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DNA_packaging_terminase_subunit_2

Euk-Vir

Macacine_alphaherpesvirus_1

DNA_packaging_terminase_subunit_2__NP_851888__Macacine_alphaherpesvirus_1__10325

Identity

Accession:: NP_851888 ↗
Protein ID:: DNA_packaging_terminase_subunit_2
Kingdom:: euk

Quality

78.3 mean pLDDT

Taxonomy

Heunggongvirae› Peploviricota› Herviviricetes› Herpesvirales› Orthoherpesviridae› Simplexvirus› Macacine_alphaherpesvirus_1

TaxID: 10325

Cluster

View cluster (77 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 252-310_336-397

PDB

Domain cluster: rep: DNA_packaging_terminase_subunit_2__YP_053077__Equid_alphaherpesvirus_1__10326__D247-267_332-417

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF01366.24 best	PRTP	33.0	2.60e-08	52.9%	8.8%

D2 medium residues 21-151

PDB

Domain cluster: rep: transport_protein__YP_004207847__Cricetid_gammaherpesvirus_2__1605972__D1-97

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF01366.24 best	PRTP	119.5	1.80e-34	97.7%	18.8%

D3 medium residues 152-249_534-558

PDB

Domain cluster: rep: GP56__YP_007417831__Caviid_betaherpesvirus_2__33706__D136-147_175-227_482-509

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF01366.24 best	PRTP	141.4	4.20e-41	79.7%	14.6%

D4 medium residues 398-429_497-533

PDB

Domain cluster: representative

Pfam (2)

Accession	Name	Score	E-value	Q cov	HMM cov
PF01366.24 best	PRTP	39.1	3.90e-10	55.1%	5.6%
PF01366.24	PRTP	26.2	3.10e-06	47.8%	4.9%

CATH (18)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
4hwhE00	1.20.58.120	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › BAG domain	0.71	52.0	4.75e-01	84.1%	60.2%
4l8iB00	1.10.132.20	Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor	0.71	63.0	5.30e-01	97.1%	69.6%
2gtsA00	1.10.287.850	Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HP0062-like domain	0.70	57.0	5.47e-01	85.5%	81.8%
2ic6A00	1.20.58.90	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 ›	0.70	57.0	5.71e-01	87.0%	91.5%
6r1nA01	1.10.287.40	Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain	0.69	59.0	5.16e-01	94.2%	99.0%
1vmgA00	1.10.287.1080	Mainly Alpha › Orthogonal Bundle › Helix Hairpins › MazG-like	0.68	46.0	4.33e-01	71.0%	58.5%
4hehA01	1.10.1240.10	Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › Methionine synthase domain	0.68	46.0	4.31e-01	79.7%	57.8%
6tkvA01	1.10.287.1060	Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like	0.67	57.0	5.82e-01	94.2%	100.0%
2q0oC00	1.10.287.160	Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat	0.66	54.0	5.04e-01	88.4%	73.3%
3qo8A01	1.10.287.40	Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain	0.66	58.0	5.02e-01	95.7%	98.1%
4i0xH00	1.10.287.1060	Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like	0.65	51.0	5.01e-01	87.0%	81.6%
1ydxA02	1.10.287.1120	Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Bipartite methylase S protein	0.63	58.0	5.24e-01	100.0%	97.8%
3ehfD01	1.20.5.1930	Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces ›	0.61	51.0	5.27e-01	92.8%	100.0%
2ra1A01	1.20.58.790	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 ›	0.60	47.0	4.16e-01	84.1%	60.2%
2dw4A03	1.10.287.80	Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ATP synthase, gamma subunit, helix hairpin domain	0.59	52.0	4.64e-01	100.0%	68.3%
2w02B01	1.10.150.640	Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › AcsD, thumb domain, helical bundle	0.59	49.0	4.84e-01	92.8%	91.9%
4ijjB00	1.20.120.910	Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › DksA, coiled-coil domain	0.58	52.0	4.23e-01	100.0%	69.2%
1f0jA00	1.10.1300.10	Mainly Alpha › Orthogonal Bundle › Catalytic domain of cyclic nucleotide phosphodiesterase 4b2b › 3'5'-cyclic nucleotide phosphodiesterase, catalytic domain	0.53	46.0	2.95e-01	100.0%	49.6%

ECOD (9)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
5073100	5082.1.1.1 ↗	alpha bundles › Cation efflux protein transmembrane domain-like › Cation efflux protein transmembrane domain-like › Cation efflux protein transmembrane domain-like › Cation_efflux	0.78	70.0	4.75e-01	98.6%	78.3%
4667859	192.7.1.2 ↗	alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N	0.70	60.0	5.06e-01	94.2%	91.3%
3693465	192.7.1.2 ↗	alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N	0.69	61.0	5.02e-01	97.1%	94.2%
4359654	605.2.1.3 ↗	alpha duplicates or obligate multimers › ROP-like › Hypothetical protein D-63 › Hypothetical protein D-63 › Seryl_tRNA_N	0.68	60.0	5.06e-01	95.7%	92.7%
4385544	605.1.1.0 ↗	alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase	0.67	51.0	4.97e-01	79.7%	85.3%
3395229	192.15.1.115 ↗	alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains › Use1	0.63	43.0	4.35e-01	73.9%	70.0%
4346157	3684.1.1.28 ↗	alpha complex topology › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like › PF26154	0.63	49.0	4.05e-01	85.5%	48.8%
3279544	7516.1.1.2 ↗	a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Glycos_transf_2	0.61	50.0	3.30e-01	89.9%	22.4%
3414738	192.7.1.0 ↗	alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm	0.56	44.0	3.83e-01	89.9%	77.4%

D5 medium residues 559-589_698-777

PDB

Domain cluster: rep: terminase_subunit_2__YP_009179297__Elephant_endotheliotropic_herpesvirus_4__548914__D513-536_648-697

D6 medium residues 590-697

PDB

Domain cluster: rep: orf7__YP_009044394__Alcelaphine_gammaherpesvirus_2__138184__D511-616

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF01366.24 best	PRTP	129.4	1.80e-37	85.2%	13.9%

CATH (8)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
6qv3A05	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	0.58	31.0	3.32e-01	90.7%	60.2%
2nscA01	3.30.70.1050	Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Trigger factor ribosome-binding domain	0.56	32.0	3.65e-01	100.0%	76.9%
3kbbA02	1.10.150.240	Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2	0.55	35.0	4.27e-01	100.0%	100.0%
1jvmB00	1.10.287.70	Mainly Alpha › Orthogonal Bundle › Helix Hairpins ›	0.54	39.0	4.06e-01	93.5%	80.0%
4k35A03	1.10.287.1170	Mainly Alpha › Orthogonal Bundle › Helix Hairpins › glycoside hydrolase family 81 endo-[beta] glucanase	0.54	27.0	3.34e-01	100.0%	75.7%
3ckdA02	1.20.58.360	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Shigella T3SS effector IpaH defines	0.52	37.0	3.55e-01	99.1%	63.7%
6tqfA01	1.20.1560.10	Mainly Alpha › Up-down Bundle › ABC transporter transmembrane region fold › ABC transporter type 1, transmembrane domain	0.52	47.0	3.18e-01	100.0%	53.7%
7e84A03	1.10.287.70	Mainly Alpha › Orthogonal Bundle › Helix Hairpins ›	0.52	36.0	3.49e-01	100.0%	63.4%

ECOD (2)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
4410119	149.1.1.1 ↗	alpha arrays › Cytochrome P450 › Cytochrome P450 › Cytochrome P450 › p450	0.56	49.0	3.20e-01	99.1%	55.7%
4104623	1079.1.1.8 ↗	alpha complex topology › Transmembrane reductase CcdA › Transmembrane reductase CcdA › Transmembrane reductase CcdA › LysE	0.52	45.0	3.75e-01	97.2%	69.0%