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Protein

Pol polyprotein

Gene

pol

Organism
Equine infectious anemia virus (isolate CL22) (EIAV)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

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.
Deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1).PROSITE-ProRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Active sitei105 – 1051PROSITE-ProRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri878 – 91942Integrase-typePROSITE-ProRule annotationAdd
BLAST
DNA bindingi1096 – 114449Integrase-typePROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

GO - Biological processi

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, Viral genome integration, Virus entry into host cell

Keywords - Ligandi

DNA-binding, Metal-binding, Zinc

Enzyme and pathway databases

BRENDAi3.4.23.B3. 2115.

Protein family/group databases

MEROPSiA02.004.

Names & Taxonomyi

Protein namesi
Recommended name:
Pol polyprotein
Cleaved into the following 3 chains:
Alternative name(s):
Retropepsin (EC:3.4.23.-)
Alternative name(s):
Exoribonuclease H (EC:3.1.13.2)
Integrase (EC:2.7.7.-By similarity, EC:3.1.-.-By similarity)
Short name:
IN
Gene namesi
Name:pol
OrganismiEquine infectious anemia virus (isolate CL22) (EIAV)
Taxonomic identifieri31675 [NCBI]
Taxonomic lineageiVirusesRetro-transcribing virusesRetroviridaeOrthoretrovirinaeLentivirusEquine lentivirus group
Virus hostiEquus asinus (Donkey) (Equus africanus asinus) [TaxID: 9793]
Equus caballus (Horse) [TaxID: 9796]

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 195195ProteasePRO_0000038832Add
BLAST
Chaini196 – 914719Reverse transcriptase/ribonuclease HPRO_0000038833Add
BLAST
Chaini915 – 1146232IntegrasePRO_0000038834Add
BLAST

Post-translational modificationi

Specific enzymatic cleavages in vivo yield mature proteins.

Keywords - PTMi

Cleavage on pair of basic residues

Structurei

Secondary structure

1
1146
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi85 – 873Combined sources
Beta strandi90 – 956Combined sources
Beta strandi98 – 1047Combined sources
Beta strandi112 – 1143Combined sources
Helixi115 – 1206Combined sources
Beta strandi133 – 1353Combined sources
Beta strandi138 – 1403Combined sources
Beta strandi143 – 1519Combined sources
Beta strandi154 – 16411Combined sources
Helixi172 – 1776Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1EQImodel-A/B81-184[»]
1FMBX-ray1.80A81-184[»]
2FMBX-ray1.80A81-184[»]
ProteinModelPortaliP32542.
SMRiP32542. Positions 81-184, 742-861.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP32542.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini100 – 17475Peptidase A2PROSITE-ProRule annotationAdd
BLAST
Domaini230 – 419190Reverse transcriptasePROSITE-ProRule annotationAdd
BLAST
Domaini617 – 740124RNase HPROSITE-ProRule annotationAdd
BLAST
Domaini921 – 1078158Integrase 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 fingeri878 – 91942Integrase-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.
IPR001995. Peptidase_A2_cat.
IPR021109. Peptidase_aspartic_dom.
IPR018061. Retropepsins.
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.

P32542-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
TAWTFLKAMQ KCSKKREARG SREAPETNFP DTTEESAQQI CCTRDSSDSK
60 70 80 90 100
SVPRSERNKK GIQCQGEGSS RGSQPGQFVG VTYNLEKRPT TIVLINDTPL
110 120 130 140 150
NVLLDTGADT SVLTTAHYNR LKYRGRKYQG TGIIGVGGNV ETFSTPVTIK
160 170 180 190 200
KKGRHIKTRM LVADIPVTIL GRDILQDLGA KLVLAQLSKE IKFRKIELKE
210 220 230 240 250
GTMGPKIPQW PLTKEKLEGA KEIVQRLLSE GKISEASDNN PYNSPIFVIK
260 270 280 290 300
KRSGKWRLLQ DLRELNKTVQ VGTEISRGLP HPGGLIKCKH MTVLDIGDAY
310 320 330 340 350
FTIPLDPEFR PYTAFTIPSI NHQEPDKRYV WNCLPQGFVL SPYIYQKTLQ
360 370 380 390 400
EILQPFRERY PEVQLYQYMD DLFVGSNGSK KQHKELIIEL RAILLEKGFE
410 420 430 440 450
TPDDKLQEVP PYSWLGYQLC PENWKVQKMQ LDMVKNPTLN DVQKLMGNIT
460 470 480 490 500
WMSSGVPGLT VKHIAATTKG CLELNQKVIW TEEAQKELEE NNEKIKNAQG
510 520 530 540 550
LQYYNPEEEM LCEVEITKNY EATYVIKQSQ GILWAGKKIM KANKGWSTVK
560 570 580 590 600
NLMLLLQHVA TESITRVGKC PTFKVPFTKE QVMWEMQKGW YYSWLPEIVY
610 620 630 640 650
THQVVHDDWR MKLVEEPTSG ITIYTDGGKQ NGEGIAAYVT SNGRTKQKRL
660 670 680 690 700
GPVTHQVAER MAIQMALEDT RDKQVNIVTD SYYCWKNITE GLGLEGPQSP
710 720 730 740 750
WWPIIQNIRE KEIVYFAWVP GHKGICGNQL ADEAAKIKEE IMLAYQGTQI
760 770 780 790 800
KEKRDEDAGF DLCVPYDIMI PVSDTKIIPT DVKIQVPPNS FGWVTGKSSM
810 820 830 840 850
AKQGLLINGG IIDEGYTGEI QVICTNIGKS NIKLIEGQKF AQLIILQHHS
860 870 880 890 900
NSRQPWDENK ISQRGDKGFG STGVFWVENI QEAQDEHENW HTSPKILARN
910 920 930 940 950
YKIPLTVAKQ ITQECPHCTK QGSGPAGCVM RSPNHWQADC THLDNKIILT
960 970 980 990 1000
FVESNSGYIH ATLLSKENAL CTSLAILEWA RLFSPKSLHT DNGTNFVAEP
1010 1020 1030 1040 1050
VVNLLKFLKI AHTTGIPYHP ESQGIVERAN RTLKEKIQSH RDNTQTLEAA
1060 1070 1080 1090 1100
LQLALITCNK GRESMGGQTP WEVFITNQAQ VIHEKLLLQQ AQSSKKFCFY
1110 1120 1130 1140
KIPGEHDWKG PTRVLWKGDG AVVVNDEGKG IIAVPLTRTK LLIKPN
Length:1,146
Mass (Da):129,509
Last modified:October 1, 1993 - v1
Checksum:iC14058EAF93F3F5D
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M87581 Genomic RNA. Translation: AAA43004.1.
PIRiB41991. GNLJ22.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M87581 Genomic RNA. Translation: AAA43004.1.
PIRiB41991. GNLJ22.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1EQImodel-A/B81-184[»]
1FMBX-ray1.80A81-184[»]
2FMBX-ray1.80A81-184[»]
ProteinModelPortaliP32542.
SMRiP32542. Positions 81-184, 742-861.
ModBaseiSearch...
MobiDBiSearch...

Protein family/group databases

MEROPSiA02.004.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Enzyme and pathway databases

BRENDAi3.4.23.B3. 2115.

Miscellaneous databases

EvolutionaryTraceiP32542.

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.
IPR001995. Peptidase_A2_cat.
IPR021109. Peptidase_aspartic_dom.
IPR018061. Retropepsins.
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]
ProtoNetiSearch...

Publicationsi

  1. "The surface envelope protein gene region of equine infectious anemia virus is not an important determinant of tropism in vitro."
    Perry S.T., Flaherty M.T., Kelley M.J., Clabough D.L., Tronick S.R., Coggins L., Whetter L., Lengel C.R., Fuller F.
    J. Virol. 66:4085-4097(1992) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
  2. "Molecular model of equine infectious anemia virus proteinase and kinetic measurements for peptide substrates with single amino acid substitutions."
    Weber I.T., Tozser J., Wu J., Friedman D., Oroszlan S.
    Biochemistry 32:3354-3362(1993) [PubMed] [Europe PMC] [Abstract]
    Cited for: 3D-STRUCTURE MODELING OF 81-184.
  3. "Structure of equine infectious anemia virus proteinase complexed with an inhibitor."
    Gustchina A., Kervinen J., Powell D.J., Zdanov A., Kay J., Wlodawer A.
    Protein Sci. 5:1453-1465(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (1.8 ANGSTROMS) OF 81-184.

Entry informationi

Entry nameiPOL_EIAVC
AccessioniPrimary (citable) accession number: P32542
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 1, 1993
Last sequence update: October 1, 1993
Last modified: January 20, 2016
This is version 129 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Multifunctional enzyme

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. Peptidase families
    Classification of peptidase families and list of entries
  3. SIMILARITY comments
    Index of protein domains and families

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.