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(-) Description

Title :  CRYSTAL STRUCTURE OF G3P FROM PHAGE IF1 IN COMPLEX WITH ITS CORECEPTOR, THE C-TERMINAL DOMAIN OF TOLA
 
Authors :  S. H. Lorenz, R. P. Jakob, H. Dobbek, F. X. Schmid
Date :  15 Mar 10  (Deposition) - 01 Dec 10  (Release) - 16 Feb 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.47
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  C,D  (1x)
Biol. Unit 2:  A,B  (1x)
Keywords :  Transmembrane, Phage Infection, Phage Recognition, Host-Virus Interaction, Virion, Viral Protein, Host Membrane (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. H. Lorenz, R. P. Jakob, U. Weininger, J. Balbach, H. Dobbek, F. X. Schmid
The Filamentous Phages Fd And If1 Use Different Mechanisms To Infect Escherichia Coli.
J. Mol. Biol. V. 405 989 2011
PubMed-ID: 21110981  |  Reference-DOI: 10.1016/J.JMB.2010.11.030

(-) Compounds

Molecule 1 - ATTACHMENT PROTEIN G3P
    Chains: A, C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET11A
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Fragment: TOLA-BINDING DOMAIN, RESIDUES 17-81
    Organism Scientific: ENTEROBACTERIA PHAGE IF1
    Organism Taxid: 10868
    Synonym: GENE 3 PROTEIN, MINOR COAT PROTEIN, G3P, IF1-N1
 
Molecule 2 - MEMBRANE SPANNING PROTEIN, REQUIRED FOR OUTER MEMBRANE INTEGRITY
    Chains: B, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET11A
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Fragment: C-TERMINAL DOMAIN, RESIDUES 268-394
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562
    Synonym: MEMBRANE SPANNING PROTEIN TOLA, TOLA

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x):   CD
Biological Unit 2 (1x): AB  

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 2X9A)

(-) Sites  (0, 0)

(no "Site" information available for 2X9A)

(-) SS Bonds  (4, 4)

Asymmetric Unit
No.Residues
1A:7 -A:34
2B:362 -B:387
3C:7 -C:34
4D:362 -D:387

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2X9A)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2X9A)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2X9A)

(-) Exons   (0, 0)

(no "Exon" information available for 2X9A)

(-) 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:61
 aligned with G3P_BPIF1 | O80297 from UniProtKB/Swiss-Prot  Length:460

    Alignment length:61
                                    27        37        47        57        67        77 
            G3P_BPIF1    18 TTDAECLSKPAFDGTLSNVWKEGDSRYANFENCIYELSGIGIGYDNDTSCNGHWTPVRAAD  78
               SCOP domains d2x9aa_ A: automated matches                                  SCOP domains
               CATH domains ------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhh...eeeeee..eee..eeeeee..eeeeeeeeeeee....eeeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------- Transcript
                 2x9a A   2 TTDAECLSKPAFDGTLSNVWKEGDSRYANFENCIYELSGIGIGYDNDTSWNGHWTPVRAAD  62
                                    11        21        31        41        51        61 


Chain B from PDB  Type:PROTEIN  Length:90
 aligned with Q8X965_ECO57 | Q8X965 from UniProtKB/TrEMBL  Length:394

    Alignment length:90
                                                                                                                  394 
                                   315       325       335       345       355       365       375       385        |-
         Q8X965_ECO57   306 SGADINNYAGQIKSAIESKFYDASSYAGKTCTLRIKLAPDGMLLDIKPEGGDPALCQAALAAAKLAKIPKPPSQAVYEVFKNAPLDFKP-   -
               SCOP domains ------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhh...hhhhhh...eeeeeee.....eeeeeeeeehhhhhhhhhhhhhhh......hhhhhhhhh..eeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------ Transcript
                 2x9a B 332 SGADINNYAGQIKSAIESKFYDASSYAGKTCTLRIKLAPDGMLLDIKPEGGDPALCQAALAAAKLAKIPKPPSQAVYEVFKNAPLDFKPA 421
                                   341       351       361       371       381       391       401       411       421


Chain C from PDB  Type:PROTEIN  Length:61
 aligned with G3P_BPIF1 | O80297 from UniProtKB/Swiss-Prot  Length:460

    Alignment length:61
                                    27        37        47        57        67        77 
            G3P_BPIF1    18 TTDAECLSKPAFDGTLSNVWKEGDSRYANFENCIYELSGIGIGYDNDTSCNGHWTPVRAAD  78
               SCOP domains d2x9ac_ C: automated matches                                  SCOP domains
               CATH domains ------------------------------------------------------------- CATH domains
           Pfam domains (1) Phage_Coat_A-2x9aC01 C:2-45                 ----------------- Pfam domains (1)
           Pfam domains (2) Phage_Coat_A-2x9aC02 C:2-45                 ----------------- Pfam domains (2)
         Sec.struct. author .hhhhhhh...eeeee...eee..eeeeee..eeeeeeeeeeee....eeeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------- Transcript
                 2x9a C   2 TTDAECLSKPAFDGTLSNVWKEGDSRYANFENCIYELSGIGIGYDNDTSWNGHWTPVRAAD  62
                                    11        21        31        41        51        61 


Chain D from PDB  Type:PROTEIN  Length:90
 aligned with Q8X965_ECO57 | Q8X965 from UniProtKB/TrEMBL  Length:394

    Alignment length:90
                                                                                                                  394 
                                   315       325       335       345       355       365       375       385        |-
         Q8X965_ECO57   306 SGADINNYAGQIKSAIESKFYDASSYAGKTCTLRIKLAPDGMLLDIKPEGGDPALCQAALAAAKLAKIPKPPSQAVYEVFKNAPLDFKP-   -
               SCOP domains ------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------ CATH domains
           Pfam domains (1) TolA-2x9aD01 D:332-418                                                                 --- Pfam domains (1)
           Pfam domains (2) TolA-2x9aD02 D:332-418                                                                 --- Pfam domains (2)
         Sec.struct. author hhhhhhhhhhhhhhhhhh...hhhhhh...eeeeeee.....eeeeeeeeehhhhhhhhhhhhhhh......hhhhhhhhh..eeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------ Transcript
                 2x9a D 332 SGADINNYAGQIKSAIESKFYDASSYAGKTCTLRIKLAPDGMLLDIKPEGGDPALCQAALAAAKLAKIPKPPSQAVYEVFKNAPLDFKPA 421
                                   341       351       361       371       381       391       401       411       421
   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  (1, 2)

Asymmetric Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2X9A)

(-) Pfam Domains  (2, 4)

Asymmetric Unit
(-)
Clan: TolA-TonB-Cterm (7)
(-)
Clan: no clan defined [family: Phage_Coat_A] (4)

(-) Gene Ontology  (11, 13)

Asymmetric Unit(hide GO term definitions)
Chain A,C   (G3P_BPIF1 | O80297)
biological process
    GO:0046718    viral entry into host cell    The process that occurs after viral attachment by which a virus, or viral nucleic acid, breaches the plasma membrane or cell envelope and enters the host cell. The process ends when the viral nucleic acid is released into the host cell cytoplasm.
    GO:0016032    viral process    A multi-organism process in which a virus is a participant. The other participant is the host. Includes infection of a host cell, replication of the viral genome, and assembly of progeny virus particles. In some cases the viral genetic material may integrate into the host genome and only subsequently, under particular circumstances, 'complete' its life cycle.
    GO:0019076    viral release from host cell    The dissemination of mature viral particles from the host cell, e.g. by cell lysis or the budding of virus particles from the cell membrane.
    GO:0019062    virion attachment to host cell    The process by which a virion protein binds to molecules on the host cellular surface or host cell surface projection.
    GO:0039666    virion attachment to host cell pilus    The process by which a virion attaches to a host cell by binding to a pilus on the host cell surface. Pili are retractile filaments that protrude from gram-negative bacteria. Filamentous viruses can attach to the pilus tip, whereas icosahedral viruses can attach to the pilus side.
cellular component
    GO:0033644    host cell membrane    Double layer of lipid molecules as it encloses host cells, and, in eukaryotes, many organelles; may be a single or double lipid bilayer; also includes associated proteins. The host is defined as the larger of the organisms involved in a symbiotic interaction.
    GO:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0019012    virion    The complete fully infectious extracellular virus particle.

Chain B,D   (Q8X965_ECO57 | Q8X965)
molecular function
    GO:0005215    transporter activity    Enables the directed movement of substances (such as macromolecules, small molecules, ions) into, out of or within a cell, or between cells.
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:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.

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 Related Entries

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

UniProtKB/Swiss-Prot
        G3P_BPIF1 | O80297: 2x9b

(-) Related Entries Specified in the PDB File

2x9b THE FILAMENTOUS PHAGES FD AND IF1 USE DIFFERENT INFECTION MECHANISMS