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(-) Description

Title :  STRUCTURE OF THE HEMAGGLUTININ-NEURAMINIDASE FROM HUMAN PARAINFLUENZA VIRUS TYPE III: COMPLEX WITH DIFLUOROSIALIC ACID
 
Authors :  V. A. Streltsov, P. Pilling, S. Barrett, J. Mckimm-Breschkin
Date :  10 Sep 14  (Deposition) - 16 Sep 15  (Release) - 18 Nov 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.50
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Neuraminidase, Hpiv3 Hn, Complex, Difluorosialic Acid, Covalent Inhibitor, Second Receptor Binding Site, Viral Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  V. A. Streltsov, P. Pilling, S. Barrett, J. L. Mckimm-Breschkin
Catalytic Mechanism And Novel Receptor Binding Sites Of Human Parainfluenza Virus Type 3 Hemagglutinin-Neuraminidas (Hpiv3 Hn)
Antiviral Res. V. 123 216 2015
PubMed-ID: 26364554  |  Reference-DOI: 10.1016/J.ANTIVIRAL.2015.08.014

(-) Compounds

Molecule 1 - HEMAGGLUTININ-NEURAMINIDASE GLYCOPROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: TRICHOPLUSIA NI
    Expression System Cell Line: HIGH FIVE
    Expression System Taxid: 7111
    Expression System Vector Type: BACULOVIRUS
    Fragment: UNP RESIDUES 142-572
    Gene: HN
    Mutation: YES
    Organism Scientific: HUMAN PARAINFLUENZA VIRUS 3
    Organism Taxid: 11216

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (8, 38)

Asymmetric/Biological Unit (8, 38)
No.NameCountTypeFull Name
1BMA4Ligand/IonBETA-D-MANNOSE
2CA2Ligand/IonCALCIUM ION
3DF42Ligand/Ion(3R,4R,5R,6R)-5-(ACETYLAMINO)-3-FLUORO-4-HYDROXY-6-[(1R,2R)-1,2,3-TRIHYDROXYPROPYL]-3,4,5,6-TETRAHYDROPYRANIUM-2-CARBOXYLATE
4FSI2Ligand/Ion5-(ACETYLAMINO)-3,5-DIDEOXY-3-FLUORO-D-ERYTHRO-ALPHA-L-MANNO-NON-2-ULOPYRANOSONIC ACID
5FUC2Ligand/IonALPHA-L-FUCOSE
6NAG10Ligand/IonN-ACETYL-D-GLUCOSAMINE
7SFJ3Ligand/Ion(2R,3R,4R,5R,6R)-5-(ACETYLAMINO)-2,3-DIFLUORO-4-HYDROXY-6-[(1R,2R)-1,2,3-TRIHYDROXYPROPYL]TETRAHYDRO-2H-PYRAN-2-CARBOXYLIC ACID
8SO413Ligand/IonSULFATE ION

(-) Sites  (28, 28)

Asymmetric Unit (28, 28)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREARG A:192 , GLU A:276 , TYR A:337 , GLU A:409 , ARG A:424 , ARG A:502 , TYR A:530 , DF4 A:610 , HOH A:701 , HOH A:703 , HOH A:705 , HOH A:712 , HOH A:717 , HOH A:772 , HOH A:773 , HOH A:789 , HOH A:790binding site for residue FSI A 609
02AC2SOFTWAREARG A:192 , GLU A:276 , TYR A:337 , GLU A:409 , ARG A:424 , ARG A:502 , TYR A:530 , FSI A:609 , SFJ A:612 , HOH A:701 , HOH A:703 , HOH A:705 , HOH A:717 , HOH A:730 , HOH A:752 , HOH A:772 , HOH A:773 , HOH A:789 , HOH A:790binding site for residue DF4 A 610
03AC3SOFTWARELEU A:261 , ASN A:262 , THR A:263 , ASP A:264 , LEU A:388 , ASN A:389 , SO4 A:618 , HOH A:780binding site for residue SFJ A 611
04AC4SOFTWAREARG A:192 , CYS A:214 , GLN A:215 , ARG A:502 , ALA A:528 , ASN A:551 , DF4 A:610 , HOH A:736binding site for residue SFJ A 612
05AC5SOFTWAREARG A:402 , GLN A:403 , ARG A:446binding site for residue SO4 A 613
06AC6SOFTWAREHIS A:245 , THR A:246 , HOH A:722 , ASN B:232 , SER B:233binding site for residue SO4 A 614
07AC7SOFTWAREASN A:485 , THR A:487 , SER A:489 , BMA A:605 , HOH A:758 , HOH A:759 , HOH A:797 , HOH A:869binding site for residue SO4 A 615
08AC8SOFTWAREASN A:232 , SER A:233 , HOH A:702 , HIS B:245 , THR B:246 , HOH B:721binding site for residue SO4 A 616
09AC9SOFTWARELYS A:168 , THR A:169binding site for residue SO4 A 617
10AD1SOFTWAREASN A:262 , TYR A:327 , ASN A:389 , SFJ A:611 , HOH A:729binding site for residue SO4 A 618
11AD2SOFTWAREASP A:279 , SER A:282 , GLY A:284 , ALA A:316 , HOH A:783binding site for residue CA A 619
12AD3SOFTWAREHIS A:552 , LYS A:553 , SER A:554 , HIS B:552 , LYS B:553 , SER B:554binding site for residue SO4 B 601
13AD4SOFTWAREARG B:192 , GLU B:276 , TYR B:337 , GLU B:409 , ARG B:424 , ARG B:502 , TYR B:530 , FSI B:610 , HOH B:705 , HOH B:717 , HOH B:735 , HOH B:763 , HOH B:778 , HOH B:954binding site for residue DF4 B 611
14AD5SOFTWAREASN A:461 , LYS B:358 , ASP B:362 , GLN B:365 , ALA B:366 , PRO B:370 , ASP B:471 , GLY B:472 , HOH B:701 , HOH B:757binding site for residue SFJ B 612
15AD6SOFTWAREARG B:402 , GLN B:403 , ARG B:446 , HOH B:756binding site for residue SO4 B 613
16AD7SOFTWAREARG A:212 , HOH A:713 , SER B:161 , GLY B:162binding site for residue SO4 B 614
17AD8SOFTWAREARG B:173 , SER B:570 , CYS B:571 , HOH B:702 , HOH B:727binding site for residue SO4 B 615
18AD9SOFTWAREPRO B:283 , GLU B:341 , ARG B:375binding site for residue SO4 B 616
19AE1SOFTWAREARG B:524 , NAG B:607 , HOH B:774binding site for residue SO4 B 617
20AE2SOFTWARESER B:498 , GLN B:499 , ARG B:524 , HOH B:865binding site for residue SO4 B 618
21AE3SOFTWAREASP B:279 , SER B:282 , GLY B:284 , ALA B:316 , HOH B:722binding site for residue CA B 619
22AE4SOFTWAREARG A:303 , ASN A:307 , ASN A:308 , HOH A:812 , HOH A:914binding site for Mono-Saccharide NAG A 601 bound to ASN A 308
23AE5SOFTWAREASN A:351 , TRP A:451 , ALA A:512 , THR A:513 , SO4 A:615 , HOH A:716 , HOH A:731 , HOH A:745 , HOH A:754 , HOH A:834 , HOH A:862 , HOH A:880 , HOH A:979binding site for Poly-Saccharide residues NAG A 602 through BMA A 605 bound to ASN A 351
24AE6SOFTWAREASN A:523 , THR A:525 , LYS B:553 , SER B:554 , LEU B:555 , ASN B:556binding site for Poly-Saccharide residues NAG A 606 through FUC A 608 bound to ASN A 523
25AE7SOFTWAREARG B:303 , ASN B:307 , ASN B:308 , HOH B:706 , HOH B:807binding site for Mono-Saccharide NAG B 602 bound to ASN B 308
26AE8SOFTWAREASN B:351 , THR B:353 , THR B:513 , HOH B:724 , HOH B:828 , HOH B:846 , HOH B:929binding site for Poly-Saccharide residues NAG B 603 through BMA B 606 bound to ASN B 351
27AE9SOFTWARESER A:554 , LEU A:555 , ASN B:523 , THR B:525 , SO4 B:617 , HOH B:709 , HOH B:774 , HOH B:782binding site for Poly-Saccharide residues NAG B 607 through FUC B 609 bound to ASN B 523
28AF1SOFTWAREARG B:192 , GLU B:276 , TYR B:337 , GLU B:409 , ARG B:424 , VAL B:477 , TYR B:478 , ARG B:502 , GLY B:529 , THR B:531 , VAL B:548 , GLU B:549 , DF4 B:611 , HOH B:705 , HOH B:714 , HOH B:717 , HOH B:735 , HOH B:763binding site for Di-peptide FSI B 610 and TYR B 530

(-) SS Bonds  (14, 14)

Asymmetric/Biological Unit
No.Residues
1A:159 -A:571
2A:190 -A:214
3A:256 -A:269
4A:350 -A:363
5A:355 -A:469
6A:463 -A:473
7A:535 -A:544
8B:159 -B:571
9B:190 -B:214
10B:256 -B:269
11B:350 -B:363
12B:355 -B:469
13B:463 -B:473
14B:535 -B:544

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Thr A:169 -Pro A:170
2Thr B:169 -Pro B:170

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4WEF)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4WEF)

(-) Exons   (0, 0)

(no "Exon" information available for 4WEF)

(-) 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:431
                                                                                                                                                                                                                                                                                                                                                                                                                                                                               
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eee.hhhhhh......eee...........ee..........eeeeeeeee....eeeeeeee..........eeeeeeeeeee.....eeeeeeeeeee......eeeeeeee..eeeeeee....hhhhhhhh.....eeeeee.....eeeeeehhhhhee...eeeeee.....eee..eeeeeeeeee..................hhhhhhhhh.hhhhh..eeeeeeeeeee.....eeeeeee...........eeeeee..eeeeee.........eeeeee.......eeee...............................eee.......eeeeee........eeeeee....eeeeee.......eeeeeeeeeee..eeeeeeeeeee......eeeeeeeee..eee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4wef A 142 ITHDVGIKPLNPDDFWRCTSGLPSLMKTPKIRLMPGPGLLAMPTTVDGCIRTPSLVINDLIYAYTSNLITRGCQDIGKSYQVLQIGIITVNSDLVPDLNPRISHTFNINDNRKSCSLALLNTDVYQLCSTPKVDERSDYASPGIEDIVLDIVNYDGSISTTRFKNNNISFDQPYAALYPSVGPGIYYKGKIIFLGYGGLEHPINENVICNTTGCPGKTQRDCNQASHSPWFSDRRMVNSIIVVDKGLNSIPKLKVWTISMRQNYWGGEGRLLLLGNKIYIYTRSTSWHSKLQLGIIDITDYSDIRIKWTWHNVLSRPGNNECPWGHSCPDGCITGVYTDAYPLNPTGSIVSSVILDSQKSRVNPVITYSTATERVNELAILNRTLSAGYTTTSCITHYNKGYCFHIVEINHKSLNTLQPMLFKTEIPKSCS 572
                                   151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511       521       531       541       551       561       571 


Chain B from PDB  Type:PROTEIN  Length:431
                                                                                                                                                                                                                                                                                                                                                                                                                                                                               
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eee.hhhhhh......eee................ee.....eeeeeeeee....eeeeeeee..........eeeeeeeeeee.....eeeeeeeeeeehhhhh.eeeeeeee..eeeeeee....hhhhhhhh.....eeeeee.....eeeeeehhh.eee...eeeeee.....eee..eeeeeeeeee..................hhhhhhhhhhhhhhh..eeeeeeeeee.......eeeeee...........eeeeee..eeeeee.........eeeeee.......eeee...............................eee.......eeeeee........eeeeee....eeeeee.......eeeeeeeeeee..eeeeeeeeeeee....eeeeeeeeee..eee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4wef B 142 ITHDVGIKPLNPDDFWRCTSGLPSLMKTPKIRLMPGPGLLAMPTTVDGCIRTPSLVINDLIYAYTSNLITRGCQDIGKSYQVLQIGIITVNSDLVPDLNPRISHTFNINDNRKSCSLALLNTDVYQLCSTPKVDERSDYASPGIEDIVLDIVNYDGSISTTRFKNNNISFDQPYAALYPSVGPGIYYKGKIIFLGYGGLEHPINENVICNTTGCPGKTQRDCNQASHSPWFSDRRMVNSIIVVDKGLNSIPKLKVWTISMRQNYWGGEGRLLLLGNKIYIYTRSTSWHSKLQLGIIDITDYSDIRIKWTWHNVLSRPGNNECPWGHSCPDGCITGVYTDAYPLNPTGSIVSSVILDSQKSRVNPVITYSTATERVNELAILNRTLSAGYTTTSCITHYNKGYCFHIVEINHKSLNTLQPMLFKTEIPKSCS 572
                                   151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511       521       531       541       551       561       571
   Legend:   → Mismatch (orange background)
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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  (0, 0)

(no "SCOP Domain" information available for 4WEF)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4WEF)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4WEF)

(-) Gene Ontology  (13, 13)

Asymmetric/Biological Unit(hide GO term definitions)

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        Q6WJ03_9MONO | Q6WJ03: 1v2i 1v3b 1v3c 1v3d 1v3e

(-) Related Entries Specified in the PDB File

1v3c 1V3C CONTAINS THE SAME PROTEIN HPIV3 HN WITH NEU5AC
4weg