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(-) Description

Title :  CRYSTAL STRUCTURE OF A HPIV HAEMAGGLUTININ-NEURAMINIDASE-INHIBITOR COMPLEX
 
Authors :  L. Dirr, I. M. El-Deeb, L. M. G. Chavas, P. Guillon, M. Von Itzstein
Date :  13 Jul 16  (Deposition) - 12 Jul 17  (Release) - 12 Jul 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym. Unit :  B
Biol. Unit 1:  B  (1x)
Biol. Unit 2:  B  (2x)
Keywords :  Haemagglutinin-Neuraminidase, Hyrdrolase, Viral Protein, Host Cell Surface Receptor Binding, Hydrolase-Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. Dirr, I. M. El-Deeb, L. M. G. Chavas, P. Guillon, M. V. Itzstein
The Impact Of The Butterfly Effect On Human Parainfluenza Virus Haemagglutinin-Neuraminidase Inhibitor Design.
Sci Rep V. 7 4507 2017
PubMed-ID: 28674426  |  Reference-DOI: 10.1038/S41598-017-04656-Y

(-) Compounds

Molecule 1 - HEMAGGLUTININ-NEURAMINIDASE
    Atcc: VR-93
    Chains: B
    EC Number: 3.2.1.18
    Engineered: YES
    Expression System: SPODOPTERA FRUGIPERDA
    Expression System Cell Line: SF9 CELLS
    Expression System Taxid: 7108
    Organism Scientific: HUMAN PARAINFLUENZA VIRUS 3
    Organism Taxid: 11216

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : B
Biological Unit 1 (1x): B
Biological Unit 2 (2x): B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 8)

Asymmetric Unit (4, 8)
No.NameCountTypeFull Name
1CA1Ligand/IonCALCIUM ION
2EDO3Ligand/Ion1,2-ETHANEDIOL
3I571Ligand/Ion(2~{R},3~{R},4~{S})-3-(2-METHYLPROPANOYLAMINO)-4-(4-PHENYL-1,2,3-TRIAZOL-1-YL)-2-[(1~{R},2~{R})-1,2,3-TRIS(OXIDANYL)PROPYL]-3,4-DIHYDRO-2~{H}-PYRAN-6-CARBOXYLIC ACID
4NAG3Ligand/IonN-ACETYL-D-GLUCOSAMINE
Biological Unit 1 (3, 7)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
2EDO3Ligand/Ion1,2-ETHANEDIOL
3I571Ligand/Ion(2~{R},3~{R},4~{S})-3-(2-METHYLPROPANOYLAMINO)-4-(4-PHENYL-1,2,3-TRIAZOL-1-YL)-2-[(1~{R},2~{R})-1,2,3-TRIS(OXIDANYL)PROPYL]-3,4-DIHYDRO-2~{H}-PYRAN-6-CARBOXYLIC ACID
4NAG3Ligand/IonN-ACETYL-D-GLUCOSAMINE
Biological Unit 2 (3, 14)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
2EDO6Ligand/Ion1,2-ETHANEDIOL
3I572Ligand/Ion(2~{R},3~{R},4~{S})-3-(2-METHYLPROPANOYLAMINO)-4-(4-PHENYL-1,2,3-TRIAZOL-1-YL)-2-[(1~{R},2~{R})-1,2,3-TRIS(OXIDANYL)PROPYL]-3,4-DIHYDRO-2~{H}-PYRAN-6-CARBOXYLIC ACID
4NAG6Ligand/IonN-ACETYL-D-GLUCOSAMINE

(-) Sites  (7, 7)

Asymmetric Unit (7, 7)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP B:279 , SER B:282 , GLY B:284 , ALA B:316 , HOH B:715binding site for residue CA B 601
2AC2SOFTWAREASN B:523 , THR B:525binding site for residue NAG B 604
3AC3SOFTWAREARG B:192 , THR B:193 , ILE B:210 , CYS B:214 , ASP B:216 , GLU B:276 , TYR B:319 , TYR B:337 , GLU B:409 , ARG B:424 , ARG B:502 , TYR B:530 , HOH B:723 , HOH B:730 , HOH B:748 , HOH B:802 , HOH B:834 , HOH B:850binding site for residue I57 B 605
4AC4SOFTWAREGLY B:330 , LYS B:331 , ILE B:332 , VAL B:384binding site for residue EDO B 606
5AC5SOFTWAREASN B:240 , ILE B:243 , SER B:244 , HIS B:245 , HOH B:742binding site for residue EDO B 607
6AC6SOFTWAREASN B:248 , ILE B:249 , ASN B:250 , ASP B:251 , ARG B:253binding site for residue EDO B 608
7AC7SOFTWARELYS B:273 , ARG B:303 , LYS B:305 , ASN B:351 , TRP B:451 , HOH B:876binding site for Poly-Saccharide residues NAG B 602 through NAG B 603 bound to ASN B 351

(-) SS Bonds  (7, 7)

Asymmetric Unit
No.Residues
1B:159 -B:571
2B:190 -B:214
3B:256 -B:269
4B:350 -B:363
5B:355 -B:469
6B:463 -B:473
7B:535 -B:544

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Thr B:169 -Pro B:170

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5KV9)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5KV9)

(-) Exons   (0, 0)

(no "Exon" information available for 5KV9)

(-) 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 B from PDB  Type:PROTEIN  Length:430
                                                                                                                                                                                                                                                                                                                                                                                                                                                                              
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eee.hhhhhh.....eeee.......................eeeeeeeee....eeeeeeee..........eeeeeeeeeee.....eeeeeeeeeee......eeeeeeee..eeeeeee....hhhhhhhh.....eeeeee.....eeeeeehhhhhee...eeeeee.....eee..eeeeeeeeee..................hhhhhhhhhhhhhhh...eeeeeeeee.....eeeeee...........eeeeee..eeeeee.........eeeeee.......eeee...............................eee......eeeeeee........eeeeeee...eeeeee.......eeeeeeeeeee..eeeeeeeeeeee....eeeeeeeeee..eeee Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5kv9 B 141 RITHDVGIKPLNPDDFWRCTSGLPSLMKTPKIRLMPGPGLLAMPTTVDGCVRTPSLVINDLIYAYTSNLITRGCQDIGKSYQVLQIGIITVNSDLVPDLNPRISHTFNINDNRKSCSLALLNTDVYQLCSTPKVDERSDYASSGIEDIVLDIVNHDGSISTTRFKNNNISFDQPYAALYPSVGPGIYYKGKIIFLGYGGLEHPINENAICNTTGCPGKTQRDCNQASHSPWFSDRRMVNSIIVVDKNSIPKLKVWTISMRQNYWGSEGRLLLLGNKIYIYTRSTSWHSKLQLGIIDITDYSDIRIKWTWHNVLSRPGNNECPWGHSCPDGCITGVYTDAYPLNPTGSIVSSVILDSQKSRVNPVITYSTATERVNELAIRNKTLSAGYTTTSCITHYNKGYCFHIVEINHKSLDTFQPMLFKTEIPKSCS 572
                                   150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380     ||392       402       412       422       432       442       452       462       472       482       492       502       512       522       532       542       552       562       572
                                                                                                                                                                                                                                                                               386|                                                                                                                                                                                       
                                                                                                                                                                                                                                                                                389
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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 5KV9)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5KV9)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5KV9)

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 5KV9)

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  G8G134_9MONO | G8G134
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  3.2.1.18
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 Related Entries

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

UniProtKB/Swiss-Prot
        G8G134_9MONO | G8G134: 5kv8
UniProtKB/TrEMBL
        G8G134_9MONO | G8G134: 4xjq 4xjr

(-) Related Entries Specified in the PDB File

4xjq 4XJQ CONTAINS THE SAME PROTEIN AS APO FORM.
4xjr 4XJR CONTAINS THE SAME PROTEIN COMPLEXED WITH OEL.
5kv8