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PIF-5a

Euk-Vir

Tipula_oleracea_nudivirus

PIF-5a__YP_009116721__Tipula_oleracea_nudivirus__1546257

Identity

Accession:
YP_009116721 ↗
Protein ID:
PIF-5a
Kingdom:
euk

Quality

80.9 mean pLDDT

Taxonomy

Naldaviricetes› Lefavirales› Nudiviridae› Deltanudivirus› Tipula_oleracea_nudivirus

TaxID: 1546257

Cluster

View cluster (13 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 3-103
PDB
Domain cluster: rep: orf62_gene_product__YP_004956810__Helicoverpa_zea_nudivirus_2__1128424__D3-95
CATH (17)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1i5nB00 1.20.120.160 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › HPT domain 0.67 52.0 4.90e-01 84.2% 85.5%
3kyiA00 1.20.120.160 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › HPT domain 0.66 52.0 4.80e-01 84.2% 86.7%
1ls1A01 1.20.120.140 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › SRP54, nucleotide-binding domain 0.63 47.0 5.00e-01 79.2% 96.6%
1ze0A01 1.20.120.700 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › nitrate reductase, subunit delta (NarJ) 0.61 43.0 4.61e-01 100.0% 86.9%
1ewqA04 1.10.1420.10 Mainly Alpha › Orthogonal Bundle › MutS, DNA mismatch repair protein; Chain A, domain 3 › 0.60 34.0 3.10e-01 87.1% 40.4%
6yz2A01 1.20.120.350 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Voltage-gated potassium channels. Chain C 0.58 42.0 4.04e-01 77.2% 84.2%
1dk8A02 1.10.167.10 Mainly Alpha › Orthogonal Bundle › Regulator of G-protein Signalling 4; domain 2 › Regulator of G-protein Signalling 4, domain 2 0.58 43.0 4.59e-01 100.0% 92.9%
3fajA00 1.20.120.950 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Uncharacterised protein DUF5062 0.55 47.0 4.76e-01 100.0% 96.0%
3gehA02 1.20.120.430 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › tRNA modification GTPase MnmE domain 2 0.55 47.0 4.03e-01 96.0% 79.6%
6xz3A01 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.54 49.0 4.71e-01 100.0% 95.7%
3t6gB00 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.54 49.0 4.47e-01 100.0% 97.0%
3k1hA00 3.30.1120.180 Alpha Beta › 2-Layer Sandwich › Arylsulfatase, C-terminal domain › Flagellar FLiS export co-chaperone, HP1076 0.54 43.0 4.19e-01 100.0% 76.5%
5z7qA00 1.20.1330.10 Mainly Alpha › Up-down Bundle › f41 fragment of flagellin, N-terminal domain › f41 fragment of flagellin, N-terminal domain 0.53 48.0 3.98e-01 100.0% 68.8%
3behB01 1.20.120.540 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Voltage-gated potassium channels 0.52 45.0 4.34e-01 100.0% 82.9%
3ddlA00 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.52 42.0 3.14e-01 87.1% 39.3%
1at9A00 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.51 43.0 3.34e-01 93.1% 56.1%
2ib0A01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.50 41.0 3.70e-01 87.1% 94.8%
ECOD (25)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5051636 601.3.1.1 ↗ alpha bundles › Four-helical up-and-down bundle › Histidine-containing phosphotransfer domain, HPT domain › Histidine-containing phosphotransfer domain, HPT domain › Hpt 0.67 53.0 4.80e-01 84.2% 82.2%
138117 601.3.1.1 ↗ alpha bundles › Four-helical up-and-down bundle › Histidine-containing phosphotransfer domain, HPT domain › Histidine-containing phosphotransfer domain, HPT domain › Hpt 0.66 52.0 4.80e-01 84.2% 86.7%
3386289 181.1.1.1 ↗ alpha bundles › Domain of the SRP/SRP receptor G proteins-like › Domain of the SRP/SRP receptor G-proteins › Domain of the SRP/SRP receptor G-proteins › SRP54_N 0.62 45.0 4.97e-01 80.2% 96.2%
5055238 3281.1.1.1 ↗ alpha complex topology › Sodium/proton antiporter subunits-like › Sodium/proton antiporter subunits-like › NADH-quinone oxidoreductase subunit L (NuoL)-related › Proton_antipo_M 0.59 49.0 3.04e-01 93.1% 40.2%
2711690 5054.1.1.2 ↗ alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels › Ion_trans 0.57 43.0 3.14e-01 79.2% 43.2%
3998998 601.16.1.2 ↗ alpha bundles › Four-helical up-and-down bundle › FAT domain of focal adhesion kinase › FAT domain of focal adhesion kinase › Focal_AT 0.55 49.0 4.29e-01 97.0% 79.7%
3562194 601.1.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin 0.55 49.0 4.24e-01 99.0% 67.1%
2755073 3937.1.1.2 ↗ alpha bundles › Connexin 26 › Connexin 26 › Connexin 26 › Innexin 0.55 43.0 2.92e-01 86.1% 95.7%
3471897 601.1.1.7 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin › Talin_IBS2B 0.55 50.0 4.47e-01 100.0% 85.7%
5049932 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.54 37.0 3.36e-01 100.0% 50.0%
4973580 5054.1.1.2 ↗ alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels › Ion_trans 0.54 49.0 3.80e-01 100.0% 49.5%
2396196 601.1.2.1 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › I/LWEQ domain (Pfam 01608) › Vinculin 0.54 49.0 4.48e-01 100.0% 85.6%
3282266 5054.1.1.0 ↗ alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels 0.54 47.0 4.64e-01 100.0% 90.5%
3619001 601.1.1.57 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin › Talin_VBS2 0.54 48.0 4.56e-01 100.0% 88.3%
3253936 601.1.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin 0.54 48.0 4.39e-01 100.0% 79.3%
3236795 601.16.1.2 ↗ alpha bundles › Four-helical up-and-down bundle › FAT domain of focal adhesion kinase › FAT domain of focal adhesion kinase › Focal_AT 0.54 48.0 4.28e-01 98.0% 80.7%
3628456 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.54 33.0 3.10e-01 100.0% 48.4%
3272618 601.1.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin 0.54 48.0 4.17e-01 100.0% 73.5%
5013579 150.1.1.3 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin › Rubrerythrin 0.53 41.0 3.44e-01 81.2% 88.2%
3491020 601.1.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin 0.53 47.0 4.10e-01 99.0% 82.6%
4049819 109.4.1.451 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Iml2-TPR_39 0.51 41.0 2.42e-01 84.2% 14.4%
3582053 601.1.2.64 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › I/LWEQ domain (Pfam 01608) › Talin_VBS2 0.51 44.0 4.44e-01 99.0% 96.2%
3270442 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 43.0 2.61e-01 99.0% 42.8%
3276733 3684.1.1.0 ↗ alpha complex topology › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like 0.50 44.0 3.93e-01 100.0% 74.7%
3760685 109.4.1.335 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › SEN1_N 0.50 41.0 2.61e-01 99.0% 16.7%
D2 high residues 117-230_347-369
PDB
Domain cluster: rep: PIF-5c__YP_009116749__Tipula_oleracea_nudivirus__1546257__D136-243_355-375
ECOD (2)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3620574 10.4.1.1 ↗ beta sandwiches › jelly-roll › Spermadhesin, CUB domain › Spermadhesin, CUB domain › CUB 0.52 26.0 2.50e-01 80.3% 37.5%
4079979 264.2.1.0 ↗ beta barrels › LigT-like › Prokaryotic type I DNA topoisomerase beta-barrel domain › Prokaryotic type I DNA topoisomerase beta-barrel domain 0.51 32.0 3.82e-01 70.8% 95.6%
D3 high residues 233-319
PDB
Domain cluster: representative
CATH (4)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1iujA00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.56 43.0 4.16e-01 85.1% 87.3%
2oyoA02 1.20.1290.10 Mainly Alpha › Up-down Bundle › AhpD-like › AhpD-like 0.52 37.0 3.37e-01 75.9% 76.0%
2kjgA00 1.20.120.970 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.51 35.0 3.35e-01 88.5% 62.6%
3pfeA01 3.40.630.10 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Zn peptidases 0.50 39.0 2.77e-01 86.2% 73.0%
ECOD (3)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3698178 135.1.1.0 ↗ alpha arrays › Transducin (alpha subunit), insertion domain › Transducin (alpha subunit), insertion domain › Transducin (alpha subunit), insertion domain 0.61 44.0 4.10e-01 77.0% 79.1%
3619940 135.1.1.1 ↗ alpha arrays › Transducin (alpha subunit), insertion domain › Transducin (alpha subunit), insertion domain › Transducin (alpha subunit), insertion domain › G-alpha 0.56 43.0 4.08e-01 86.2% 81.8%
5040482 5054.1.1.6 ↗ alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels › TrkH 0.55 39.0 3.38e-01 73.6% 64.3%