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(-) Description

Title :  ADENOVIRUS AD37 FIBRE HEAD
 
Authors :  W. P. Burmeister, D. Guilligay, S. Cusack, G. Wadell, N. Arnberg
Date :  24 Feb 04  (Deposition) - 02 Jul 04  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Viral Protein, Adenovirus, Ad37, Fibre, Receptor, Sialic Acid, Neuraminic Acid, Cd46, Daf, Conjunctivitis (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  W. P. Burmeister, D. Guilligay, S. Cusack, G. Wadell, N. Arnberg
Crystal Structure Of Species D Adenovirus Fiber Knobs And Their Sialic Acid Binding Sites
J. Virol. V. 78 7727 2004
PubMed-ID: 15220447  |  Reference-DOI: 10.1128/JVI.78.14.7727-7736.2004

(-) Compounds

Molecule 1 - FIBER PROTEIN
    Chains: A, B, C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PPROEX HTB
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Fragment: HEAD DOMAIN RESIDUES 172-365
    Mutation: YES
    Organism Scientific: HUMAN ADENOVIRUS TYPE 37
    Organism Taxid: 52275
    Other Details: ONLY THE KNOB DOMAIN, AFTER TEV CLEAVAGE OF A HIS-TAGGED PROTEIN CONSTRUCT
    Strain: P

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : ABC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 5)

Asymmetric/Biological Unit (2, 5)
No.NameCountTypeFull Name
1ACT2Ligand/IonACETATE ION
2ZN3Ligand/IonZINC ION

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:231 , GLU A:351 , ACT A:1367 , HOH A:2114 , HOH A:2115BINDING SITE FOR RESIDUE ZN A1366
2AC2SOFTWAREHIS A:231 , GLU A:351 , ZN A:1366 , HOH A:2114 , LYS B:300 , TYR B:302BINDING SITE FOR RESIDUE ACT A1367
3AC3SOFTWAREHIS B:231 , GLU B:351 , HOH B:2119 , HOH B:2120BINDING SITE FOR RESIDUE ZN B1366
4AC4SOFTWAREHIS C:231 , ACT C:1367BINDING SITE FOR RESIDUE ZN C1366
5AC5SOFTWAREHIS C:231 , ZN C:1366BINDING SITE FOR RESIDUE ACT C1367

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1UXE)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1UXE)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1UXE)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1UXE)

(-) Exons   (0, 0)

(no "Exon" information available for 1UXE)

(-) 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:184
 aligned with Q64823_9ADEN | Q64823 from UniProtKB/TrEMBL  Length:365

    Alignment length:184
                                   191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361    
         Q64823_9ADEN   182 DTRTLWTTPDTSPNCTIAQDKDSKLTLVLTKCGSQILANVSLIVVAGKYHIINNKTNPKIKSFTIKLLFNKNGVLLDNSNLGKAYWNFRSGNSNVSTAYEKAIGFMPNLVAYPKPSNSKKYARDIVYGTIYLGGKPDQPAVIKTTFNQETGCEYSITFNFSWSKTYENVEFETTSFTFSYIAQE 365
               SCOP domains d1uxea_ A: Adenovirus fiber protein knob domain                                                                                                                                          SCOP domains
               CATH domains 1uxeA00 A:182-365 Adenovirus Type 5 Fiber Protein (Receptor Binding Domain)                                                                                                              CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eee................eeeeeeeeee..eeeeeeeeee......eee........eeeeeeee............hhhhheeee..ee.......hhhhh..............hhh.eeeeeee.hhh...eeeeeeee.......eeeeeeee.....eeee.....eeeeee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1uxe A 182 DTRTLWTTPDTSPNCTIAQDKDSKLTLVLTKCGSQILANVSLIVVAGKYHIINNKTNPKIKSFTIKLLFNKNGVLLDNSNLGKAYWNFRSGNSNVSTAYEKAIGFMPNLVAYPKPSNSKKYARDIVYGTIYLGGKPDQPAVIKTTFNQETGCEYSITFNFSWSKTYENVEFETTSFTFSYIAQE 365
                                   191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361    


Chain B from PDB  Type:PROTEIN  Length:183
 aligned with Q64823_9ADEN | Q64823 from UniProtKB/TrEMBL  Length:365

    Alignment length:183
                                   192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362   
         Q64823_9ADEN   183 TRTLWTTPDTSPNCTIAQDKDSKLTLVLTKCGSQILANVSLIVVAGKYHIINNKTNPKIKSFTIKLLFNKNGVLLDNSNLGKAYWNFRSGNSNVSTAYEKAIGFMPNLVAYPKPSNSKKYARDIVYGTIYLGGKPDQPAVIKTTFNQETGCEYSITFNFSWSKTYENVEFETTSFTFSYIAQE 365
               SCOP domains d1uxeb_ B: Adenovirus fiber protein knob domain                                                                                                                                         SCOP domains
               CATH domains 1uxeB00 B:183-365 Adenovirus Type 5 Fiber Protein (Receptor Binding Domain)                                                                                                             CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eee................eeeeeeeeee..eeeeeeeeee......eee........eeeeeeee.................eeee..ee.......hhhhh..............hhh.eeeeeee.hhh...eeeeeeee.......eeeeeeee.....eeee.....eeeeee... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1uxe B 183 TRTLWTTPDTSPNCTIAQDKDSKLTLVLTKCGSQILANVSLIVVAGKYHIINNKTNPKIKSFTIKLLFNKNGVLLDNSNLGKAYWNFRSGNSNVSTAYEKAIGFMPNLVAYPKPSNSKKYARDIVYGTIYLGGKPDQPAVIKTTFNQETGCEYSITFNFSWSKTYENVEFETTSFTFSYIAQE 365
                                   192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362   


Chain C from PDB  Type:PROTEIN  Length:183
 aligned with Q64823_9ADEN | Q64823 from UniProtKB/TrEMBL  Length:365

    Alignment length:183
                                   192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362   
         Q64823_9ADEN   183 TRTLWTTPDTSPNCTIAQDKDSKLTLVLTKCGSQILANVSLIVVAGKYHIINNKTNPKIKSFTIKLLFNKNGVLLDNSNLGKAYWNFRSGNSNVSTAYEKAIGFMPNLVAYPKPSNSKKYARDIVYGTIYLGGKPDQPAVIKTTFNQETGCEYSITFNFSWSKTYENVEFETTSFTFSYIAQE 365
               SCOP domains d1uxec_ C: Adenovirus fiber protein knob domain                                                                                                                                         SCOP domains
               CATH domains 1uxeC00 C:183-365 Adenovirus Type 5 Fiber Protein (Receptor Binding Domain)                                                                                                             CATH domains
           Pfam domains (1) ---Adeno_knob-1uxeC01 C:186-361                                                                                                                                                    ---- Pfam domains (1)
           Pfam domains (2) ---Adeno_knob-1uxeC02 C:186-361                                                                                                                                                    ---- Pfam domains (2)
           Pfam domains (3) ---Adeno_knob-1uxeC03 C:186-361                                                                                                                                                    ---- Pfam domains (3)
         Sec.struct. author ..eee................eeeeeeeeee..eeeeeeeeee......eee........eeeeeeee............hhhhheeee..ee.......hhhhh..............hhh.eeeeeee.hhh...eeeeeeee.......eeeeeeee.....eeee.....eeeeee... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1uxe C 183 TRTLWTTPDTSPNCTIAQDKDSKLTLVLTKCGSQILANVSLIVVAGKYHIINNKTNPKIKSFTIKLLFNKNGVLLDNSNLGKAYWNFRSGNSNVSTAYEKAIGFMPNLVAYPKPSNSKKYARDIVYGTIYLGGKPDQPAVIKTTFNQETGCEYSITFNFSWSKTYENVEFETTSFTFSYIAQE 365
                                   192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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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, 3)

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

(-) CATH Domains  (1, 3)

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

(-) Pfam Domains  (1, 3)

Asymmetric/Biological Unit
(-)
Clan: Reo_sigma (16)

(-) Gene Ontology  (6, 6)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,C   (Q64823_9ADEN | Q64823)
molecular function
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
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.

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 Related Entries

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

UniProtKB/Swiss-Prot
        Q64823_9ADEN | Q64823: 2j12
UniProtKB/TrEMBL
        Q64823_9ADEN | Q64823: 1uxa 2wbw 2wgt 2wgu 3n0i 3qnd 4k6t 4k6u 4k6v 4k6w 4xqa 4xqb

(-) Related Entries Specified in the PDB File

1uxa ADENOVIRUS AD37 FIBRE HEAD IN COMPLEX WITH SIALYL-LACTOSE
1uxb ADENOVIRUS AD19P FIBRE HEAD IN COMPLEX WITH SIALYL-LACTOSE