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(-) Description

Title :  CRYSTAL STRUCTURE OF THERMOANAEROBACTER TENGCONGENSIS RIBOSE BINDING PROTEIN
 
Authors :  M. J. Cuneo, H. W. Hellinga
Date :  11 Oct 06  (Deposition) - 20 Mar 07  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Ribose Binding Protein, Sugar Binding Protein, Thermophilic Proteins (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. J. Cuneo, Y. Tian, M. Allert, H. W. Hellinga
The Backbone Structure Of The Thermophilic Thermoanaerobacter Tengcongensis Ribose Binding Protein Is Essentially Identical To Its Mesophilic E. Coli Homolog.
Bmc Struct. Biol. V. 8 20 2008
PubMed-ID: 18373848  |  Reference-DOI: 10.1186/1472-6807-8-20
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - PERIPLASMIC SUGAR-BINDING PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET21A
    Expression System Strain: ROSETTA-BL21
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: TTE0206
    Organism Scientific: THERMOANAEROBACTER TENGCONGENSIS
    Organism Taxid: 119072

 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
1RIP2Ligand/IonRIBOSE(PYRANOSE FORM)
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1RIP1Ligand/IonRIBOSE(PYRANOSE FORM)
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
1RIP1Ligand/IonRIBOSE(PYRANOSE FORM)

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASN A:13 , PHE A:15 , PHE A:16 , ASP A:89 , ARG A:90 , ALA A:137 , ARG A:141 , PHE A:165 , ASN A:191 , ASP A:216 , GLN A:236BINDING SITE FOR RESIDUE RIP A 401
2AC2SOFTWAREASN B:13 , PHE B:15 , PHE B:16 , ASP B:89 , ARG B:90 , ALA B:137 , ARG B:141 , PHE B:165 , ASN B:191 , ASP B:216 , GLN B:236BINDING SITE FOR RESIDUE RIP B 402

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Gln A:208 -Gly A:209

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 2IOY)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
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  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:274
 aligned with Q8RD41_CALS4 | Q8RD41 from UniProtKB/TrEMBL  Length:313

    Alignment length:274
                                    49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309    
         Q8RD41_CALS4    40 KTIGLVISTLNNPFFVTLKNGAEEKAKELGYKIIVEDSQNDSSKELSNVEDLIQQKVDVLLINPVDSDAVVTAIKEANSKNIPVITIDRSANGGDVVCHIASDNVKGGEMAAEFIAKALKGKGNVVELEGIPGASAARDRGKGFDEAIAKYPDIKIVAKQAADFDRSKGLSVMENILQAQPKIDAVFAQNDEMALGAIKAIEAANRQGIIVVGFDGTEDALKAIKEGKMAATIAQQPALMGSLGVEMADKYLKGEKIPNFIPAELKLITKENVQ 313
               SCOP domains d2ioya_ A: automated matches                                                                                                                                                                                                                                                       SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee....hhhhhhhhhhhhhhhhhhh.eeeeee...hhhhhhhhhhhhhhh...eeee.......hhhhhhhhhhh...eeee..........eeeeehhhhhhhhhhhhhhhhh...eeeeeee....hhhhhhhhhhhhhhhh....eeeeeeee...hhhhhhhhhhhhhhhh....eeee.hhhhhhhhhhhhhhh.....eeeeee.hhhhhhhhhh....eeee.hhhhhhhhhhhhhhhhhh......eeee..eeee..... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2ioy A   2 KTIGLVISTLNNPFFVTLKNGAEEKAKELGYKIIVEDSQNDSSKELSNVEDLIQQKVDVLLINPVDSDAVVTAIKEANSKNIPVITIDRSANGGDVVCHIASDNVKGGEMAAEFIAKALKGKGNVVELEGIPGASAARDRGKGFDEAIAKYPDIKIVAKQAADFDRSKGLSVMENILQAQPKIDAVFAQNDEMALGAIKAIEAANRQGIIVVGFDGTEDALKAIKEGKMAATIAQQPALMGSLGVEMADKYLKGEKIPNFIPAELKLITKENVQ 275
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271    


Chain B from PDB  Type:PROTEIN  Length:274
 aligned with Q8RD41_CALS4 | Q8RD41 from UniProtKB/TrEMBL  Length:313

    Alignment length:274
                                    49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309    
         Q8RD41_CALS4    40 KTIGLVISTLNNPFFVTLKNGAEEKAKELGYKIIVEDSQNDSSKELSNVEDLIQQKVDVLLINPVDSDAVVTAIKEANSKNIPVITIDRSANGGDVVCHIASDNVKGGEMAAEFIAKALKGKGNVVELEGIPGASAARDRGKGFDEAIAKYPDIKIVAKQAADFDRSKGLSVMENILQAQPKIDAVFAQNDEMALGAIKAIEAANRQGIIVVGFDGTEDALKAIKEGKMAATIAQQPALMGSLGVEMADKYLKGEKIPNFIPAELKLITKENVQ 313
               SCOP domains d2ioyb_ B: automated matches                                                                                                                                                                                                                                                       SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee....hhhhhhhhhhhhhhhhhhh.eeeeee...hhhhhhhhhhhhhhh...eeee.......hhhhhhhhhhh...eeee..........eeeeehhhhhhhhhhhhhhhhh...eeeeeee....hhhhhhhhhhhhhhhh....eeeeeeee...hhhhhhhhhhhhhhhh....eeee.hhhhhhhhhhhhhhh.....eeeeee.hhhhhhhhhh....eeee.hhhhhhhhhhhhhhhhhh......eeee..eeee..... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2ioy B   2 KTIGLVISTLNNPFFVTLKNGAEEKAKELGYKIIVEDSQNDSSKELSNVEDLIQQKVDVLLINPVDSDAVVTAIKEANSKNIPVITIDRSANGGDVVCHIASDNVKGGEMAAEFIAKALKGKGNVVELEGIPGASAARDRGKGFDEAIAKYPDIKIVAKQAADFDRSKGLSVMENILQAQPKIDAVFAQNDEMALGAIKAIEAANRQGIIVVGFDGTEDALKAIKEGKMAATIAQQPALMGSLGVEMADKYLKGEKIPNFIPAELKLITKENVQ 275
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271
   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 2IOY)

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 2IOY)

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