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P23427

- POL_VILV2

UniProt

P23427 - POL_VILV2

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Protein

Pol polyprotein

Gene

pol

Organism
Maedi visna virus (strain 1514 / clone LV1-1KS2) (MVV) (Visna lentivirus)
Status
Reviewed - Annotation score: 5 out of 5- Protein inferred from homologyi

Functioni

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 activityi

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).PROSITE-ProRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Active sitei63 – 631PROSITE-ProRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri827 – 86842Integrase-typePROSITE-ProRule annotationAdd
BLAST
DNA bindingi1046 – 109853Integrase-typePROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

  1. aspartic-type endopeptidase activity Source: UniProtKB-KW
  2. DNA binding Source: UniProtKB-KW
  3. dUTP diphosphatase activity Source: UniProtKB-EC
  4. exoribonuclease H activity Source: UniProtKB-EC
  5. RNA-directed DNA polymerase activity Source: UniProtKB-KW
  6. RNA-DNA hybrid ribonuclease activity Source: InterPro
  7. zinc ion binding Source: InterPro

GO - Biological processi

  1. DNA integration Source: UniProtKB-KW
  2. DNA recombination Source: UniProtKB-KW
  3. dUTP metabolic process Source: InterPro
  4. establishment of integrated proviral latency Source: UniProtKB-KW
  5. viral entry into host cell Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Aspartyl protease, Endonuclease, Hydrolase, Nuclease, Nucleotidyltransferase, Protease, RNA-directed DNA polymerase, Transferase

Keywords - Biological processi

DNA integration, DNA recombination, Nucleotide metabolism, Viral genome integration, Virus entry into host cell

Keywords - Ligandi

DNA-binding, Metal-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
Pol polyprotein
Cleaved into the following 4 chains:
Alternative name(s):
Retropepsin (EC:3.4.23.-)
Alternative name(s):
Exoribonuclease H (EC:3.1.13.2)
Integrase
Short name:
IN
Gene namesi
Name:pol
OrganismiMaedi visna virus (strain 1514 / clone LV1-1KS2) (MVV) (Visna lentivirus)
Taxonomic identifieri11744 [NCBI]
Taxonomic lineageiVirusesRetro-transcribing virusesRetroviridaeOrthoretrovirinaeLentivirusOvine/caprine lentivirus group
Virus hostiOvis aries (Sheep) [TaxID: 9940]

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 139139ProteaseBy similarityPRO_0000038865Add
BLAST
Chaini140 – 690551Reverse transcriptase/ribonuclease HBy similarityPRO_0000038866Add
BLAST
Chaini691 – 824134Deoxyuridine 5'-triphosphate nucleotidohydrolaseBy similarityPRO_0000038867Add
BLAST
Chaini825 – 1105281IntegraseBy similarityPRO_0000038868Add
BLAST

Post-translational modificationi

Cleavage sites that yield the mature proteins remain to be determined.

Structurei

3D structure databases

ProteinModelPortaliP23427.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini58 – 12972Peptidase A2PROSITE-ProRule annotationAdd
BLAST
Domaini186 – 375190Reverse transcriptasePROSITE-ProRule annotationAdd
BLAST
Domaini570 – 692123RNase HPROSITE-ProRule annotationAdd
BLAST
Domaini869 – 1029161Integrase catalyticPROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Belongs to the retroviral Pol polyprotein family.Curated
Contains 1 integrase catalytic domain.PROSITE-ProRule annotation
Contains 1 integrase-type DNA-binding domain.PROSITE-ProRule annotation
Contains 1 integrase-type zinc finger.PROSITE-ProRule annotation
Contains 1 peptidase A2 domain.PROSITE-ProRule annotation
Contains 1 reverse transcriptase domain.PROSITE-ProRule annotation
Contains 1 RNase H domain.PROSITE-ProRule annotation

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri827 – 86842Integrase-typePROSITE-ProRule annotationAdd
BLAST

Keywords - Domaini

Zinc-finger

Family and domain databases

Gene3Di1.10.10.200. 1 hit.
2.30.30.10. 1 hit.
2.40.70.10. 1 hit.
2.70.40.10. 1 hit.
3.30.420.10. 2 hits.
InterProiIPR001969. Aspartic_peptidase_AS.
IPR029054. dUTPase-like.
IPR008180. dUTPase/dCTP_deaminase.
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_dom.
IPR012337. RNaseH-like_dom.
IPR002156. RNaseH_domain.
IPR000477. RT_dom.
IPR010659. RVT_connect.
IPR010661. RVT_thumb.
[Graphical view]
PfamiPF00692. 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]
SUPFAMiSSF46919. SSF46919. 1 hit.
SSF50122. SSF50122. 1 hit.
SSF50630. SSF50630. 1 hit.
SSF51283. SSF51283. 1 hit.
SSF53098. SSF53098. 2 hits.
PROSITEiPS50175. 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]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

P23427 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
TRNNMPSLWK KRTYAKGLPA EETAGKQQEG ATCGAVRAPY VVTEAPPKIE
60 70 80 90 100
IKVGTRWKKL LVDTGADKTI VTSHDMSGIP KGRIILQGIG GIIEGEKWEQ
110 120 130 140 150
VHLQYKDKMI KGTIVVLATS PVEVLGRDNM RELGIGLIMA NLEEKKIPST
160 170 180 190 200
RVRLKEGCKG PHIAQWPLTQ EKLEGLKEIV DRLEKEGKVG RAPPHWTCNT
210 220 230 240 250
PIFCIKKKSG KWRMLIDFRE LNKQTEDLAE AQLGLPHPGG LQRKKHVTIL
260 270 280 290 300
DIGDAYFTIP LYEPYRQYTC FTMLSPNNLG PCVRYYWKVL PQGWKLSPAV
310 320 330 340 350
YQFTMQKILR GWIEEHPMIQ FGIYMDDIYI GSDLGLEEHR GIVNELASYI
360 370 380 390 400
AQYGFMLPED KRQEGYPAKW LGFELHPEKW KFQKHTLPEI TEGPITLNKL
410 420 430 440 450
QKLVGDLVWR QSLIGKSIPN ILKLMEGDRA LQSERYIESI HVREWEACRQ
460 470 480 490 500
KLKEMEGNYY DEEKDIYGQL DWGNKAIEYI VFQEKGKPLW VNVVHSIKNL
510 520 530 540 550
SQAQQIIKAA QKLTQEVIIR TGKIPWILLP GREEDWILEL QMGNINWMPS
560 570 580 590 600
FWSCYKGSVR WKKRNVIAEV VPGPTYYTDG GKKNGRGSLG YIASTGEKFR
610 620 630 640 650
IHEEGTNQQL ELRAIEEACK QGPEKMNIVT DSRYAYEFML RNWDEEVIRN
660 670 680 690 700
PIQARIMELV HNKEKIGVHW VPGHKGIPQN EEIDRYISEI FLAKEGRGIL
710 720 730 740 750
QKRAEDAGYD LICPQEISIP AGQVKRIAID LKINLKKDQW AMIGTKSSFA
760 770 780 790 800
NKGVFVQGGI IDSGYQGTIQ VVIYNSNNKE VVIPQGRKFA QLILMPLIHE
810 820 830 840 850
ELKPWGETRK TERGEQGFGS TGMYWIENIP LAEEEHNKWH QDAVSLHLEF
860 870 880 890 900
GIPRTAAEDI VQQCDVCQEN KMPSTLRGSN KRGIDHWQVD YTHYEDKIIL
910 920 930 940 950
VWVETNSGLI YAERVKGETG QEFRVQTMKW YAMFAPKSLQ SDNGPAFVAE
960 970 980 990 1000
STQLLMKYLG IEHTTGIPWN PQSQALVERT HQTLKNTLEK LIPMFNAFES
1010 1020 1030 1040 1050
ALAGTLITLN IKRKGGLGTS PMDIFIFNKE QQRIQQQSKS KQEKIRFCYY
1060 1070 1080 1090 1100
RTRKRGHPGE WQGPTQVLWG GDGAIVVKDR GTDRYLVIAN KDVKFIPPPK

EIQKE
Length:1,105
Mass (Da):126,623
Last modified:November 1, 1991 - v1
Checksum:i34F9E772E96DB520
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
M60610 Unassigned DNA. Translation: AAA17529.1.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
M60610 Unassigned DNA. Translation: AAA17529.1 .

3D structure databases

ProteinModelPortali P23427.
ModBasei Search...
MobiDBi Search...

Protocols and materials databases

Structural Biology Knowledgebase Search...

Family and domain databases

Gene3Di 1.10.10.200. 1 hit.
2.30.30.10. 1 hit.
2.40.70.10. 1 hit.
2.70.40.10. 1 hit.
3.30.420.10. 2 hits.
InterProi IPR001969. Aspartic_peptidase_AS.
IPR029054. dUTPase-like.
IPR008180. dUTPase/dCTP_deaminase.
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_dom.
IPR012337. RNaseH-like_dom.
IPR002156. RNaseH_domain.
IPR000477. RT_dom.
IPR010659. RVT_connect.
IPR010661. RVT_thumb.
[Graphical view ]
Pfami 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 ]
SUPFAMi SSF46919. SSF46919. 1 hit.
SSF50122. SSF50122. 1 hit.
SSF50630. SSF50630. 1 hit.
SSF51283. SSF51283. 1 hit.
SSF53098. SSF53098. 2 hits.
PROSITEi 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 ]
ProtoNeti Search...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE.

Entry informationi

Entry nameiPOL_VILV2
AccessioniPrimary (citable) accession number: P23427
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1991
Last sequence update: November 1, 1991
Last modified: October 29, 2014
This is version 112 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Miscellaneousi

Miscellaneous

This protein may be synthesized as a Gag-Pol polyprotein.

Keywords - Technical termi

Multifunctional enzyme

Documents

  1. Peptidase families
    Classification of peptidase families and list of entries
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3