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DNA_packaging_terminase_subunit_1

Euk-Vir

Anguillid_herpesvirus_1

DNA_packaging_terminase_subunit_1__YP_003358149__Anguillid_herpesvirus_1__150286

Identity

Accession:
YP_003358149 ↗
Protein ID:
DNA_packaging_terminase_subunit_1
Kingdom:
euk

Quality

72.7 mean pLDDT

Taxonomy

Heunggongvirae› Peploviricota› Herviviricetes› Herpesvirales› Alloherpesviridae› Cyvirus› Anguillid_herpesvirus_1

TaxID: 150286

Cluster

View cluster (8 members)

3D Structure

Download PDB Download Scores JSON

Domains

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

D1 high residues 456-779
PDB
Domain cluster: rep: rifcsphigho2-12_scaffold_combined_curated_prodigal-single.1__X__X__00331__D317-603
CATH (14)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3n4pC00 3.30.420.320 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › DNA-packaging terminase, C-terminal nuclease domain 0.83 55.0 6.68e-01 100.0% 97.7%
4ifeA02 3.30.420.240 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › 0.71 49.0 5.83e-01 98.5% 98.2%
8dkrB01 3.30.420.240 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › 0.70 49.0 5.80e-01 97.2% 100.0%
1vjtA01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.63 24.0 4.03e-01 74.1% 95.7%
3i9v102 3.40.50.11540 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NADH-ubiquinone oxidoreductase 51kDa subunit 0.56 31.0 4.13e-01 79.9% 96.1%
4ibnA01 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.56 33.0 4.23e-01 91.4% 98.4%
3nyiB01 3.40.50.10170 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.54 26.0 3.69e-01 92.6% 92.4%
2bgiA02 3.40.50.80 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Nucleotide-binding domain of ferredoxin-NADP reductase (FNR) module 0.54 26.0 3.81e-01 90.4% 98.7%
2w9xA02 3.40.50.1110 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › SGNH hydrolase 0.53 30.0 3.64e-01 100.0% 80.4%
2vptA00 3.40.50.1110 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › SGNH hydrolase 0.53 32.0 4.01e-01 93.2% 96.0%
2chrA01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.53 20.0 3.19e-01 78.1% 86.6%
3cyjA01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.51 21.0 3.31e-01 90.7% 95.9%
3wrwA01 3.40.50.12020 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Uncharacterised protein family UPF0261, NN domain 0.51 29.0 3.75e-01 94.1% 95.7%
6d92A01 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.51 36.0 4.17e-01 94.1% 96.3%
ECOD (31)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4974213 2484.1.1.77 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Terminase_6C 0.78 48.0 6.14e-01 93.8% 100.0%
4579381 2484.1.1.25 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RuvC 0.72 36.0 5.16e-01 91.7% 98.1%
5057683 2484.1.1.38 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › eRF1_2 0.72 29.0 4.74e-01 93.5% 98.4%
4162179 2484.1.1.25 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RuvC 0.70 35.0 5.08e-01 91.7% 100.0%
4543638 2484.1.1.25 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RuvC 0.69 35.0 4.85e-01 92.0% 94.5%
4414942 2484.1.1.25 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RuvC 0.69 35.0 4.87e-01 93.2% 96.9%
4240117 2484.1.1.25 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RuvC 0.69 36.0 4.82e-01 92.9% 93.1%
4292358 2484.1.1.25 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RuvC 0.68 35.0 4.76e-01 93.2% 94.5%
4162427 2484.1.1.25 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RuvC 0.67 35.0 4.79e-01 92.0% 97.5%
3771977 2484.1.1.48 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › MutS_II 0.67 36.0 4.19e-01 93.5% 71.3%
4004191 2484.1.1.99 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Peptidase_A17 0.66 34.0 4.33e-01 95.4% 80.0%
3930361 2484.5.1.2 ↗ mixed a+b and a/b › Ribonuclease H-like › RNaseH-like domain in reverse transcriptase › RNaseH-like domain in reverse transcriptase › RT_RNaseH 0.66 28.0 4.40e-01 94.4% 100.0%
1905698 2484.5.1.2 ↗ mixed a+b and a/b › Ribonuclease H-like › RNaseH-like domain in reverse transcriptase › RNaseH-like domain in reverse transcriptase › RT_RNaseH 0.65 27.0 4.33e-01 92.9% 99.2%
3937433 2484.5.1.2 ↗ mixed a+b and a/b › Ribonuclease H-like › RNaseH-like domain in reverse transcriptase › RNaseH-like domain in reverse transcriptase › RT_RNaseH 0.65 27.0 4.34e-01 93.5% 100.0%
4995715 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.64 49.0 5.53e-01 100.0% 98.4%
3924791 2484.5.1.2 ↗ mixed a+b and a/b › Ribonuclease H-like › RNaseH-like domain in reverse transcriptase › RNaseH-like domain in reverse transcriptase › RT_RNaseH 0.64 28.0 4.33e-01 94.8% 100.0%
3504143 2484.1.1.230 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › PF27073 0.62 32.0 4.53e-01 92.0% 100.0%
4964951 2007.15.1.18 ↗ a/b three-layered sandwiches › Flavodoxin-like › N-deoxyribosyltransferase › N-deoxyribosyltransferase › DUF7509 0.60 30.0 4.01e-01 97.2% 87.1%
4371406 2484.1.1.55 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › UvrC_RNaseH_dom 0.60 31.0 4.14e-01 87.0% 89.7%
3734260 2484.1.1.48 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › MutS_II 0.60 34.0 4.25e-01 93.5% 87.3%
3411385 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.59 34.0 4.46e-01 96.3% 98.9%
3508989 2484.1.1.230 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › PF27073 0.59 29.0 4.10e-01 86.7% 96.8%
3924083 2484.1.1.204 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › PF27046, PF27073 0.57 31.0 4.19e-01 86.7% 100.0%
3197918 2485.1.1.2 ↗ a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like › GSHPx 0.56 24.0 3.16e-01 92.0% 68.6%
4929844 2.1.1.135 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › DUF3592 0.55 18.0 3.37e-01 77.2% 100.0%
5059592 2005.1.1.0 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains 0.55 22.0 3.44e-01 94.1% 90.0%
4362539 2010.1.1.1 ↗ a/b three-layered sandwiches › EDD domain › EDD domain › EDD domain › DegV 0.53 26.0 3.66e-01 92.9% 95.5%
5078502 2003.1.5.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases 0.53 31.0 3.83e-01 92.0% 89.3%
3939338 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.52 29.0 3.69e-01 95.4% 89.2%
3977807 2002.5.1.1 ↗ a/b barrels › TIM beta/alpha-barrel › EAL domain › EAL domain › EAL 0.51 29.0 3.81e-01 88.6% 98.4%
5058184 7516.1.1.10 ↗ a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › CofC 0.51 29.0 3.23e-01 89.2% 67.3%
D2 medium residues 18-125
PDB
D3 medium residues 152-218
PDB
Domain cluster: rep: ORF62__YP_009447888__Ictalurid_herpesvirus_2__508441__D89-182
D4 medium residues 219-391
PDB
Domain cluster: rep: KX578043.1__AOT27930.1__X__00015__D87-267
Pfam (2)
AccessionNameScoreE-valueQ covHMM cov
PF03237.22 best Terminase_6N 26.6 6.30e-06 88.4% 49.3%
PF05127.22 NAT10_TcmA_helicase 30.2 5.60e-07 79.2% 60.5%
D5 medium residues 392-452
PDB