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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)DescriptionActionsGraphical viewLength
Active sitei105PROSITE-ProRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri878 – 919Integrase-typePROSITE-ProRule annotationAdd BLAST42
DNA bindingi1096 – 1144Integrase-typePROSITE-ProRule annotationAdd BLAST49

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)DescriptionActionsGraphical viewLength
ChainiPRO_00000388321 – 195ProteaseAdd BLAST195
ChainiPRO_0000038833196 – 914Reverse transcriptase/ribonuclease HAdd BLAST719
ChainiPRO_0000038834915 – 1146IntegraseAdd BLAST232

Post-translational modificationi

Specific enzymatic cleavages in vivo yield mature proteins.

Keywords - PTMi

Cleavage on pair of basic residues

Proteomic databases

PRIDEiP32542.

Structurei

Secondary structure

11146
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi85 – 87Combined sources3
Beta strandi90 – 95Combined sources6
Beta strandi98 – 104Combined sources7
Beta strandi112 – 114Combined sources3
Helixi115 – 120Combined sources6
Beta strandi133 – 135Combined sources3
Beta strandi138 – 140Combined sources3
Beta strandi143 – 151Combined sources9
Beta strandi154 – 164Combined sources11
Helixi172 – 177Combined sources6

3D structure databases

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

Miscellaneous databases

EvolutionaryTraceiP32542.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini100 – 174Peptidase A2PROSITE-ProRule annotationAdd BLAST75
Domaini230 – 419Reverse transcriptasePROSITE-ProRule annotationAdd BLAST190
Domaini617 – 740RNase HPROSITE-ProRule annotationAdd BLAST124
Domaini921 – 1078Integrase catalyticPROSITE-ProRule annotationAdd BLAST158

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)DescriptionActionsGraphical viewLength
Zinc fingeri878 – 919Integrase-typePROSITE-ProRule annotationAdd BLAST42

Keywords - Domaini

Zinc-finger

Family and domain databases

CDDicd07557. trimeric_dUTPase. 1 hit.
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.
IPR033704. dUTPase_trimeric.
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
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1EQImodel-A/B81-184[»]
1FMBX-ray1.80A81-184[»]
2FMBX-ray1.80A81-184[»]
ProteinModelPortaliP32542.
SMRiP32542.
ModBaseiSearch...
MobiDBiSearch...

Protein family/group databases

MEROPSiA02.004.

Proteomic databases

PRIDEiP32542.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Enzyme and pathway databases

BRENDAi3.4.23.B3. 2115.

Miscellaneous databases

EvolutionaryTraceiP32542.

Family and domain databases

CDDicd07557. trimeric_dUTPase. 1 hit.
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.
IPR033704. dUTPase_trimeric.
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...

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: November 2, 2016
This is version 132 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.