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Protein

Gag-Pol polyprotein

Gene

gag-pol

Organism
Human immunodeficiency virus 1
Status
Unreviewed-Annotation score: Annotation score: 4 out of 5-Protein predictedi

Functioni

Catalytic activityi

3'-end directed exonucleolytic cleavage of viral RNA-DNA hybrid.SAAS annotation
Deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1).SAAS annotation
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.SAAS annotation

Cofactori

Mg2+SAAS annotation

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Aspartyl proteaseSAAS annotation, DNA-directed DNA polymeraseSAAS annotation, EndonucleaseSAAS annotation, Hydrolase, Nuclease, Nucleotidyltransferase, Protease, RNA-directed DNA polymeraseSAAS annotation, Transferase

Keywords - Biological processi

DNA integration, DNA recombinationSAAS annotation, Eukaryotic host gene expression shutoff by virus, Eukaryotic host translation shutoff by virusSAAS annotation, Host gene expression shutoff by virus, Host-virus interaction, Viral genome integrationSAAS annotation, Viral penetration into host nucleusSAAS annotation, Virion maturationSAAS annotation, Virus entry into host cell, Virus exit from host cell

Keywords - Ligandi

DNA-bindingSAAS annotation, MagnesiumSAAS annotation, Metal-binding, RNA-bindingSAAS annotation, Viral nucleoproteinUniRule annotation, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
Gag-Pol polyproteinSAAS annotation
Gene namesi
Name:gag-polImported
OrganismiHuman immunodeficiency virus 1Imported
Taxonomic identifieri11676 [NCBI]
Taxonomic lineageiVirusesRetro-transcribing virusesRetroviridaeOrthoretrovirinaeLentivirusPrimate lentivirus group
Virus hostiHomo sapiens (Human) [TaxID: 9606]

Subcellular locationi

  • Host cell membrane SAAS annotation; Lipid-anchor SAAS annotation
  • Host cytoplasm SAAS annotation
  • Host nucleus SAAS annotation
  • Virion UniRule annotation
  • Host nucleus UniRule annotation
  • Host cytoplasm UniRule annotation
  • Virion SAAS annotation

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Capsid proteinUniRule annotationSAAS annotation, Host cell membraneSAAS annotation, Host cytoplasmUniRule annotationSAAS annotation, Host membrane, Host nucleusUniRule annotationSAAS annotation, Membrane, Virion

PTM / Processingi

Post-translational modificationi

Gag-Pol polyprotein: Specific enzymatic cleavages by the viral protease yield mature proteins.UniRule annotation

Structurei

3D structure databases

ProteinModelPortaliO92898.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini391 – 40616CCHC-typeInterPro annotationAdd
BLAST
Domaini508 – 57770Peptidase A2InterPro annotationAdd
BLAST
Domaini631 – 821191Reverse transcriptaseInterPro annotationAdd
BLAST
Domaini1021 – 1144124RNase HInterPro annotationAdd
BLAST
Domaini1150 – 119142Integrase-typeInterPro annotationAdd
BLAST
Domaini1201 – 1351151Integrase catalyticInterPro annotationAdd
BLAST
Domaini1370 – 141748Integrase-type DNA-bindingInterPro annotationAdd
BLAST

Coiled coil

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Coiled coili87 – 12135Sequence analysisAdd
BLAST

Sequence similaritiesi

Contains 1 reverse transcriptase domain.UniRule annotation
Contains CCHC-type zinc fingers.SAAS annotation
Contains RNase H domain.SAAS annotation
Contains integrase catalytic domain.SAAS annotation
Contains integrase-type DNA-binding domain.SAAS annotation
Contains integrase-type zinc finger.SAAS annotation
Contains peptidase A2 domain.SAAS annotation

Keywords - Domaini

Coiled coilSequence analysis, RepeatSAAS annotation, Zinc-fingerUniRule annotationSAAS annotation

Family and domain databases

Gene3Di1.10.10.200. 1 hit.
1.10.1200.30. 1 hit.
1.10.150.90. 1 hit.
1.10.375.10. 1 hit.
2.30.30.10. 1 hit.
2.40.70.10. 1 hit.
3.30.420.10. 2 hits.
4.10.60.10. 1 hit.
InterProiIPR001969. Aspartic_peptidase_AS.
IPR000721. Gag_p24.
IPR001037. Integrase_C_retrovir.
IPR001584. Integrase_cat-core.
IPR017856. Integrase_Zn-bd_dom-like_N.
IPR003308. Integrase_Zn-bd_dom_N.
IPR000071. Lentvrl_matrix_N.
IPR012344. Matrix_HIV/RSV.
IPR001995. Peptidase_A2_cat.
IPR021109. Peptidase_aspartic_dom.
IPR018061. Retropepsins.
IPR008916. Retrov_capsid_C.
IPR008919. Retrov_capsid_N.
IPR010999. Retrovr_matrix.
IPR012337. RNaseH-like_dom.
IPR002156. RNaseH_domain.
IPR000477. RT_dom.
IPR010659. RVT_connect.
IPR010661. RVT_thumb.
IPR001878. Znf_CCHC.
[Graphical view]
PfamiPF00540. Gag_p17. 1 hit.
PF00607. Gag_p24. 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.
PF00098. zf-CCHC. 1 hit.
[Graphical view]
PRINTSiPR00234. HIV1MATRIX.
SMARTiSM00343. ZnF_C2HC. 2 hits.
[Graphical view]
SUPFAMiSSF46919. SSF46919. 1 hit.
SSF47353. SSF47353. 1 hit.
SSF47836. SSF47836. 1 hit.
SSF47943. SSF47943. 1 hit.
SSF50122. SSF50122. 1 hit.
SSF50630. SSF50630. 1 hit.
SSF53098. SSF53098. 2 hits.
SSF57756. SSF57756. 1 hit.
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.
PS50158. ZF_CCHC. 1 hit.
PS50876. ZF_INTEGRASE. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

O92898-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MGARASVLSG EELDRWEKIR LRPGGRKKYQ LKHIVWASRE LERFAVNPGL
60 70 80 90 100
LETSEGCRQI LGQLHPTLPT GSEELKSLYN TVAVLYCVHQ RLEVKDTKEA
110 120 130 140 150
LEKIEEEQNK CKKKAQQAAA GTGNSSQVSQ NYPIVQNIQG QMVHQAISAR
160 170 180 190 200
TLNAWVKVVE EKAFSPEVIP MFTALSEGAT PQDLNTMLNT VGGHQAAMQM
210 220 230 240 250
LKETINEEAA EWDRLHPVQA GPVAPGQMKE PRGSDIAGTT STLQEQIGWM
260 270 280 290 300
TNNPPIPVGD IYKRWIILGL NKIVRMYSPT SILDIRQGPK EPFRDYVDRF
310 320 330 340 350
YKTLRAEQAS QEVKNWMTET LLVQNANPDC RTILKALGPA ATLKEMMTAC
360 370 380 390 400
QGVGGPGHKA RVLAEAMSQA TSSAAVMMQR SNFRNQKKNV KCFNCGKEGH
410 420 430 440 450
IAKNCRAPRK RGCWKYGKEG HQMKDCTERQ AKFFRKNLAF PQGEARELSS
460 470 480 490 500
EQTRAISPTR RELQVWGENN HSPSEAGADR QGTVSFSFPQ ITLWQRPLVT
510 520 530 540 550
IKIGGQLKEA LLDTGADDTV LEKMNLPGRW KPKMIGGIGG FIKVRQYDQI
560 570 580 590 600
LVEICGHKAI GTVLVGPTPV NIIGKNLLTQ IGCTLNFPIS PIETVPVKLK
610 620 630 640 650
PEMDGPKVKQ WPLTEEKIKA LVEICTEMKK EGKISRIGPK NPYNTPVFAI
660 670 680 690 700
KKKDSTKWRK LVDFRELNKR TQDFWEVQLG IPHPSGLKKK KSVTVLDVGD
710 720 730 740 750
AYFSVPLDES FRKYTAFTIP SINNETPGTR YQYNVLPQGW KGSPAIFQSS
760 770 780 790 800
MTKILEPFRK QNPDIVIYQY MDDLYVGSDL EIGQHRTKIE ELRQHLLRWG
810 820 830 840 850
FTTPDKKHQK EPPFLWMGYE LHPNKWTVQP IVLPEKDSWT VNDIQKLVGK
860 870 880 890 900
LYWASQIYAG IRVKQLCKLL RGAKALTEVV PLTEEAELEL AENREILRKP
910 920 930 940 950
VHEVYYDPSK DLIAEIQKQG QGQWTYQIYQ EPFKNLKTGK YAKTRGAHTN
960 970 980 990 1000
DVKQLTEAVQ KIATESIVIW KKTPKFKLPI QKETWEAWWT KYWQATWIPK
1010 1020 1030 1040 1050
WEFVNTPPLV KLWYQLEKEP IIGAETFYVN GAANRETKVK KAGYVTNKGR
1060 1070 1080 1090 1100
QKVVLLNDTT NQKTELQAIH LALQDSGLEV NIVTDSQYAL GIIQAQPDKS
1110 1120 1130 1140 1150
ESEIVNQIIE QLIKKEKVYL AWVPAHKGIG GNEQVDKLVS AGIRKVLFLD
1160 1170 1180 1190 1200
GIDKAQEEHE KYHSNWRAMA SDFNLPPVVA KEIVASCDKC QLKGEAMHGQ
1210 1220 1230 1240 1250
VDCSPGIWQL DCTHLEEKVI LVAVHVASGY IEAEVIPADT AQDTAYFLLR
1260 1270 1280 1290 1300
LAGRWPVKTI HTDNGSNFIS ATVKAACWWA GIKQEFGIPY NPQSQGVVES
1310 1320 1330 1340 1350
MNRELKKIIG QVRDQAEHLK TAVQMAVFIH NFKRKGGIGG YSAGERIVDI
1360 1370 1380 1390 1400
IATDIQTKEL QKQITKIQNF RVYYRDSRDP LWKGPAKLLW KGEGAVVIQD
1410 1420 1430
NSDIKVVPRR KVKIIRDYGK QMAGDDCVAS RQDED
Length:1,435
Mass (Da):162,263
Last modified:November 1, 1998 - v1
Checksum:i830F992E657635FC
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF042105 Genomic DNA. Translation: AAD03233.1.
PIRiA47330.
C47330.
D47330.
F47330.

Keywords - Coding sequence diversityi

Ribosomal frameshiftingSAAS annotation

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF042105 Genomic DNA. Translation: AAD03233.1.
PIRiA47330.
C47330.
D47330.
F47330.

3D structure databases

ProteinModelPortaliO92898.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Family and domain databases

Gene3Di1.10.10.200. 1 hit.
1.10.1200.30. 1 hit.
1.10.150.90. 1 hit.
1.10.375.10. 1 hit.
2.30.30.10. 1 hit.
2.40.70.10. 1 hit.
3.30.420.10. 2 hits.
4.10.60.10. 1 hit.
InterProiIPR001969. Aspartic_peptidase_AS.
IPR000721. Gag_p24.
IPR001037. Integrase_C_retrovir.
IPR001584. Integrase_cat-core.
IPR017856. Integrase_Zn-bd_dom-like_N.
IPR003308. Integrase_Zn-bd_dom_N.
IPR000071. Lentvrl_matrix_N.
IPR012344. Matrix_HIV/RSV.
IPR001995. Peptidase_A2_cat.
IPR021109. Peptidase_aspartic_dom.
IPR018061. Retropepsins.
IPR008916. Retrov_capsid_C.
IPR008919. Retrov_capsid_N.
IPR010999. Retrovr_matrix.
IPR012337. RNaseH-like_dom.
IPR002156. RNaseH_domain.
IPR000477. RT_dom.
IPR010659. RVT_connect.
IPR010661. RVT_thumb.
IPR001878. Znf_CCHC.
[Graphical view]
PfamiPF00540. Gag_p17. 1 hit.
PF00607. Gag_p24. 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.
PF00098. zf-CCHC. 1 hit.
[Graphical view]
PRINTSiPR00234. HIV1MATRIX.
SMARTiSM00343. ZnF_C2HC. 2 hits.
[Graphical view]
SUPFAMiSSF46919. SSF46919. 1 hit.
SSF47353. SSF47353. 1 hit.
SSF47836. SSF47836. 1 hit.
SSF47943. SSF47943. 1 hit.
SSF50122. SSF50122. 1 hit.
SSF50630. SSF50630. 1 hit.
SSF53098. SSF53098. 2 hits.
SSF57756. SSF57756. 1 hit.
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.
PS50158. ZF_CCHC. 1 hit.
PS50876. ZF_INTEGRASE. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "Genomic sequence of HIV-1 from four members of the Sydney Blood Bank Cohort of long term non-progressors."
    Oelrichs R.B., McPhee D.A., Deacon N.J.
    Submitted (JAN-1998) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE.
    Strain: MBCD36Imported.

Entry informationi

Entry nameiO92898_9HIV1
AccessioniPrimary (citable) accession number: O92898
Entry historyi
Integrated into UniProtKB/TrEMBL: November 1, 1998
Last sequence update: November 1, 1998
Last modified: July 6, 2016
This is version 123 of the entry and version 1 of the sequence. [Complete history]
Entry statusiUnreviewed (UniProtKB/TrEMBL)

Miscellaneousi

Keywords - Technical termi

Multifunctional enzymeSAAS annotation

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.