P03418 (NCAP_HRSVA) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Nucleoprotein
Short name=Protein N

Alternative name(s):
Nucleocapsid protein

Gene names

Name:

N

Organism

Human respiratory syncytial virus A (strain A2) [Complete proteome]

Taxonomic identifier

11259 [NCBI]

Taxonomic lineage

Viruses › ssRNA viruses › ssRNA negative-strand viruses › Mononegavirales › Paramyxoviridae › Pneumovirinae › Pneumovirus › Human respiratory syncytial virus › Human respiratory syncytial virus A

Virus host

Homo sapiens (Human) [TaxID: 9606]

Protein attributes

Sequence length	391 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Encapsidates the genome, protecting it from nucleases. The nucleocapsid (NC) has a helical structure. The encapsidated genomic RNA is termed the NC and serves as template for transcription and replication. During replication, encapsidation by protein N is coupled to RNA synthesis and all replicative products are resistant to nucleases. Ref.7
Subunit structure	Homomultimerizes to form the nucleocapsid. Binds to viral genomic RNA. In nucleocapsid, interacts with the protein P and thereby positions the polymerase on the template. Interacts with protein M2-1; this interaction allows the association of nucleocapsid with the matrix protein, supposely to shut down virus transcriptase activity and initiate assembly and budding. Ref.8 Ref.9
Subcellular location	Virion. Host cytoplasm.
Sequence similarities	Belongs to the paramyxoviruses nucleocapsid family.
Sequence caution	The sequence CAA24906.1 differs from that shown. Reason: Frameshift at position 376.

Ontologies

Keywords
Biological process	Host-virus interaction Inhibition of host PKR by virus Inhibition of host innate immune response by virus Inhibition of host interferon signaling pathway by virus Viral immunoevasion
Cellular component	Host cytoplasm Virion
Ligand	RNA-binding Viral nucleoprotein
Molecular function	Ribonucleoprotein
Technical term	3D-structure Complete proteome
Gene Ontology (GO)
Biological_process	suppression by virus of host PKR activity Inferred from electronic annotation. Source: UniProtKB-KW suppression by virus of host type I interferon-mediated signaling pathway Inferred from electronic annotation. Source: UniProtKB-KW
Cellular_component	host cell cytoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell ribonucleoprotein complex Inferred from electronic annotation. Source: UniProtKB-KW viral nucleocapsid Inferred from electronic annotation. Source: InterPro
Molecular_function	RNA binding Inferred from electronic annotation. Source: UniProtKB-KW
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 391

391

Nucleoprotein

PRO_0000142652

Natural variations

Natural variant

267

1

V → I in strain: Cold-passage attenuated.

Secondary structure

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391

Helix Strand Turn

Details...

Helix

10 – 19

10

Beta strand

33 – 35

3

Helix

38 – 40

3

Helix

41 – 53

13

Helix

62 – 74

13

Helix

76 – 86

11

Beta strand

92 – 94

3

Beta strand

97 – 104

8

Beta strand

107 – 114

8

Beta strand

117 – 119

3

Helix

121 – 142

22

Turn

147 – 149

3

Helix

155 – 169

15

Helix

170 – 173

4

Helix

179 – 188

10

Helix

191 – 196

6

Helix

202 – 215

14

Helix

217 – 230

14

Helix

238 – 248

11

Turn

249 – 254

6

Helix

256 – 266

11

Helix

270 – 273

4

Helix

275 – 294

20

Helix

295 – 300

6

Turn

301 – 305

5

Helix

307 – 312

6

Helix

318 – 330

13

Helix

344 – 357

14

Sequences

	Sequence		Length	Mass (Da)
	P03418 [UniParc]. Last modified April 1, 1988. Version 1. Checksum: D06E84F4F88D382B	FASTA	391	43,451
	10 20 30 40 50 60 MALSKVKLND TLNKDQLLSS SKYTIQRSTG DSIDTPNYDV QKHINKLCGM LLITEDANHK 70 80 90 100 110 120 FTGLIGMLYA MSRLGREDTI KILRDAGYHV KANGVDVTTH RQDINGKEMK FEVLTLASLT 130 140 150 160 170 180 TEIQINIEIE SRKSYKKMLK EMGEVAPEYR HDSPDCGMII LCIAALVITK LAAGDRSGLT 190 200 210 220 230 240 AVIRRANNVL KNEMKRYKGL LPKDIANSFY EVFEKHPHFI DVFVHFGIAQ SSTRGGSRVE 250 260 270 280 290 300 GIFAGLFMNA YGAGQVMLRW GVLAKSVKNI MLGHASVQAE MEQVVEVYEY AQKLGGEAGF 310 320 330 340 350 360 YHILNNPKAS LLSLTQFPHF SSVVLGNAAG LGIMGEYRGT PRNQDLYDAA KAYAEQLKEN 370 380 390 GVINYSVLDL TAEELEAIKH QLNPKDNDVE L

References

[1]	"Correct sequence for the major nucleocapsid protein mRNA of respiratory syncytial virus." Collins P.L., Anderson K., Langer S.J., Wertz G.W. Virology 146:69-77(1985) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
[2]	"Amino acid sequence of human respiratory syncytial virus nucleocapsid protein." Elango N., Venkatesan S. Nucleic Acids Res. 11:5941-5951(1983) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
[3]	"A cold-passaged, attenuated strain of human respiratory syncytial virus contains mutations in the F and L genes." Connors M., Crowe J.E. Jr., Firestone C.Y., Murphy B.R., Collins P.L. Virology 208:478-484(1995) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA]. Strain: Cold-passage attenuated.
[4]	"Acquisition of the ts phenotype by a chemically mutagenized cold-passaged human respiratory syncytial virus vaccine candidate results from the acquisition of a single mutation in the polymerase (L) gene." Crowe J.E. Jr., Firestone C.Y., Whitehead S.S., Collins P.L., Murphy B.R. Virus Genes 13:269-273(1996) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA]. Strain: Cold-passage attenuated.
[5]	"Nucleotide sequence analysis of the respiratory syncytial virus subgroup A cold-passaged (cp) temperature sensitive (ts) cpts-248/404 live attenuated virus vaccine candidate." Firestone C.Y., Whitehead S.S., Collins P.L., Murphy B.R., Crowe J.E. Jr. Virology 225:419-422(1996) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA]. Strain: Cold-passage attenuated.
[6]	"Recombinant respiratory syncytial virus (RSV) bearing a set of mutations from cold-passaged RSV is attenuated in chimpanzees." Whitehead S.S., Juhasz K., Firestone C.Y., Collins P.L., Murphy B.R. J. Virol. 72:4467-4471(1998) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA]. Strain: Cold-passage attenuated.
[7]	"Increased expression of the N protein of respiratory syncytial virus stimulates minigenome replication but does not alter the balance between the synthesis of mRNA and antigenome." Fearns R., Peeples M.E., Collins P.L. Virology 236:188-201(1997) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION.
[8]	"The Cys(3)-His(1) motif of the respiratory syncytial virus M2-1 protein is essential for protein function." Hardy R.W., Wertz G.W. J. Virol. 74:5880-5885(2000) [PubMed] [Europe PMC] [Abstract] Cited for: INTERACTION WITH M2-1.
[9]	"Identification of temperature-sensitive mutations in the phosphoprotein of respiratory syncytial virus that are likely involved in its interaction with the nucleoprotein." Lu B., Brazas R., Ma C.H., Kristoff T., Cheng X., Jin H. J. Virol. 76:2871-2880(2002) [PubMed] [Europe PMC] [Abstract] Cited for: INTERACTION WITH P.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

M11486 Genomic RNA. Translation: AAB59852.1.
X00001 Genomic RNA. Translation: CAA24906.1. Frameshift.
U50362 Genomic RNA. Translation: AAB86658.1.
U50363 Genomic RNA. Translation: AAB86670.1.
U63644 Genomic RNA. Translation: AAC55964.1.
AF035006 Genomic RNA. Translation: AAC14896.1.

PIR

VHNZ. A04026.
VHNZ1. A23316.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
2WJ8	X-ray	3.29	A/B/C/D/E/F/G/H/I/J/K/L/M/N/O/P/Q/R/S/T	1-391	[»]
2YHM	X-ray	3.60	A/B/C/D/E/F/G/H/I/J	1-375	[»]

ModBase

Search...

Protocols and materials databases

StructuralBiologyKnowledgebase

Search...

Family and domain databases

InterPro

IPR004930. Pneumo_ncap.
[Graphical view]

Pfam

PF03246. Pneumo_ncap. 1 hit.
[Graphical view]

ProDom

PD006438. Pneumo_ncap. 1 hit.
[Graphical view] [Entries sharing at least one domain]

ProtoNet

Search...

Other

EvolutionaryTrace

P03418.

Entry information

Entry name

NCAP_HRSVA

Accession

Primary (citable) accession number: P03418
Secondary accession number(s): P88810

Entry history

Integrated into UniProtKB/Swiss-Prot:	July 21, 1986
Last sequence update:	April 1, 1988
Last modified:	April 3, 2013
This is version 61 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Viral Protein Annotation Program