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MN096365.1QDK02247.1SEA_SAMBA_33__00033

Bact-Vir

MN096365.1__QDK02247.1__SEA_SAMBA_33__00033

Identity

Accession:: MN096365 ↗
Kingdom:: phage

Quality

83.5 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Jujuvirus› Gordonia_phage_Samba

TaxID: 2593336

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 1-82

PDB

Domain cluster: representative

CATH (25)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
6xz3A01	1.20.120.230	Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like	0.67	53.0	4.69e-01	93.9%	59.8%
2v6yA00	1.20.58.80	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit	0.63	41.0	4.26e-01	93.9%	72.0%
3r2qA02	1.20.1050.10	Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 ›	0.63	55.0	4.90e-01	93.9%	73.5%
1jogA00	1.20.120.330	Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2	0.63	55.0	4.69e-01	100.0%	71.1%
4gltA02	1.20.1050.10	Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 ›	0.62	52.0	4.65e-01	90.2%	74.6%
3onjA00	1.20.58.400	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › t-snare proteins	0.62	50.0	4.78e-01	90.2%	74.2%
7nc3F01	1.20.1050.10	Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 ›	0.60	52.0	4.66e-01	95.1%	75.4%
4mk3A02	1.20.1050.10	Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 ›	0.60	52.0	4.65e-01	95.1%	73.9%
6f1eA01	1.20.1250.10	Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; ›	0.60	41.0	3.41e-01	96.3%	41.7%
4iggB02	1.20.120.230	Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like	0.59	43.0	3.82e-01	93.9%	52.1%
2hjmA01	1.20.120.460	Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › protein pf1176 like	0.59	39.0	3.90e-01	97.6%	65.1%
3h36A00	1.10.10.400	Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Polyribonucleotide nucleotidyltransferase, RNA-binding domain	0.59	38.0	3.96e-01	93.9%	69.2%
3nkzA00	1.20.58.380	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Flagellar protein flit.	0.59	41.0	3.96e-01	100.0%	62.9%
3a8pA02	6.10.140.680	Special › Helix non-globular › Helix Hairpins ›	0.59	53.0	4.73e-01	100.0%	85.1%
2ycdA02	1.20.1050.10	Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 ›	0.59	49.0	4.36e-01	91.5%	66.7%
4evxA00	1.10.1740.240	Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A ›	0.58	38.0	3.60e-01	90.2%	56.7%
3t6gB00	1.20.120.230	Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like	0.57	46.0	3.97e-01	97.6%	54.5%
3ismC01	1.25.40.240	Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Ku, C-terminal domain	0.57	51.0	4.16e-01	100.0%	56.5%
3anwB00	1.20.58.2050	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 ›	0.56	43.0	3.48e-01	82.9%	44.4%
1yy7A02	1.20.1050.10	Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 ›	0.55	46.0	4.28e-01	100.0%	71.4%
6vxcA01	3.20.70.20	Alpha Beta › Alpha-Beta Barrel › Anaerobic Ribonucleotide-triphosphate Reductase Large Chain ›	0.55	50.0	2.87e-01	98.8%	13.0%
4g1tA03	1.25.40.10	Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain	0.54	40.0	2.90e-01	93.9%	27.3%
1cmjA00	1.10.630.10	Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450	0.53	45.0	2.96e-01	98.8%	71.9%
1axdA02	1.20.1050.10	Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 ›	0.53	44.0	3.89e-01	93.9%	69.9%
3czhA00	1.10.630.10	Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450	0.52	44.0	2.76e-01	95.1%	75.5%

ECOD (21)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3953529	149.1.1.1 ↗	alpha arrays › Cytochrome P450 › Cytochrome P450 › Cytochrome P450 › p450	0.67	53.0	3.34e-01	93.9%	17.2%
3610940	109.4.1.0 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat	0.66	59.0	4.07e-01	100.0%	64.0%
4344730	4310.1.1.1 ↗	alpha arrays › Dcp2 box A domain › Dcp2 box A domain › Dcp2 box A domain › DCP2	0.64	38.0	3.61e-01	98.8%	48.0%
3901696	192.8.1.240 ↗	alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain › HR1	0.63	48.0	4.82e-01	100.0%	80.0%
3594436	5069.1.3.0 ↗	alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Fumarate reductase respiratory complex transmembrane subunits	0.62	46.0	4.06e-01	100.0%	53.3%
3448959	109.4.1.1171 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Arm_PDR	0.62	51.0	4.14e-01	100.0%	48.0%
3475996	4095.1.1.1 ↗	alpha bundles › ATP-dependent DNA ligase DNA-binding domain › ATP-dependent DNA ligase DNA-binding domain › ATP-dependent DNA ligase DNA-binding domain › DNA_ligase_A_N	0.62	40.0	3.37e-01	97.6%	40.0%
3597864	604.1.1.0 ↗	alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat	0.61	52.0	4.52e-01	93.9%	63.2%
3704718	603.1.1.0 ↗	alpha bundles › STAT-like › t-snare proteins › t-snare proteins	0.59	51.0	4.38e-01	100.0%	74.8%
3316901	109.4.1.1171 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Arm_PDR	0.59	52.0	4.13e-01	100.0%	49.4%
3448936	150.1.1.0 ↗	alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin	0.59	49.0	3.90e-01	93.9%	63.6%
3231922	109.4.1.0 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat	0.58	53.0	3.62e-01	100.0%	34.2%
3928815	604.12.1.0 ↗	alpha bundles › Spectrin repeat-like › MIT domain › MIT domain	0.57	50.0	3.95e-01	97.6%	61.2%
3515231	633.7.1.0 ↗	alpha bundles › Bromodomain-like › Bacillus cereus metalloprotein-like › Bacillus cereus metalloprotein-like	0.57	50.0	4.08e-01	100.0%	53.3%
5082146	3236.1.1.1 ↗	alpha complex topology › Cation-proton antiporter › Cation-proton antiporter (CPA) › Cation-proton antiporter (CPA) › Na_H_Exchanger	0.55	47.0	3.01e-01	93.9%	33.6%
4028931	4250.1.1.1 ↗	alpha bundles › Duffy-binding-like domain, N-terminal subdomain › Duffy-binding-like domain, N-terminal subdomain › Duffy-binding-like domain, N-terminal subdomain › Duffy_binding	0.54	49.0	3.88e-01	100.0%	86.1%
3219606	604.18.1.2 ↗	alpha bundles › Spectrin repeat-like › Triple-helical domain in regulatory ATPase variant A (RavA) › Triple-helical domain in regulatory ATPase variant A (RavA) › C_tripleX	0.53	44.0	4.60e-01	95.1%	100.0%
3343320	109.4.1.1171 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Arm_PDR	0.53	45.0	3.31e-01	100.0%	34.0%
5038383	3236.1.1.1 ↗	alpha complex topology › Cation-proton antiporter › Cation-proton antiporter (CPA) › Cation-proton antiporter (CPA) › Na_H_Exchanger	0.52	45.0	2.98e-01	100.0%	55.8%
3191052	4095.1.1.1 ↗	alpha bundles › ATP-dependent DNA ligase DNA-binding domain › ATP-dependent DNA ligase DNA-binding domain › ATP-dependent DNA ligase DNA-binding domain › DNA_ligase_A_N	0.51	36.0	3.19e-01	89.0%	46.7%
5013235	3236.1.1.1 ↗	alpha complex topology › Cation-proton antiporter › Cation-proton antiporter (CPA) › Cation-proton antiporter (CPA) › Na_H_Exchanger	0.51	43.0	2.89e-01	100.0%	58.1%

D2 medium residues 83-163

PDB

Domain cluster: rep: MZ955870.1__UAV84854.1__BV113_00600__00060__D99-166

CATH (8)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3lupA01	3.40.50.10170	Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold ›	0.59	31.0	2.55e-01	96.3%	24.5%
1p9oA00	3.40.50.10300	Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › CoaB-like	0.57	39.0	2.74e-01	71.6%	49.1%
1np6B01	3.40.50.300	Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases	0.56	38.0	3.28e-01	71.6%	60.3%
2c81A01	3.40.640.10	Alpha Beta › 3-Layer(aba) Sandwich › Aspartate Aminotransferase; domain 2 › Type I PLP-dependent aspartate aminotransferase-like (Major domain)	0.55	41.0	2.98e-01	81.5%	79.4%
3k7yA02	3.40.640.10	Alpha Beta › 3-Layer(aba) Sandwich › Aspartate Aminotransferase; domain 2 › Type I PLP-dependent aspartate aminotransferase-like (Major domain)	0.54	43.0	3.04e-01	87.7%	77.1%
5uidA01	3.40.640.10	Alpha Beta › 3-Layer(aba) Sandwich › Aspartate Aminotransferase; domain 2 › Type I PLP-dependent aspartate aminotransferase-like (Major domain)	0.52	39.0	2.89e-01	82.7%	78.3%
5k1rA01	3.40.640.10	Alpha Beta › 3-Layer(aba) Sandwich › Aspartate Aminotransferase; domain 2 › Type I PLP-dependent aspartate aminotransferase-like (Major domain)	0.51	38.0	2.81e-01	81.5%	61.1%
6eudA02	3.40.50.300	Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases	0.50	41.0	3.31e-01	92.6%	64.1%

ECOD (3)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
5018431	109.4.1.210 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_19	0.55	41.0	2.66e-01	97.5%	18.1%
3331783	7512.1.1.0 ↗	a/b three-layered sandwiches › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase	0.53	45.0	3.58e-01	95.1%	67.6%
5047830	217.1.1.2 ↗	a+b complex topology › FAD-binding domain-like › FAD-binding domain › FAD-binding domain › FAD_binding_4	0.52	37.0	2.86e-01	79.0%	47.3%