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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

ProteinModelPortaliO92888.
SMRiO92888. Positions 2-436, 498-1147, 1165-1434.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini396 – 41116CCHC-typeInterPro annotationAdd
BLAST
Domaini418 – 43316CCHC-typeInterPro annotationAdd
BLAST
Domaini525 – 59470Peptidase A2InterPro annotationAdd
BLAST
Domaini648 – 838191Reverse transcriptaseInterPro annotationAdd
BLAST
Domaini1038 – 1161124RNase HInterPro annotationAdd
BLAST
Domaini1167 – 120842Integrase-typeInterPro annotationAdd
BLAST
Domaini1218 – 1368151Integrase catalyticInterPro annotationAdd
BLAST
Domaini1387 – 143448Integrase-type DNA-bindingInterPro annotationAdd
BLAST

Coiled coil

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Coiled coili87 – 12438Sequence 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.

O92888-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MGARASILSG GKLDRWEKIR LRPGGKKKYK LKHIVWASRE LERFAVNPGL
60 70 80 90 100
LETSEGCRQI LGQLHPSLQT GSEELKSVYN AVAVLYCVHQ NIDIKDTKEA
110 120 130 140 150
LEKIEEEQNK CKKKAQQAAA QQAAAGTGNS NPVSQNYPIV QNMQGQMVHQ
160 170 180 190 200
AISPRTLNAW VKVIEEKAFS PEVIPMFSAL SEGATPQDLN TMLNTVGGHQ
210 220 230 240 250
AAMQMLKETI NEEAAEWDRL HPAQAGPVAP GQMRDPRGSD IAGTTSTLQE
260 270 280 290 300
QIGWMTGNPA IPVGEIYKRW IILGLNKIVR MYSPISILDI KQGPKEPFRD
310 320 330 340 350
YVDRFYKTLR AEQATQEVKN WMTETLLVQN ANPDCKTILK ALGPAATLEE
360 370 380 390 400
MMTACQGVGG PSHKARVLAE AMSQATNAAT VMMQRSNFRN QRKNVKCFNC
410 420 430 440 450
GKEGHIARNC RAPRKRGCWK CGKEGHQMKD CTERQAKFFR ENLAFPQGEA
460 470 480 490 500
RELSSEQTRA NSPSPEQAGA ISPTRRELQV WGRDNNSLSE AGADRQGQQP
510 520 530 540 550
VSFSFPQITL WQRPLVTIKI GGQLKEALLD TGADDTVLED MHLPGKWKPK
560 570 580 590 600
MIGGIGGFIK VKQYDEILVE ICGHKAIGTV LVGPTPVNII GRNLLTQIGC
610 620 630 640 650
TLNFPISPIE TVPVSLKPGM DGPKVKQWPL TEEKIKALVE ICTEMEKEGK
660 670 680 690 700
ISKIGPENPY NTPVFAIRKK DGTKWRKLVD FRELNKRTQD FWEVQLGIPH
710 720 730 740 750
PSGLKKKRSV TVLDVGDAYF SVPLDENFRK YTAFTIPSIN NETPGIRYQY
760 770 780 790 800
NVLPQGWKGS PAIFQSSMTR ILEPFRRQNP DIVIYQYMDD LYVGSDLEIG
810 820 830 840 850
QHRIKIEELR QHLLKWGFTT PDKKHQKEPP FLWMGYELHP DKWTVQPIVL
860 870 880 890 900
PEKDSWTVND IQKLVGKLNW ASQIYPGIKV RQLCKLLRGT KALTEVIPLT
910 920 930 940 950
EEAELELAEN REILREPVHG VYYDPSKDLI AEVQKQGEGQ WTYQIYQDQF
960 970 980 990 1000
RNLKTGKYAR MRGAHTNDVK QLTEAVQKIA TESIVIWGKT PKFRLPIQKE
1010 1020 1030 1040 1050
TWDAWWTEYW QATWIPEWEF VNTPPLVKLW YQLEKEPITG AETFYVDGAA
1060 1070 1080 1090 1100
NRETKLGKAG YVTDRGRQKV VSLADTTNQK TELQAIHLAL QDSGSEVNIV
1110 1120 1130 1140 1150
TDSQYALGII QAQPDKSESE IVNNIIEQLI KKEKVYLAWV PAHKGIGGNE
1160 1170 1180 1190 1200
KVDKLVSTGI RKVLFLDGID RAQEDHEKYH SNWRAMASDF NLPPIVAKEI
1210 1220 1230 1240 1250
VASCDKCQLK GEAMHGQVDC SPGIWQLDCT HLEGKIILVA VHVASGYIEA
1260 1270 1280 1290 1300
EVIPAETGQE TAYFILKLAG RWPVTTIHTD NGSNFISTTV KAACWWAGIK
1310 1320 1330 1340 1350
QEFGTPYNPQ SQGVVESMNK ELKKIIGQVR DQAEHLKTAV QMAVFIHNFK
1360 1370 1380 1390 1400
RKGGIGGYSA GERIVDIIAS DIQTKELQKQ ITKIQNFRVY YRDNRDPLWK
1410 1420 1430 1440 1450
GPAKLLWKGE GAVVIQDNSD IKVVPRRKVK IIRDYGKQMA GDDCVASRQD

ED
Length:1,452
Mass (Da):163,532
Last modified:November 1, 1998 - v1
Checksum:i63D5FCD4767766C9
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF042102 Genomic DNA. Translation: AAD03209.1.
PIRiC47330.

Keywords - Coding sequence diversityi

Ribosomal frameshiftingSAAS annotation

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF042102 Genomic DNA. Translation: AAD03209.1.
PIRiC47330.

3D structure databases

ProteinModelPortaliO92888.
SMRiO92888. Positions 2-436, 498-1147, 1165-1434.
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. "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: C18Imported.

Entry informationi

Entry nameiO92888_9HIV1
AccessioniPrimary (citable) accession number: O92888
Entry historyi
Integrated into UniProtKB/TrEMBL: November 1, 1998
Last sequence update: November 1, 1998
Last modified: June 8, 2016
This is version 124 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.