←Back to structures

NC_051740.1__YP_009965238.1__I5J51_gp31__00031

Bact-Vir

Identity

Accession:: NC_051740 ↗
Kingdom:: phage

Quality

87.8 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Xaviavirus› Mycobacterium_phage_Xavia

TaxID: 2178923

Cluster

View cluster (2 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 high residues 21-176

PDB

Domain cluster: representative

CATH (8)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
2oaaB01	3.40.210.20	Alpha Beta › 3-Layer(aba) Sandwich › PvuII Endonuclease; Chain A › MvaI/BcnI restriction endonuclease, catalytic domain	0.74	43.0	5.05e-01	100.0%	81.5%
2odhA01	3.40.210.20	Alpha Beta › 3-Layer(aba) Sandwich › PvuII Endonuclease; Chain A › MvaI/BcnI restriction endonuclease, catalytic domain	0.64	41.0	4.60e-01	99.4%	82.1%
4dapA02	3.40.1350.60	Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 ›	0.60	43.0	4.42e-01	73.7%	99.3%
1tx3D00	3.40.600.10	Alpha Beta › 3-Layer(aba) Sandwich › ECO RV Endonuclease; Chain A › DNA mismatch repair MutH/Restriction endonuclease, type II	0.59	54.0	4.58e-01	96.8%	72.5%
4hlbA00	3.30.70.2960	Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits ›	0.56	30.0	3.65e-01	79.5%	82.1%
2icwG02	1.10.10.530	Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › mam-mhc complex, Chain D, Domain 2	0.55	31.0	3.85e-01	100.0%	93.3%
2ezvA01	3.40.600.40	Alpha Beta › 3-Layer(aba) Sandwich › ECO RV Endonuclease; Chain A › Type II restriction enzyme SfiI, multifunctional domain	0.54	49.0	4.58e-01	100.0%	78.7%
4lg1B00	3.40.50.150	Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39	0.51	37.0	3.35e-01	75.0%	84.5%

ECOD (6)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
4973214	2008.1.1.210 ↗	a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PF27324	0.70	56.0	5.36e-01	100.0%	73.3%
3645028	294.1.1.1 ↗	a+b two layers › CI-2 family of serine protease inhibitors-like › CI-2 family of serine protease inhibitors › CI-2 family of serine protease inhibitors › potato_inhibit	0.69	35.0	4.85e-01	94.2%	100.0%
3679502	294.1.1.1 ↗	a+b two layers › CI-2 family of serine protease inhibitors-like › CI-2 family of serine protease inhibitors › CI-2 family of serine protease inhibitors › potato_inhibit	0.62	33.0	4.39e-01	95.5%	100.0%
3204633	2008.1.1.0 ↗	a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like	0.55	47.0	4.04e-01	93.6%	96.0%
3292735	306.7.1.1 ↗	a+b two layers › Glucose permease domain IIB-like › Trigger factor ribosome-binding domain › Trigger factor ribosome-binding domain › Trigger_N	0.53	36.0	3.88e-01	99.4%	80.7%
3942126	4038.1.1.8 ↗	alpha bundles › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Abc1-like	0.50	36.0	2.92e-01	74.4%	68.9%

D2 high residues 177-244

PDB

Domain cluster: representative

CATH (1)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
1sqgA03	3.30.70.1170	Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Sun protein; domain 3	0.58	39.0	4.16e-01	100.0%	82.8%

ECOD (5)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3201891	101.1.2.535 ↗	alpha arrays › HTH › HTH › winged helix domain › PF25889	0.55	32.0	2.94e-01	83.8%	43.3%
3402556	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	46.0	3.04e-01	100.0%	91.4%
3715150	7516.1.1.52 ↗	a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotid_trans	0.53	43.0	2.80e-01	94.1%	67.4%
3663147	3070.1.1.14 ↗	a+b complex topology › N0 domain in phage tail proteins and secretins-like › N0 domain in phage tail proteins and secretins › N0 domain in phage tail proteins and secretins › RsfS	0.53	42.0	4.18e-01	98.5%	87.1%
3099009	284.2.1.1 ↗	a+b two layers › FKBP-like › Chitinase insertion domain › Chitinase insertion domain › Glyco_hydro_18	0.51	38.0	3.02e-01	80.9%	55.8%

D3 high residues 259-315

PDB

Domain cluster: representative

CATH (11)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
6ynwH01	1.20.20.10	Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C	0.68	48.0	4.37e-01	73.7%	56.8%
3ly7A02	1.25.40.10	Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain	0.66	45.0	3.23e-01	70.2%	65.8%
4c0aA01	1.10.220.20	Mainly Alpha › Orthogonal Bundle › Annexin V; domain 1 ›	0.64	49.0	4.36e-01	96.5%	58.0%
1t9kA01	1.20.120.420	Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › translation initiation factor eif-2b, domain 1	0.61	52.0	4.02e-01	100.0%	70.7%
2gytA01	1.10.287.2070	Mainly Alpha › Orthogonal Bundle › Helix Hairpins ›	0.61	41.0	3.83e-01	70.2%	98.6%
4dvyP01	1.10.357.130	Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 ›	0.59	50.0	3.44e-01	94.7%	80.2%
7z7vE01	1.10.10.1590	Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › NADH-quinone oxidoreductase subunit E	0.59	46.0	4.62e-01	93.0%	85.0%
1zx3A01	1.10.287.1020	Mainly Alpha › Orthogonal Bundle › Helix Hairpins › NE0241-like	0.56	40.0	3.61e-01	78.9%	63.5%
2ld7B00	1.20.1160.11	Mainly Alpha › Up-down Bundle › Paired amphipathic helix 2 (pah2 repeat) › Paired amphipathic helix	0.56	45.0	4.18e-01	96.5%	70.7%
4ipeB02	3.30.230.80	Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 ›	0.54	43.0	3.22e-01	93.0%	80.6%
4rv9A02	3.40.50.150	Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39	0.53	38.0	2.76e-01	80.7%	34.3%

ECOD (7)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
4867290	304.48.1.12 ↗	a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › Mononeg_RNA_pol	0.67	47.0	4.50e-01	75.4%	88.1%
3804838	101.1.1.0 ↗	alpha arrays › HTH › HTH › Three-helical HTH	0.58	41.0	3.84e-01	94.7%	58.7%
3989722	632.24.1.0 ↗	alpha bundles › immunoglobulin/albumin-binding domain-like › GBS CAMP factor C-terminal domain › GBS CAMP factor C-terminal domain	0.57	38.0	3.71e-01	70.2%	86.2%
4562028	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	0.55	49.0	3.65e-01	100.0%	56.6%
3670318	4030.1.1.15 ↗	alpha bundles › alpha-helical domain in subunits of heterodimeric actin filament capping protein Capz › alpha-helical domain in subunits of heterodimeric actin filament capping protein Capz › alpha-helical domain in subunits of heterodimeric actin filament capping protein Capz › Ist1	0.53	44.0	4.35e-01	96.5%	86.7%
4029963	375.1.1.26 ↗	few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Rpr2	0.50	37.0	3.13e-01	86.0%	60.0%
59817	109.4.1.0 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat	0.50	41.0	3.08e-01	91.2%	72.1%