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Table 6 Hits to viral proteins from structural prediction analyses

From: In silico analyses of mitochondrial ORFans in freshwater mussels (Bivalvia: Unionoida) provide a framework for future studies of their origin and function

Gene Hit Function Position
Aan-MORF Nucleoprotein, Andes virus [Atome 2; 41.16] Nucleoprotein NA
Regulatory protein MNT, Enterobacteria phage P22 [Atome 2; 21.14] Gene regulation NA
Upe-MORF Uncharacterized protein 56B, Sulfolobus islandicus [Atome 2; 27.96] Transcription repressor NA
Pgr-MORF Matrix protein 1, Influenza A virus [Atome 2; 39.16] Matrix protein NA
Helix-destabilizing protein, Enterobacteria phage T7 [Atome 2; 18.55] DNA binding protein NA
Ija-MORF Nonstructural protein 5A, Bovine viral diarrhea virus 1-CP7 [Atome 2; 33.37] Membrane protein NA
Functional anti-apoptotic factor vBCL-2 homolog, Human herpesvirus 8 [Atome 2; 27.14] Apoptosis NA
Sca-MORF Nonstructural protein 5A, Bovine viral diarrhea virus 1-CP7 [Atome 2; 22.35] Membrane protein NA
Vel-MORF Macrophage galactose N-acetyl-galactosamine specific lectin 2 [Hhpred; 93.40] C-type lectin 20–171
RhUL123, Macacine herpesvirus 3 [I-TASSER; TM score 0.671] Viral life cycle NA
Phosphoprotein, Measels virus [Atome 2; 49.33] Unknown function NA
Tail needle protein gp26, Enterobacteria phage P22 [Atome 2; 48.96] Fibrous protein NA
Qqu-MORF Virion RNA polymerase, Bacteriophage n4 [I-TASSER; TM score 0.542] Transferase NA
Cmo-MORF No hits to viral proteins   
Hme-MORF Nucleoprotein, Andes virus [Atome 2; 63.91] Nucleoprotein NA
Aan-FORF No hits to viral proteins   
Upe-FORF BM2 protein, Influenza B virus (B/Taiwan/70061/2006) [Atome 2; 42.29] Transport protein NA
Pgr-FORF V-cyclin, Human herpesvirus 8 [I-TASSER; norm. TM score 0.517] Cell cycle NA
Lco-FORF Herpes simplex virus protein ICP47, Herpes simplex virus (type 1/strain 17) [Atome 2; 46.61] Membrane protein NA
Ija-FORF Non-structural RNA-binding protein 34, Simian rotavirus A/SA11 (2) [Atome 2; 48.04, 28.60] Translation NA
Sca-FORF Major capsid protein (protein P3), Enterobacteria phage PRD1 [Atome 2; 80.01] Capsid protein NA
Tli-FORF Envelope protein E, Dengue virus 2 Thailand/16681/84 [Atome 2; 46.45] Envelope protein NA
Vel-FORF V1V2 region of HIV-1 on 1FD6 scaffold, Human immunodeficiency virus 1 [Atome 2; 57.65] Immune system NA
Qqu-FORF HIV-1 matrix protein, Human immunodeficiency virus 1 (2) [Atome 2; 83.13, 72.79] Matrix protein NA
Mma-FORF ODV-E18: Occlusion-derived virus envelope protein ODV-E18 (2) [Hhpred; 72.05, 62.79] Envelope protein 21–62
Adenovirus fibre, Human adenovirus 2 [Atome 2; 27.29] Fibre protein 23–55
Fibre protein 2 (receptor-binding domain), Human adenovirus 41 [I-TASSER; 18.06] Fibre protein, receptor binding NA
NA
Cmo-FORF Virus attachment protein globular domain (49835) SCOP seed sequence: d1h7za [Hhpred; 21.78] Viral attachment, entry into host cell 50–68
Adenovirus fibre protein; cell receptor recognition, receptor, Human adenovirus type 3 [Hhpred; 21.71] Fibre protein, Cell receptor recognition 44–68
Fibre protein, Human adenovirus 37 [Atome 2; 31.21] NA
Fibre protein, Human adenovirus 2 [Atome 2; 30.90] NA
Type 5 fibre protein, Human adenovirus 5 [Atome 2; 30.46] NA
Fibre protein, Human adenovirus 41 [Atome 2; 24.60] NA
Hme-FORF Nucleoprotein, Influenza A virus [Atome 2; 80.49] RNA binding protein NA
Uim-HORFs HIV-1 capsid, Human immunodeficiency virus 1 [I-TASSER; TM score 0.513] Capsid protein NA
Gag Polyprotein, Human immunodeficiency virus 1 [I-TASSER; TM score 0.510] Precursor protein NA
Capsid protein P24, Human immunodeficiency virus type 2 [I-TASSER; TM score 0.504] Capsid protein NA
Nucleoprotein, Andes virus [Atome 2; 44.18] Nucleoprotein NA
Protein ICP47, Herpes simplex virus [Atome 2; 37.48] Membrane protein NA
LdOrf-129 peptide, Lymantria dispar multiple nucleopolyhedrovirus (2) [BLASTP, PSIBLAST; 2e-06, 7e-10] Structual protein 74–144
ORF-132 protein, Lymantria dispar multiple nucleopolyhedrovirus (2) [BLASTP, PSIBLAST; 4e-06, 2e-09] Unknown 74–131
orf-126 protein, Lymantria dispar multiple nucleopolyhedrovirus [PSIBLAST; 4e-08] Unknown 72–140
Central variable region protein, African swine fever virus [PSIBLAST; 6e-08, 7e-07] Unknown 60–154
Central variable region protein, African swine fever virus [PSIBLAST; 7e-08] Unknown 60–130
pB602L, African swine fever virus tick/South Africa/Pretoriuskop Pr4/1996 [PSIBLAST; 8e-08] Structural capsid protein, chaperone in capsid assembly (several hits) 65–153
U1, Hyposoter didymator ichnovirus [PSIBLAST; 3e-07] Spliceosomal RNA 65–137
gp7, Salmonella phage epsilon15 [I-TASSER; norm. Z-score 1.32] DNA transfer protein NA
Long tail fibre protein p37, Enterobacteria phage T4 [I-TASSER; norm. Z-score 1.30] Fibre protein 88–166
RhUL123, Macacine herpesvirus 3 [I-TASSER; TM score 0.617] Viral life cycle NA
Nucleoprotein, Andes virus [Atome 2; 39.59] Nucleoporin (several hits) NA
LdOrf-129 peptide, Lymantria dispar multiple nucleopolyhedrovirus [PSIBLAST; 8e-10] Structual protein NA
ORF-132 protein, Lymantria dispar multiple nucleopolyhedrovirus [PSIBLAST; 5e-09] Unknown NA
DNA stabilization protein, Salmonella phage HK620 [I-TASSER; Z-score 1.09] DNA binding & stabilization 87–188
Hexon protein, Human adenovirus 5 [I-TASSER; Z-score 1.01] Major coat protein 139–223
Human T-cell leukemia virus type II matrix protein, Human T-lymphotropic virus 2 [I-TASSER; Z-score 1.00] Matrix protein NA
Herpes simplex virus protein ICP47, Herpes simplex virus (type 1/strain 17) [Atome 2; 1.72] Blocks the major histocompatibility complex class I antigen presentation pathway NA
Lco-HORFs Long tail fiber protein P37, Enterobacteria phage T4 [I-TASSER; Z-score 1.01] Receptor binding viral protein NA
Capsid protein, Rubella virus strain M33 [Atome 2; 83.05] Capsid component NA
VPU protein, Human immunodeficiency virus 1 [Atome 2; 43.79] Regulates degradation of receptor molecule CD4 (several hits) NA
Lsu-HORFs Major capsid protein, Synechococcus phage Syn5 [I-TASSER; Z-score 1.66] Capsid component NA
RhUL123, Macacine herpesvirus 3 [I-TASSER; TM score 0.547] Viral life cycle 69–195
Herpes virus major outer envelope glycoprotein (BLLF1) [BLASTP/PSIBLAST; 2.73e-03] Envelope protein NA
Short tail fiber protein, Enterobacteria phage T4 [I-TASSER; Z-score 2.14] Structural protein NA
Major capsid protein, Synechococcus phage Syn5 [I-TASSER; Z-score 2.19] Capsid component (several hits) NA
Coat protein, Enterobacteria phage P22 [I-TASSER; TM score 0.520] Coat component NA
Herpes virus major outer envelope glycoprotein (BLLF1) [BLASTP/PSIBLAST; 4.85e-04] Envelope protein NA
Tpa-HORF VPU protein (Trans-membrane domain), Human immunodeficiency virus 1 [Atome 2; 33.16] Regulates degradation of receptor molecule CD4 (several hits) NA
Mfa-HORFs ODV-E18: Occlusion-derived virus envelope protein ODV-E18 [Hhpred; 74.97] Envelope protein (several hits) 33–73
Herpes_TK_C: Thymidine kinase from Herpesvirus C-terminal, Herpesvirus (2) [Hhpred; 48.70, 48.13] ATP binding, thymidine kinase (several hits) 33–73
Adenovirus fibre, Human adenovirus 2 [Atome 2; 34.11] Fibre protein, receptor binding (several hits) NA
  1. Note: I-TASSER: Norm. Z-score > 1 indicates a good alignment; TM-score > 0.5 indicates a similar fold with query [46]; position = amino acid position in the query sequence; NA not applicable