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single-stranded_DNA-binding_protein

Euk-Vir

Equid_alphaherpesvirus_1

single-stranded_DNA-binding_protein__YP_053076__Equid_alphaherpesvirus_1__10326

Identity

Accession:: YP_053076 ↗
Protein ID:: single-stranded_DNA-binding_protein
Kingdom:: euk

Quality

76.4 mean pLDDT

Taxonomy

Heunggongvirae› Peploviricota› Herviviricetes› Herpesvirales› Orthoherpesviridae› Varicellovirus› Equid_alphaherpesvirus_1

TaxID: 10326

Cluster

View cluster (33 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 1-229_735-781

PDB

Domain cluster: rep: ORF6__YP_001129352__Human_gammaherpesvirus_8__37296__D13-252_683-721

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF00747.23 best	Viral_DNA_bp	259.7	5.20e-77	85.1%	20.1%

CATH (1)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3hzeA00	3.30.70.1860	Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Uncharacterised protein family Ycf54	0.53	21.0	3.27e-01	78.3%	89.7%

ECOD (2)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
7679	4174.1.1.1 ↗	a+b complex topology › N-terminal domain in viral ssDNA binding protein › N-terminal domain in viral ssDNA binding protein › N-terminal domain in viral ssDNA binding protein › Viral_DNA_bp	0.82	76.0	7.64e-01	93.5%	94.2%
3580677	229.1.1.0 ↗	a+b two layers › Cdc48 domain 2-like › Cdc48 domain 2-like › Cdc48 domain 2-like	0.53	17.0	2.91e-01	88.4%	82.2%

D2 medium residues 230-280

PDB

Domain cluster: representative

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF00747.23 best	Viral_DNA_bp	45.5	2.50e-12	100.0%	4.4%

CATH (1)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
2qkoA00	1.10.357.10	Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2	0.62	49.0	3.51e-01	94.1%	44.8%

ECOD (6)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
7679	4174.1.1.1 ↗	a+b complex topology › N-terminal domain in viral ssDNA binding protein › N-terminal domain in viral ssDNA binding protein › N-terminal domain in viral ssDNA binding protein › Viral_DNA_bp	0.95	89.0	5.41e-01	100.0%	18.6%
3846933	101.1.2.45 ↗	alpha arrays › HTH › HTH › winged helix domain › SAC3_GANP	0.70	52.0	4.25e-01	80.4%	55.8%
3890365	103.1.1.102 ↗	alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain › UBA_RNF31	0.63	47.0	4.45e-01	84.3%	72.3%
3615304	604.5.1.0 ↗	alpha bundles › Spectrin repeat-like › PhoU-like (Pfam 01895) › PhoU-like (Pfam 01895)	0.54	39.0	2.60e-01	82.4%	87.7%
4949262	1.1.9.45 ↗	beta barrels › cradle loop barrel › RIFT-related › PUA domain › DUF3427	0.51	38.0	2.44e-01	80.4%	38.4%
4825677	148.1.3.201 ↗	alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › AAA_2	0.51	39.0	2.87e-01	88.2%	28.8%

D3 medium residues 316-344_669-734

PDB

Domain cluster: rep: single-stranded_DNA-binding_protein__YP_164472__Cercopithecine_alphaherpesvirus_2__10317__D356-374_532-549_656-731_769-775

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF00747.23 best	Viral_DNA_bp	41.2	4.90e-11	71.6%	6.2%

CATH (17)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
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	0.72	51.0	5.39e-01	97.9%	82.4%
3a06B03	1.10.1740.10	Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif	0.69	52.0	5.38e-01	100.0%	86.4%
3b5iA02	1.10.1200.220	Mainly Alpha › Orthogonal Bundle › Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A ›	0.67	39.0	3.95e-01	83.2%	56.8%
5l3wA01	1.20.120.140	Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › SRP54, nucleotide-binding domain	0.66	42.0	4.41e-01	100.0%	72.6%
3gi7A00	1.20.1270.180	Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 ›	0.56	44.0	4.37e-01	89.5%	80.6%
2bg9C02	1.20.58.390	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Neurotransmitter-gated ion-channel transmembrane domain	0.56	37.0	3.13e-01	72.6%	40.0%
4hr1A00	1.20.1270.410	Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 ›	0.55	38.0	3.60e-01	72.6%	93.2%
2xzmV01	1.10.60.20	Mainly Alpha › Orthogonal Bundle › Diphtheria Toxin Repressor; domain 2 › Ribosomal protein S17	0.54	32.0	4.00e-01	89.5%	95.1%
2oyoA02	1.20.1290.10	Mainly Alpha › Up-down Bundle › AhpD-like › AhpD-like	0.53	32.0	2.92e-01	98.9%	44.8%
3edvB01	1.20.58.60	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 ›	0.53	37.0	3.33e-01	72.6%	56.6%
6tmfT00	1.10.60.20	Mainly Alpha › Orthogonal Bundle › Diphtheria Toxin Repressor; domain 2 › Ribosomal protein S17	0.53	34.0	4.13e-01	94.7%	98.4%
2qksA01	1.10.287.70	Mainly Alpha › Orthogonal Bundle › Helix Hairpins ›	0.52	36.0	3.53e-01	70.5%	87.7%
3bg2A03	1.10.3410.10	Mainly Alpha › Orthogonal Bundle › putative deoxyguanosinetriphosphate triphosphohydrolase fold › putative deoxyguanosinetriphosphate triphosphohydrolase like domain	0.52	42.0	4.19e-01	91.6%	88.5%
2lm9A00	1.20.58.970	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 ›	0.52	37.0	3.69e-01	72.6%	75.0%
1u7lA02	1.20.1460.10	Mainly Alpha › Up-down Bundle › subunit c (vma5p) of the yeast v-atpase, domain 2 › subunit c (vma5p) of the yeast v-atpase, domain 2	0.52	43.0	3.42e-01	88.4%	71.0%
2c5iT00	1.20.58.90	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 ›	0.51	34.0	3.51e-01	72.6%	70.2%
1qsdA00	1.20.58.90	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 ›	0.50	35.0	3.46e-01	72.6%	84.3%

ECOD (18)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
4876272	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	0.69	51.0	5.10e-01	100.0%	76.3%
4217669	2003.1.1.0 ↗	a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains	0.62	47.0	3.55e-01	85.3%	32.1%
3935763	5001.1.1.5 ↗	alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_3	0.62	45.0	3.45e-01	77.9%	63.6%
4971089	1075.1.2.0 ↗	alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › MacB transmembrane domain	0.60	43.0	3.56e-01	74.7%	49.7%
3591589	5050.1.1.28 ↗	alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › BT1	0.59	48.0	3.76e-01	86.3%	90.5%
4541657	547.1.1.1 ↗	alpha duplicates or obligate multimers › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › GlutR_dimer	0.57	44.0	4.74e-01	85.3%	100.0%
4011331	3651.1.1.0 ↗	alpha bundles › Translation initiation factor eIF-2B delta subunit N-terminal helical domain › Translation initiation factor eIF-2B delta subunit N-terminal helical domain › Translation initiation factor eIF-2B delta subunit N-terminal helical domain	0.56	39.0	3.72e-01	100.0%	57.5%
3940779	604.1.1.0 ↗	alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat	0.55	40.0	3.87e-01	75.8%	78.1%
4958744	604.1.1.0 ↗	alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat	0.55	38.0	3.68e-01	72.6%	67.3%
3484930	604.1.1.1 ↗	alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › Spectrin	0.54	38.0	3.67e-01	72.6%	71.4%
3447097	603.1.1.99 ↗	alpha bundles › STAT-like › t-snare proteins › t-snare proteins › PF27021	0.53	38.0	3.60e-01	72.6%	80.0%
3722881	633.21.1.0 ↗	alpha bundles › Bromodomain-like › Uncharacterized protein PA2107 › Uncharacterized protein PA2107	0.53	38.0	3.24e-01	73.7%	81.3%
None	—		0.53	41.0	3.03e-01	85.3%	31.6%
3900923	604.1.1.0 ↗	alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat	0.53	37.0	3.63e-01	71.6%	71.0%
3667494	2003.1.1.0 ↗	a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains	0.52	41.0	3.00e-01	85.3%	31.1%
4552428	5050.1.1.0 ↗	alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter	0.51	41.0	3.15e-01	92.6%	78.0%
5081351	5050.1.1.9 ↗	alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › MFS_1	0.50	38.0	2.97e-01	83.2%	72.0%
3586228	604.1.1.0 ↗	alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat	0.50	35.0	3.51e-01	72.6%	73.0%

D4 medium residues 572-651_860-918

PDB

Domain cluster: rep: single-stranded_DNA-binding_protein__YP_009176908__Testudinid_alphaherpesvirus_3__2560801__D537-651_841-913

Pfam (2)

Accession	Name	Score	E-value	Q cov	HMM cov
PF00747.23 best	Viral_DNA_bp	37.6	6.10e-10	61.9%	6.9%
PF00747.23	Viral_DNA_bp	56.8	9.80e-16	42.4%	4.8%

D5 medium residues 806-859

PDB

Domain cluster: representative

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF00747.23 best	Viral_DNA_bp	48.8	2.50e-13	100.0%	4.4%

CATH (2)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
1urjA02	1.20.190.40	Mainly Alpha › Up-down Bundle › Delta-Endotoxin; domain 1 › Viral ssDNA binding protein, head domain	0.93	86.0	5.66e-01	100.0%	28.2%
3qrxA02	1.10.238.10	Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › EF-hand	0.53	38.0	3.64e-01	81.5%	98.5%

ECOD (10)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
1758775	108.1.1.97 ↗	alpha arrays › EF-hand › EF-hand-related › EF-hand › EF-hand_1, EF-hand_7	0.56	41.0	3.90e-01	87.0%	94.5%
3486698	108.1.1.99 ↗	alpha arrays › EF-hand › EF-hand-related › EF-hand › EF-hand_5, EF-hand_6, EF-hand_7	0.56	46.0	3.49e-01	100.0%	62.0%
3264817	108.1.1.97 ↗	alpha arrays › EF-hand › EF-hand-related › EF-hand › EF-hand_1, EF-hand_7	0.55	40.0	3.69e-01	83.3%	97.5%
3392370	108.1.1.73 ↗	alpha arrays › EF-hand › EF-hand-related › EF-hand › EF-hand_5+EF-hand_7	0.55	43.0	3.11e-01	98.1%	80.5%
4011923	207.1.1.0 ↗	beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats	0.54	40.0	2.36e-01	81.5%	10.2%
3448303	108.1.1.0 ↗	alpha arrays › EF-hand › EF-hand-related › EF-hand	0.53	41.0	2.75e-01	100.0%	64.9%
3866484	108.1.1.96 ↗	alpha arrays › EF-hand › EF-hand-related › EF-hand › EF-hand_1, EF-hand_6, EF-hand_7	0.53	40.0	3.38e-01	92.6%	83.6%
3931880	108.1.1.0 ↗	alpha arrays › EF-hand › EF-hand-related › EF-hand	0.52	37.0	3.47e-01	79.6%	81.3%
4406284	152.1.2.1 ↗	alpha arrays › RPB6/omega subunit-like › RPB6/omega subunit-like › RNA polymerase omega subunit › RNA_pol_Rpb6	0.52	36.0	3.49e-01	79.6%	68.6%
3934631	108.1.1.98 ↗	alpha arrays › EF-hand › EF-hand-related › EF-hand › EF-hand_1, EF-hand_5, EF-hand_7	0.51	40.0	3.34e-01	94.4%	84.5%

D6 medium residues 1040-1142

PDB