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DNA_packaging_terminase_subunit_1

Euk-Vir

Human_alphaherpesvirus_3

DNA_packaging_terminase_subunit_1__NP_040165__Human_alphaherpesvirus_3__10335

Identity

Accession:: NP_040165 ↗
Protein ID:: DNA_packaging_terminase_subunit_1
Kingdom:: euk

Quality

68.9 mean pLDDT

Taxonomy

Heunggongvirae› Peploviricota› Herviviricetes› Herpesvirales› Orthoherpesviridae› Varicellovirus› Human_alphaherpesvirus_3

TaxID: 10335

Cluster

View cluster (63 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 53-101_136-167

PDB

D2 medium residues 168-188_212-258

PDB

Domain cluster: rep: DNA_packaging_terminase_subunit_1__NP_073308__Meleagrid_alphaherpesvirus_1__37108__D159-254

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF02500.23 best	DNA_pack_N	62.3	8.70e-17	100.0%	27.3%

D3 medium residues 259-422

PDB

Domain cluster: rep: KX578043.1__AOT27930.1__X__00015__D87-267

Pfam (3)

Accession	Name	Score	E-value	Q cov	HMM cov
PF03237.22 best	Terminase_6N	27.3	3.80e-06	89.0%	65.1%
PF02500.23	DNA_pack_N	167.2	8.60e-49	59.8%	36.5%
PF02499.23	DNA_pack_C	59.3	5.30e-16	25.0%	11.7%

D4 medium residues 423-504

PDB

D5 medium residues 505-675

PDB

Domain cluster: rep: tegument_protein_UL16__YP_010087586__Cervid_alphaherpesvirus_3__2115790__D494-638_653-663

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF02499.23 best	DNA_pack_C	219.7	8.40e-65	100.0%	44.7%

D6 medium residues 676-741

PDB

Domain cluster: representative

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF02499.23 best	DNA_pack_C	51.3	1.40e-13	98.5%	15.4%

CATH (18)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
2uvaG11	6.10.60.10	Special › Helix non-globular › Hydrophobic Seed Protein ›	0.64	39.0	4.23e-01	75.8%	74.5%
2oarB00	1.10.1200.120	Mainly Alpha › Orthogonal Bundle › Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A › Large-conductance mechanosensitive channel, MscL; domain 1	0.62	32.0	2.61e-01	95.5%	25.6%
7x4lC02	3.90.1150.160	Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 ›	0.61	44.0	3.61e-01	77.3%	41.4%
6le1A01	3.30.70.330	Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain	0.60	41.0	4.15e-01	75.8%	70.6%
6z3tA01	1.10.3370.10	Mainly Alpha › Orthogonal Bundle › Preprotein translocase SecY subunit › SecY subunit domain	0.58	47.0	2.99e-01	93.9%	66.8%
4k59A00	2.60.40.4380	Mainly Beta › Sandwich › Immunoglobulin-like › Translational regulator CsrA	0.57	37.0	3.71e-01	83.3%	65.2%
3ep6B01	3.30.360.50	Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › S-adenosylmethionine decarboxylase	0.57	25.0	3.10e-01	75.8%	53.7%
2ctfA00	3.30.1370.10	Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › K Homology domain, type 1	0.57	43.0	3.77e-01	87.9%	53.9%
1p9oA00	3.40.50.10300	Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › CoaB-like	0.57	40.0	2.71e-01	86.4%	18.2%
2ethA00	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	0.56	38.0	3.01e-01	71.2%	88.7%
5h20A00	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	0.56	41.0	3.59e-01	80.3%	55.3%
2yweA03	3.30.70.870	Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Elongation Factor G (Translational Gtpase), domain 3	0.55	36.0	3.42e-01	78.8%	53.7%
4em2A00	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	0.55	38.0	2.92e-01	71.2%	87.3%
1xjkA00	3.20.70.20	Alpha Beta › Alpha-Beta Barrel › Anaerobic Ribonucleotide-triphosphate Reductase Large Chain ›	0.55	41.0	2.43e-01	84.8%	76.0%
5znqA00	3.40.50.2020	Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold ›	0.54	44.0	3.28e-01	92.4%	92.9%
2dqlA00	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	0.54	36.0	3.16e-01	75.8%	40.9%
4r9iA02	2.30.39.10	Mainly Beta › Roll › Alpha-1-antitrypsin; domain 1 › Alpha-1-antitrypsin, domain 1	0.53	33.0	3.01e-01	71.2%	41.0%
1yyvB00	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	0.50	35.0	3.04e-01	75.8%	45.5%

ECOD (30)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
5017699	101.1.3.0 ↗	alpha arrays › HTH › HTH › tetra-helical, LuxR-like	0.69	46.0	3.78e-01	81.8%	37.8%
5049779	213.1.1.0 ↗	a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat)	0.63	50.0	3.75e-01	89.4%	60.0%
3470124	3226.1.1.3 ↗	alpha complex topology › Uracil Transporter UraA › Uracil Transporter UraA › Uracil Transporter UraA › HCO3_cotransp	0.59	46.0	2.81e-01	90.9%	73.3%
4969883	225.2.1.0 ↗	a+b two layers › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase-like › Uncharacterized protein DIP2311 middle domain › Uncharacterized protein DIP2311 middle domain	0.56	42.0	3.02e-01	86.4%	80.4%
4031872	101.1.2.15 ↗	alpha arrays › HTH › HTH › winged helix domain › MarR	0.56	40.0	3.15e-01	75.8%	93.1%
4799073	309.1.1.4 ↗	a+b two layers › LuxS, MPP, ThrRS/AlaRS common domain › LuxS, MPP, ThrRS/AlaRS common domain › LuxS/MPP-like metallohydrolase › Peptidase_M16_C	0.56	40.0	3.66e-01	80.3%	54.1%
3985011	101.1.2.15 ↗	alpha arrays › HTH › HTH › winged helix domain › MarR	0.55	38.0	2.97e-01	71.2%	90.3%
3875765	5001.1.1.1 ↗	alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_1	0.55	41.0	2.73e-01	83.3%	45.5%
3208233	109.4.1.18 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPTA	0.55	46.0	3.57e-01	100.0%	65.9%
164542	101.1.2.48 ↗	alpha arrays › HTH › HTH › winged helix domain › PadR	0.54	36.0	3.16e-01	75.8%	40.9%
4452393	304.112.1.10 ↗	a+b two layers › Alpha-beta plaits › Argonaute, N-terminal domain › Argonaute, N-terminal domain › Med13_N	0.54	38.0	3.33e-01	86.4%	47.6%
4449508	331.2.1.13 ↗	a+b two layers › TBP-like › Phosphoglucomutase, C-terminal domain › Phosphoglucomutase, C-terminal domain › DinI	0.53	36.0	3.46e-01	83.3%	60.0%
5024720	310.3.1.0 ↗	a+b two layers › RRF/tRNA synthetase additional domain-like › General secretion pathway protein M (EpsM) periplasmic domain-related › General secretion pathway protein M (EpsM) periplasmic domain-related	0.52	32.0	3.31e-01	74.2%	63.1%
139683	327.2.1.1 ↗	a+b two layers › Alpha-lytic protease prodomain-like › BolA-like › BolA-like › BolA	0.52	36.0	3.51e-01	81.8%	64.5%
3304359	304.48.1.70 ↗	a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › Intron_maturas2	0.52	45.0	2.71e-01	100.0%	56.0%
3779781	109.4.1.1812 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › RYDR_ITPR, RIH_assoc	0.52	42.0	2.37e-01	97.0%	24.9%
1297491	2007.6.1.3 ↗	a/b three-layered sandwiches › Flavodoxin-like › Ribosomal protein S2/SIS domain › Ribosomal protein S2/SIS domain › PGI	0.52	39.0	2.42e-01	87.9%	15.5%
4443502	109.4.1.116 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › RIH_assoc	0.51	42.0	2.55e-01	100.0%	39.7%
3797635	3226.1.1.0 ↗	alpha complex topology › Uracil Transporter UraA › Uracil Transporter UraA › Uracil Transporter UraA	0.51	42.0	2.51e-01	93.9%	74.2%
3516349	3226.1.1.3 ↗	alpha complex topology › Uracil Transporter UraA › Uracil Transporter UraA › Uracil Transporter UraA › HCO3_cotransp	0.51	43.0	2.60e-01	97.0%	72.9%
3271085	2004.1.1.17 ↗	a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Myosin_head	0.51	41.0	2.38e-01	93.9%	44.0%
3684154	327.5.1.2 ↗	a+b two layers › Alpha-lytic protease prodomain-like › a+b domain in acetyl-CoA synthetase-like proteins › a+b domain in acetyl-CoA synthetase-like proteins › AMP-binding_C	0.51	38.0	3.63e-01	83.3%	75.0%
3290009	4107.1.1.1 ↗	alpha arrays › Jann2411-like › Jann2411-like › Jann2411-like › ABATE,zf-CGNR	0.51	42.0	3.27e-01	100.0%	58.2%
4222853	7523.1.1.0 ↗	a/b three-layered sandwiches › Periplasmic binding protein-like II › Periplasmic binding protein-like II › Periplasmic binding protein-like II	0.51	40.0	3.41e-01	89.4%	66.1%
3287925	101.1.2.15 ↗	alpha arrays › HTH › HTH › winged helix domain › MarR	0.50	40.0	3.23e-01	95.5%	96.1%
4023956	3871.1.1.1 ↗	alpha duplicates or obligate multimers › PHIST › PHIST › PHIST › PRESAN	0.50	36.0	2.93e-01	75.8%	63.8%
4638765	101.1.2.15 ↗	alpha arrays › HTH › HTH › winged helix domain › MarR	0.50	39.0	3.20e-01	89.4%	99.3%
4316518	304.19.1.1 ↗	a+b two layers › Alpha-beta plaits › eIF-2-alpha, C-terminal domain › eIF-2-alpha, C-terminal domain › EIF_2_alpha	0.50	36.0	3.34e-01	78.8%	57.8%
3290058	101.1.2.26 ↗	alpha arrays › HTH › HTH › winged helix domain › HxlR	0.50	40.0	3.25e-01	93.9%	79.3%
3601501	2007.2.3.0 ↗	a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › (Phosphotyrosine protein) phosphatases II	0.50	41.0	2.31e-01	98.5%	30.6%