P31822 (POL_FIVT2) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Pol polyprotein

Cleaved into the following 4 chains:

1. Protease
   EC=3.4.23.-
   Alternative name(s):
   Retropepsin
2. Reverse transcriptase/ribonuclease H
   Short name=RT
   EC=2.7.7.49
   EC=3.1.26.13
   Alternative name(s):
   Exoribonuclease H
   EC=3.1.13.2
3. Deoxyuridine 5'-triphosphate nucleotidohydrolase
   Short name=dUTPase
   EC=3.6.1.23
4. Integrase
   Short name=IN

Gene names

Name:

pol

Organism

Feline immunodeficiency virus (isolate TM2) (FIV)

Taxonomic identifier

31676 [NCBI]

Taxonomic lineage

Viruses › Retro-transcribing viruses › Retroviridae › Orthoretrovirinae › Lentivirus › Feline lentivirus group › Feline immunodeficiency virus

Virus host

Felidae (cat family) [TaxID: 9681]

Protein attributes

Sequence length	1124 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Inferred from homology

General annotation (Comments)

Function	During replicative cycle of retroviruses, the reverse-transcribed viral DNA is integrated into the host chromosome by the viral integrase enzyme. RNase H activity is associated with the reverse transcriptase.
Catalytic activity	Endohydrolysis of RNA in RNA/DNA hybrids. Three different cleavage modes: 1. sequence-specific internal cleavage of RNA. Human immunodeficiency virus type 1 and Moloney murine leukemia virus enzymes prefer to cleave the RNA strand one nucleotide away from the RNA-DNA junction. 2. RNA 5'-end directed cleavage 13-19 nucleotides from the RNA end. 3. DNA 3'-end directed cleavage 15-20 nucleotides away from the primer terminus. 3'-end directed exonucleolytic cleavage of viral RNA-DNA hybrid. dUTP + H2O = dUMP + diphosphate. Deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1).
Post-translational modification	Cleavage sites that yield the mature proteins remain to be determined.
Sequence similarities	Belongs to the retroviral Pol polyprotein family. Contains 1 integrase catalytic domain. Contains 1 integrase-type DNA-binding domain. Contains 1 integrase-type zinc finger. Contains 1 peptidase A2 domain. Contains 1 reverse transcriptase domain. Contains 1 RNase H domain.

Ontologies

Keywords
Biological process	DNA integration DNA recombination Nucleotide metabolism Viral genome integration Virus entry into host cell
Domain	Zinc-finger
Ligand	DNA-binding Metal-binding Zinc
Molecular function	Aspartyl protease Endonuclease Hydrolase Nuclease Nucleotidyltransferase Protease RNA-directed DNA polymerase Transferase
Technical term	Multifunctional enzyme
Gene Ontology (GO)
Biological_process	DNA integration Inferred from electronic annotation. Source: UniProtKB-KW DNA recombination Inferred from electronic annotation. Source: UniProtKB-KW RNA-dependent DNA replication Inferred from electronic annotation. Source: InterPro dUTP metabolic process Inferred from electronic annotation. Source: InterPro establishment of integrated proviral latency Inferred from electronic annotation. Source: UniProtKB-KW nucleic acid phosphodiester bond hydrolysis Inferred from electronic annotation. Source: GOC proteolysis Inferred from electronic annotation. Source: UniProtKB-KW viral entry into host cell Inferred from electronic annotation. Source: UniProtKB-KW
Molecular_function	DNA binding Inferred from electronic annotation. Source: UniProtKB-KW RNA binding Inferred from electronic annotation. Source: InterPro RNA-directed DNA polymerase activity Inferred from electronic annotation. Source: UniProtKB-KW aspartic-type endopeptidase activity Inferred from electronic annotation. Source: UniProtKB-KW dUTP diphosphatase activity Inferred from electronic annotation. Source: EC exoribonuclease H activity Inferred from electronic annotation. Source: EC ribonuclease H activity Inferred from electronic annotation. Source: InterPro zinc ion binding Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 153	153	Protease By similarity		PRO_0000038849
	Chain	154 – 709	556	Reverse transcriptase/ribonuclease H By similarity		PRO_0000038850
	Chain	710 – 843	134	Deoxyuridine 5'-triphosphate nucleotidohydrolase By similarity		PRO_0000038851
	Chain	844 – 1124	281	Integrase By similarity		PRO_0000038852
Regions
	Domain	62 – 143	82	Peptidase A2
	Domain	199 – 388	190	Reverse transcriptase
	Domain	591 – 711	121	RNase H
	Domain	899 – 1049	151	Integrase catalytic
	Zinc finger	848 – 889	42	Integrase-type
	DNA binding	1067 – 1115	49	Integrase-type
Sites
	Active site	67	1	For protease activity By similarity

Sequences

	Sequence		Length	Mass (Da)
	P31822 [UniParc]. Last modified July 1, 1993. Version 1. Checksum: F287FE90FC978296	FASTA	1,124	128,101
	10 20 30 40 50 60 ENLGKREGGA SCSPSKPSAA NSTICTSNGG ETIRFINYNT IGTTTTLERR PEIQIFVNGH 70 80 90 100 110 120 PIKFLLDTGA DITILNRKDF QIGNSIENGK QNMIGVGGGK RGTNYINVHL EIRDENYRMQ 130 140 150 160 170 180 CIFGNVCVLE DNSLIQPLLG RDNMIKFNIR LVMAQISEKI PIVKVRMKDP TQGPQVKQWP 190 200 210 220 230 240 LSNEKIEALT DIVERLESEG KVKRADPNNP WNTPVFAIKK KSGKWRMLID FRVLNKLTDK 250 260 270 280 290 300 GAEVQLGLPH PAGLQMKKQV TVLDIGDAYF TIPLDPDYAP YTAFTLPRKN NAGPGRRYVW 310 320 330 340 350 360 CSLPQGWVLS PLIYQSTLNN ILQPFIKQNS ELDIYQYMDD IYIGSNLNKK EHKQKVEELR 370 380 390 400 410 420 KLLLWWGFET PEDKLQEEPP YKWMGYELHP LTWSIQQKQL EIPERPTLNE LQKLAGKINW 430 440 450 460 470 480 ASQTIPDLSI KELTNMMRGD QKLDSIREWT VEAKREVQKA KEAIETQAQL NYYDPNRGLY 490 500 510 520 530 540 AKLSLVGPHQ ICYQVYQKNP EHILWYGKIN RQKKKAENTC DIALRACYKI REESIIRIGK 550 560 570 580 590 600 EPVYEIPASR EAWESNLIRS PYLKAPPPEV EFIHAALSIK RALSMIQDAP IIGAETWYID 610 620 630 640 650 660 GSRKQGKAAR AAYWTNTGKW QIMEIEGSNQ KAEVQALLLA LKAGSEEMNI ITDSQYILNI 670 680 690 700 710 720 LNQQPDLMEG LWQEVLEQME KKIAIFIDWV PGHKGIPGNE EVDKLCQTMM IIEGEGILEK 730 740 750 760 770 780 RSEDAGYDLL AAAQETHFLP GEVRIVPTKT RIMLPKGHWG LIMGKSSIGS KGVDVLGGVI 790 800 810 820 830 840 DEGYRGELGV IMINLTKKSI TILEKQKIAQ LIILPCRHEG LQQGEIQMNS ERGEKGFGSA 850 860 870 880 890 900 GVFSSWVDRI EEAELNHEKF HSDPQYLRTE FNLPRIVAEE IKRKCPLCRI RGEQVGGQLK 910 920 930 940 950 960 IRPGIWQMDC THFNGKIIIV AVHVESGFLW AQIIPQETAD CTVKALLQLI CAHNVTELQT 970 980 990 1000 1010 1020 DNGPNFKNQK MEGLLNYMGI KHKLGIPGNP QSQALVENAN NTLKVWIQKF LPETTSLDNA 1030 1040 1050 1060 1070 1080 LALALHCLNF KQRGRLGRMA PYELYIQQES LRIQDYFSAI PQKLMMQWLY YKDQKDKKWK 1090 1100 1110 1120 GPMRVEYWGQ GSVLLKDEEK GIFLVPRRHI RRVPEPCTLP EGDE

References

[1]	"Identification of feline immunodeficiency virus rev gene activity." Kiyomasu T., Miyazawa T., Furuya T., Shibata R., Sakai H., Sakuragi J.I., Fukasawa M., Maki N., Hasegawa A., Mikami T., Adachi A. J. Virol. 65:4539-4542(1991) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
[2]	"Molecular characterization and heterogeneity of feline immunodeficiency virus isolates." Maki N., Miyazawa T., Fukasawa M., Hasegawa A., Hayami M., Miki K., Mikami T. Arch. Virol. 123:29-45(1992) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].

Cross-references

Sequence databases
EMBL GenBank DDBJ	M59418 Genomic RNA. Translation: AAA43071.1.
PIR	B45557.
3D structure databases
ProteinModelPortal	P31822.
SMR	P31822. Positions 41-153, 710-843.
ModBase	Search...
Protein family/group databases
MEROPS	A02.007.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Family and domain databases
Gene3D	1.10.10.200. 1 hit. 2.30.30.10. 1 hit. 2.40.70.10. 1 hit.
InterPro	IPR008180. dUTP_pyroPase. IPR001037. Integrase_C_retrovir. IPR001584. Integrase_cat-core. IPR017856. Integrase_Zn-bd_dom-like_N. IPR003308. Integrase_Zn-bd_dom_N. IPR018061. Pept_A2A_retrovirus_sg. IPR001995. Peptidase_A2_cat. IPR021109. Peptidase_aspartic. IPR001969. Peptidase_aspartic_AS. IPR012337. RNaseH-like_dom. IPR002156. RNaseH_domain. IPR000477. RVT. IPR010659. RVT_connect. IPR010661. RVT_thumb. [Graphical view]
Pfam	PF00692. dUTPase. 1 hit. PF00552. IN_DBD_C. 1 hit. PF02022. Integrase_Zn. 1 hit. PF00075. RNase_H. 1 hit. PF00665. rve. 1 hit. PF00077. RVP. 1 hit. PF00078. RVT_1. 1 hit. PF06815. RVT_connect. 1 hit. PF06817. RVT_thumb. 1 hit. [Graphical view]
SUPFAM	SSF50122. Integrase_C. 1 hit. SSF46919. Integrase_Zn_N. 1 hit. SSF50630. Pept_Aspartic. 1 hit. SSF53098. RNaseH_fold. 2 hits.
PROSITE	PS50175. ASP_PROT_RETROV. 1 hit. PS00141. ASP_PROTEASE. 1 hit. PS50994. INTEGRASE. 1 hit. PS51027. INTEGRASE_DBD. 1 hit. PS50879. RNASE_H. 1 hit. PS50878. RT_POL. 1 hit. PS50876. ZF_INTEGRASE. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

POL_FIVT2

Accession

Primary (citable) accession number: P31822

Entry history

Integrated into UniProtKB/Swiss-Prot:	July 1, 1993
Last sequence update:	July 1, 1993
Last modified:	April 3, 2013
This is version 107 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Viral Protein Annotation Program