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(-) Description

Title :  CRYSTAL STRUCTURE OF H7 HEMAGGLUTININ MUTANT (V186K, K193T, G228S) FROM THE INFLUENZA VIRUS A/SHANGHAI/2/2013 (H7N9) WITH LSTC
 
Authors :  X. Zhu, I. A. Wilson
Date :  19 Apr 17  (Deposition) - 24 May 17  (Release) - 28 Jun 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.60
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (3x)
Keywords :  Influenza Virus, Hemagglutinin, Mutant, Receptor Specificity, Viral Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. P. De Vries, W. Peng, O. C. Grant, A. J. Thompson, X. Zhu, K. M. Bouwman, A. T. T. De La Pena, M. J. Van Breemen, I. N. Ambepitiya Wickramasinghe, C. A. M. De Haan, W. Yu, R. Mcbride, R. W. Sanders, R. J. Woods, M. H. Verheije, I. A. Wilson, J. C. Paulson
Three Mutations Switch H7N9 Influenza To Human-Type Recepto Specificity.
Plos Pathog. V. 13 06390 2017
PubMed-ID: 28617868  |  Reference-DOI: 10.1371/JOURNAL.PPAT.1006390

(-) Compounds

Molecule 1 - HEMAGGLUTININ HA1
    Chains: A
    Engineered: YES
    Expression System: TRICHOPLUSIA NI
    Expression System Taxid: 7111
    Gene: HA
    Mutation: YES
    Organism Scientific: INFLUENZA A VIRUS
    Organism Taxid: 1332244
    Strain: A/SHANGHAI/02/2013(H7N9)
 
Molecule 2 - HEMAGGLUTININ HA2
    Chains: B
    Engineered: YES
    Expression System: TRICHOPLUSIA NI
    Expression System Taxid: 7111
    Gene: HA
    Organism Scientific: INFLUENZA A VIRUS
    Organism Taxid: 1332244
    Strain: A/SHANGHAI/02/2013(H7N9)

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (3x): AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 5)

Asymmetric Unit (3, 5)
No.NameCountTypeFull Name
1MOH1Ligand/IonMETHANOL
2NAG3Ligand/IonN-ACETYL-D-GLUCOSAMINE
3SIA1Ligand/IonO-SIALIC ACID
Biological Unit 1 (3, 15)
No.NameCountTypeFull Name
1MOH3Ligand/IonMETHANOL
2NAG9Ligand/IonN-ACETYL-D-GLUCOSAMINE
3SIA3Ligand/IonO-SIALIC ACID

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASN A:38 , THR A:40 , THR A:318 , LEU B:52binding site for Mono-Saccharide NAG A 3004 bound to ASN A 38
2AC2SOFTWARELYS A:173 , ASN A:240 , HOH A:3102binding site for Mono-Saccharide NAG A 3003 bound to ASN A 240
3AC3SOFTWARELYS B:75 , ASN B:79 , ASN B:82 , HOH B:308binding site for Mono-Saccharide NAG B 201 bound to ASN B 82
4AC4SOFTWARETYR A:98 , GLY A:134 , ALA A:135 , THR A:136 , SER A:137 , LEU A:155 , HIS A:183 , GLU A:190 , LEU A:194 , SER A:228binding site for residues SIA A 3001 and MOH A 3002

(-) SS Bonds  (6, 6)

Asymmetric Unit
No.Residues
1A:14 -B:137
2A:52 -A:277
3A:64 -A:76
4A:97 -A:139
5A:281 -A:305
6B:144 -B:148

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5VJL)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5VJL)

(-) 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:314
                                                                                                                                                                                                                                                                                                                                                           
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee......eeee....eeeee..eee.ee......ee.....eee......hhhhhhhhhhhhhh.....eeee..........eee.hhhhhhhhhhh...eeeee.............eeeee...ee....eee............eeeeee......eeeeeeeee..hhhhhhhhhh.....eeee....eeee...............eeeeeeeee....eeeeee...eeee.eeeee....eeee....ee......eee..ee......ee......ee...ee......eee........ Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                5vjl A   13 ICLGHHAVSNGTKVNTLTERGVEVVNATETVERTNIPRICSKGKRTVDLGQCGLLGTITGPPQCDQFLEFSADLIIERREGSDVCYPGKFVNEEALRQILRESGGIDKEAMGFTYSGIRTNGATSACRRSGSSFYAEMKWLLSNTDNAAFPQMTKSYKNTRKSPALIVWGIHHSKSTAEQTTLYGSGNKLVTVGSSNYQQSFVPSPGARPQVNGLSSRIDFHWLMLNPNDTVTFSFNGAFIAPDRASFLRGKSMGIQSGVQVDANCEGDCYHSGGTIISNLPFQNIDSRAVGKCPRYVKQRSLLLATGMKNVPE  325
                                    22        32        42        52        62        72        82        92       102       112       122       132       143       153     ||161       171       181       191       201       211       221       231       241       251       261 ||    272    |  281       291       301       311       321    
                                                                                                                                                          141|            158A|                                                                                                      263|        276A                                                 
                                                                                                                                                           143             158B                                                                                                       265                                                             


Chain B from PDB  Type:PROTEIN  Length:168
                                                                                                                                                                                                         
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .....................eeeeee....eeeeehhhhhhhhhhhhhhhhhhhh.................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eee.....eee....hhhhhhhhhh....hhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                5vjl B    1 GLFGAIAGFIENGWEGLIDGWYGFRHQNAQGEGTAADYKSTQSAIDQITGKLNRLIEKTNQQFELIDNEFNEVEKQIGNVINWTRDSITEVWSYNAELLVAMENQHTIDLADSEMDKLYERVKRQLRENAEEDGTGCFEIFHKCDDDCMASIRNNTYDHSKYREEAMQ  168
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160
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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 5VJL)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (18, 18)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        R4NN21_9INFA | R4NN21: 5vjk 5vjm
UniProtKB/TrEMBL
        R4NN21_9INFA | R4NN21: 4ln3 4ln4 4ln6 4ln8 4n5j 4n5k 4n60 4n61 4n62 4n63 4n64 5t6s

(-) Related Entries Specified in the PDB File

5vjk THE SAME PROTEIN IN IN LIGAND COMPLEX
5vjm