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(-) Description

Title :  CRYSTAL STRUCTURE OF RSEB: A SENSOR FOR PERIPLASMIC STRESS RESPONSE IN E. COLI
 
Authors :  P. Wollmann, K. Zeth
Date :  27 Jun 07  (Deposition) - 28 Aug 07  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.37
Chains :  Asym. Unit :  A,B,C
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C  (2x)
Keywords :  Sensor For Periplasmic Stress, Regulator, Regulatory Protein, Lipoprotein Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  P. Wollmann, K. Zeth
The Structure Of Rseb: A Sensor In Periplasmic Stress Response Of E. Coli.
J. Mol. Biol. V. 372 927 2007
PubMed-ID: 17692869  |  Reference-DOI: 10.1016/J.JMB.2007.06.039

(-) Compounds

Molecule 1 - SIGMA-E FACTOR REGULATORY PROTEIN RSEB
    Chains: A, B, C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET-22B
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Fragment: RESIDUES 23-318
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 469008
    Strain: K12
    Synonym: RSEB

 Structural Features

(-) Chains, Units

  123
Asymmetric Unit : ABC
Biological Unit 1 (1x): AB 
Biological Unit 2 (2x):   C

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 4)

Asymmetric Unit (1, 4)
No.NameCountTypeFull Name
1CYS4Mod. Amino AcidCYSTEINE
Biological Unit 1 (1, 4)
No.NameCountTypeFull Name
1CYS4Mod. Amino AcidCYSTEINE
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1CYS-1Mod. Amino AcidCYSTEINE

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETYR B:154 , ASP B:174 , ARG B:175 , ASP B:176 , ARG B:278 , PRO B:301 , PRO B:302 , GLN B:303BINDING SITE FOR RESIDUE CYS B1317
2AC2SOFTWARESER A:49 , SER A:110 , PRO A:112 , VAL A:170 , GLU A:181 , GLN A:182 , PHE A:183 , HOH A:2055 , HOH A:2080 , HOH A:2081BINDING SITE FOR RESIDUE CYS A1315
3AC3SOFTWAREALA B:26 , SER B:27 , GLY B:28 , PHE B:128 , HOH B:2076BINDING SITE FOR RESIDUE CYS B1318
4AC4SOFTWAREVAL A:131 , THR A:134 , ILE A:157 , TRP A:159BINDING SITE FOR RESIDUE CYS A1316

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2V43)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2V43)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2V43)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2V43)

(-) Exons   (0, 0)

(no "Exon" information available for 2V43)

(-) 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:263
 aligned with RSEB_ECOLI | P0AFX9 from UniProtKB/Swiss-Prot  Length:318

    Alignment length:292
                                    35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315  
          RSEB_ECOLI     26 ASGALLQQMNLASQSLNYELSFISINKQGVESLRYRHARLDNRPLAQLLQMDGPRREVVQRGNEISYFEPGLEPFTLNGDYIVDSLPSLIYTDFKRLSPYYDFISVGRTRIADRLCEVIRVVARDGTRYSYIVWMDTESKLPMRVDLLDRDGETLEQFRVIAFNVNQDISSSMQTLAKANLPPLLSVPVGEKAKFSWTPTWLPQGFSEVSSSRRPLPTMDNMPIESRLYSDGLFSFSVNVNRATPSSTDQMLRTGRRTVSTSVRDNAEITIVGELPPQTAKRIAENIKFGAA  317
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhheeeeeeeeee..eeeeeeeeeeee..eeeeeeee......eeeee..eeeee......eeee........hhhhh..hhhhh..eeeeeeeeeee..eeeeeeeeee......eeeeeee.....eeeeeee.....eeeeeeeeeeeee...hhhhhhhhhh....------------..ee.......ee.----------------.eeee....eeeeeeee.......eeee....eeeeeee..eeeeeee..hhhhhhhhhhhee.-.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                2v43 A   26 ASGALLQQMNLASQSLNYELSFISINKQGVESLRYRHARLDNRPLAQLLQMDGPRREVVQRGNEISYFEPGLEPFTLNGDYIVDSLPSLIYTDFKRLSPYYDFISVGRTRIADRLCEVIRVVARDGTRYSYIVWMDTESKLPMRVDLLDRDGETLEQFRVIAFNVNQDISSSMQTLAKANLPP------------SWTPTWLPQGFSEV----------------SRLYSDGLFSFSVNVNRATPSSTDQMLRTGRRTVSTSVRDNAEITIVGELPPQTAKRIAENIKF-CC 1316
                                    35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205  |      -     | 225        |-         -     | 255       265       275       285       295       305        |-| 
                                                                                                                                                                                                                208          221          234              251                                                            314 | 
                                                                                                                                                                                                                                                                                                                           1315 


Chain B from PDB  Type:PROTEIN  Length:278
 aligned with RSEB_ECOLI | P0AFX9 from UniProtKB/Swiss-Prot  Length:318

    Alignment length:294
                                                                                                                                                                                                                                                                                                                              318 
                                    35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315  | 
          RSEB_ECOLI     26 ASGALLQQMNLASQSLNYELSFISINKQGVESLRYRHARLDNRPLAQLLQMDGPRREVVQRGNEISYFEPGLEPFTLNGDYIVDSLPSLIYTDFKRLSPYYDFISVGRTRIADRLCEVIRVVARDGTRYSYIVWMDTESKLPMRVDLLDRDGETLEQFRVIAFNVNQDISSSMQTLAKANLPPLLSVPVGEKAKFSWTPTWLPQGFSEVSSSRRPLPTMDNMPIESRLYSDGLFSFSVNVNRATPSSTDQMLRTGRRTVSTSVRDNAEITIVGELPPQTAKRIAENIKFGAAQ-    -
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhheeeeeeeeee..eeeeeeeeeeee..eeeeeeee......eeeee..eeeee......eeee........hhhhh..hhhhh..eeeeeeeeeee..eeeeeeeeee......eeeeeee.....eeeeeee.....eeeeeeeeeeeee...hhhhhhhhh.....-----------..eee.......eeeeeeee..----...eeeeeee....eeeeeeee.......eeee....eeeeeee..eeeeeee..hhhhhhhhhhheee..-.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                2v43 B   26 ASGALLQQMNLASQSLNYELSFISINKQGVESLRYRHARLDNRPLAQLLQMDGPRREVVQRGNEISYFEPGLEPFTLNGDYIVDSLPSLIYTDFKRLSPYYDFISVGRTRIADRLCEVIRVVARDGTRYSYIVWMDTESKLPMRVDLLDRDGETLEQFRVIAFNVNQDISSSMQTLAKANLPP-----------FSWTPTWLPQGFSEVSSSRRPL----NMPIESRLYSDGLFSFSVNVNRATPSSTDQMLRTGRRTVSTSVRDNAEITIVGELPPQTAKRIAENIKFGA-CC 1318
                                    35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205  |      -    |  225       235     |   -|      255       265       275       285       295       305       315| | 
                                                                                                                                                                                                                208         220                  241  246                                                                   316 | 
                                                                                                                                                                                                                                                                                                                             1317 


Chain C from PDB  Type:PROTEIN  Length:276
 aligned with RSEB_ECOLI | P0AFX9 from UniProtKB/Swiss-Prot  Length:318

    Alignment length:292
                                    35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315  
          RSEB_ECOLI     26 ASGALLQQMNLASQSLNYELSFISINKQGVESLRYRHARLDNRPLAQLLQMDGPRREVVQRGNEISYFEPGLEPFTLNGDYIVDSLPSLIYTDFKRLSPYYDFISVGRTRIADRLCEVIRVVARDGTRYSYIVWMDTESKLPMRVDLLDRDGETLEQFRVIAFNVNQDISSSMQTLAKANLPPLLSVPVGEKAKFSWTPTWLPQGFSEVSSSRRPLPTMDNMPIESRLYSDGLFSFSVNVNRATPSSTDQMLRTGRRTVSTSVRDNAEITIVGELPPQTAKRIAENIKFGAA  317
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) -----MucB_RseB-2v43C01 C:31-315                                                                                                                                                                                                                                                                   -- Pfam domains (1)
           Pfam domains (2) -----MucB_RseB-2v43C02 C:31-315                                                                                                                                                                                                                                                                   -- Pfam domains (2)
           Pfam domains (3) -----MucB_RseB-2v43C03 C:31-315                                                                                                                                                                                                                                                                   -- Pfam domains (3)
         Sec.struct. author hhhhhhhhhhhhhhhheeeeeeeeee..eeeeeeeeeeee..eeeeeeee......eeeee..eeeee......eeee........hhhhh..hhhhh..eeeeeeeeeee..eeeeeeeeee......eeeeeee.....eeeeeee.....eeeeeeeeeeeee.--..hhhhhh..--------------...eee.......eeeeeeeee.......eeeeeeee....eeeeeeee.......eeee....eeeeeee..eeeeeee..hhhhhhhhhhheee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                2v43 C   26 ASGALLQQMNLASQSLNYELSFISINKQGVESLRYRHARLDNRPLAQLLQMDGPRREVVQRGNEISYFEPGLEPFTLNGDYIVDSLPSLIYTDFKRLSPYYDFISVGRTRIADRLCEVIRVVARDGTRYSYIVWMDTESKLPMRVDLLDRDGETLEQFRVIAFNVNQ--SSSMQTLAKA--------------KFSWTPTWLPQGFSEVSSSRRPLPTMDNMPIESRLYSDGLFSFSVNVNRATPSSTDQMLRTGRRTVSTSVRDNAEITIVGELPPQTAKRIAENIKFGAA  317
                                    35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185      |195        |-         -   |   225       235       245       255       265       275       285       295       305       315  
                                                                                                                                                                                                192  |      204            219                                                                                                  
                                                                                                                                                                                                   195
   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  (0, 0)

(no "SCOP Domain" information available for 2V43)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2V43)

(-) Pfam Domains  (1, 3)

Asymmetric Unit
(-)
Clan: no clan defined [family: MucB_RseB] (4)

(-) Gene Ontology  (8, 8)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C   (RSEB_ECOLI | P0AFX9)
molecular function
    GO:0008289    lipid binding    Interacting selectively and non-covalently with a lipid.
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
    GO:0016989    sigma factor antagonist activity    The function of binding to a sigma factor and stopping, preventing or reducing the rate of its transcriptional activity.
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: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.
cellular component
    GO:0030288    outer membrane-bounded periplasmic space    The region between the inner (cytoplasmic or plasma) membrane and outer membrane of organisms with two membranes such as Gram negative bacteria. These periplasmic spaces are relatively thick and contain a thin peptidoglycan layer (PGL), also referred to as a thin cell wall.
    GO:0042597    periplasmic space    The region between the inner (cytoplasmic) and outer membrane (Gram-negative Bacteria) or cytoplasmic membrane and cell wall (Fungi and Gram-positive Bacteria).

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 Related Entries

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

UniProtKB/Swiss-Prot
        RSEB_ECOLI | P0AFX9: 2p4b 2v42 3m4w

(-) Related Entries Specified in the PDB File

2v42 CRYSTAL STRUCTURE OF RSEB: A SENSOR FOR PERIPLASMIC STRESS RESPONSE IN E. COLI