←Back to structures

PIF-3

Euk-Vir

Tipula_oleracea_nudivirus

PIF-3__YP_009116660__Tipula_oleracea_nudivirus__1546257

Identity

Accession:: YP_009116660 ↗
Protein ID:: PIF-3
Kingdom:: euk

Quality

78.0 mean pLDDT

Taxonomy

Naldaviricetes› Lefavirales› Nudiviridae› Deltanudivirus› Tipula_oleracea_nudivirus

TaxID: 1546257

Cluster

View cluster (7 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 141-192

PDB

Domain cluster: rep: pif-3_protein__YP_007250522__Thysanoplusia_orichalcea_nucleopolyhedrovirus__101850__D151-200

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF05006.18 best	PIF3	43.4	5.50e-11	98.1%	32.9%

CATH (10)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
4ifdG01	2.40.50.100	Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › RNA polymerase II/Efflux pump adaptor protein, barrel-sandwich hybrid domain	0.59	42.0	4.04e-01	88.5%	65.6%
3a57A00	2.60.270.30	Mainly Beta › Sandwich › Mutm (Fpg) Protein; Chain: A, domain 2 › Vibrio parahaemolyticus thermostable direct hemolysin	0.57	46.0	3.49e-01	100.0%	95.5%
4oo1I01	2.40.50.880	Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) ›	0.57	42.0	3.79e-01	90.4%	57.3%
4k3cA01	3.10.20.310	Alpha Beta › Roll › Ubiquitin-like (UB roll) › membrane protein fhac	0.56	43.0	3.84e-01	88.5%	89.0%
6j09A04	3.10.20.310	Alpha Beta › Roll › Ubiquitin-like (UB roll) › membrane protein fhac	0.55	42.0	3.86e-01	88.5%	94.8%
1g6q102	2.70.160.11	Mainly Beta › Distorted Sandwich › Hnrnp arginine n-methyltransferase1 › Hnrnp arginine n-methyltransferase1	0.53	43.0	3.10e-01	100.0%	96.2%
4uhvA02	3.55.50.10	Alpha Beta › 3-Layer(bab) Sandwich › Phage tail protein beta-alpha-beta fold › Baseplate protein-like domains	0.52	42.0	3.59e-01	94.2%	78.3%
1fi8C00	2.60.40.550	Mainly Beta › Sandwich › Immunoglobulin-like › Ecotin	0.51	40.0	3.61e-01	88.5%	73.1%
3w0fA02	1.10.8.50	Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 ›	0.50	39.0	3.06e-01	92.3%	63.2%
1v1cA00	2.30.30.40	Mainly Beta › Roll › SH3 type barrels. › SH3 Domains	0.50	40.0	3.76e-01	100.0%	69.1%

ECOD (13)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
2138055	325.1.8.0 ↗	a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Ribosomal L27 protein	0.61	42.0	3.73e-01	88.5%	46.4%
4682166	389.6.1.1 ↗	few secondary structure elements › EGF-like › Growth factor receptor domain › Growth factor receptor domain › IGFBP	0.59	42.0	3.97e-01	88.5%	62.5%
3790843	325.1.8.2 ↗	a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Ribosomal L27 protein › ECR1_N	0.59	43.0	4.17e-01	92.3%	70.0%
3307915	376.1.3.0 ↗	few secondary structure elements › RING/U-box-like › RING/U-box-like › FYVE/PHD zinc finger	0.55	39.0	3.64e-01	94.2%	60.0%
3239359	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	0.54	41.0	2.60e-01	84.6%	36.5%
3309149	1.1.11.0 ↗	beta barrels › cradle loop barrel › RIFT-related › Type II restriction endonuclease effector domain	0.54	43.0	4.03e-01	90.4%	90.8%
3550551	101.1.21.1 ↗	alpha arrays › HTH › HTH › HTH in T7 RNA polymerase › RPOL_N	0.52	41.0	2.71e-01	90.4%	56.1%
3269923	101.1.21.1 ↗	alpha arrays › HTH › HTH › HTH in T7 RNA polymerase › RPOL_N	0.52	40.0	2.71e-01	88.5%	57.0%
3943692	3070.1.1.2 ↗	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 › Phage_GPD	0.52	41.0	3.43e-01	88.5%	76.8%
3285881	1.1.16.1 ↗	beta barrels › cradle loop barrel › RIFT-related › Mammalian cell entry (MCE) domain › MlaD	0.52	41.0	3.21e-01	90.4%	48.8%
3226173	3114.1.1.4 ↗	beta sandwiches › Mucin-binding protein domain › Mucin-binding protein domain › Mucin-binding protein domain › PF30893	0.52	39.0	3.63e-01	90.4%	94.7%
4421975	4232.1.1.1 ↗	few secondary structure elements › Ribosomal protein bL28-related › Ribosomal protein bL28-related › Ribosomal protein L28 › Ribosomal_L28	0.51	32.0	3.24e-01	96.2%	61.8%
3625635	387.1.1.0 ↗	few secondary structure elements › omega toxin-like › omega toxin-related › omega toxin-related	0.50	40.0	3.87e-01	90.4%	93.3%

D2 medium residues 61-124

PDB

Domain cluster: representative

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF05006.18 best	PIF3	29.9	7.60e-07	100.0%	45.0%

CATH (7)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
1q16A09	3.30.30.200	Alpha Beta › 2-Layer Sandwich › Defensin A-like ›	0.58	28.0	3.33e-01	70.3%	66.7%
5axmB00	3.30.70.3000	Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › tRNA(His) guanylyltransferase (Thg1)	0.52	35.0	2.45e-01	70.3%	42.7%
5tuuA00	1.20.140.80	Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Transcription factor DP	0.51	32.0	2.53e-01	76.6%	26.4%
1s3lA00	3.60.21.10	Alpha Beta › 4-Layer Sandwich › Purple Acid Phosphatase; chain A, domain 2 › Metallo-dependent phosphatases	0.51	44.0	3.31e-01	98.4%	44.2%
4o3vA00	3.10.450.230	Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › VirB8 protein	0.51	42.0	3.41e-01	98.4%	89.1%
3llcA00	3.40.50.1820	Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain	0.51	40.0	2.81e-01	93.8%	74.7%
2l66A00	2.10.260.10	Mainly Beta › Ribbon › Pemi-like Protein 1; Chain: D ›	0.50	33.0	3.49e-01	76.6%	81.1%

ECOD (6)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
4930285	1.1.3.0 ↗	beta barrels › cradle loop barrel › RIFT-related › AbrB	0.54	37.0	4.05e-01	95.3%	90.0%
4994020	1.1.3.0 ↗	beta barrels › cradle loop barrel › RIFT-related › AbrB	0.54	34.0	3.53e-01	75.0%	70.7%
3739576	327.11.2.27 ↗	a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) › KH_Vigilin	0.51	31.0	3.26e-01	92.2%	67.3%
4941478	1.1.3.0 ↗	beta barrels › cradle loop barrel › RIFT-related › AbrB	0.51	35.0	3.74e-01	100.0%	85.5%
None	—		0.50	39.0	2.79e-01	89.1%	54.1%
3276567	2004.1.1.0 ↗	a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases	0.50	36.0	2.50e-01	82.8%	89.5%