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(-) Description

Title :  HIGH-RESOLUTION STRUCTURE OF THE PERIPLASMIC ECTOINE-BINDING PROTEIN FROM TEAABC TRAP-TRANSPORTER OF HALOMONAS ELONGATA
 
Authors :  S. I. Kuhlmann, A. C. Terwisscha Van Scheltinga, R. Bienert, H. J. Kunte, C. Ziegler
Date :  03 Mar 08  (Deposition) - 26 Aug 08  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.55
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Ectoine, Hydroxyectoine, Trap-Transporter, Periplasmic Binding Protein, Transport (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. I. Kuhlmann, A. C. Terwisscha Van Scheltinga, R. Bienert, H. J. Kunte, C. Ziegler
1. 55 A Structure Of The Ectoine Binding Protein Teaa Of The Osmoregulated Trap-Transporter Teaabc From Halomonas Elongata.
Biochemistry V. 47 9475 2008
PubMed-ID: 18702523  |  Reference-DOI: 10.1021/BI8006719

(-) Compounds

Molecule 1 - PERIPLASMIC SUBSTRATE BINDING PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET 26
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Fragment: RESIDUES 26-341
    Organism Scientific: HALOMONAS ELONGATA
    Organism Taxid: 2746
    Strain: DSM 2581T
    Synonym: ECTOINE-PERIPLASMIC BINDING PROTEIN

 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  (2, 10)

Asymmetric Unit (2, 10)
No.NameCountTypeFull Name
14CS2Ligand/Ion(4S)-2-METHYL-1,4,5,6-TETRAHYDROPYRIMIDINE-4-CARBOXYLIC ACID
2MG8Ligand/IonMAGNESIUM ION
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
14CS1Ligand/Ion(4S)-2-METHYL-1,4,5,6-TETRAHYDROPYRIMIDINE-4-CARBOXYLIC ACID
2MG-1Ligand/IonMAGNESIUM ION
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
14CS1Ligand/Ion(4S)-2-METHYL-1,4,5,6-TETRAHYDROPYRIMIDINE-4-CARBOXYLIC ACID
2MG-1Ligand/IonMAGNESIUM ION

(-) Sites  (10, 10)

Asymmetric Unit (10, 10)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREGLU A:9 , PHE A:66 , ARG A:144 , TRP A:167 , ASN A:184 , PRO A:185 , TRP A:188 , PHE A:209 , HOH A:2182BINDING SITE FOR RESIDUE 4CS A1311
02AC2SOFTWAREGLU B:8 , GLU B:9 , PHE B:66 , ARG B:144 , TRP B:167 , ASN B:184 , PRO B:185 , TRP B:188 , PHE B:209 , HOH B:2217BINDING SITE FOR RESIDUE 4CS B1311
03AC3SOFTWAREASN A:140 , HOH A:2150 , HOH A:2152 , HOH B:2130 , HOH B:2131 , HOH B:2133BINDING SITE FOR RESIDUE MG A1312
04AC4SOFTWAREHOH A:2106 , HOH A:2108 , HOH A:2262 , HOH A:2264 , HOH A:2265 , HOH B:2090BINDING SITE FOR RESIDUE MG A1313
05AC5SOFTWAREHOH A:2254 , HOH A:2258 , HOH B:2062 , HOH B:2331 , HOH B:2332BINDING SITE FOR RESIDUE MG A1314
06AC6SOFTWAREGLU A:225 , HOH A:2141 , HOH A:2143 , HOH A:2145 , HOH A:2147 , HOH A:2221BINDING SITE FOR RESIDUE MG A1315
07AC7SOFTWAREGLU B:27 , SER B:30 , HOH B:2040 , HOH B:2043 , HOH B:2054 , HOH B:2059BINDING SITE FOR RESIDUE MG B1312
08AC8SOFTWAREHOH B:2123 , HOH B:2127 , HOH B:2272 , HOH B:2274 , HOH B:2280 , HOH B:2291BINDING SITE FOR RESIDUE MG B1313
09AC9SOFTWAREHOH B:2074 , HOH B:2180 , HOH B:2185BINDING SITE FOR RESIDUE MG B1314
10BC1SOFTWAREHOH B:2085 , HOH B:2179 , HOH B:2183 , HOH B:2186BINDING SITE FOR RESIDUE MG B1315

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 2VPN)

(-) 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:306
 aligned with TEAA_HALED | E1VBK1 from UniProtKB/Swiss-Prot  Length:341

    Alignment length:310
                                    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       325       335
           TEAA_HALED    26 DNWRYAHEEYEGDVQDVFAQAFKGYVEDNSDHTVQVYRFGELGESDDIMEQTQNGILQFVNQSPGFTGSLIPSAQIFFIPYLMPTDMDTVLEFFDESKAINEMFPKLYAEHGLELLKMYPEGEMVVTADEPITSPEDFDNKKIRTMTNPLLAETYKAFGATPTPLPWGEVYGGLQTGIIDGQENPIFWIESGGLYEVSPNLTFTSHGWFTTAMMANQDFYEGLSEEDQQLVQDAADAAYDHTIEHIKGLSEESLEKIKAASDEVTVTRLNDEQIQAFKERAPQVEEKFIEMTGEQGQELLDQFKADLKAV 335
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee......hhhhhhhhhhhhhhhhh...eeeee.....----hhhhhhhh....eeeehhhhhh..hhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhh..eeeeeeeeeeeeeeee.....hhhhhh..eeee..hhhhhhhhhhhh.eeee.hhhhhhhhhhh....eeeeehhhhhhhhhhhh..eeee....eeeeeeeeehhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2vpn A   1 DNWRYAHEEYEGDVQDVFAQAFKGYVEDNSDHTVQVYRFGEL----DIMEQTQNGILQFVNQSPGFTGSLIPSAQIFFIPYLMPTDMDTVLEFFDESKAINEMFPKLYAEHGLELLKMYPEGEMVVTADEPITSPEDFDNKKIRTMTNPLLAETYKAFGATPTPLPWGEVYGGLQTGIIDGQENPIFWIESGGLYEVSPNLTFTSHGWFTTAMMANQDFYEGLSEEDQQLVQDAADAAYDHTIEHIKGLSEESLEKIKAASDEVTVTRLNDEQIQAFKERAPQVEEKFIEMTGEQGQELLDQFKADLKAV 310
                                    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
                                                                    42   47                                                                                                                                                                                                                                                                       


Chain B from PDB  Type:PROTEIN  Length:310
 aligned with TEAA_HALED | E1VBK1 from UniProtKB/Swiss-Prot  Length:341

    Alignment length:310
                                    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       325       335
           TEAA_HALED    26 DNWRYAHEEYEGDVQDVFAQAFKGYVEDNSDHTVQVYRFGELGESDDIMEQTQNGILQFVNQSPGFTGSLIPSAQIFFIPYLMPTDMDTVLEFFDESKAINEMFPKLYAEHGLELLKMYPEGEMVVTADEPITSPEDFDNKKIRTMTNPLLAETYKAFGATPTPLPWGEVYGGLQTGIIDGQENPIFWIESGGLYEVSPNLTFTSHGWFTTAMMANQDFYEGLSEEDQQLVQDAADAAYDHTIEHIKGLSEESLEKIKAASDEVTVTRLNDEQIQAFKERAPQVEEKFIEMTGEQGQELLDQFKADLKAV 335
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee......hhhhhhhhhhhhhhhhhh..eeeee......hhhhhhhhhhh....eeeehhhhhh..hhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhh..eeeeeeeeeeeeeeee.....hhhhhh..eeee..hhhhhhhhhhhh.eeee.hhhhhhhhhhh....eeeeehhhhhhhhhhhh..eeee....eeeeeeeeehhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2vpn B   1 DNWRYAHEEYEGDVQDVFAQAFKGYVEDNSDHTVQVYRFGELGESDDIMEQTQNGILQFVNQSPGFTGSLIPSAQIFFIPYLMPTDMDTVLEFFDESKAINEMFPKLYAEHGLELLKMYPEGEMVVTADEPITSPEDFDNKKIRTMTNPLLAETYKAFGATPTPLPWGEVYGGLQTGIIDGQENPIFWIESGGLYEVSPNLTFTSHGWFTTAMMANQDFYEGLSEEDQQLVQDAADAAYDHTIEHIKGLSEESLEKIKAASDEVTVTRLNDEQIQAFKERAPQVEEKFIEMTGEQGQELLDQFKADLKAV 310
                                    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)
  - → 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 2VPN)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2VPN)

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (TEAA_HALED | E1VBK1)
biological process
    GO:0006810    transport    The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter, pore or motor protein.
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

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UniProtKB/Swiss-Prot
        TEAA_HALED | E1VBK1: 2vpo 3gyy

(-) Related Entries Specified in the PDB File

2vpo HIGH RESOLUTION STRUCTURE OF THE PERIPLASMIC BINDING PROTEIN TEAA FROM TEAABC TRAP TRANSPORTER OF HALOMONAS ELONGATA IN COMPLEX WITH HYDROXYECTOINE