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ORF40

Euk-Vir

Human_gammaherpesvirus_8

ORF40__YP_001129393__Human_gammaherpesvirus_8__37296

Identity

Accession:
YP_001129393 ↗
Protein ID:
ORF40
Kingdom:
euk

Quality

76.2 mean pLDDT

Taxonomy

Heunggongvirae› Peploviricota› Herviviricetes› Herpesvirales› Orthoherpesviridae› Rhadinovirus› Human_gammaherpesvirus_8

TaxID: 37296

Cluster

View cluster (61 members)

3D Structure

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Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 medium residues 1-122_198-224
PDB
Domain cluster: rep: helicase-primase_subunit__YP_004940263__Saimiriine_betaherpesvirus_4__1535247__D1-152
CATH (16)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3f1zI00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.72 42.0 4.69e-01 77.2% 73.3%
6ro0D00 2.40.50.110 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.71 49.0 5.65e-01 79.9% 94.5%
3kojB00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.69 42.0 5.21e-01 78.5% 98.9%
1iz6A01 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.65 25.0 3.57e-01 75.2% 72.5%
2hqlA01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.65 40.0 4.98e-01 77.9% 100.0%
4damC00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.64 42.0 5.06e-01 81.9% 99.0%
2cwaA01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.64 41.0 4.70e-01 81.2% 87.2%
1fguB01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.63 39.0 4.65e-01 76.5% 89.5%
3fhwA00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.63 40.0 4.80e-01 78.5% 96.0%
7pkwA01 3.10.450.540 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.58 26.0 3.12e-01 89.9% 58.3%
4htgA03 3.30.160.40 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Porphobilinogen deaminase, C-terminal domain 0.57 25.0 3.22e-01 70.5% 70.9%
1jb3A00 2.40.50.120 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.54 38.0 4.16e-01 80.5% 85.0%
2qkdA01 2.20.25.420 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › ZPR1, zinc finger domain 0.52 20.0 3.10e-01 88.6% 100.0%
3b1bA01 3.10.200.10 Alpha Beta › Roll › Carbonic Anhydrase II › Alpha carbonic anhydrase 0.52 45.0 3.53e-01 93.3% 79.1%
1luiA00 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.51 29.0 3.39e-01 91.3% 75.9%
3ecrB03 3.30.160.40 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Porphobilinogen deaminase, C-terminal domain 0.51 28.0 3.32e-01 73.8% 77.5%
ECOD (32)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4954092 2.1.1.15 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › tRNA_anti-codon 0.67 42.0 4.93e-01 80.5% 88.6%
5025884 243.3.1.0 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.67 26.0 3.80e-01 85.9% 77.1%
4974918 2.1.1.15 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › tRNA_anti-codon 0.66 40.0 4.69e-01 79.9% 84.8%
3963029 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.66 38.0 4.81e-01 78.5% 97.6%
5069068 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.65 38.0 4.65e-01 77.9% 90.4%
5036293 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.65 39.0 4.71e-01 80.5% 89.0%
5030516 2.1.1.15 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › tRNA_anti-codon 0.64 40.0 4.69e-01 79.9% 88.6%
3603237 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.64 39.0 4.59e-01 80.5% 86.7%
164228 2.1.1.54 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › DUF3217 0.64 41.0 4.83e-01 80.5% 92.3%
4934697 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.63 37.0 4.43e-01 76.5% 87.0%
4993852 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.63 40.0 4.62e-01 79.2% 87.3%
3690510 2.1.1.6 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.63 43.0 4.93e-01 79.9% 94.5%
5069792 2.1.1.15 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › tRNA_anti-codon 0.62 42.0 4.66e-01 80.5% 87.8%
3783432 2.1.1.6 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.62 43.0 5.02e-01 79.9% 100.0%
4327709 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.62 42.0 4.60e-01 98.7% 83.2%
3611898 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.62 41.0 4.48e-01 79.9% 80.8%
3392389 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.61 42.0 4.69e-01 79.9% 87.5%
5046475 2.2.1.0 ↗ beta barrels › OB-fold › Bacterial enterotoxins › Bacterial enterotoxins 0.61 44.0 4.79e-01 98.0% 91.7%
3601108 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.60 40.0 4.69e-01 79.9% 95.2%
4137219 2.1.1.6 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.60 40.0 4.73e-01 79.2% 100.0%
3651043 243.3.1.47 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin › DUF7074 0.59 30.0 3.69e-01 93.3% 75.8%
3645341 2.1.1.76 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › REPA_OB_2 0.59 41.0 3.97e-01 77.9% 64.2%
3274535 277.1.1.1 ↗ a+b two layers › PX domain › PX domain › PX domain › PX 0.58 41.0 4.65e-01 71.1% 98.2%
3326221 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.58 36.0 4.32e-01 74.5% 96.8%
5056519 504.1.1.0 ↗ a+b two layers › Bacterial protein-export protein SecB › Bacterial protein-export protein SecB › Bacterial protein-export protein SecB 0.54 39.0 4.27e-01 79.2% 91.7%
3595152 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.54 42.0 4.00e-01 81.2% 90.3%
3619317 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.54 42.0 4.27e-01 80.5% 85.5%
4961805 295.1.1.55 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain › PF26414 0.54 27.0 3.49e-01 91.9% 86.3%
3435849 243.3.1.0 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.54 29.0 3.62e-01 95.3% 86.4%
3470958 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.52 40.0 3.65e-01 79.2% 68.9%
4998689 512.1.1.2 ↗ a+b two layers › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › PmbA_TldD_2nd 0.51 28.0 3.13e-01 74.5% 68.2%
3805954 2484.1.1.67 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RVT_3 0.50 35.0 3.94e-01 87.9% 96.4%
D2 medium residues 123-197_285-298
PDB
Domain cluster: representative
CATH (4)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1h54A03 2.60.420.10 Mainly Beta › Sandwich › Maltose phosphorylase, domain 3 › Maltose phosphorylase, domain 3 0.60 31.0 3.37e-01 75.3% 59.5%
2a1rB01 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.55 47.0 3.29e-01 93.3% 89.7%
3wirA03 2.60.420.10 Mainly Beta › Sandwich › Maltose phosphorylase, domain 3 › Maltose phosphorylase, domain 3 0.53 30.0 3.31e-01 79.8% 69.6%
3uuwB02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.51 38.0 2.98e-01 77.5% 62.5%
ECOD (7)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3265386 213.1.1.1 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_1 0.65 47.0 3.94e-01 76.4% 84.5%
5062619 2484.1.1.68 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RNase_H_2 0.57 48.0 3.66e-01 91.0% 93.5%
4003848 11.1.1.53 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › DOMON 0.56 33.0 2.51e-01 70.8% 26.2%
3632937 298.1.1.24 ↗ a+b two layers › FwdE/GAPDH domain-like › Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain › Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain › GFO_IDH_MocA_C3 0.55 34.0 3.11e-01 74.2% 45.8%
4944521 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.53 45.0 3.44e-01 93.3% 100.0%
4442936 2484.3.1.5 ↗ mixed a+b and a/b › Ribonuclease H-like › Creatinase/prolidase N-terminal domain › Creatinase/prolidase N-terminal domain › PepQ_N 0.52 45.0 3.77e-01 95.5% 82.6%
3941386 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.52 42.0 3.41e-01 89.9% 93.5%
D3 medium residues 225-284_299-327
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF03324.21 best Herpes_HEPA 73.1 2.70e-20 69.7% 65.9%
CATH (2)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3es5A02 1.20.272.60 Mainly Alpha › Up-down Bundle › Zinc Finger, Delta Prime; domain 3 › 0.51 36.0 3.31e-01 75.3% 87.7%
4g6vB00 3.30.70.2920 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.50 36.0 3.45e-01 74.2% 89.3%
ECOD (2)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3387369 3747.1.1.2 ↗ a+b two layers › Flagellar hook protein FlgE D0 domain › Flagellar hook protein FlgE D0 domain › Flagellar hook protein FlgE D0 domain › Flg_bb_rod,Flg_bbr_C 0.61 37.0 3.30e-01 88.8% 41.5%
3267362 304.128.1.0 ↗ a+b two layers › Alpha-beta plaits › ferredoxin-like domain in periplasmic region of MacB › ferredoxin-like domain in periplasmic region of MacB 0.52 36.0 3.68e-01 71.9% 89.4%
D4 medium residues 328-502
PDB
D5 medium residues 531-669
PDB
Domain cluster: rep: helicase-primase_complex__NP_065539__Alcelaphine_gammaherpesvirus_1__35252__D46-100_112-175
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF05774.17 best Herpes_heli_pri 205.9 2.90e-61 94.2% 100.0%