←Back to structures

single-stranded_DNA-binding_protein

Euk-Vir

Psittacid_alphaherpesvirus_1

single-stranded_DNA-binding_protein__NP_944402__Psittacid_alphaherpesvirus_1__50294

Identity

Accession:: NP_944402 ↗
Protein ID:: single-stranded_DNA-binding_protein
Kingdom:: euk

Quality

71.6 mean pLDDT

Taxonomy

Heunggongvirae› Peploviricota› Herviviricetes› Herpesvirales› Orthoherpesviridae› Iltovirus› Psittacid_alphaherpesvirus_1

TaxID: 50294

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 18-36_71-96_136-162_179-260_732-768

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	99.4	1.30e-28	60.2%	10.7%

D2 medium residues 37-70_97-135_163-178

PDB

Domain cluster: representative

Pfam (2)

Accession	Name	Score	E-value	Q cov	HMM cov
PF00747.23 best	Viral_DNA_bp	48.0	4.40e-13	48.3%	3.5%
PF00747.23	Viral_DNA_bp	28.2	4.10e-07	39.3%	2.8%

CATH (1)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
2x0qA01	3.30.310.280	Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein ›	0.50	32.0	2.86e-01	95.5%	43.6%

ECOD (1)

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	0.96	93.0	6.27e-01	100.0%	49.3%

D3 medium residues 261-335

PDB

Domain cluster: representative

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF00747.23 best	Viral_DNA_bp	60.1	9.70e-17	100.0%	6.2%

CATH (8)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
1h6vA01	3.50.50.60	Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain	0.71	59.0	4.17e-01	90.7%	45.3%
2hqmA01	3.50.50.60	Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain	0.71	59.0	4.16e-01	90.7%	44.3%
3rkgA02	1.20.58.340	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Magnesium transport protein CorA, transmembrane region	0.65	45.0	3.46e-01	81.3%	32.9%
6nyyE01	1.20.58.760	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Peptidase M41	0.65	56.0	4.26e-01	96.0%	59.0%
2dlaA01	1.20.930.50	Mainly Alpha › Up-down Bundle › Transcription Elongation Factor S-II; Chain A ›	0.61	53.0	4.19e-01	100.0%	80.0%
1t3qA02	1.10.150.120	Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › [2Fe-2S]-binding domain	0.53	40.0	3.96e-01	100.0%	76.5%
2xokP00	1.20.20.10	Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C	0.52	40.0	4.04e-01	81.3%	87.8%
3o39A00	1.20.120.1490	Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) ›	0.50	38.0	3.49e-01	80.0%	81.2%

ECOD (26)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
4459153	1075.4.1.1 ↗	alpha bundles › Type II ABC exporter transmembrane domain fold › Type I ABC exporter transmembrane domain fold › Type I ABC exporter transmembrane domain fold › ABC_membrane	0.71	62.0	4.07e-01	100.0%	47.5%
3631951	3755.3.1.355 ↗	alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › Uds1	0.69	49.0	3.93e-01	73.3%	89.3%
3492325	109.4.1.602 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Dor1	0.68	53.0	4.09e-01	84.0%	56.5%
3261616	2484.1.1.0 ↗	mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like	0.64	47.0	3.48e-01	78.7%	99.0%
3331225	5042.1.1.0 ↗	extended segments › Magnesium transport protein CorA, transmembrane region › Magnesium transport protein CorA, transmembrane region › Magnesium transport protein CorA, transmembrane region	0.64	49.0	5.11e-01	81.3%	98.6%
3702029	4070.1.1.1 ↗	alpha arrays › FtsH protease domain-like › FtsH protease domain-like › FtsH protease domain-like › Peptidase_M41	0.60	52.0	3.73e-01	97.3%	45.8%
3801856	3755.4.1.75 ↗	alpha bundles › YscO-like › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain › PF28572	0.57	44.0	3.20e-01	81.3%	94.4%
3728497	4207.1.1.43 ↗	alpha duplicates or obligate multimers › Mediator hinge subcomplex-like › Mediator hinge subcomplex-like › RNA polymerase II holoenzyme component SRB7 (MED21) › THOC7	0.57	42.0	3.98e-01	78.7%	83.3%
3711632	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	0.56	41.0	3.74e-01	77.3%	86.0%
3552917	7022.1.1.1 ↗	alpha bundles › central core domain of D-alanyl transfer protein › central core domain of D-alanyl transfer protein › central core domain of D-alanyl transfer protein › MBOAT	0.56	46.0	3.40e-01	88.0%	36.1%
5019774	5001.1.1.293 ↗	alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › MASE3	0.56	45.0	2.87e-01	89.3%	55.1%
4618205	604.1.1.150 ↗	alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › PF28954	0.56	50.0	4.23e-01	97.3%	90.8%
5083908	604.12.1.0 ↗	alpha bundles › Spectrin repeat-like › MIT domain › MIT domain	0.56	50.0	4.25e-01	97.3%	65.8%
3954913	3755.3.1.0 ↗	alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin	0.55	45.0	3.93e-01	100.0%	58.3%
3988581	5086.1.1.0 ↗	alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins	0.55	42.0	3.97e-01	81.3%	98.9%
3901661	2004.1.1.23 ↗	a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SNF2-rel_dom	0.55	46.0	3.02e-01	92.0%	50.3%
3832631	5054.1.1.140 ↗	alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels › DUF7813	0.54	42.0	2.90e-01	82.7%	26.4%
3225449	621.1.1.0 ↗	alpha bundles › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain	0.54	43.0	4.34e-01	97.3%	89.3%
3428856	1145.1.1.1 ↗	few secondary structure elements › nigellin-1.1 › nigellin-1.1 › nigellin-1.1 › Per1	0.53	43.0	3.90e-01	88.0%	72.0%
3516337	604.7.1.0 ↗	alpha bundles › Spectrin repeat-like › Tubulin chaperone cofactor A › Tubulin chaperone cofactor A	0.53	41.0	3.59e-01	82.7%	81.8%
4008202	192.8.1.60 ↗	alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain › DUF2542	0.52	44.0	4.31e-01	89.3%	87.3%
3192264	7076.1.1.0 ↗		0.52	43.0	3.94e-01	90.7%	86.0%
3676029	4958.1.1.1 ↗	a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_5,RNA_pol_Rpb1_4	0.52	44.0	3.11e-01	100.0%	66.8%
3285319	4033.1.1.1 ↗	alpha arrays › Acyl-CoA dehydrogenase N-terminal domain-like › Acyl-CoA dehydrogenase N-terminal domain-like › Acyl-CoA dehydrogenase N-terminal domain-like › Acyl-CoA_dh_N	0.51	43.0	3.54e-01	94.7%	61.4%
4314535	150.5.1.64 ↗	alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like › DUF5344	0.50	45.0	4.48e-01	98.7%	97.5%
3253207	1065.1.1.1 ↗	alpha bundles › SPX domain › SPX domain › SPX domain › SPX	0.50	43.0	3.23e-01	96.0%	50.3%

D4 medium residues 367-537

PDB

Domain cluster: rep: single-stranded_DNA-binding_protein__YP_009176908__Testudinid_alphaherpesvirus_3__2560801__D335-385_440-475_518-536_652-666

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF00747.23 best	Viral_DNA_bp	215.4	1.20e-63	100.0%	14.4%

D5 medium residues 538-555_653-731_769-796_908-920_965-1040

PDB

D6 medium residues 556-652_797-832_894-907

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	100.3	7.30e-29	67.3%	9.0%
PF00747.23	Viral_DNA_bp	37.0	9.50e-10	30.6%	3.2%

CATH (5)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
2ix5A03	1.20.140.10	Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3	0.60	40.0	4.02e-01	95.2%	64.5%
2c0uA03	1.20.140.10	Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3	0.56	41.0	3.98e-01	95.2%	66.3%
1egdA03	1.20.140.10	Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3	0.56	37.0	3.85e-01	95.2%	70.9%
2wbiB03	1.20.140.10	Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3	0.55	40.0	3.93e-01	96.6%	69.0%
1rx0A03	1.20.140.10	Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3	0.55	38.0	3.78e-01	95.2%	67.7%