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NC_055744.1__YP_010095315.1__KNT88_gp077__00077

Bact-Vir

Identity

Accession:: NC_055744 ↗
Kingdom:: phage

Quality

87.4 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pantevenvirales› Kyanoviridae› Shandvirus› Synechococcus_phage_S-B64

TaxID: 2163901

Cluster

Singleton — not in a non-trivial cluster

3D Structure

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Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 8-106

PDB

Domain cluster: representative

CATH (5)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
1wzoA01	2.30.30.370	Mainly Beta › Roll › SH3 type barrels. › FAH	0.60	27.0	3.58e-01	81.8%	92.5%
1sg5A01	2.30.30.400	Mainly Beta › Roll › SH3 type barrels. › Rof-like	0.55	38.0	4.17e-01	100.0%	93.5%
1mw5A01	1.20.272.30	Mainly Alpha › Up-down Bundle › Zinc Finger, Delta Prime; domain 3 ›	0.53	40.0	3.51e-01	79.8%	86.9%
1wg1A01	3.30.70.330	Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain	0.52	31.0	3.45e-01	100.0%	78.9%
2e1bA02	3.30.980.10	Alpha Beta › 2-Layer Sandwich › Threonyl-tRNA Synthetase; Chain A, domain 2 › Threonyl-trna Synthetase; Chain A, domain 2	0.51	36.0	3.32e-01	96.0%	55.8%

ECOD (3)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
4090235	1189.1.1.2 ↗	alpha bundles › VSG (variant surface glycoprotein) N-terminal domain and haptoglobin-hemoglobin receptor › VSG (variant surface glycoprotein) N-terminal domain and haptoglobin-hemoglobin receptor › VSG (variant surface glycoprotein) N-terminal domain and haptoglobin-hemoglobin receptor › VSG_B	0.55	42.0	2.93e-01	81.8%	89.0%
4961785	186.1.1.0 ↗	alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N	0.53	42.0	3.75e-01	87.9%	73.3%
5059830	4.7.1.0 ↗	beta barrels › SH3 › RNase P subunit p29 › RNase P subunit p29	0.52	38.0	4.01e-01	100.0%	86.7%

D2 medium residues 115-221

PDB

Domain cluster: representative

CATH (11)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
5ja4D00	1.25.40.20	Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Ankyrin repeat-containing domain	0.57	34.0	3.11e-01	99.1%	42.3%
3h51A00	3.10.450.50	Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, ›	0.57	36.0	3.30e-01	78.5%	47.2%
4i8oA04	6.10.250.2650	Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces ›	0.57	38.0	3.99e-01	76.6%	75.5%
3b6hA00	1.10.630.10	Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450	0.56	49.0	3.29e-01	99.1%	69.9%
1grlB01	1.10.560.10	Mainly Alpha › Orthogonal Bundle › GROEL; domain 1 › GroEL-like equatorial domain	0.53	45.0	3.53e-01	94.4%	86.9%
3f6tA02	1.10.20.110	Mainly Alpha › Orthogonal Bundle › Histone, subunit A ›	0.53	37.0	3.43e-01	73.8%	93.9%
2b7uA02	4.10.470.10	Few Secondary Structures › Irregular › Ricin (A Subunit), domain 2 › Ricin (A Subunit), domain 2	0.52	30.0	3.33e-01	96.3%	72.0%
2looA02	1.10.10.1740	Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Transmembrane protein 14-like	0.51	35.0	4.03e-01	98.1%	100.0%
1v7wA03	1.50.10.10	Mainly Alpha › Alpha/alpha barrel › Glycosyltransferase ›	0.51	38.0	2.67e-01	80.4%	79.1%
5y2vC01	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	3.80e-01	87.9%	89.4%
1pduA00	1.10.565.10	Mainly Alpha › Orthogonal Bundle › Retinoid X Receptor › Retinoid X Receptor	0.50	40.0	3.16e-01	86.9%	84.3%

ECOD (10)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
4253851	149.1.1.1 ↗	alpha arrays › Cytochrome P450 › Cytochrome P450 › Cytochrome P450 › p450	0.57	50.0	3.32e-01	100.0%	67.5%
3098534	101.1.1.20 ↗	alpha arrays › HTH › HTH › Three-helical HTH › CPSF_A	0.55	40.0	3.87e-01	77.6%	95.2%
4625711	570.1.1.1 ↗	alpha arrays › Pre-protein crosslinking domain of SecA › Pre-protein crosslinking domain of SecA › Pre-protein crosslinking domain of SecA › SecA_PP_bind	0.54	41.0	3.94e-01	81.3%	94.4%
1843009	3783.1.1.1 ↗	alpha bundles › Toxin RnlA C-terminal domain › Toxin RnlA C-terminal domain › Toxin RnlA C-terminal domain › RnlA-toxin_DBD	0.53	38.0	3.29e-01	74.8%	63.4%
3607471	109.4.1.0 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat	0.53	32.0	2.86e-01	100.0%	40.0%
5048351	243.1.1.18 ↗	a+b two layers › Cystatin-like › NTF2-like › NTF2-like › SnoaL_2	0.53	35.0	3.18e-01	78.5%	49.0%
None	—		0.52	40.0	3.83e-01	81.3%	93.6%
4869970	212.1.1.3 ↗	a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › GHMP_kinases_N	0.51	35.0	2.89e-01	72.0%	93.5%
3518307	193.1.1.33 ↗	alpha bundles › CH domain-like › Calponin-homology domain-like › Calponin-homology domain-like › CH_CAMSAP2_N	0.51	35.0	3.33e-01	70.1%	87.7%
3937588	102.1.2.10 ↗	alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › DNA-glycosylase › Q_salvage	0.50	39.0	2.79e-01	83.2%	54.5%

D3 medium residues 222-405_571-582

PDB

Domain cluster: representative

D4 medium residues 440-500

PDB

Domain cluster: representative

CATH (7)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
2hngA00	3.10.420.10	Alpha Beta › Roll › Bacterial Protein-export protein SecB › SecB-like	0.60	42.0	3.39e-01	75.4%	94.4%
2igpA00	1.10.418.30	Mainly Alpha › Orthogonal Bundle › Actin-binding Protein, T-fimbrin; domain 1 › Ncd80 complex, Ncd80 subunit	0.58	43.0	3.52e-01	95.1%	43.0%
3l8rA00	1.20.58.80	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit	0.53	41.0	3.48e-01	85.2%	52.0%
3rq9A00	1.10.287.2500	Mainly Alpha › Orthogonal Bundle › Helix Hairpins ›	0.52	38.0	3.59e-01	85.2%	62.8%
1ji8A02	1.10.10.370	Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › DsrC protein, C-terminal domain	0.52	31.0	3.14e-01	85.2%	56.2%
4f3lA01	4.10.280.10	Few Secondary Structures › Irregular › MYOD Basic-Helix-Loop-Helix Domain, subunit B › Helix-loop-helix DNA-binding domain	0.51	34.0	3.21e-01	100.0%	54.5%
2f8lA01	1.10.150.470	Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 ›	0.50	37.0	3.47e-01	83.6%	79.0%

ECOD (6)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
2556039	540.1.1.1 ↗	few secondary structure elements › Cytochrome c oxidase subunit h › Cytochrome c oxidase subunit h › Cytochrome c oxidase subunit h › COX6B	0.61	43.0	3.85e-01	75.4%	74.2%
3566908	101.1.2.24 ↗	alpha arrays › HTH › HTH › winged helix domain › MAGE	0.59	41.0	3.60e-01	72.1%	74.4%
3399176	3525.1.1.1 ↗	alpha arrays › Bromodomain-containing protein 4 ET domain › Bromodomain-containing protein 4 ET domain › Bromodomain-containing protein 4 ET domain › BET	0.59	44.0	4.34e-01	82.0%	76.9%
5796	504.1.1.2 ↗	a+b two layers › Bacterial protein-export protein SecB › Bacterial protein-export protein SecB › Bacterial protein-export protein SecB › DUF1149	0.58	42.0	3.35e-01	77.0%	95.2%
3227967	616.1.1.2 ↗	alpha arrays › S15/NS1 RNA-binding domain › S15/NS1 RNA-binding domain › S15/NS1 RNA-binding domain › WHEP-TRS	0.58	40.0	4.04e-01	78.7%	73.3%
3958049	633.6.1.0 ↗	alpha bundles › Bromodomain-like › Acyl-CoA dehydrogenase C-terminal domain-like › Acyl-CoA dehydrogenase C-terminal domain-like	0.54	45.0	3.68e-01	95.1%	78.3%