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orf56

Euk-Vir

Alcelaphine_gammaherpesvirus_2

orf56__YP_009044439__Alcelaphine_gammaherpesvirus_2__138184

Identity

Accession:: YP_009044439 ↗
Protein ID:: orf56
Kingdom:: euk

Quality

87.0 mean pLDDT

Taxonomy

Heunggongvirae› Peploviricota› Herviviricetes› Herpesvirales› Orthoherpesviridae› Macavirus› Alcelaphine_gammaherpesvirus_2

TaxID: 138184

Cluster

View cluster (58 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 high residues 717-835

PDB

Domain cluster: rep: helicase-primase_primase_subunit__NP_944382__Psittacid_alphaherpesvirus_1__50294__D1138-1286

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF03121.21 best	Herpes_UL52	95.1	2.60e-27	63.0%	98.7%

D2 medium residues 1-108

PDB

Domain cluster: rep: helicase-primase_primase_subunit__YP_010085930__Wood_mouse_herpesvirus__432370__D12-162

CATH (7)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
2aneH00	2.30.130.40	Mainly Beta › Roll › Archaeosine Trna-guanine Transglycosylase; Chain: A, domain 4 › LON domain-like	0.55	43.0	4.36e-01	99.1%	85.3%
2nvaA01	2.40.37.10	Mainly Beta › Beta Barrel › Lyase, Ornithine Decarboxylase; Chain A, domain 1 › Lyase, Ornithine Decarboxylase; Chain A, domain 1	0.53	37.0	3.48e-01	87.0%	59.4%
2jbrA02	2.40.110.10	Mainly Beta › Beta Barrel › Butyryl-CoA Dehydrogenase, subunit A; domain 2 › Butyryl-CoA Dehydrogenase, subunit A, domain 2	0.52	42.0	4.44e-01	99.1%	100.0%
1d7kB01	2.40.37.10	Mainly Beta › Beta Barrel › Lyase, Ornithine Decarboxylase; Chain A, domain 1 › Lyase, Ornithine Decarboxylase; Chain A, domain 1	0.51	38.0	3.62e-01	79.6%	80.5%
2odhA01	3.40.210.20	Alpha Beta › 3-Layer(aba) Sandwich › PvuII Endonuclease; Chain A › MvaI/BcnI restriction endonuclease, catalytic domain	0.51	35.0	3.39e-01	96.3%	62.6%
2d29A02	2.40.110.10	Mainly Beta › Beta Barrel › Butyryl-CoA Dehydrogenase, subunit A; domain 2 › Butyryl-CoA Dehydrogenase, subunit A, domain 2	0.51	43.0	4.36e-01	97.2%	100.0%
3x0xA02	2.40.110.10	Mainly Beta › Beta Barrel › Butyryl-CoA Dehydrogenase, subunit A; domain 2 › Butyryl-CoA Dehydrogenase, subunit A, domain 2	0.50	44.0	4.47e-01	98.1%	99.1%

ECOD (3)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3932439	2008.1.1.18 ↗	a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › eIF-3_zeta	0.56	42.0	2.91e-01	79.6%	34.9%
3958694	4052.1.1.1 ↗	beta complex topology › Acyl-CoA dehydrogenase middle domain-like › Acyl-CoA dehydrogenase middle domain-like › Acyl-CoA dehydrogenase middle domain-like › Acyl-CoA_dh_M	0.54	48.0	4.31e-01	99.1%	80.0%
3696186	4052.1.1.0 ↗	beta complex topology › Acyl-CoA dehydrogenase middle domain-like › Acyl-CoA dehydrogenase middle domain-like › Acyl-CoA dehydrogenase middle domain-like	0.52	45.0	3.98e-01	98.1%	85.6%

D3 medium residues 333-451

PDB

Domain cluster: rep: helicase-primase_primase_subunit__YP_182338__Gallid_alphaherpesvirus_1__10386__D431-468_522-592_634-660

CATH (4)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
2mlgA00	1.10.10.10	Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain	0.57	31.0	3.66e-01	73.1%	77.9%
5axgA03	2.60.40.1180	Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II	0.53	27.0	2.67e-01	71.4%	42.9%
1s67L00	3.30.450.20	Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain	0.53	37.0	3.71e-01	71.4%	89.9%
2od5A00	1.10.10.10	Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain	0.51	31.0	3.44e-01	73.1%	78.0%

ECOD (13)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3262749	320.1.1.1 ↗	a+b two layers › R3H domain-like › R3H domain › R3H domain › R3H	0.71	30.0	3.23e-01	70.6%	44.8%
4669669	242.1.1.7 ↗	a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › LAGLIDADG_3	0.66	29.0	3.09e-01	71.4%	43.6%
4996402	242.1.1.0 ↗	a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases	0.66	29.0	3.24e-01	75.6%	50.5%
3662782	325.1.7.0 ↗	a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif	0.61	30.0	4.00e-01	72.3%	91.7%
4128441	325.1.7.0 ↗	a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif	0.60	31.0	4.08e-01	72.3%	96.7%
4993850	242.1.1.0 ↗	a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases	0.59	29.0	3.26e-01	74.8%	57.9%
3165390	304.24.1.36 ↗	a+b two layers › Alpha-beta plaits › EF-G C-terminal domain-like › EF-G C-terminal domain-like › SPOR	0.57	29.0	3.49e-01	79.8%	72.5%
3997117	11.1.1.1 ↗	beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Cadherin	0.53	26.0	2.73e-01	78.2%	49.1%
5019925	328.8.1.1 ↗	a+b two layers › IF3-like › Schlafen 8 › Schlafen 8 › SLFN_AlbA_2	0.53	32.0	3.18e-01	77.3%	55.4%
4937023	242.1.1.7 ↗	a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › LAGLIDADG_3	0.53	28.0	3.05e-01	73.9%	59.0%
5046055	223.1.1.13 ↗	a+b three layers › Profilin-like › sensor domains › sensor domains › PAS_3	0.51	36.0	3.66e-01	73.1%	90.0%
4937824	328.8.1.1 ↗	a+b two layers › IF3-like › Schlafen 8 › Schlafen 8 › SLFN_AlbA_2	0.50	33.0	3.15e-01	78.2%	54.5%
1684874	304.24.1.0 ↗	a+b two layers › Alpha-beta plaits › EF-G C-terminal domain-like › EF-G C-terminal domain-like	0.50	31.0	3.63e-01	71.4%	88.1%

D4 medium residues 452-503_616-648

PDB

Domain cluster: representative

D5 medium residues 504-547_563-615_649-707

PDB

Domain cluster: rep: primase__YP_009345453__Noumeavirus__1955558__D12-194