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(-) Description

Title :  CRYSTAL STRUCTURE OF THE HUMAN ADENOVIRUS TYPE 7 FIBER KNOB
 
Authors :  B. D. Persson, D. M. Reiter, N. Arnberg, T. Stehle
Date :  17 Oct 08  (Deposition) - 25 Nov 08  (Release) - 13 Jan 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.75
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Adenovirus, Trimer, Fiber Knob, Ad7, Ads, Viral Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  B. D. Persson, S. Muller, D. M. Reiter, B. B. Schmitt, M. Marttila, C. V. Sumowski, S. Schweizer, U. Scheu, C. Ochsenfeld, N. Arnberg, T. Stehle
An Arginine Switch In The Species B Adenovirus Knob Determines High-Affinity Engagement Of Cellular Receptor Cd46
J. Virol. V. 83 673 2009
PubMed-ID: 18987134  |  Reference-DOI: 10.1128/JVI.01967-08
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - L5 FIBER PROTEIN
    Chains: A, B, C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET15B
    Expression System Strain: ROSETTA DE3
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: RESIDUES 117-325
    Gene: L5
    Organism Scientific: HUMAN ADENOVIRUS 7
    Organism Taxid: 10519
    Strain: GOMEN

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : ABC

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 3EXW)

(-) Sites  (0, 0)

(no "Site" information available for 3EXW)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3EXW)

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3EXW)

(-) 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:198
 aligned with Q5EY45_ADE07 | Q5EY45 from UniProtKB/TrEMBL  Length:325

    Alignment length:198
                                   137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317        
         Q5EY45_ADE07   128 DDNINTLWTGVNPTTANCQIMASSESNDCKLILTLVKTGALVTAFVYVIGVSNDFNMLTTHKNINFTAELFFDSTGNLLTSLSSLKTPLNHKSGQNMATGALTNAKGFMPSTTAYPFNVNSREKENYIYGTCYYTASDHTAFPIDISVMLNQRALNNETSYCIRVTWSWNTGVAPEVQTSATTLVTSPFTFYYIREDD 325
               SCOP domains d3exwa_ A: automated matches                                                                                                                                                                           SCOP domains
               CATH domains 3exwA00 A:128-325 Adenovirus Type 5 Fiber Protein (Receptor Binding Domain)                                                                                                                            CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author hhhh.eee....................eeeeeeeeee..eeeeeeeeee.hhhhhhhhhh.eeeeeeeeee...................ee..ee......hhhhhh.........hhhhhhh.eeeeeeeee.....eeeeeeeeee..........eeeeeeeeee..................eeeeee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3exw A 128 DDNINTLWTGVNPTTANCQIMASSESNDCKLILTLVKTGALVTAFVYVIGVSNDFNMLTTHKNINFTAELFFDSTGNLLTSLSSLKTPLNHKSGQNMATGALTNAKGFMPSTTAYPFNVNSREKENYIYGTCYYTASDHTAFPIDISVMLNQRALNNETSYCIRVTWSWNTGVAPEVQTSATTLVTSPFTFYYIREDD 325
                                   137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317        


Chain A from PDB  Type:PROTEIN  Length:198
 aligned with SPIKE_ADE07 | P15141 from UniProtKB/Swiss-Prot  Length:343

    Alignment length:198
                                   155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335        
          SPIKE_ADE07   146 DDNINTLWTGVNPTTANCQIMASSESNDCKLILTLVKTGGLVTAFVYVIGVSNDFNMLTTHKNINFTAELFFDSTGNLLTSLSSLKTPLNHKSGQNMATGALTNAKGFMPSTTAYPFNVNSREKENYIYGTCYYTASDHTAFPIDISVMLNQRALNNETSYCIRVTWSWNTGVAPEVQTSATTLVTSPFTFYYIREDD 343
               SCOP domains d3exwa_ A: automated matches                                                                                                                                                                           SCOP domains
               CATH domains 3exwA00 A:128-325 Adenovirus Type 5 Fiber Protein (Receptor Binding Domain)                                                                                                                            CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author hhhh.eee....................eeeeeeeeee..eeeeeeeeee.hhhhhhhhhh.eeeeeeeeee...................ee..ee......hhhhhh.........hhhhhhh.eeeeeeeee.....eeeeeeeeee..........eeeeeeeeee..................eeeeee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3exw A 128 DDNINTLWTGVNPTTANCQIMASSESNDCKLILTLVKTGALVTAFVYVIGVSNDFNMLTTHKNINFTAELFFDSTGNLLTSLSSLKTPLNHKSGQNMATGALTNAKGFMPSTTAYPFNVNSREKENYIYGTCYYTASDHTAFPIDISVMLNQRALNNETSYCIRVTWSWNTGVAPEVQTSATTLVTSPFTFYYIREDD 325
                                   137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317        


Chain B from PDB  Type:PROTEIN  Length:198
 aligned with Q5EY45_ADE07 | Q5EY45 from UniProtKB/TrEMBL  Length:325

    Alignment length:198
                                   137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317        
         Q5EY45_ADE07   128 DDNINTLWTGVNPTTANCQIMASSESNDCKLILTLVKTGALVTAFVYVIGVSNDFNMLTTHKNINFTAELFFDSTGNLLTSLSSLKTPLNHKSGQNMATGALTNAKGFMPSTTAYPFNVNSREKENYIYGTCYYTASDHTAFPIDISVMLNQRALNNETSYCIRVTWSWNTGVAPEVQTSATTLVTSPFTFYYIREDD 325
               SCOP domains d3exwb_ B: automated matches                                                                                                                                                                           SCOP domains
               CATH domains 3exwB00 B:128-325 Adenovirus Type 5 Fiber Protein (Receptor Binding Domain)                                                                                                                            CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhh.eee....................eeeeeeeeee..eeeeeeeeee.hhhhhhhhhh.eeeeeeeeee...................ee..ee......hhhhhh.........hhhhhhh.eeeeeeeee.....eeeeeeeeee..........eeeeeeeeee..................eeeeee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3exw B 128 DDNINTLWTGVNPTTANCQIMASSESNDCKLILTLVKTGALVTAFVYVIGVSNDFNMLTTHKNINFTAELFFDSTGNLLTSLSSLKTPLNHKSGQNMATGALTNAKGFMPSTTAYPFNVNSREKENYIYGTCYYTASDHTAFPIDISVMLNQRALNNETSYCIRVTWSWNTGVAPEVQTSATTLVTSPFTFYYIREDD 325
                                   137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317        


Chain B from PDB  Type:PROTEIN  Length:198
 aligned with SPIKE_ADE07 | P15141 from UniProtKB/Swiss-Prot  Length:343

    Alignment length:198
                                   155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335        
          SPIKE_ADE07   146 DDNINTLWTGVNPTTANCQIMASSESNDCKLILTLVKTGGLVTAFVYVIGVSNDFNMLTTHKNINFTAELFFDSTGNLLTSLSSLKTPLNHKSGQNMATGALTNAKGFMPSTTAYPFNVNSREKENYIYGTCYYTASDHTAFPIDISVMLNQRALNNETSYCIRVTWSWNTGVAPEVQTSATTLVTSPFTFYYIREDD 343
               SCOP domains d3exwb_ B: automated matches                                                                                                                                                                           SCOP domains
               CATH domains 3exwB00 B:128-325 Adenovirus Type 5 Fiber Protein (Receptor Binding Domain)                                                                                                                            CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhh.eee....................eeeeeeeeee..eeeeeeeeee.hhhhhhhhhh.eeeeeeeeee...................ee..ee......hhhhhh.........hhhhhhh.eeeeeeeee.....eeeeeeeeee..........eeeeeeeeee..................eeeeee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3exw B 128 DDNINTLWTGVNPTTANCQIMASSESNDCKLILTLVKTGALVTAFVYVIGVSNDFNMLTTHKNINFTAELFFDSTGNLLTSLSSLKTPLNHKSGQNMATGALTNAKGFMPSTTAYPFNVNSREKENYIYGTCYYTASDHTAFPIDISVMLNQRALNNETSYCIRVTWSWNTGVAPEVQTSATTLVTSPFTFYYIREDD 325
                                   137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317        


Chain C from PDB  Type:PROTEIN  Length:198
 aligned with Q5EY45_ADE07 | Q5EY45 from UniProtKB/TrEMBL  Length:325

    Alignment length:198
                                   137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317        
         Q5EY45_ADE07   128 DDNINTLWTGVNPTTANCQIMASSESNDCKLILTLVKTGALVTAFVYVIGVSNDFNMLTTHKNINFTAELFFDSTGNLLTSLSSLKTPLNHKSGQNMATGALTNAKGFMPSTTAYPFNVNSREKENYIYGTCYYTASDHTAFPIDISVMLNQRALNNETSYCIRVTWSWNTGVAPEVQTSATTLVTSPFTFYYIREDD 325
               SCOP domains d3exwc_ C: automated matches                                                                                                                                                                           SCOP domains
               CATH domains 3exwC00 C:128-325 Adenovirus Type 5 Fiber Protein (Receptor Binding Domain)                                                                                                                            CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author hhhh.eee....................eeeeeeeeee..eeeeeeeeee.hhhhhhhhhh.eeeeeeeeee...................ee..ee......hhhhhh.........hhhhhhh.eeeeeeeee.....eeeeeeeeee..........eeeeeeeeee......hhhhh.......eeeeee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3exw C 128 DDNINTLWTGVNPTTANCQIMASSESNDCKLILTLVKTGALVTAFVYVIGVSNDFNMLTTHKNINFTAELFFDSTGNLLTSLSSLKTPLNHKSGQNMATGALTNAKGFMPSTTAYPFNVNSREKENYIYGTCYYTASDHTAFPIDISVMLNQRALNNETSYCIRVTWSWNTGVAPEVQTSATTLVTSPFTFYYIREDD 325
                                   137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317        


Chain C from PDB  Type:PROTEIN  Length:198
 aligned with SPIKE_ADE07 | P15141 from UniProtKB/Swiss-Prot  Length:343

    Alignment length:198
                                   155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335        
          SPIKE_ADE07   146 DDNINTLWTGVNPTTANCQIMASSESNDCKLILTLVKTGGLVTAFVYVIGVSNDFNMLTTHKNINFTAELFFDSTGNLLTSLSSLKTPLNHKSGQNMATGALTNAKGFMPSTTAYPFNVNSREKENYIYGTCYYTASDHTAFPIDISVMLNQRALNNETSYCIRVTWSWNTGVAPEVQTSATTLVTSPFTFYYIREDD 343
               SCOP domains d3exwc_ C: automated matches                                                                                                                                                                           SCOP domains
               CATH domains 3exwC00 C:128-325 Adenovirus Type 5 Fiber Protein (Receptor Binding Domain)                                                                                                                            CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author hhhh.eee....................eeeeeeeeee..eeeeeeeeee.hhhhhhhhhh.eeeeeeeeee...................ee..ee......hhhhhh.........hhhhhhh.eeeeeeeee.....eeeeeeeeee..........eeeeeeeeee......hhhhh.......eeeeee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3exw C 128 DDNINTLWTGVNPTTANCQIMASSESNDCKLILTLVKTGALVTAFVYVIGVSNDFNMLTTHKNINFTAELFFDSTGNLLTSLSSLKTPLNHKSGQNMATGALTNAKGFMPSTTAYPFNVNSREKENYIYGTCYYTASDHTAFPIDISVMLNQRALNNETSYCIRVTWSWNTGVAPEVQTSATTLVTSPFTFYYIREDD 325
                                   137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317
   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, 3)

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

(-) CATH Domains  (1, 3)

Asymmetric/Biological Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (9, 14)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,C   (Q5EY45_ADE07 | Q5EY45)
biological process
    GO:0007155    cell adhesion    The attachment of a cell, either to another cell or to an underlying substrate such as the extracellular matrix, via cell adhesion molecules.
    GO:0009405    pathogenesis    The set of specific processes that generate the ability of an organism to induce an abnormal, generally detrimental state in another organism.
    GO:0019058    viral life cycle    A set of processes which all viruses follow to ensure survival; includes attachment and entry of the virus particle, decoding of genome information, translation of viral mRNA by host ribosomes, genome replication, and assembly and release of viral particles containing the genome.
    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.
cellular component
    GO:0019028    viral capsid    The protein coat that surrounds the infective nucleic acid in some virus particles. It comprises numerous regularly arranged subunits, or capsomeres.

Chain A,B,C   (SPIKE_ADE07 | P15141)
biological process
    GO:0007155    cell adhesion    The attachment of a cell, either to another cell or to an underlying substrate such as the extracellular matrix, via cell adhesion molecules.
    GO:0009405    pathogenesis    The set of specific processes that generate the ability of an organism to induce an abnormal, generally detrimental state in another organism.
    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:0019058    viral life cycle    A set of processes which all viruses follow to ensure survival; includes attachment and entry of the virus particle, decoding of genome information, translation of viral mRNA by host ribosomes, genome replication, and assembly and release of viral particles containing the genome.
    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: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.
cellular component
    GO:0042025    host cell nucleus    A membrane-bounded organelle as it is found in the host cell in which chromosomes are housed and replicated. The host is defined as the larger of the organisms involved in a symbiotic interaction.
    GO:0019028    viral capsid    The protein coat that surrounds the infective nucleic acid in some virus particles. It comprises numerous regularly arranged subunits, or capsomeres.
    GO:0019012    virion    The complete fully infectious extracellular virus particle.

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 Related Entries

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

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(-) Related Entries Specified in the PDB File

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3bq4 CRYSTAL STRUCTURE OF AD35 FIBER KNOB
3exv
3foy