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NC_022982.1__YP_008858919.1__Paz_44__00044

Bact-Vir

Identity

Accession:: NC_022982 ↗
Kingdom:: phage

Quality

64.6 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Autographivirales› Autonotataviridae› Pazvirus› Xylella_phage_Paz

TaxID: 1415145

Cluster

Singleton — not in a non-trivial cluster

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 8-50

PDB

Domain cluster: representative

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF11123.15 best	DNA_Packaging_2	40.1	4.40e-10	100.0%	53.8%

CATH (23)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
1hqoA02	1.20.1050.10	Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 ›	0.73	59.0	4.37e-01	100.0%	80.2%
7nc3F01	1.20.1050.10	Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 ›	0.73	60.0	4.57e-01	100.0%	89.5%
1rq0A01	6.10.140.160	Special › Helix non-globular › Helix Hairpins ›	0.71	58.0	4.73e-01	95.3%	48.2%
4ri6A02	1.20.1050.10	Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 ›	0.71	57.0	4.37e-01	100.0%	82.4%
4ivfA02	1.20.1050.10	Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 ›	0.71	58.0	4.39e-01	100.0%	79.3%
3layF00	1.20.120.1490	Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) ›	0.71	61.0	5.07e-01	100.0%	56.4%
2gtsA00	1.10.287.850	Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HP0062-like domain	0.70	57.0	4.91e-01	100.0%	62.3%
1mabB03	1.10.1140.10	Mainly Alpha › Orthogonal Bundle › Bovine Mitochondrial F1-ATPase, ATP Synthase Beta Chain; Chain D, domain3 › Bovine Mitochondrial F1-atpase; Atp Synthase Beta Chain; Chain D, domain 3	0.68	57.0	4.26e-01	100.0%	41.5%
1hciA04	1.20.58.60	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 ›	0.68	55.0	4.15e-01	97.7%	36.0%
1wcrA00	1.20.58.80	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit	0.66	57.0	4.32e-01	97.7%	76.7%
2bduA02	1.10.150.340	Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Pyrimidine 5'-nucleotidase (UMPH-1), N-terminal domain	0.66	52.0	4.56e-01	95.3%	56.8%
2y4tA02	1.10.287.110	Mainly Alpha › Orthogonal Bundle › Helix Hairpins › DnaJ domain	0.65	52.0	5.07e-01	100.0%	84.6%
1f45B00	1.20.1250.10	Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; ›	0.65	56.0	3.99e-01	100.0%	33.8%
4e12A01	3.40.50.720	Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain	0.65	52.0	3.35e-01	90.7%	19.7%
3zdmB00	1.20.5.420	Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Immunoglobulin FC, subunit C	0.64	53.0	5.12e-01	97.7%	92.0%
2qyuA02	1.25.40.300	Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Putative secreted effector protein	0.64	48.0	3.29e-01	95.3%	23.1%
4nsmA00	6.10.250.2770	Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces ›	0.63	49.0	4.39e-01	100.0%	100.0%
5jxxA02	1.20.1180.10	Mainly Alpha › Up-down Bundle › Udp N-acetylglucosamine O-acyltransferase; Domain 2 › Udp N-acetylglucosamine O-acyltransferase, C-terminal domain	0.62	50.0	4.42e-01	90.7%	63.6%
7ce1A01	1.10.260.40	Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains	0.61	47.0	4.48e-01	86.0%	80.8%
6f0cA00	1.10.630.10	Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450	0.61	46.0	2.77e-01	90.7%	10.4%
4nv0A02	1.10.150.340	Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Pyrimidine 5'-nucleotidase (UMPH-1), N-terminal domain	0.58	45.0	3.92e-01	100.0%	53.7%
1z8sA02	6.10.140.360	Special › Helix non-globular › Helix Hairpins ›	0.58	43.0	4.33e-01	95.3%	88.1%
4eekA02	1.10.150.240	Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2	0.53	37.0	3.43e-01	81.4%	92.4%

ECOD (25)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3687521	7023.1.1.2 ↗	alpha bundles › helical ridge domain of D-alanyl transfer protein › helical ridge domain of D-alanyl transfer protein › helical ridge domain of D-alanyl transfer protein › Pex2_Pex12	0.91	82.0	5.34e-01	100.0%	25.9%
3890229	603.1.1.64 ↗	alpha bundles › STAT-like › t-snare proteins › t-snare proteins › CUPID	0.76	61.0	4.73e-01	90.7%	52.6%
3593009	622.4.1.0 ↗	alpha bundles › YvfG-like › Mite allergen Der p 5-related › Mite allergen Der p 5-related	0.74	65.0	5.30e-01	100.0%	56.2%
3235225	4177.1.1.5 ↗	alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like › Vps5	0.74	62.0	3.94e-01	95.3%	18.6%
3690273	109.4.1.271 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › FAN1_TPR	0.73	60.0	3.92e-01	100.0%	21.4%
3486871	192.10.1.5 ↗	alpha bundles › Long alpha-hairpin › DnaK suppressor protein DksA, alpha-hairpin domain › DnaK suppressor protein DksA, alpha-hairpin domain › Helical_CED_Drosha	0.73	60.0	5.53e-01	100.0%	73.3%
1956188	3615.1.1.1 ↗	alpha bundles › Bacterial dynamin-like protein helical domain › Bacterial dynamin-like protein helical domain › Bacterial dynamin-like protein helical domain › Fzo_mitofusin	0.73	60.0	5.10e-01	95.3%	65.8%
2772104	103.1.1.13 ↗	alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain › RNA_pol_Rpo13	0.73	59.0	5.93e-01	95.3%	86.4%
3839497	150.5.1.0 ↗	alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like	0.72	57.0	4.73e-01	95.3%	52.9%
4232718	4006.1.1.1 ↗	alpha bundles › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain › PCRF	0.72	58.0	4.55e-01	95.3%	44.0%
3518551	109.4.1.0 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat	0.72	59.0	3.55e-01	100.0%	15.3%
3769844	4.1.1.310 ↗	beta barrels › SH3 › SH3 › SH3 › PF26050	0.71	59.0	4.17e-01	100.0%	29.3%
3807618	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	0.71	61.0	5.72e-01	100.0%	96.4%
5026453	4323.1.1.0 ↗	alpha bundles › helical bundle domain in vacuolar ATP synthase subunit C › helical bundle domain in vacuolar ATP synthase subunit C › helical bundle domain in vacuolar ATP synthase subunit C	0.71	59.0	4.24e-01	100.0%	48.6%
3908810	4177.1.1.1 ↗	alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like › FCH	0.70	60.0	3.61e-01	95.3%	13.9%
4378877	3711.1.1.20 ↗	alpha bundles › LTXXQ motif family protein › LTXXQ motif family protein › LTXXQ motif family protein › DUF444	0.70	57.0	4.87e-01	95.3%	54.7%
4957605	5076.2.1.13 ↗	alpha complex topology › Mitochondrial ADP/ATP carrier-like › Putative sulfate permease CysZ › Putative sulfate permease CysZ › DUF7847	0.69	57.0	3.72e-01	100.0%	40.9%
3780651	3602.1.1.0 ↗	alpha bundles › Kinase suppressor of Ras 1 helical hairpin domain › Kinase suppressor of Ras 1 helical hairpin domain › Kinase suppressor of Ras 1 helical hairpin domain	0.69	56.0	5.07e-01	100.0%	89.2%
3965811	3711.1.1.0 ↗	alpha bundles › LTXXQ motif family protein › LTXXQ motif family protein › LTXXQ motif family protein	0.67	57.0	4.26e-01	95.3%	84.4%
3664076	148.1.1.1 ↗	alpha arrays › Histone-like › Histone-related › Histone › Histone	0.67	57.0	4.28e-01	100.0%	38.2%
3239681	109.4.1.0 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat	0.67	58.0	4.11e-01	100.0%	72.1%
3260646	109.4.1.0 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat	0.67	54.0	4.58e-01	100.0%	53.3%
4207093	632.1.1.33 ↗	alpha bundles › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase middle domain › Families 57/38 glycoside transferase middle domain › DUF5614	0.66	51.0	4.68e-01	95.3%	63.1%
2141223	5055.1.1.1 ↗	extended segments › Small-conductance potassium channel › Small-conductance potassium channel › Small-conductance potassium channel › CaMBD	0.64	51.0	4.17e-01	100.0%	47.4%
3477975	7023.1.1.0 ↗	alpha bundles › helical ridge domain of D-alanyl transfer protein › helical ridge domain of D-alanyl transfer protein › helical ridge domain of D-alanyl transfer protein	0.60	48.0	3.64e-01	93.0%	91.3%