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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

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

ProteinModelPortaliO90158.
SMRiO90158. Positions 2-432, 487-1128, 1146-1415.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini391 – 40616CCHC-typeInterPro annotationAdd
BLAST
Domaini413 – 42816CCHC-typeInterPro annotationAdd
BLAST
Domaini506 – 57570Peptidase A2InterPro annotationAdd
BLAST
Domaini629 – 819191Reverse transcriptaseInterPro annotationAdd
BLAST
Domaini1019 – 1142124RNase HInterPro annotationAdd
BLAST
Domaini1148 – 118942Integrase-typeInterPro annotationAdd
BLAST
Domaini1199 – 1349151Integrase catalyticInterPro annotationAdd
BLAST
Domaini1368 – 141548Integrase-type DNA-bindingInterPro annotationAdd
BLAST

Coiled coil

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Coiled coili87 – 12135Sequence analysisAdd
BLAST
Coiled coili1296 – 132025Sequence 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. 2 hits.
[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. 2 hits.
PS50876. ZF_INTEGRASE. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

O90158-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MGARASVLSG GKLDSWEKIR LRPGGKKKYK LKHIVWASRE LERFAVNPGL
60 70 80 90 100
LETSEGCRQI LGQLQPSLQT GSEELRSLYN TVATLYCVHE RIEVKDTKEA
110 120 130 140 150
LDKVEEEQNK SKKKAQQAAA DTGNSSQVSQ NYPIVQNIQG QMVHQALSPR
160 170 180 190 200
TLNAWVKVVE EKAFSPEVIP MFSALSEGAT PQDLNTMLNT VGGHQAAMQM
210 220 230 240 250
LKETINEEAA EWDRLHPVHA GPIAPGQMRE PRGSDIAGTT STLQEQIGWM
260 270 280 290 300
TNNPPIPVGE IYKRWIIMGL NKIVRMYSPT SILDIRQGPK EPFRDYVDRF
310 320 330 340 350
YKTLRAEQAS QEVKNWMTET LLVQNSNPDC KTILKALGPG ATLEEMMTAC
360 370 380 390 400
QGVGGPGHKA RVLAEAMSQI TNTSATIMMQ GGNFRNQRKI KCFNCGKEGH
410 420 430 440 450
ISKNCRAPRK KGCWKCGKEG HQMKDCTERQ ANFFRENLAF PQGKAREFSS
460 470 480 490 500
EQTRAISPTR RELQVWGGDS NSLSEAGAEG TISLSLPQIT LWQRPLVKIK
510 520 530 540 550
IGGQLKEALL DTGADDTVLE EINLPGKWKP KMIGGIGGFI KVRQYDQVLI
560 570 580 590 600
EICGHKAIGT VLVGPTPVNI IGRNLLTQIG CTLNFPISPI ETVPVKLKPG
610 620 630 640 650
MDGPRVKQWP LSEEKIKALT EICTEMEKEG KISKIGPENP YNTPIFAIKK
660 670 680 690 700
KNSTRWRKLV DFRELNKRTQ DFWEVQLGIP HPAGLKKKKS VTVLDVGDAY
710 720 730 740 750
FSIPLDEDFR KYTAFTIPSV NNAAPGIRYQ YNVLPQGWKG SPAIFQSSMT
760 770 780 790 800
KILEPFRKQN PDIVIYQYMD DLYVGSDLEI EQHRTKIEEL RQHLLRWGLF
810 820 830 840 850
TPDQKHQKEP PFLWMGYELH PDKWTVQPIV LPEKDSWTVN DIQKLVGKLN
860 870 880 890 900
WASQIYAGIK VKQLCKLLRG AKALTEVIPL TEEAELELAE NREILKEPVH
910 920 930 940 950
GVYYDPSKDI IAEIQKQGQG QWTYQIYQEP FKNLKTGKYA RTRGAHTNDV
960 970 980 990 1000
KQLTEVVQKV TTECIVIWGK TPKFRLPIQK ETWETWWTEY WQATWIPEWE
1010 1020 1030 1040 1050
FVNTPPLVKL WYQLEKEPIV GAETFYVDGA ASRETRLGKA GYVTNRGRQK
1060 1070 1080 1090 1100
VVSLTDTTNQ KTELQAIYLA LQDSGLEVNI VTDSQYALGI IQAQPDKSES
1110 1120 1130 1140 1150
ELVNQIIEQL IKKEKVYLAW VPAHKGIGGN EQVDKLVSTG IRRVLFLDGI
1160 1170 1180 1190 1200
EKAQEEHEKY HSNWRAMASE FNLPAVVAKE IVACCDKCQV KGEAMHGQVD
1210 1220 1230 1240 1250
CSPGIWQLDC THLEGKVILV AVHVASGYIE AEVIPAETGQ ETAYFILKLA
1260 1270 1280 1290 1300
GRWPVKTIHT DNGSNFTSTT VKAACWWAGI KQEFGIPYNP QSQGVVESMN
1310 1320 1330 1340 1350
KELKKIIEQV RDQAEHLKTA VQMAVFIHNF KRKGGIGGYS AGERIVDIIA
1360 1370 1380 1390 1400
SDIQTKELQK QITKIQNFRV YYRDSRDPLW KGPAKLLWKG EGAVVIQDKS
1410 1420 1430
DIKVVPRRKA KIIRDYGKQM AGDDCVASRQ DED
Length:1,433
Mass (Da):161,608
Last modified:November 1, 1998 - v1
Checksum:i93693DFF3376088D
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF069140 Genomic DNA. Translation: AAD03326.1.

Keywords - Coding sequence diversityi

Ribosomal frameshiftingSAAS annotation

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF069140 Genomic DNA. Translation: AAD03326.1.

3D structure databases

ProteinModelPortaliO90158.
SMRiO90158. Positions 2-432, 487-1128, 1146-1415.
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. 2 hits.
[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. 2 hits.
PS50876. ZF_INTEGRASE. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "Isolation and characterization of a syncytium-inducing, macrophage/T-cell line-tropic human immunodeficiency virus type 1 isolate that readily infects chimpanzee cells in vitro and in vivo."
    Shibata R., Hoggan M.D., Broscius C., Englund G., Theodore T.S., Buckler-White A., Arthur L.O., Israel Z., Schultz A., Lane H.C., Martin M.A.
    J. Virol. 69:4453-4462(1995) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE.
  2. "Identification of determinants on a dualtropic human immunodeficiency virus type 1 envelope glycoprotein that confer usage of CXCR4."
    Cho M.W., Lee M.K., Carney M.C., Berson J.F., Doms R.W., Martin M.A.
    J. Virol. 72:2509-2515(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE.

Entry informationi

Entry nameiO90158_9HIV1
AccessioniPrimary (citable) accession number: O90158
Entry historyi
Integrated into UniProtKB/TrEMBL: November 1, 1998
Last sequence update: November 1, 1998
Last modified: June 8, 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.