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(-) Description

Title :  CRYSTAL STRUCTURE OF THE SINORHIZOBIUM MELILOTI AI-2 RECEPTOR, SMLSRB
 
Authors :  S. T. Miller, J. R. Mcauley, C. Pereira, K. B. Xavier, M. E. Taga
Date :  18 Sep 08  (Deposition) - 02 Dec 08  (Release) - 02 Dec 08  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Periplasmic Binding Protein, Plasmid, Signaling Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. S. Pereira, J. R. Mcauley, M. E. Taga, K. B. Xavier, S. T. Miller
Sinorhizobium Meliloti, A Bacterium Lacking The Autoinducer-2 (Ai-2) Synthase, Responds To Ai-2 Supplied By Other Bacteria.
Mol. Microbiol. V. 70 1223 2008
PubMed-ID: 18990189  |  Reference-DOI: 10.1111/J.1365-2958.2008.06477.X
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - SMLSRB
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PGEX 4T1
    Expression System Strain: BL21
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 29-343
    Gene: AITB, RB0590, SM_B21016, SMB21016
    Organism Common: RHIZOBIUM MELILOTI
    Organism Scientific: SINORHIZOBIUM MELILOTI
    Organism Taxid: 382
    Synonym: SMB21016

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric Unit (1, 2)
No.NameCountTypeFull Name
1PAV2Ligand/Ion(2R,4S)-2-METHYL-2,3,3,4-TETRAHYDROXYTETRAHYDROFURAN
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1PAV1Ligand/Ion(2R,4S)-2-METHYL-2,3,3,4-TETRAHYDROXYTETRAHYDROFURAN
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
1PAV1Ligand/Ion(2R,4S)-2-METHYL-2,3,3,4-TETRAHYDROXYTETRAHYDROFURAN

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELYS A:9 , PHE A:15 , PHE A:16 , ASP A:90 , GLN A:104 , ASP A:140 , GLN A:141 , TRP A:144 , PRO A:194 , ASP A:195 , ALA A:196 , PHE A:220 , TRP A:241BINDING SITE FOR RESIDUE PAV A 400
2AC2SOFTWARELYS B:9 , PHE B:15 , PHE B:16 , ASP B:90 , GLN B:104 , ASP B:140 , GLN B:141 , TRP B:144 , PRO B:194 , ASP B:195 , ALA B:196 , TRP B:241BINDING SITE FOR RESIDUE PAV B 400

(-) SS Bonds  (2, 2)

Asymmetric Unit
No.Residues
1A:73 -A:97
2B:73 -B:97

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3EJW)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3EJW)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3EJW)

(-) Exons   (0, 0)

(no "Exon" information available for 3EJW)

(-) 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:315
 aligned with Q926H7_RHIME | Q926H7 from UniProtKB/TrEMBL  Length:343

    Alignment length:315
                                    38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338     
         Q926H7_RHIME    29 ENQIAFIPKLVGVGFFTSGGAGAVKAGEEVGAKVTYDGPTEPSVSGQVQFINNFVNQGYNALIVSSVSPDGLCPALKRAMERGVLVMTWDSDVNPDCRSYYINQGTPEQLGGLLVDMAAEGVKKEKAKVAFFYSSPTVTDQNAWAEAAKAKIAKEHPGWEIVTTQYGYNDAQKSLQTAESILQTYPDLDAIIAPDANALPAAAQAAENLKRAEGVTIVGFSTPNVMRPYIERGTIQRFGLWDVTQQGKISVFVADHVLKNGPMKVGEKLEIPGVGTVEVSANKVQGYDYEADGNGIILLPERTVFTKENIGNFDF 343
               SCOP domains d3ejwa_ A: automated matches                                                                                                                                                                                                                                                                                                SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee.....hhhhhhhhhhhhhhhhhhh.eeee......hhhhhhhhhhhhhhh...eeee.......hhhhhhhhhhh..eeeee....hhhhh.eeee..hhhhhhhhhhhhhhhhhh...eeeeeee....hhhhhhhhhhhhhhhhhhh..eeeeeeee...hhhhhhhhhhhhhhhh....eeee...hhhhhhhhhhhhh......eeee..hhhhhhhhhhh.....eee.hhhhhhhhhhhhhhhhhhhh......eeee...eeeeeehhhhhh........eeee....eee...hhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ejw A   1 ENQIAFIPKLVGVGFFTSGGAGAVKAGEEVGAKVTYDGPTEPSVSGQVQFINNFVNQGYNALIVSSVSPDGLCPALKRAMERGVLVMTWDSDVNPDCRSYYINQGTPEQLGGLLVDMAAEGVKKEKAKVAFFYSSPTVTDQNAWAEAAKAKIAKEHPGWEIVTTQYGYNDAQKSLQTAESILQTYPDLDAIIAPDANALPAAAQAAENLKRAEGVTIVGFSTPNVMRPYIERGTIQRFGLWDVTQQGKISVFVADHVLKNGPMKVGEKLEIPGVGTVEVSANKVQGYDYEADGNGIILLPERTVFTKENIGNFDF 315
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310     


Chain B from PDB  Type:PROTEIN  Length:315
 aligned with Q926H7_RHIME | Q926H7 from UniProtKB/TrEMBL  Length:343

    Alignment length:315
                                    38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338     
         Q926H7_RHIME    29 ENQIAFIPKLVGVGFFTSGGAGAVKAGEEVGAKVTYDGPTEPSVSGQVQFINNFVNQGYNALIVSSVSPDGLCPALKRAMERGVLVMTWDSDVNPDCRSYYINQGTPEQLGGLLVDMAAEGVKKEKAKVAFFYSSPTVTDQNAWAEAAKAKIAKEHPGWEIVTTQYGYNDAQKSLQTAESILQTYPDLDAIIAPDANALPAAAQAAENLKRAEGVTIVGFSTPNVMRPYIERGTIQRFGLWDVTQQGKISVFVADHVLKNGPMKVGEKLEIPGVGTVEVSANKVQGYDYEADGNGIILLPERTVFTKENIGNFDF 343
               SCOP domains d3ejwb_ B: automated matches                                                                                                                                                                                                                                                                                                SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee.....hhhhhhhhhhhhhhhhhhh.eeee......hhhhhhhhhhhhhhh...eeee.......hhhhhhhhhhh..eeeee....hhhhh.eeee..hhhhhhhhhhhhhhhhhh...eeeeeee....hhhhhhhhhhhhhhhhhhh..eeeeeeee...hhhhhhhhhhhhhhhh....eeee...hhhhhhhhhhhhh......eeee..hhhhhhhhhhh.....eee.hhhhhhhhhhhhhhhhhhhh......eeee...eeeeeehhhhhh........eeee....eee...hhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ejw B   1 ENQIAFIPKLVGVGFFTSGGAGAVKAGEEVGAKVTYDGPTEPSVSGQVQFINNFVNQGYNALIVSSVSPDGLCPALKRAMERGVLVMTWDSDVNPDCRSYYINQGTPEQLGGLLVDMAAEGVKKEKAKVAFFYSSPTVTDQNAWAEAAKAKIAKEHPGWEIVTTQYGYNDAQKSLQTAESILQTYPDLDAIIAPDANALPAAAQAAENLKRAEGVTIVGFSTPNVMRPYIERGTIQRFGLWDVTQQGKISVFVADHVLKNGPMKVGEKLEIPGVGTVEVSANKVQGYDYEADGNGIILLPERTVFTKENIGNFDF 315
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310
   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, 2)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3EJW)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3EJW)

(-) Gene Ontology  (1, 1)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (Q926H7_RHIME | Q926H7)
cellular component
    GO:0043190    ATP-binding cassette (ABC) transporter complex    A complex for the transport of metabolites into and out of the cell, typically comprised of four domains; two membrane-associated domains and two ATP-binding domains at the intracellular face of the membrane, that form a central pore through the plasma membrane. Each of the four core domains may be encoded as a separate polypeptide or the domains can be fused in any one of a number of ways into multidomain polypeptides. In Bacteria and Archaebacteria, ABC transporters also include substrate binding proteins to bind substrate external to the cytoplasm and deliver it to the transporter.

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(-) Related Entries Specified in the PDB File

1jx6 VIBRIO HARVEYI AI-2 RECEPTOR LUXP
1tjy SALMONELLA TYPHIMURIUM AI-2 RECEPTOR LSRB