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(-) Description

Title :  THE X-RAY CRYSTAL STRUCTURE OF A THERMOPHILIC CELLOBIOSE BINDING PROTEIN BOUND WITH CELLOBIOSE
 
Authors :  M. J. Cuneo, H. W. Hellinga
Date :  11 Dec 06  (Deposition) - 20 Mar 07  (Release) - 08 Dec 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.50
Chains :  Asym./Biol. Unit :  A
Keywords :  Periplasmic Binding Protein, Cellulose, Thermophilic Proteins, Cellobiose Binding Protein, Sugar Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. J. Cuneo, L. S. Beese, H. W. Hellinga
Structural Analysis Of Semi-Specific Oligosaccharide Recognition By A Cellulose-Binding Protein Of Thermotoga Maritima Reveals Adaptations For Functional Diversification Of The Oligopeptide Periplasmic Binding Protein Fold.
J. Biol. Chem. V. 284 33217 2009
PubMed-ID: 19801540  |  Reference-DOI: 10.1074/JBC.M109.041624
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - OLIGOPEPTIDE ABC TRANSPORTER, PERIPLASMIC OLIGOPEPTIDE-BINDING PROTEIN
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21-ROSETTA
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: TM0031
    Organism Scientific: THERMOTOGA MARITIMA
    Organism Taxid: 2336

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name
1CBI1Ligand/IonCELLOBIOSE

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:13 , ALA A:14 , TRP A:16 , ASN A:216 , GLY A:232 , LEU A:233 , PHE A:234 , TRP A:381 , ASP A:383 , TRP A:384 , TRP A:427 , TRP A:511 , TRP A:536 , HOH A:1923 , HOH A:1936 , HOH A:2085 , HOH A:2195 , HOH A:2200 , HOH A:2270 , HOH A:2299BINDING SITE FOR RESIDUE CBI A 1893

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2O7I)

(-) Cis Peptide Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1Glu A:256 -Pro A:257
2Gly A:371 -Pro A:372
3His A:435 -Pro A:436

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2O7I)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2O7I)

(-) Exons   (0, 0)

(no "Exon" information available for 2O7I)

(-) Sequences/Alignments

Asymmetric/Biological 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:582
 aligned with Q9WXN8_THEMA | Q9WXN8 from UniProtKB/TrEMBL  Length:606

    Alignment length:582
                                    33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453       463       473       483       493       503       513       523       533       543       553       563       573       583       593       603  
         Q9WXN8_THEMA    24 SLPREDTVYIGGALWGPATTWNLYAPQSTWGTDQFMYLPAFQYDLGRDAWIPVIAERYEFVDDKTLRIYIRPEARWSDGVPITADDFVYALELTKELGIGPGGGWDTYIEYVKAVDTKVVEFKAKEENLNYFQFLSYSLGAQPMPKHVYERIRAQMNIKDWINDKPEEQVVSGPYKLYYYDPNIVVYQRVDDWWGKDIFGLPRPKYLAHVIYKDNPSASLAFERGDIDWNGLFIPSVWELWEKKGLPVGTWYKKEPYFIPDGVGFVYVNNTKPGLSDPAVRKAIAYAIPYNEMLKKAYFGYGSQAHPSMVIDLFEPYKQYIDYELAKKTFGTEDGRIPFDLDMANKILDEAGYKKGPDGVRVGPDGTKLGPYTISVPYGWTDWMMMCEMIAKNLRSIGIDVKTEFPDFSVWADRMTKGTFDLIISWSVGPSFDHPFNIYRFVLDKRLSKPVGEVTWAGDWERYDNDEVVELLDKAVSTLDPEVRKQAYFRIQQIIYRDMPSIPAFYTAHWYEYSTKYWINWPSEDNPAWFRPSPWHADAWPTLFIISKKSDPQPVPSWLGTVDEGGIEIPTAKIFEDLQKAT 605
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------SBP_bac_5-2o7iA01 A:50-449                                                                                                                                                                                                                                                                                                                                                                                      -------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhh.eeeee...................hhhhhh....eeee....eeee..eeeeeeee..eeeeee............hhhhhhhhhhhhhhhh.....hhhhheeeeeeee..eeeeee.....hhhhhhhhhhh....hhhhhhhhhhhhhhhhh.............eeeeeee..eeeeee.....hhhhhh.....eeeee...hhhhhhhhhhh....ee.......hhhhhh....eee.........eeeeeeeee........hhhhhhhhhhhhhhhhhhhhh................hhhhhhhhhhhhhhhhhh........hhhhhhhhhhhh..ee.....ee.........eeee....hhhhhhhhhhhhhhhhhh...eeee..hhhhhhhhhhh....eeee.........hhhhhhhhhhhhhh................hhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhh..eeeeeee...eee...ee.....................hhhhhhee....................eehhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2o7i A   2 SLPREDTVYIGGALWGPATTWNLYAPQSTWGTDQFMYLPAFQYDLGRDAWIPVIAERYEFVDDKTLRIYIRPEARWSDGVPITADDFVYALELTKELGIGPGGGWDTYIEYVKAVDTKVVEFKAKEENLNYFQFLSYSLGAQPMPKHVYERIRAQMNIKDWINDKPEEQVVSGPYKLYYYDPNIVVYQRVDDWWGKDIFGLPRPKYLAHVIYKDNPSASLAFERGDIDWNGLFIPSVWELWEKKGLPVGTWYKKEPYFIPDGVGFVYVNNTKPGLSDPAVRKAIAYAIPYNEMLKKAYFGYGSQAHPSMVIDLFEPYKQYIDYELAKKTFGTEDGRIPFDLDMANKILDEAGYKKGPDGVRVGPDGTKLGPYTISVPYGWTDWMMMCEMIAKNLRSIGIDVKTEFPDFSVWADRMTKGTFDLIISWSVGPSFDHPFNIYRFVLDKRLSKPVGEVTWAGDWERYDNDEVVELLDKAVSTLDPEVRKQAYFRIQQIIYRDMPSIPAFYTAHWYEYSTKYWINWPSEDNPAWFRPSPWHADAWPTLFIISKKSDPQPVPSWLGTVDEGGIEIPTAKIFEDLQKAT 583
                                    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       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511       521       531       541       551       561       571       581
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  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 2O7I)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2O7I)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: PBP (391)

(-) Gene Ontology  (4, 4)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (Q9WXN8_THEMA | Q9WXN8)
molecular function
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0015197    peptide transporter activity    Enables the directed movement of peptides, compounds of two or more amino acids where the alpha carboxyl group of one is bound to the alpha amino group of another, into, out of or within a cell, or between cells.
biological process
    GO:0042884    microcin transport    The directed movement of microcin, a class of glycine-rich, bactericidal peptides (antibiotics) produced by some enteric bacteria, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
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.

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 Related Entries

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

UniProtKB/TrEMBL
        Q9WXN8_THEMA | Q9WXN8: 3i5o 4jsd 4jso

(-) Related Entries Specified in the PDB File

2o7j