Gene

KWMTBOMO04930

Pre Gene Modal

BGIBMGA002957

Annotation

PREDICTED:_zinc_finger_CCHC_domain-containing_protein_13-like_[Bombyx_mori]

Location

Bomo_Chr9(+):1883945-1884564      View in EpiBrowser

Full name

Gag polyprotein      

Location in the cell

Nuclear   Reliability : 2.111

CDS

ATGCCAGGCCCATGCATTGACGGATTTGAGACCGCTGAGAAACACAGGCGATATAAAATGCGACGTGTCACCCAAACCGATGCGGAGGTTATTCCAACGTTCCGGCCGGATGAAAAATCTAGCAACGTCAAGGGATGGCTGCACAAGATCGACCAGTTGGATCACGTATATGGATGGGACAACAAAGACTGCCAGTTCATCATGCAGATATGTCTTCGTGGGTCGGCTAGGGATTGTGCGATACACCACCGCAACTATACTACACATCCGCGAATGGCTACCACATGGAGAAGAGAAGGTGCTGTTGCTCCAGTTGCAAGAGGGACCGACTTTCAACCAAAGAAATGTTACGCCTGCCGAAGAGAAGGTCATGAAACAAAGAACTGCAAAGAGCCGCGCTGCGAGGTGTGCCATCGCCCGGGACACACGTCGGTCAGCTGA

Protein

MPGPCIDGFETAEKHRRYKMRRVTQTDAEVIPTFRPDEKSSNVKGWLHKIDQLDHVYGWDNKDCQFIMQICLRGSARDCAIHHRNYTTHPRMATTWRREGAVAPVARGTDFQPKKCYACRREGHETKNCKEPRCEVCHRPGHTSVS

Catalytic Activity

3'-end directed exonucleolytic cleavage of viral RNA-DNA hybrid.
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.
a 2'-deoxyribonucleoside 5'-triphosphate + DNA(n) = diphosphate + DNA(n+1)

Cofactor

Mg(2+)

Similarity

Belongs to the primate lentivirus group gag polyprotein family.

Uniprot

H9J0C1   H9JKH1   Q87621   V9QIN8   Q8ADE9   Q79351   + More
Q8ADV1   D3X833   Q80634   A9Y691   Q7SPP5   C9DWL7   Q8AC28   Q9J6W5   Q6JFX9   C9DX50   A0A386QZH4   C7G2K5   Q8AC47   Q5U6W1   B6DQT6   Q5U6V8   U6BH18   D3X851   W5VSJ1   C7ASC4   C7ARR4   Q7ZNK7   C0LMV3   A0A2L1KVN3   A0A1I9WBM0  

Pubmed

19121390    8661445    12487816    8363755    18544023    22039546    + More
10590125    15186532    15767414    19678768    29389981   

EMBL

BABH01010590    BABH01024735    BABH01024736    U42720    AAB47723.1    KF859747    + More
AHC30187.1    AF484513    AAN73754.1    L11769    AAA44689.1    AF484494    AAN73583.1    GU245717    ADD31665.1    L11796    AAA45298.1    EU110090    ABW86715.1    AJ519489    CAD59562.1    GQ431214    ACV94279.1    AAN73755.1    AF184496    AAF28628.1    AY492788    AAT06727.1    GQ431487    ACV94462.1    MH971628    AYE55483.1    AB485658    AB485659    BAH97586.1    AAN73584.1    AY803367    AAV50140.1    FJ155131    ACI05374.1    AY803372    AAV50143.1    KF716490    AHA33898.1    GU245738    ADD31683.1    KF823032    AHH85799.1    FJ606395    ACU31735.1    FJ606185    ACU31525.1    AJ488927    CAD44561.1    CAD58643.1    FJ744747    ACN62550.1    MF109383    AVE26584.1    KU921966    APA29369.1   

Proteomes

UP000005204    UP000246900    UP000133248    UP000152580    UP000124046    UP000102958    + More
UP000181125    UP000112137    UP000180862    UP000118657    UP000133307   

PRIDE

H9J0C1    H9JKH1   

Pfam

PF00540   Gag_p17        + More
PF00607   Gag_p24
PF00098   zf-CCHC
PF08705   Gag_p6
PF00552   IN_DBD_C
PF06815   RVT_connect
PF06817   RVT_thumb
PF00077   RVP
PF00665   rve
PF02022   Integrase_Zn
PF00075   RNase_H
PF00078   RVT_1

Interpro

IPR036875   Znf_CCHC_sf        + More
IPR001878   Znf_CCHC       
IPR010999   Retrovr_matrix       
IPR000071   Lentvrl_matrix_N       
IPR000721   Gag_p24       
IPR008919   Retrov_capsid_N       
IPR008916   Retrov_capsid_C       
IPR012344   Matrix_HIV/RSV_N       
IPR014817   Gag_p6       
IPR010659   RVT_connect       
IPR012337   RNaseH-like_sf       
IPR036862   Integrase_C_dom_sf_retrovir       
IPR001969   Aspartic_peptidase_AS       
IPR001584   Integrase_cat-core       
IPR003308   Integrase_Zn-bd_dom_N       
IPR001995   Peptidase_A2_cat       
IPR000477   RT_dom       
IPR010661   RVT_thumb       
IPR002156   RNaseH_domain       
IPR018061   Retropepsins       
IPR036397   RNaseH_sf       
IPR021109   Peptidase_aspartic_dom_sf       
IPR001037   Integrase_C_retrovir       
IPR034170   Retropepsin-like_cat_dom       
IPR017856   Integrase-like_N       

SUPFAM

SSF57756   SSF57756        + More
SSF47836   SSF47836       
SSF47943   SSF47943       
SSF50630   SSF50630       
SSF46919   SSF46919       
SSF53098   SSF53098       
SSF50122   SSF50122       

Gene 3D

1.10.1200.30     1.10.150.90     1.10.375.10     1.10.10.200     2.30.30.10     2.40.70.10     3.30.420.10    

CDD

cd05482  HIV_retropepsin_like

ProteinModelPortal

H9J0C1   H9JKH1   Q87621   V9QIN8   Q8ADE9   Q79351   + More
Q8ADV1   D3X833   Q80634   A9Y691   Q7SPP5   C9DWL7   Q8AC28   Q9J6W5   Q6JFX9   C9DX50   A0A386QZH4   C7G2K5   Q8AC47   Q5U6W1   B6DQT6   Q5U6V8   U6BH18   D3X851   W5VSJ1   C7ASC4   C7ARR4   Q7ZNK7   C0LMV3   A0A2L1KVN3   A0A1I9WBM0  

PDB

5O2U     E-value=0.018454,     Score=83

KEGG

101744763    no KO assigned | (RefSeq) zinc finger CCHC domain-containing protein 13-like

GO

GO:0008270   GO:0003676   GO:0039702   GO:0030430   GO:0003723   GO:0019013   GO:0042025   GO:0005198   GO:0004533   GO:0039657   GO:0046718   GO:0004190   GO:0006310   GO:0003964   GO:0016020   GO:0075732   GO:0020002   GO:0003677   GO:0015074   GO:0003887   GO:0044826   GO:0075713   GO:0004523   GO:0016032   GO:0030170   GO:0003870   GO:0033014   GO:0007166   GO:0006032   GO:0005515   GO:0016742   GO:0003824  

Subcellular location

Virion  
Host nucleus  
Host cytoplasm  
Host cell membrane  

Length:

146

Number of predicted TMHs:

0

Exp number of AAs in TMHs:

0

Exp number, first 60 AAs:

0

Total prob of N-in:

0.02330

outside

1  -  146

 

 

Pi

292.821673

Theta

173.589023

Tajima's D

2.160735

CLR

6.375663

CSRT

0.903804809759512

Interpretation

Uncertain