P59636 (ORF9B_CVHSA) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Protein 9b

Alternative name(s):
Accessory protein 9b
ORF-9b

Gene names

ORF Names:

9b

Organism

Human SARS coronavirus (SARS-CoV) (Severe acute respiratory syndrome coronavirus) [Reference proteome]

Taxonomic identifier

227859 [NCBI]

Taxonomic lineage

Viruses › ssRNA viruses › ssRNA positive-strand viruses, no DNA stage › Nidovirales › Coronaviridae › Coronavirinae › Betacoronavirus › Severe acute respiratory syndrome-related coronavirus

Virus host

Homo sapiens (Human) [TaxID: 9606]
Paguma larvata (Masked palm civet) [TaxID: 9675]

Protein attributes

Sequence length	98 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Subunit structure	Homodimer.
Subcellular location	Host cytoplasmic vesicle membrane; Peripheral membrane protein. Host cytoplasm. Note: Binds non-covalently to intracellular lipid bilayers. Ref.13
Miscellaneous	The gene encoding this protein is included within the N gene (alternative ORF).
Sequence similarities	Belongs to the coronavirus group 2 protein 9b family.

Ontologies

Keywords
Cellular component	Host cytoplasm Host cytoplasmic vesicle Host membrane Membrane
Technical term	3D-structure Complete proteome Reference proteome
Gene Ontology (GO)
Cellular_component	host cell cytoplasmic vesicle membrane Inferred from electronic annotation. Source: UniProtKB-SubCell membrane 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 – 98

98

Protein 9b

PRO_0000106137

Natural variations

Natural variant

58

1

A → V in strain: Isolate TWK.

Secondary structure

1

.

.

.

.

.

.

.

.

.

.

.

98

Helix Strand Turn

Details...

Beta strand

14 – 23

10

Beta strand

42 – 47

6

Beta strand

54 – 60

7

Beta strand

65 – 67

3

Beta strand

90 – 96

7

Sequences

	Sequence		Length	Mass (Da)
	P59636 [UniParc]. Last modified April 23, 2003. Version 1. Checksum: 5166F22872915FCB	FASTA	98	10,802
	10 20 30 40 50 60 MDPNQTNVVP PALHLVDPQI QLTITRMEDA MGQGQNSADP KVYPIILRLG SQLSLSMARR 70 80 90 NLDSLEARAF QSTPIVVQMT KLATTEELPD EFVVVTAK

References

[1]	"Characterization of a novel coronavirus associated with severe acute respiratory syndrome." Rota P.A., Oberste M.S., Monroe S.S., Nix W.A., Campagnoli R., Icenogle J.P., Penaranda S., Bankamp B., Maher K., Chen M.-H., Tong S., Tamin A., Lowe L., Frace M., DeRisi J.L., Chen Q., Wang D., Erdman D.D. , Peret T.C.T., Burns C., Ksiazek T.G., Rollin P.E., Sanchez A., Liffick S., Holloway B., Limor J., McCaustland K., Olsen-Rasmussen M., Fouchier R., Guenther S., Osterhaus A.D.M.E., Drosten C., Pallansch M.A., Anderson L.J., Bellini W.J. Science 300:1394-1399(2003) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA]. Strain: Isolate Urbani.
[2]	"The genome sequence of the SARS-associated coronavirus." Marra M.A., Jones S.J.M., Astell C.R., Holt R.A., Brooks-Wilson A., Butterfield Y.S.N., Khattra J., Asano J.K., Barber S.A., Chan S.Y., Cloutier A., Coughlin S.M., Freeman D., Girn N., Griffith O.L., Leach S.R., Mayo M., McDonald H. , Montgomery S.B., Pandoh P.K., Petrescu A.S., Robertson A.G., Schein J.E., Siddiqui A., Smailus D.E., Stott J.M., Yang G.S., Plummer F., Andonov A., Artsob H., Bastien N., Bernard K., Booth T.F., Bowness D., Czub M., Drebot M., Fernando L., Flick R., Garbutt M., Gray M., Grolla A., Jones S., Feldmann H., Meyers A., Kabani A., Li Y., Normand S., Stroher U., Tipples G.A., Tyler S., Vogrig R., Ward D., Watson B., Brunham R.C., Krajden M., Petric M., Skowronski D.M., Upton C., Roper R.L. Science 300:1399-1404(2003) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA]. Strain: Isolate Tor2.
[3]	"Coronavirus genomic-sequence variations and the epidemiology of the severe acute respiratory syndrome." Tsui S.K.W., Chim S.S.C., Lo Y.M.D. N. Engl. J. Med. 349:187-188(2003) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA]. Strain: Isolate CUHK-Su10 and Isolate CUHK-W1.
[4]	"The complete genome sequence of severe acute respiratory syndrome coronavirus strain HKU-39849 (HK-39)." Zeng F.Y., Chan C.W., Chan M.N., Chen J.D., Chow K.Y.C., Hon C.C.C., Hui R.K.H., Li J., Li V.Y.Y., Wang C.Y., Wang P.Y., Guan Y., Zheng B., Poon L.L.M., Chan K.H., Yuen K.Y., Peiris J.S.M., Leung F.C. Exp. Biol. Med. 228:866-873(2003) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA]. Strain: Isolate HKU-39849.
[5]	Qin E., Zhu Q., Yu M., Fan B., Chang G., Si B., Yang B., Peng W., Jiang T., Liu B., Deng Y., Liu H., Zhang Y., Wang C., Li Y., Gan Y., Li X., Lu F. , Tan G., Yang R., Cao W.S., Wang J., Chen W., Cong L., Deng Y., Dong W., Han Y., Hu W., Lei M., Li C., Li G., Li G., Li H., Li S., Li S., Li W., Li W., Lin W., Liu J., Liu Z., Lu H., Ni P., Qi Q., Sun Y., Tang L., Tong Z., Wang J., Wang X., Wu Q., Xi Y., Xu Z., Yang L., Ye C., Ye J., Zhang B., Zhang F., Zhang J., Zhang X., Zhou J., Yang H. Submitted (APR-2003) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA]. Strain: Isolate BJ01, Isolate BJ02, Isolate BJ03, Isolate BJ04 and Isolate GD01.
[6]	"The complete genome of SARS coronavirus clone TW1." Yeh S.-H., Kao C.-L., Tsai C.-Y., Liu C.-J., Chen D.-S., Chen P.-J. Submitted (MAY-2003) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA]. Strain: Isolate TW1.
[7]	"SARS virus is a close relative of type II coronaviruses." Eickmann M., Becker S., Klenk H.-D., Doerr H.W., Stadler K., Censini S., Guidotti S., Masignani V., Scarselli M., Mora M., Donati C., Han J., Song H.C., Abrignani S., Covacci A., Rappuoli R. Submitted (MAY-2003) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA]. Strain: Isolate FRA.
[8]	"Mechanisms and enzymes involved in SARS coronavirus genome expression." Thiel V., Ivanov K.A., Putics A., Hertzig T., Schelle B., Bayer S., Weissbrich B., Snijder E.J., Rabenau H., Doerr H.W., Gorbalenya A.E., Ziebuhr J. J. Gen. Virol. 84:2305-2315(2003) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA]. Strain: Isolate Frankfurt 1.
[9]	"Severe acute respiratory syndrome-associated coronavirus genotype and its characterization." Li L., Wang Z., Lu Y., Bao Q., Chen S., Wu N., Cheng S., Weng J., Zhang Y., Yan J., Mei L., Wang X., Zhu H., Yu Y., Zhang M., Li M., Yao J., Lu Q. , Yao P., Bo X., Wo J., Wang S., Hu S. Chin. Med. J. 116:1288-1292(2003) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA]. Strain: Isolate ZJ01.
[10]	"The complete genome of SARS coronavirus TWH." Shu H.Y., Wu K.M., Tsai S.F. Submitted (JUL-2003) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA]. Strain: Isolate TWH, Isolate TWJ, Isolate TWK, Isolate TWS and Isolate TWY.
[11]	Canducci F., Clementi M., Poli G., Vicenzi E. Submitted (JUL-2003) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA]. Strain: Isolate HSR 1.
[12]	Balotta C., Corvasce S., Violin M., Galli M., Moroni M., Vigevani G.M., Ruan Y.J., Salemi M. Submitted (OCT-2003) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA]. Strain: Isolate AS.
[13]	"The crystal structure of ORF-9b, a lipid binding protein from the SARS coronavirus." Meier C., Aricescu A.R., Assenberg R., Aplin R.T., Gilbert R.J.C., Grimes J.M., Stuart D.I. Structure 14:1157-1165(2006) [PubMed] [Europe PMC] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (2.8 ANGSTROMS) OF 9-98, SUBCELLULAR LOCATION.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

AY278741 Genomic RNA. No translation available.
AY274119 Genomic RNA. Translation: AAP41048.1.
AY282752 Genomic RNA. No translation available.
AY278554 Genomic RNA. Translation: AAP13574.1.
AY278491 Genomic RNA. No translation available.
AY278487 Genomic RNA. No translation available.
AY278488 Genomic RNA. Translation: AAP30038.1.
AY278489 Genomic RNA. Translation: AAP51235.1.
AY278490 Genomic RNA. No translation available.
AY279354 Genomic RNA. No translation available.
AY291451 Genomic RNA. Translation: AAP37025.1.
AY310120 Genomic RNA. Translation: AAP50496.1.
AY291315 Genomic RNA. Translation: AAP33708.1.
AY290752 Genomic RNA. Translation: AAP69659.1.
AP006557 Genomic RNA. Translation: BAC81359.1.
AP006558 Genomic RNA. Translation: BAC81373.1.
AP006559 Genomic RNA. Translation: BAC81387.1.
AP006560 Genomic RNA. Translation: BAC81401.1.
AP006561 Genomic RNA. Translation: BAC81415.1.
AY323977 Genomic RNA. Translation: AAP72985.1.
AY427439 Genomic RNA. Translation: AAQ94071.1.

RefSeq

NP_828859.1. NC_004718.3.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
2CME	X-ray	2.80	A/B	9-98	[»]
			C/D/F/H	10-98	[»]
			E/G	9-98	[»]

ProteinModelPortal

P59636.

SMR

P59636. Positions 9-98.

ModBase

Search...

Proteomic databases

PRIDE

P59636.

Protocols and materials databases

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

GeneID

1489679.

Family and domain databases

InterPro

IPR018542. SARS_lipid-bd.
[Graphical view]

Pfam

PF09399. SARS_lipid_bind. 1 hit.
[Graphical view]

ProtoNet

Search...

Other

EvolutionaryTrace

P59636.

Entry information

Entry name

ORF9B_CVHSA

Accession

Primary (citable) accession number: P59636
Secondary accession number(s): Q7T6R2

Entry history

Integrated into UniProtKB/Swiss-Prot:	April 23, 2003
Last sequence update:	April 23, 2003
Last modified:	May 1, 2013
This is version 64 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Viral Protein Annotation Program