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deoxyribonuclease

Euk-Vir

Columbid_alphaherpesvirus_1

deoxyribonuclease__YP_009352916__Columbid_alphaherpesvirus_1__93386

Identity

Accession:: YP_009352916 ↗
Protein ID:: deoxyribonuclease
Kingdom:: euk

Quality

74.9 mean pLDDT

Taxonomy

Heunggongvirae› Peploviricota› Herviviricetes› Herpesvirales› Orthoherpesviridae› Mardivirus› Columbid_alphaherpesvirus_1

TaxID: 93386

Cluster

View cluster (76 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 medium residues 58-162

PDB

Domain cluster: rep: deoxyribonuclease__YP_009551847__Rhinolophus_gammaherpesvirus_1__2054179__D9-136

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF01771.24 best	Viral_alk_exo	20.9	1.80e-04	100.0%	7.6%

CATH (11)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
2w45A01	1.20.120.860	Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Herpesvirus alkaline exonuclease, N-terminal domain	0.82	76.0	7.33e-01	100.0%	95.7%
3fhdA01	1.20.120.860	Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Herpesvirus alkaline exonuclease, N-terminal domain	0.80	74.0	6.77e-01	100.0%	84.6%
1m7wA00	1.10.565.10	Mainly Alpha › Orthogonal Bundle › Retinoid X Receptor › Retinoid X Receptor	0.58	51.0	4.09e-01	100.0%	85.7%
1pduA00	1.10.565.10	Mainly Alpha › Orthogonal Bundle › Retinoid X Receptor › Retinoid X Receptor	0.58	50.0	4.03e-01	100.0%	88.7%
1g2nA00	1.10.565.10	Mainly Alpha › Orthogonal Bundle › Retinoid X Receptor › Retinoid X Receptor	0.58	50.0	3.93e-01	100.0%	77.2%
4logB00	1.10.565.10	Mainly Alpha › Orthogonal Bundle › Retinoid X Receptor › Retinoid X Receptor	0.57	50.0	3.97e-01	100.0%	76.3%
2gscC00	1.20.1440.60	Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 23S rRNA-intervening sequence	0.56	43.0	4.24e-01	80.0%	89.1%
6k4yI00	1.10.1810.10	Mainly Alpha › Orthogonal Bundle › Anti-sigma factor AsiA › Anti-Sigma Factor A	0.56	34.0	3.72e-01	87.6%	72.7%
2y44A00	1.20.1260.80	Mainly Alpha › Up-down Bundle › Ferritin ›	0.53	35.0	2.94e-01	74.3%	38.0%
3rkgA02	1.20.58.340	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Magnesium transport protein CorA, transmembrane region	0.52	37.0	3.19e-01	73.3%	76.8%
3lynB00	1.20.150.10	Mainly Alpha › Up-down Bundle › Lysin › Fertilization protein	0.50	43.0	4.15e-01	96.2%	88.7%

ECOD (9)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
5030446	142.1.1.3 ↗	alpha complex topology › Sigma2 domain-like › Sigma2 domain of RNA polymerase sigma factors › Sigma2 domain of RNA polymerase sigma factors › Sigma70_r2	0.61	34.0	3.74e-01	74.3%	67.1%
4946230	5001.1.1.0 ↗	alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like	0.56	47.0	3.74e-01	93.3%	87.4%
3170004	3755.4.1.0 ↗	alpha bundles › YscO-like › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain	0.56	48.0	3.80e-01	98.1%	48.5%
3622690	601.1.1.0 ↗	alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin	0.55	39.0	4.20e-01	74.3%	90.0%
3707352	108.1.1.0 ↗	alpha arrays › EF-hand › EF-hand-related › EF-hand	0.55	33.0	3.32e-01	100.0%	58.7%
3286868	191.1.1.32 ↗	alpha bundles › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › TetR_C_30	0.52	37.0	3.40e-01	100.0%	55.7%
3258647	141.1.1.3 ↗	alpha bundles › Terpenoid synthases › Terpenoid synthases › Terpenoid synthases › UbiA	0.51	39.0	2.87e-01	81.9%	95.3%
3307722	141.1.1.2 ↗	alpha bundles › Terpenoid synthases › Terpenoid synthases › Terpenoid synthases › SQS_PSY	0.51	41.0	3.02e-01	89.5%	85.1%
3601022	5076.1.1.0 ↗	alpha complex topology › Mitochondrial ADP/ATP carrier-like › Mitochondrial ADP/ATP carrier › Mitochondrial ADP/ATP carrier	0.51	37.0	2.82e-01	80.0%	46.3%

D2 medium residues 201-223_284-294_383-470_493-524

PDB

Domain cluster: rep: deoxyribonuclease__YP_010087590__Cervid_alphaherpesvirus_3__2115790__D246-278_337-366_406-456

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF01771.24 best	Viral_alk_exo	82.4	4.00e-23	77.9%	24.5%

D3 medium residues 224-283

PDB

Domain cluster: representative

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF01771.24 best	Viral_alk_exo	30.4	2.50e-07	88.3%	7.8%

CATH (3)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3ckjA00	3.90.550.10	Alpha Beta › Alpha-Beta Complex › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A	0.53	37.0	2.45e-01	76.7%	53.3%
1y8qB01	3.40.50.720	Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain	0.51	34.0	2.43e-01	71.7%	55.0%
3flkA00	3.40.718.10	Alpha Beta › 3-Layer(aba) Sandwich › Isopropylmalate Dehydrogenase › Isopropylmalate Dehydrogenase	0.51	40.0	2.59e-01	93.3%	57.7%

ECOD (1)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3596474	7525.1.1.2 ↗	a/b three-layered sandwiches › Phosphoglycerate mutase-like › Phosphoglycerate mutase-like › Phosphoglycerate mutase-like › His_Phos_2	0.53	37.0	2.38e-01	78.3%	83.3%