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helicase-primase_helicase_subunit

Euk-Vir

Saimiriine_betaherpesvirus_4

helicase-primase_helicase_subunit__YP_004940266__Saimiriine_betaherpesvirus_4__1535247

Identity

Accession:: YP_004940266 ↗
Protein ID:: helicase-primase_helicase_subunit
Kingdom:: euk

Quality

79.1 mean pLDDT

Taxonomy

Heunggongvirae› Peploviricota› Herviviricetes› Herpesvirales› Orthoherpesviridae› Cytomegalovirus› Saimiriine_betaherpesvirus_4

TaxID: 1535247

Cluster

View cluster (90 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 117-128_140-298

PDB

Domain cluster: rep: helicase_subunit__YP_009179342__Elephant_endotheliotropic_herpesvirus_4__548914__D47-64_102-182_199-230

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF02689.21 best	Herpes_Helicase	214.2	4.20e-63	100.0%	23.1%

D2 medium residues 299-351_845-865

PDB

Domain cluster: rep: helicase-primase_helicase_subunit__YP_010084986__Beluga_whale_alphaherpesvirus_1__1434720__D274-286_311-353_838-857

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF02689.21 best	Herpes_Helicase	81.3	6.10e-23	75.7%	6.7%

CATH (1)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
2p4zA00	3.60.15.10	Alpha Beta › 4-Layer Sandwich › Metallo-beta-lactamase; Chain A › Ribonuclease Z/Hydroxyacylglutathione hydrolase-like	0.51	37.0	2.61e-01	79.7%	96.7%

ECOD (6)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
4073431	3949.1.1.1 ↗	alpha arrays › tRNA delta(2)-isopentenylpyrophosphate transferase helical insertion domain › tRNA delta(2)-isopentenylpyrophosphate transferase helical insertion domain › tRNA delta(2)-isopentenylpyrophosphate transferase helical insertion domain › IPPT	0.54	37.0	2.64e-01	71.6%	35.3%
3966269	2004.1.1.0 ↗	a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases	0.54	37.0	2.57e-01	71.6%	81.0%
1779556	3949.1.1.1 ↗	alpha arrays › tRNA delta(2)-isopentenylpyrophosphate transferase helical insertion domain › tRNA delta(2)-isopentenylpyrophosphate transferase helical insertion domain › tRNA delta(2)-isopentenylpyrophosphate transferase helical insertion domain › IPPT	0.54	37.0	2.60e-01	71.6%	39.3%
4679594	3949.1.1.1 ↗	alpha arrays › tRNA delta(2)-isopentenylpyrophosphate transferase helical insertion domain › tRNA delta(2)-isopentenylpyrophosphate transferase helical insertion domain › tRNA delta(2)-isopentenylpyrophosphate transferase helical insertion domain › IPPT	0.52	36.0	2.57e-01	71.6%	37.4%
4111625	2004.1.1.71 ↗	a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › IPPT	0.52	36.0	2.54e-01	71.6%	80.0%
4947874	2004.1.1.5 ↗	a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ABC_tran	0.50	37.0	2.66e-01	81.1%	70.2%

D3 medium residues 490-508_678-763

PDB

Domain cluster: rep: helicase-primase_helicase_subunit__YP_009137079__Human_alphaherpesvirus_1__10298__D496-518_696-779

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF02689.21 best	Herpes_Helicase	79.7	1.90e-22	83.8%	10.4%

D4 medium residues 509-572_638-677

PDB

Domain cluster: representative

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF02689.21 best	Herpes_Helicase	66.5	1.90e-18	65.4%	8.3%

CATH (38)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
6p73A02	1.20.140.10	Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3	0.73	54.0	4.83e-01	76.9%	70.6%
2ot4A03	1.20.140.10	Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3	0.73	50.0	4.99e-01	70.2%	88.8%
1oahA02	1.20.140.10	Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3	0.72	52.0	4.73e-01	76.9%	75.4%
1qdbA02	1.20.140.10	Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3	0.72	53.0	4.78e-01	77.9%	71.3%
2c0uA03	1.20.140.10	Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3	0.69	51.0	4.37e-01	78.8%	78.7%
1jogA00	1.20.120.330	Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2	0.67	57.0	5.26e-01	93.3%	97.8%
4nswB01	1.20.1270.60	Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain	0.66	46.0	3.53e-01	73.1%	78.5%
2hsbA00	1.20.120.330	Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2	0.65	54.0	5.06e-01	90.4%	96.0%
1yjgA00	1.20.120.240	Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Lipoprotein, type 6	0.64	52.0	4.65e-01	91.3%	90.4%
1o3uA00	1.20.120.330	Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2	0.63	51.0	4.87e-01	87.5%	100.0%
1w0bA01	1.20.58.420	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › AHSP	0.62	39.0	4.16e-01	77.9%	71.7%
2jx0A00	1.20.120.330	Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2	0.62	51.0	4.76e-01	90.4%	84.7%
4hr1A00	1.20.1270.410	Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 ›	0.61	47.0	4.52e-01	82.7%	96.6%
1s2xA00	1.20.190.30	Mainly Alpha › Up-down Bundle › Delta-Endotoxin; domain 1 › CAG pathogenicity island protein, CagZ	0.59	44.0	3.70e-01	79.8%	93.9%
3nvoB02	1.20.58.340	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Magnesium transport protein CorA, transmembrane region	0.58	40.0	3.89e-01	71.2%	91.4%
8etcb01	1.20.120.1190	Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) ›	0.58	47.0	4.24e-01	90.4%	92.5%
3iieB03	1.10.1740.10	Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif	0.57	33.0	3.62e-01	91.3%	69.4%
1owaA02	1.20.58.60	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 ›	0.57	39.0	3.95e-01	71.2%	97.2%
1hciA03	1.20.58.60	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 ›	0.56	39.0	3.73e-01	72.1%	93.3%
1wcrA00	1.20.58.80	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit	0.55	38.0	3.85e-01	70.2%	93.2%
4l8iB00	1.10.132.20	Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor	0.55	41.0	4.00e-01	76.9%	78.6%
3ztaA00	1.10.490.130	Mainly Alpha › Orthogonal Bundle › Globin-like ›	0.55	41.0	3.74e-01	77.9%	65.5%
5wp3B00	1.10.132.20	Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor	0.55	39.0	3.98e-01	74.0%	81.4%
6hwjA01	3.90.1200.10	Alpha Beta › Alpha-Beta Complex › Aminoglycoside 3'-phosphotransferase; Chain: A, domain 2 › Aminoglycoside phosphotransferase (APH), C-terminal lobe	0.54	41.0	3.17e-01	80.8%	79.2%
1t72A02	1.20.58.220	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphate transport system protein phou homolog 2; domain 2	0.54	37.0	3.83e-01	71.2%	98.0%
4o7oA02	3.90.1200.10	Alpha Beta › Alpha-Beta Complex › Aminoglycoside 3'-phosphotransferase; Chain: A, domain 2 › Aminoglycoside phosphotransferase (APH), C-terminal lobe	0.53	41.0	3.21e-01	83.7%	87.4%
2cmrA00	1.20.58.1860	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 ›	0.53	37.0	3.09e-01	73.1%	56.8%
3vkgB03	1.20.58.1120	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Dynein motor heavy chain, linker domain, subdomain 4	0.52	37.0	3.29e-01	74.0%	63.5%
2c5iT00	1.20.58.90	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 ›	0.52	37.0	3.87e-01	73.1%	85.1%
3kdqA00	6.10.320.10	Special › Helix non-globular › Ferritin ›	0.52	45.0	4.04e-01	98.1%	99.3%
1xqrA00	1.25.10.10	Mainly Alpha › Alpha Horseshoe › Leucine-rich Repeat Variant › Leucine-rich Repeat Variant	0.51	42.0	3.12e-01	93.3%	34.5%
2dw4A03	1.10.287.80	Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ATP synthase, gamma subunit, helix hairpin domain	0.51	34.0	3.44e-01	91.3%	68.3%
3floB00	1.10.3200.20	Mainly Alpha › Orthogonal Bundle › Hypothetical protein af0941 › DNA Polymerase alpha, zinc finger	0.51	37.0	3.15e-01	77.9%	93.9%
2jqqA00	1.20.58.1240	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 ›	0.50	44.0	3.88e-01	96.2%	91.6%
3h3mA00	1.20.58.380	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Flagellar protein flit.	0.50	35.0	3.71e-01	70.2%	95.5%
3nbxX03	1.20.58.1510	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 ›	0.50	35.0	3.61e-01	72.1%	81.2%
3whjA00	6.10.140.1710	Special › Helix non-globular › Helix Hairpins ›	0.50	31.0	3.13e-01	91.3%	58.6%
4krdB00	1.10.472.10	Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like	0.50	42.0	3.56e-01	95.2%	96.3%

ECOD (39)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3739409	3285.1.1.0 ↗	alpha duplicates or obligate multimers › Alix V domain › Alix V domain › Alix V domain	0.72	49.0	3.96e-01	70.2%	81.5%
5018475	192.29.1.0 ↗	alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding)	0.72	63.0	5.98e-01	94.2%	85.0%
3510392	6157.1.1.1 ↗	alpha bundles › GKAP homology domain 1 › GKAP homology domain 1 › GKAP homology domain 1 › GKAP	0.71	48.0	4.80e-01	70.2%	96.4%
3838012	601.1.2.0 ↗	alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › I/LWEQ domain (Pfam 01608)	0.69	48.0	4.50e-01	70.2%	87.2%
3453826	632.1.1.0 ↗	alpha bundles › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase middle domain › Families 57/38 glycoside transferase middle domain	0.67	48.0	4.68e-01	75.0%	94.8%
3621305	150.1.1.0 ↗	alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin	0.63	45.0	4.06e-01	76.0%	78.7%
3740106	604.1.1.0 ↗	alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat	0.61	42.0	4.06e-01	70.2%	86.1%
3315251	601.14.1.1 ↗	alpha bundles › Four-helical up-and-down bundle › Hemerythrin › Hemerythrin › Hemerythrin	0.60	51.0	4.37e-01	96.2%	93.3%
3184698	3291.1.1.0 ↗	alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related	0.60	34.0	3.68e-01	90.4%	64.4%
3413223	633.23.1.1 ↗	alpha bundles › Bromodomain-like › Claudin › Claudin › PMP22_Claudin	0.60	45.0	3.72e-01	78.8%	89.2%
3220072	604.1.1.0 ↗	alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat	0.60	41.0	4.01e-01	71.2%	89.6%
3701383	109.4.1.0 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat	0.59	53.0	4.31e-01	99.0%	72.8%
4012743	192.29.1.0 ↗	alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding)	0.59	48.0	4.07e-01	90.4%	90.0%
3682306	633.23.1.32 ↗	alpha bundles › Bromodomain-like › Claudin › Claudin › CASP_dom	0.59	43.0	3.81e-01	78.8%	81.2%
3481121	604.1.1.0 ↗	alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat	0.59	40.0	3.79e-01	70.2%	87.2%
3389960	192.29.1.0 ↗	alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding)	0.58	37.0	4.06e-01	94.2%	77.6%
3372974	3684.1.1.2 ↗	alpha complex topology › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like › BPS1	0.58	47.0	3.63e-01	90.4%	63.1%
4022456	604.1.1.0 ↗	alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat	0.58	40.0	3.52e-01	70.2%	77.3%
3391384	5030.1.1.0 ↗	extended segments › Photosystem II reaction center protein L, PsbL › Photosystem II reaction center protein L, PsbL › Photosystem II reaction center protein L, PsbL	0.58	39.0	4.31e-01	92.3%	85.9%
3809640	632.1.1.0 ↗	alpha bundles › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase middle domain › Families 57/38 glycoside transferase middle domain	0.57	36.0	3.47e-01	90.4%	56.5%
3625559	633.21.1.0 ↗	alpha bundles › Bromodomain-like › Uncharacterized protein PA2107 › Uncharacterized protein PA2107	0.57	39.0	3.51e-01	70.2%	75.9%
3543893	604.1.1.1 ↗	alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › Spectrin	0.57	39.0	3.78e-01	71.2%	76.7%
3282593	4121.1.1.1 ↗	a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like › CorA	0.56	48.0	3.65e-01	92.3%	73.3%
3724802	109.4.1.381 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Rrn11	0.56	41.0	3.02e-01	76.9%	49.3%
4453815	192.12.1.1 ↗	alpha bundles › Long alpha-hairpin › Transcriptional repressor TraM › Transcriptional repressor TraM › Prok-TraM	0.55	35.0	3.72e-01	94.2%	71.6%
3937829	603.2.1.1 ↗	alpha bundles › STAT-like › STAT › STAT › STAT_alpha	0.55	46.0	3.65e-01	91.3%	83.7%
4517375	604.1.1.1 ↗	alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › Spectrin	0.55	39.0	3.83e-01	73.1%	95.5%
3884762	604.1.1.0 ↗	alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat	0.55	38.0	3.29e-01	71.2%	61.3%
3927319	192.2.1.2 ↗	alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin	0.54	38.0	3.94e-01	90.4%	77.0%
3686783	604.1.1.0 ↗	alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat	0.53	38.0	3.81e-01	73.1%	79.0%
4349607	192.7.1.2 ↗	alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N	0.52	33.0	3.25e-01	90.4%	59.1%
5018319	1075.1.2.1 ↗	alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › MacB transmembrane domain › FtsX	0.52	34.0	2.79e-01	88.5%	36.8%
3770345	602.2.1.3 ↗	alpha arrays › L-aspartase middle domain-like › RNA-binding protein She2p › RNA-binding protein She2p › PPP1R21_helical	0.52	45.0	3.47e-01	97.1%	84.9%
3220023	174.1.1.0 ↗	few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain	0.52	38.0	3.45e-01	77.9%	85.3%
4978525	4121.1.1.1 ↗	a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like › CorA	0.52	43.0	3.28e-01	92.3%	64.3%
4948245	192.29.1.0 ↗	alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding)	0.51	41.0	4.04e-01	90.4%	80.9%
3588281	622.4.1.34 ↗	alpha bundles › YvfG-like › Mite allergen Der p 5-related › Mite allergen Der p 5-related › DctQ	0.51	36.0	3.60e-01	73.1%	85.5%
4653036	604.1.1.0 ↗	alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat	0.50	35.0	3.17e-01	94.2%	52.9%
3221765	604.1.1.0 ↗	alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat	0.50	34.0	3.54e-01	71.2%	85.0%