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(-) Description

Title :  CRYOEM STRUCTURE OF RHINOVIRUS B14 IN COMPLEX WITH C5 FAB (33 DEGREES CELSIUS, MOLAR RATIO 1:3, FULL PARTICLE)
 
Authors :  Y. Liu, Y. Dong, M. G. Rossmann
Date :  07 Jun 17  (Deposition) - 12 Jul 17  (Release) - 12 Jul 17  (Revision)
Method :  ELECTRON MICROSCOPY
Resolution :  2.53
Chains :  Asym. Unit :  A,B,C,D,E,G
Biol. Unit 1:  A,B,C,D,E,G  (60x)
Keywords :  Virus, Antibody, Virus-Immune System Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. Dong, Y. Liu, W. Jiang, T. J. Smith, Z. Xu, M. G. Rossmann
Antibody Induced Uncoating Of Human Rhinovirus B14
Proc. Natl. Acad. Sci. Usa 2017
PubMed: search  |  Reference-DOI: 10.1073/PNAS.1707369114

(-) Compounds

Molecule 1 - C5 ANTIBODY VARIABLE HEAVY DOMAIN
    Chains: E
    Organism Common: MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
 
Molecule 2 - C5 ANTIBODY VARIABLE LIGHT DOMAIN
    Chains: G
    Organism Common: MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
 
Molecule 3 - VIRAL PROTEIN 1
    Chains: A
    Fragment: UNP RESIDUES 568-856
    Organism Common: HRV-14, HUMAN RHINOVIRUS B14
    Organism Scientific: HUMAN RHINOVIRUS 14
    Organism Taxid: 12131
 
Molecule 4 - VIRAL PROTEIN 3
    Chains: B
    Fragment: UNP RESIDUES 332-567
    Organism Common: HRV-14, HUMAN RHINOVIRUS B14
    Organism Scientific: HUMAN RHINOVIRUS 14
    Organism Taxid: 12131
 
Molecule 5 - VIRAL PROTEIN 2
    Chains: C
    Fragment: UNP RESIDUES 70-331
    Organism Common: HRV-14, HUMAN RHINOVIRUS B14
    Organism Scientific: HUMAN RHINOVIRUS 14
    Organism Taxid: 12131
 
Molecule 6 - VIRAL PROTEIN 4
    Chains: D
    Fragment: UNP RESIDUES 2-69
    Organism Common: HRV-14, HUMAN RHINOVIRUS B14
    Organism Scientific: HUMAN RHINOVIRUS 14
    Organism Taxid: 12131

 Structural Features

(-) Chains, Units

  123456
Asymmetric Unit : ABCDEG
Biological Unit 1 (60x): ABCDEG

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 5W3E)

(-) Sites  (0, 0)

(no "Site" information available for 5W3E)

(-) SS Bonds  (2, 2)

Asymmetric Unit
No.Residues
1E:22 -E:95
2G:23 -G:88

(-) Cis Peptide Bonds  (3, 3)

Asymmetric Unit
No.Residues
1Ser G:7 -Pro G:8
2Thr G:94 -Pro G:95
3Leu C:82 -Pro C:83

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5W3E)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5W3E)

(-) Exons   (0, 0)

(no "Exon" information available for 5W3E)

(-) 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:274
                                                                                                                                                                                                                                                                                                                  
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eee.............eehhhhh.....hhhhh.....ee........hhhhhh...eeeeeeeeee..............eeeee.....hhhhhhhhh.eeeeeeeeeeeeeee.............eeeeeee...........hhhhhh....eeeee...eeeeee........ee.................hhhhh..eeeeee........eeeeeeeeeeeeeeeeeee.................................. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5w3e A  16 QTVASISSGPKHTQKVPILTANETGATMPVLPSDSIETRTTYMHFNGSETDVECFLGRAACVHVTEIQNKDATGIDNHREAKLFNDWKINLSSLVQLRKKLELFTYVRFDSEYTILATASQPDSANYSSNLVVQAMYVPPGAPNPKEWDDYTWQSASNPSVFFKVGDTSRFSVPYVGLASAYNCFYDGYSHDDAETQYGITVLNHMGSMAFRIVNEHDEHKTLVKIRVYHRAKHVEAWIPRAPRALPYTSIGRTNYPKNTEPVIKKRKGDIKSY 289
                                    25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285    


Chain B from PDB  Type:PROTEIN  Length:236
                                                                                                                                                                                                                                                                            
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......................................ee.hhhhhh...ee..........hhhh.eeee.......eeeeee....hhhhh.hhhhhhhh.eeeee..eeeeeee......eeeeeeeee................eeeeee.....eeeeee........ee..........eeeeeeeeeee........eeeeeeeee....eeeee.............. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5w3e B   1 GLPTTTLPGSGQFLTTDDRQSPSALPNYEPTPRIHIPGKVHNLLEIIQVDTLIPMNNTHTKDEVNSYLIPLNANRQNEQVFGTNLFIGDGVFKTTLLGEIVQYYTHWSGSLRFSLMYTGPALSSAKLILAYTPPGARGPQDRREAMLGTHVVWDIGLQSTIVMTIPWTSGVQFRYTDPDTYTSAGFLSCWYQTSLILPPETTGQVYLLSFISACPDFKLRLMKDTQTISQTVALTE 236
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230      


Chain C from PDB  Type:PROTEIN  Length:255
                                                                                                                                                                                                                                                                                               
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeeee..eeeee......ee.hhh..................hhhhhh..ee...eee......eeeeehhhhh.hhhhhhhhhheeeeeeeeeeeee.......eeeeeeeeee..............hhhhhhhhhhhee............hhhhh....hhhhhhhh.eeeee.....eeeeee................eeeeeeeeeeee........eeeeeeeeeeeeeeeee........ Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5w3e C   8 GYSDRVQQITLGNSTITTQEAANAVVCYAEWPEYLPDVDASDVNKTSKPDTSVCRFYTLDSKTWTTGSKGWCWKLPDALKDMGVFGQNMFFHSLGRSGYTVHVQCNATKFHSGCLLVVVIPEHQLASHEGGNVSVKYTFTHPGERGIDLSSANEVGGPVKDVIYNMNGTLLGNLLIFPHQFINLRTNNTATIVIPYINSVPIDSMTRHNNVSLMVIPIAPLTVPTGATPSLPITVTIAPMCTEFSGIRSKSIVPQ 262
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257     


Chain D from PDB  Type:PROTEIN  Length:40
                                                                        
               SCOP domains ---------------------------------------- SCOP domains
               CATH domains ---------------------------------------- CATH domains
               Pfam domains ---------------------------------------- Pfam domains
         Sec.struct. author .....hhhhh..........hhhhhh.............. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------- PROSITE
                 Transcript ---------------------------------------- Transcript
                 5w3e D  29 INYYKDAASTSSAGQSLSMDPSKFTEPVKDLMLKGAPALN  68
                                    38        48        58        68


Chain E from PDB  Type:PROTEIN  Length:116
                                                                                                                                                    
               SCOP domains -------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee...ee.......eeeeee........eeeeee......eeeeee.....eee.hhhh..eeeeee....eeeeee...hhhhheeeeeeeee..eee.....eeeee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------- Transcript
                 5w3e E   1 AVQLAESGPALVAPSQALSITCTVAGFSLTAYGVAWVRQPPGAGLEWLGAIWAAGATDYNAALKSRASIAKDNSKSQVFLAMASLATADTAAYYCAREWDAYGDYWGQGTTVTVSA 116
                                    10        20        30        40        50        60        70        80        90       100       110      


Chain G from PDB  Type:PROTEIN  Length:107
                                                                                                                                           
               SCOP domains ----------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee..eee......eeeeeee.......eeeeee......eeeee...ee.......eeeeee..eeeeee...hhhhheeeeeee...........eeee.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------- Transcript
                 5w3e G   1 DIVLTQSPAALSAAAGATVAATCRASGNIHNALAWYQQKAGKSPQLLVYAAAALAAGVPSRFSGSGSGTAYALAINSLAADDFGAYYCQHFWSTPYTFGGGTKLEIK 107
                                    10        20        30        40        50        60        70        80        90       100
   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  (0, 0)

(no "SCOP Domain" information available for 5W3E)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5W3E)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5W3E)

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 5W3E)

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  Sites
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  Cis Peptide Bonds
    Leu C:82 - Pro C:83   [ RasMol ]  
    Ser G:7 - Pro G:8   [ RasMol ]  
    Thr G:94 - Pro G:95   [ RasMol ]  
 
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 Related Entries

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

UniProtKB/Swiss-Prot
        POLG_HRV14 | P03303: 1d3i 1hri 1hrv 1k5m 1na1 1ncq 1r08 1r09 1rmu 1ruc 1rud 1rue 1ruf 1rug 1ruh 1rui 1ruj 1rvf 1vrh 1xr5 2b0f 2hwb 2hwc 2in2 2r04 2r06 2r07 2rm2 2rmu 2rr1 2rs1 2rs3 2rs5 4pdw 4rhv 5w3l 5w3m 5w3o

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