain Of Blar1 From Staphylococcus Aureus And The Mechanism Of Receptor Activation For Signal Transduction
J. Am. Chem. Soc. V. 126 13945 2004
PubMed-ID: 15506754  |  Reference-DOI: 10.1021/JA044742U
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - REGULATORY PROTEIN BLAR1
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PET24A
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: SENSOR DOMAIN
    Organism Scientific: STAPHYLOCOCCUS AUREUS
    Organism Taxid: 1280
    Synonym: BLAR1 BETA-LACTAM RECEPTOR

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): AB  
Biological Unit 2 (1x):   CD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 7)

Asymmetric Unit (3, 7)
No.NameCountTypeFull Name
1CAZ4Ligand/IonACYLATED CEFTAZIDIME
2EPE1Ligand/Ion4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID
3SO42Ligand/IonSULFATE ION
Biological Unit 1 (3, 5)
No.NameCountTypeFull Name
1CAZ2Ligand/IonACYLATED CEFTAZIDIME
2EPE1Ligand/Ion4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID
3SO42Ligand/IonSULFATE ION
Biological Unit 2 (1, 2)
No.NameCountTypeFull Name
1CAZ2Ligand/IonACYLATED CEFTAZIDIME
2EPE-1Ligand/Ion4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID
3SO4-1Ligand/IonSULFATE ION

(-) Sites  (7, 7)

Asymmetric Unit (7, 7)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHOH B:37 , HOH B:270 , HIS B:403 , SER B:502 , ASN C:452BINDING SITE FOR RESIDUE SO4 B 2001
2AC2SOFTWAREHOH B:107 , HOH B:193 , SER B:502 , LYS B:503 , ARG C:402 , ASN C:452BINDING SITE FOR RESIDUE SO4 B 2002
3AC3SOFTWAREHOH A:256 , ASN A:388 , SER A:389 , PHE A:421 , SER A:437 , ASN A:439 , MET A:476 , GLU A:477 , LYS A:526 , THR A:527 , GLY A:528 , THR A:529 , ILE A:531 , HIS B:418BINDING SITE FOR RESIDUE CAZ A 989
4AC4SOFTWAREHIS A:418 , PRO A:420 , ASN B:388 , SER B:389 , PHE B:421 , SER B:437 , ASN B:439 , MET B:476 , GLU B:477 , LYS B:526 , THR B:527 , GLY B:528 , THR B:529 , GLY B:530 , ILE B:531BINDING SITE FOR RESIDUE CAZ B 989
5AC5SOFTWAREASN C:388 , SER C:389 , SER C:437 , ASN C:439 , MET C:476 , GLU C:477 , LYS C:526 , THR C:527 , GLY C:528 , THR C:529 , GLY C:530 , ILE C:531 , HIS D:418BINDING SITE FOR RESIDUE CAZ C 989
6AC6SOFTWAREHIS C:418 , ASN D:388 , SER D:389 , PHE D:421 , SER D:437 , ASN D:439 , MET D:476 , LYS D:526 , THR D:527 , GLY D:528 , THR D:529 , GLY D:530 , ILE D:531BINDING SITE FOR RESIDUE CAZ D 989
7AC7SOFTWAREHIS B:403 , ILE B:404 , ILE B:405 , ASN B:406 , ASN B:409 , ARG B:411 , MET B:412 , SER B:413 , ARG B:444BINDING SITE FOR RESIDUE EPE B 2003

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 1XKZ)

(-) 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:244
 aligned with BLAR_STAAU | P18357 from UniProtKB/Swiss-Prot  Length:585

    Alignment length:245
                                   347       357       367       377       387       397       407       417       427       437       447       457       467       477       487       497       507       517       527       537       547       557       567       577     
           BLAR_STAAU   338 NYKKPLHNDYQILDKSKIFGSNSGSFVMYSMKKDKYYIYNEKESRKRYSPNSTYKIYLAMFGLDRHIINDENSRMSWNHKHYPFDAWNKEQDLNTAMQNSVNWYFERISDQIPKNYTATQLKQLNYGNKNLGSYKSYWMEDSLKISNLEQVIVFKNMMEQNNHFSKKAKNQLSSSLLIKKNEKYELYGKTGTGIVNGKYNNGWFVGYVITNHDKYYFATHLSDGKPSGKNAELISEKILKEMGVL 582
               SCOP domains d1xkza_ A: Regulatory protein BlaR1                                                                                                                                                                                                                   SCOP domains
               CATH domains 1xkzA00 A:338-582 DD-peptidase/beta-lactamase superfamily                                                                                                                                                                                             CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........eeeee.hhhhhh..eeeeeeee....eeeeehhhhhh.ee.hhhhhhhhhhhhhhhh..................hhhhh...hhhhhhhh.hhhhhhhhhh..hhhhhhhhhhhhh...................eehhhhhhhhhhhhhh-...hhhhhhhhhhhheeee...eeeeeeeeeeee..eeeeeeeeeeeee...eeeeeeeeee...hhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1xkz A 338 NYKKPLHNDYQILDKSKIFGSNSGSFVMYSMKKDKYYIYNEKESRKRYSPNSTYKIYLAMFGLDRHIINDENSRMSWNHKHYPFDAWNKEQDLNTAMQNSVNWYFERISDQIPKNYTATQLKQLNYGNKNLGSYKSYWMEDSLKISNLEQVIVFKNMMEQ-NHFSKKAKNQLSSSLLIKKNEKYELYGKTGTGIVNGKYNNGWFVGYVITNHDKYYFATHLSDGKPSGKNAELISEKILKEMGVL 582
                                   347       357       367       377       387       397       407       417       427       437       447       457       467       477       487       497 |     507       517       527       537       547       557       567       577     
                                                                                                                                                                                         497 |                                                                                   
                                                                                                                                                                                           499                                                                                   


Chain B from PDB  Type:PROTEIN  Length:247
 aligned with BLAR_STAAU | P18357 from UniProtKB/Swiss-Prot  Length:585

    Alignment length:247
                                   345       355       365       375       385       395       405       415       425       435       445       455       465       475       485       495       505       515       525       535       545       555       565       575       
           BLAR_STAAU   336 DYNYKKPLHNDYQILDKSKIFGSNSGSFVMYSMKKDKYYIYNEKESRKRYSPNSTYKIYLAMFGLDRHIINDENSRMSWNHKHYPFDAWNKEQDLNTAMQNSVNWYFERISDQIPKNYTATQLKQLNYGNKNLGSYKSYWMEDSLKISNLEQVIVFKNMMEQNNHFSKKAKNQLSSSLLIKKNEKYELYGKTGTGIVNGKYNNGWFVGYVITNHDKYYFATHLSDGKPSGKNAELISEKILKEMGVL 582
               SCOP domains d1xkzb_ B: Regulatory protein BlaR1                                                                                                                                                                                                                     SCOP domains
               CATH domains 1xkzB00 B:336-582 DD-peptidase/beta-lactamase superfamily                                                                                                                                                                                               CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........eeeee.hhhhhh..eeeeeeee....eeeeehhhhhh.ee.hhhhhhhhhhhhhhhh..................hhhhh...hhhhhhhh.hhhhhhhhhh..hhhhhhhhhhhhh...................eehhhhhhhhhhhhhh....hhhhhhhhhhhheeee...eeeeeeeeeeee..eeeeeeeeeeeee...eeeeeeeeee...hhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1xkz B 336 DYNYKKPLHNDYQILDKSKIFGSNSGSFVMYSMKKDKYYIYNEKESRKRYSPNSTYKIYLAMFGLDRHIINDENSRMSWNHKHYPFDAWNKEQDLNTAMQNSVNWYFERISDQIPKNYTATQLKQLNYGNKNLGSYKSYWMEDSLKISNLEQVIVFKNMMEQNNHFSKKAKNQLSSSLLIKKNEKYELYGKTGTGIVNGKYNNGWFVGYVITNHDKYYFATHLSDGKPSGKNAELISEKILKEMGVL 582
                                   345       355       365       375       385       395       405       415       425       435       445       455       465       475       485       495       505       515       525       535       545       555       565       575       


Chain C from PDB  Type:PROTEIN  Length:248
 aligned with BLAR_STAAU | P18357 from UniProtKB/Swiss-Prot  Length:585

    Alignment length:248
                                   347       357       367       377       387       397       407       417       427       437       447       457       467       477       487       497       507       517       527       537       547       557       567       577        
           BLAR_STAAU   338 NYKKPLHNDYQILDKSKIFGSNSGSFVMYSMKKDKYYIYNEKESRKRYSPNSTYKIYLAMFGLDRHIINDENSRMSWNHKHYPFDAWNKEQDLNTAMQNSVNWYFERISDQIPKNYTATQLKQLNYGNKNLGSYKSYWMEDSLKISNLEQVIVFKNMMEQNNHFSKKAKNQLSSSLLIKKNEKYELYGKTGTGIVNGKYNNGWFVGYVITNHDKYYFATHLSDGKPSGKNAELISEKILKEMGVLNGQ 585
               SCOP domains d1xkzc_ C: Regulatory protein BlaR1                                                                                                                                                                                                                      SCOP domains
               CATH domains 1xkzC00 C:338-585 DD-peptidase/beta-lactamase superfamily                                                                                                                                                                                                CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........eee.hhhhhh..eeeeeeee....eeeeehhhhhh.ee.hhhhhhhhhhhhhhhh..................hhhhh...hhhhhhhh.hhhhhhhhhh..hhhhhhhhhhhhh...................eehhhhhhhhhhhhhh....hhhhhhhhhhhheeee...eeeeeeeeeeee..eeeeeeeeeeeee...eeeeeeeeee...hhhhhhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1xkz C 338 NYKKPLHNDYQILDKSKIFGSNSGSFVMYSMKKDKYYIYNEKESRKRYSPNSTYKIYLAMFGLDRHIINDENSRMSWNHKHYPFDAWNKEQDLNTAMQNSVNWYFERISDQIPKNYTATQLKQLNYGNKNLGSYKSYWMEDSLKISNLEQVIVFKNMMEQNNHFSKKAKNQLSSSLLIKKNEKYELYGKTGTGIVNGKYNNGWFVGYVITNHDKYYFATHLSDGKPSGKNAELISEKILKEMGVLNGQ 585
                                   347       357       367       377       387       397       407       417       427       437       447       457       467       477       487       497       507       517       527       537       547       557       567       577        


Chain D from PDB  Type:PROTEIN  Length:244
 aligned with BLAR_STAAU | P18357 from UniProtKB/Swiss-Prot  Length:585

    Alignment length:245
                                   347       357       367       377       387       397       407       417       427       437       447       457       467       477       487       497       507       517       527       537       547       557       567       577     
           BLAR_STAAU   338 NYKKPLHNDYQILDKSKIFGSNSGSFVMYSMKKDKYYIYNEKESRKRYSPNSTYKIYLAMFGLDRHIINDENSRMSWNHKHYPFDAWNKEQDLNTAMQNSVNWYFERISDQIPKNYTATQLKQLNYGNKNLGSYKSYWMEDSLKISNLEQVIVFKNMMEQNNHFSKKAKNQLSSSLLIKKNEKYELYGKTGTGIVNGKYNNGWFVGYVITNHDKYYFATHLSDGKPSGKNAELISEKILKEMGVL 582
               SCOP domains d1xkzd_ D: Regulatory protein BlaR1                                                                                                                                                                                                                   SCOP domains
               CATH domains 1xkzD00 D:338-582 DD-peptidase/beta-lactamase superfamily                                                                                                                                                                                             CATH domains
           Pfam domains (1) -----------------------Transpeptidase-1xkzD01 D:361-577                                                                                                                                                                                         ----- Pfam domains (1)
           Pfam domains (2) -----------------------Transpeptidase-1xkzD02 D:361-577                                                                                                                                                                                         ----- Pfam domains (2)
           Pfam domains (3) -----------------------Transpeptidase-1xkzD03 D:361-577                                                                                                                                                                                         ----- Pfam domains (3)
           Pfam domains (4) -----------------------Transpeptidase-1xkzD04 D:361-577                                                                                                                                                                                         ----- Pfam domains (4)
         Sec.struct. author ........eeeee.hhhhhh..eeeeeeee....eeeeehhhhhh.ee.hhhhhhhhhhhhhhhh..................hhhhh...hhhhhhhh.hhhhhhhhhh..hhhhhhhhhhhhh...................eehhhhhhhhhhhhhh-...hhhhhhhhhhhheeee...eeeeeeeeeeee..eeeeeeeeeeeee...eeeeeeeeee...hhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1xkz D 338 NYKKPLHNDYQILDKSKIFGSNSGSFVMYSMKKDKYYIYNEKESRKRYSPNSTYKIYLAMFGLDRHIINDENSRMSWNHKHYPFDAWNKEQDLNTAMQNSVNWYFERISDQIPKNYTATQLKQLNYGNKNLGSYKSYWMEDSLKISNLEQVIVFKNMMEQ-NHFSKKAKNQLSSSLLIKKNEKYELYGKTGTGIVNGKYNNGWFVGYVITNHDKYYFATHLSDGKPSGKNAELISEKILKEMGVL 582
                                   347       357       367       377       387       397       407       417       427       437       447       457       467       477       487       497 |     507       517       527       537       547       557       567       577     
                                                                                                                                                                                         497 |                                                                                   
                                                                                                                                                                                           499
   Legend:   → Mismatch (orange background)
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  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, 4)

Asymmetric Unit
(-)
Class: Multi-domain proteins (alpha and beta) (2421)

(-) CATH Domains  (1, 4)

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

(-) Pfam Domains  (1, 4)

Asymmetric Unit
(-)
Clan: Beta-lactamase (210)

(-) Gene Ontology  (4, 4)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D   (BLAR_STAAU | P18357)
molecular function
    GO:0008658    penicillin binding    Interacting selectively and non-covalently with penicillin, any antibiotic that contains the condensed beta-lactamthiazolidine ring system.
cellular component
    GO:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0005886    plasma membrane    The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.

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 Related Entries

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

UniProtKB/Swiss-Prot
        BLAR_STAAU | P18357: 1xa1 1xa7 3q81 3q82 3uy6

(-) Related Entries Specified in the PDB File

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