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VP39

Euk-Vir

Perigonia_lusca_single_nucleopolyhedrovirus

VP39__YP_009165679__Perigonia_lusca_single_nucleopolyhedrovirus__1675865

Identity

Accession:: YP_009165679 ↗
Protein ID:: VP39
Kingdom:: euk

Quality

71.6 mean pLDDT

Taxonomy

Naldaviricetes› Lefavirales› Baculoviridae› Alphabaculovirus› Perigonia_lusca_single_nucleopolyhedrovirus

TaxID: 1675865

Cluster

View cluster (46 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 20-55_91-172

PDB

Domain cluster: representative

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF04501.18 best	Baculo_VP39	59.9	3.90e-16	71.2%	34.8%

CATH (1)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
2d9dA00	1.20.58.120	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › BAG domain	0.57	38.0	4.27e-01	96.6%	89.9%

ECOD (2)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
4933737	3567.1.1.192 ↗	a+b duplicates or obligate multimers › MPER trimer › MPER trimer › MPER trimer › EMC3_TMCO1	0.55	34.0	3.72e-01	80.5%	75.8%
3679232	109.4.1.1258 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_1, PPR_2	0.54	38.0	3.27e-01	72.9%	44.1%

D2 medium residues 56-90_273-301

PDB

Domain cluster: representative

CATH (18)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
1fm2B03	2.30.120.10	Mainly Beta › Roll › Penicillin G acylase, beta-roll domain › Aminohydrolase, N-terminal nucleophile (Ntn) domain, beta-sheet knob region	0.62	36.0	3.58e-01	87.5%	54.5%
2asfA00	2.30.110.10	Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A	0.55	35.0	2.88e-01	93.8%	32.8%
2b02A01	3.30.450.20	Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain	0.55	35.0	3.03e-01	84.4%	40.4%
7ylrA01	2.40.30.10	Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors	0.54	39.0	3.33e-01	93.8%	46.7%
3njaA02	2.10.70.100	Mainly Beta › Ribbon › Complement Module; domain 1 ›	0.53	33.0	3.68e-01	84.4%	87.0%
1uzxA00	3.10.110.10	Alpha Beta › Roll › Ubiquitin Conjugating Enzyme › Ubiquitin Conjugating Enzyme	0.53	35.0	2.83e-01	92.2%	32.1%
2byvE05	3.10.20.90	Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1	0.52	33.0	3.12e-01	93.8%	51.9%
1bywA00	3.30.450.20	Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain	0.52	32.0	2.74e-01	84.4%	36.4%
4lduA03	2.30.30.1040	Mainly Beta › Roll › SH3 type barrels. ›	0.52	37.0	3.70e-01	89.1%	73.5%
5iu1B00	3.30.450.20	Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain	0.51	33.0	2.85e-01	90.6%	38.4%
3k7cA00	3.10.450.50	Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, ›	0.51	30.0	2.63e-01	85.9%	32.4%
2lttA00	2.30.31.70	Mainly Beta › Roll › Transcriptional Co-activator pc4; Chain A ›	0.51	29.0	2.85e-01	85.9%	47.3%
4wjmA00	3.40.1190.20	Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Ribokinase	0.51	38.0	2.49e-01	82.8%	94.2%
3akoD00	6.20.160.10	Special › Other non-globular › HSP40/DNAj peptide-binding domain ›	0.51	34.0	3.26e-01	78.1%	59.2%
2xe4A01	3.40.50.1820	Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain	0.51	44.0	2.77e-01	100.0%	41.5%
2gj3A00	3.30.450.20	Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain	0.50	31.0	2.62e-01	82.8%	33.6%
2r78C00	3.30.450.20	Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain	0.50	29.0	2.49e-01	82.8%	30.2%
3vpyA00	2.60.200.20	Mainly Beta › Sandwich › Tumour Suppressor Smad4 ›	0.50	41.0	3.28e-01	96.9%	65.5%

ECOD (12)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3460576	109.3.1.162 ↗	alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat › Ank, Ank_2, Ank_5	0.59	38.0	2.56e-01	87.5%	16.5%
3614175	148.1.3.0 ↗	alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain	0.58	35.0	2.92e-01	89.1%	34.5%
3218156	389.1.1.145 ↗	few secondary structure elements › EGF-like › EGF-related › EGF/Laminin › PF29138	0.57	33.0	3.83e-01	82.8%	82.2%
4017413	102.1.1.20 ↗	alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › SAM domain-like › IGR	0.57	39.0	2.82e-01	71.9%	36.4%
3648413	220.1.1.0 ↗	beta barrels › PH domain-like › PH domain-like › PH domain-like	0.57	33.0	2.99e-01	85.9%	40.0%
3855974	4.1.1.253 ↗	beta barrels › SH3 › SH3 › SH3 › DUF4537	0.55	37.0	3.57e-01	85.9%	60.0%
4944871	223.1.1.14 ↗	a+b three layers › Profilin-like › sensor domains › sensor domains › PAS_4	0.54	32.0	2.67e-01	84.4%	30.8%
3272374	221.1.1.8 ↗	a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › PI3K_rbd	0.53	33.0	2.25e-01	95.3%	15.4%
3713334	4.8.1.0 ↗	beta barrels › SH3 › Chromo domain-like › Chromo domain-like	0.53	35.0	3.63e-01	85.9%	73.3%
3933757	327.5.1.2 ↗	a+b two layers › Alpha-lytic protease prodomain-like › a+b domain in acetyl-CoA synthetase-like proteins › a+b domain in acetyl-CoA synthetase-like proteins › AMP-binding_C	0.53	38.0	3.30e-01	79.7%	80.0%
5031647	1.1.7.0 ↗	beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C	0.51	31.0	3.07e-01	93.8%	54.3%
3752543	7.1.1.17 ↗	beta barrels › PDZ domain › PDZ domain › PDZ domain › PDZ, PDZ_6	0.50	37.0	3.16e-01	90.6%	46.4%

D3 medium residues 173-243

PDB

Domain cluster: rep: VP39__YP_009666419__Lonomia_obliqua_multiple_nucleopolyhedrovirus__134394__D175-245_296-307

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF04501.18 best	Baculo_VP39	44.7	1.80e-11	95.8%	23.4%

CATH (1)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
2olvA03	3.40.710.10	Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily	0.52	41.0	2.79e-01	93.0%	57.8%

ECOD (1)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3290288	101.1.2.371 ↗	alpha arrays › HTH › HTH › winged helix domain › nSTAND1	0.57	42.0	3.85e-01	81.7%	74.0%