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NC_041978.1__YP_009606681.1__FDI03_gp013__00013

Bact-Vir

NC_041978.1__YP_009606681.1__FDI03_gp013__00013

Identity

Accession:
NC_041978 ↗
Kingdom:
phage

Quality

85.3 mean pLDDT

3D Structure

Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 54-254
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF23854.3 best DUF7217 220.6 3.90e-65 100.0% 84.2%
CATH (64)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2uxwA04 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.78 45.0 5.52e-01 81.1% 87.7%
1r0dA00 1.20.1410.10 Mainly Alpha › Up-down Bundle › I/LWEQ domain › I/LWEQ domain 0.74 53.0 5.46e-01 88.6% 76.2%
1t72A01 1.20.58.220 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphate transport system protein phou homolog 2; domain 2 0.74 30.0 3.89e-01 89.6% 64.1%
1rx0A03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.73 41.0 4.70e-01 71.6% 71.6%
3zsuA00 1.20.120.290 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Oxygen-evolving enhancer protein 3 (PsbQ), four-helix up-down bundle 0.72 33.0 4.23e-01 70.6% 72.0%
5tj5E00 1.20.120.610 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › lithium bound rotor ring of v- atpase 0.72 47.0 5.58e-01 91.0% 95.7%
2fcwA00 1.20.81.10 Mainly Alpha › Up-down Bundle › Receptor-associated Protein › RAP domain 0.72 39.0 5.13e-01 90.0% 98.1%
3owaA03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.71 45.0 4.88e-01 70.6% 74.3%
2yfaA02 1.20.1440.210 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 0.71 34.0 4.47e-01 76.6% 80.2%
4wpcA00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.70 55.0 4.87e-01 80.6% 85.9%
7aalA01 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.70 59.0 5.35e-01 88.6% 94.7%
1uruA01 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.69 56.0 5.61e-01 85.6% 100.0%
6o7uc01 1.20.120.610 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › lithium bound rotor ring of v- atpase 0.69 45.0 4.63e-01 76.6% 68.4%
4wjg400 1.20.1260.80 Mainly Alpha › Up-down Bundle › Ferritin › 0.68 52.0 4.75e-01 79.1% 86.2%
3qweA00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.68 54.0 4.93e-01 82.6% 94.2%
2gs4A00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.68 40.0 4.50e-01 91.0% 73.4%
3tulB00 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.67 42.0 5.13e-01 85.6% 94.7%
1i4dA00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.67 54.0 5.59e-01 84.1% 100.0%
1qoyA00 1.20.1170.10 Mainly Alpha › Up-down Bundle › Hemolysin E; Chain: A; › 0.65 51.0 4.42e-01 84.6% 53.5%
4jioA01 1.20.120.560 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › alix/aip1 in complex with the ypdl late domain 0.65 50.0 5.52e-01 81.1% 98.8%
1x04A00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.65 54.0 5.46e-01 88.1% 99.5%
4e40A00 1.20.1260.80 Mainly Alpha › Up-down Bundle › Ferritin › 0.64 53.0 4.96e-01 86.1% 97.6%
4wpeA00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.64 53.0 4.76e-01 87.1% 92.0%
2bl2A00 1.20.120.610 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › lithium bound rotor ring of v- atpase 0.63 44.0 4.89e-01 87.6% 89.7%
2efkA01 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.63 51.0 4.68e-01 84.6% 95.4%
1nzeA00 1.20.120.290 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Oxygen-evolving enhancer protein 3 (PsbQ), four-helix up-down bundle 0.62 31.0 4.10e-01 73.1% 84.8%
2d1lA00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.62 54.0 5.04e-01 92.5% 88.0%
2wb7A03 1.20.120.870 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › pT26-6p, five-helical bundle domain 0.62 39.0 4.57e-01 83.1% 91.2%
4im0A04 1.20.1270.420 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.62 50.0 4.77e-01 85.6% 94.5%
3rh3A01 1.20.120.930 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Uncharacterised protein PF12889, N-terminal DUF3829 0.62 37.0 4.39e-01 91.5% 87.2%
4ib4A01 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.61 42.0 3.73e-01 70.6% 71.2%
1gqeA01 1.20.58.410 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Release factor 0.60 35.0 4.49e-01 78.1% 100.0%
4bemJ00 1.20.120.610 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › lithium bound rotor ring of v- atpase 0.60 45.0 4.71e-01 91.0% 84.5%
1r2jA03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.59 38.0 4.45e-01 92.0% 89.6%
2v0oB00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.59 50.0 4.51e-01 88.1% 89.7%
7dl9B02 1.20.1250.20 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › MFS general substrate transporter like domains 0.59 38.0 3.87e-01 90.0% 63.5%
4hkrA00 1.20.140.140 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Calcium release-activated calcium channel protein Orai 0.59 42.0 4.57e-01 94.0% 87.9%
3qsgA02 1.10.1040.10 Mainly Alpha › Orthogonal Bundle › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 0.58 22.0 2.89e-01 78.6% 57.4%
6xj1A01 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.58 46.0 4.38e-01 84.6% 97.1%
4i1mB01 1.20.120.1700 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.57 34.0 4.16e-01 80.1% 90.7%
1eq1A00 1.20.120.20 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Apolipoprotein 0.57 41.0 4.49e-01 72.6% 95.8%
4akgA02 1.20.140.100 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Dynein motor heavy chain, linker domain, N-terminal subdomain 0.57 40.0 4.38e-01 89.1% 86.3%
2d4xA00 1.20.1330.10 Mainly Alpha › Up-down Bundle › f41 fragment of flagellin, N-terminal domain › f41 fragment of flagellin, N-terminal domain 0.56 42.0 4.17e-01 77.1% 76.6%
1st6A01 1.20.120.810 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Vinculin, Vh2 four-helix bundle 0.56 45.0 4.13e-01 83.6% 71.8%
2cmrA00 1.20.58.1860 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.56 41.0 4.21e-01 90.0% 78.1%
1xg2B00 1.20.140.40 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Invertase/pectin methylesterase inhibitor family protein 0.56 33.0 3.73e-01 84.1% 75.5%
7akwA01 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.55 39.0 3.80e-01 71.6% 100.0%
4mt0A01 1.20.1600.10 Mainly Alpha › Up-down Bundle › Outer membrane efflux proteins (OEP) › Outer membrane efflux proteins (OEP) 0.55 46.0 3.74e-01 87.6% 63.4%
7q37A01 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.54 38.0 3.79e-01 71.6% 74.3%
1x8zB00 1.20.140.40 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Invertase/pectin methylesterase inhibitor family protein 0.54 33.0 3.82e-01 87.6% 81.6%
1xioA00 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.54 38.0 3.70e-01 71.1% 73.7%
3dyjA02 1.20.1420.10 Mainly Alpha › Up-down Bundle › A middle domain of Talin 1 › Talin, central domain 0.53 35.0 4.03e-01 82.6% 88.7%
7dl9A01 1.20.1250.20 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › MFS general substrate transporter like domains 0.53 34.0 3.48e-01 88.1% 64.9%
5azpB01 1.20.1600.10 Mainly Alpha › Up-down Bundle › Outer membrane efflux proteins (OEP) › Outer membrane efflux proteins (OEP) 0.52 46.0 3.76e-01 94.0% 64.8%
6xkyA01 1.20.1330.10 Mainly Alpha › Up-down Bundle › f41 fragment of flagellin, N-terminal domain › f41 fragment of flagellin, N-terminal domain 0.52 41.0 4.26e-01 96.5% 86.6%
3pwxA01 1.20.1330.10 Mainly Alpha › Up-down Bundle › f41 fragment of flagellin, N-terminal domain › f41 fragment of flagellin, N-terminal domain 0.52 39.0 4.06e-01 96.5% 83.7%
3llwD00 1.10.600.10 Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase 0.52 34.0 2.98e-01 87.6% 45.0%
4ciuA02 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.52 40.0 4.11e-01 79.6% 83.9%
3pltA00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.52 46.0 4.59e-01 97.0% 91.6%
3zciA00 1.20.58.1660 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.51 45.0 4.63e-01 98.5% 100.0%
3frrA00 1.20.1260.60 Mainly Alpha › Up-down Bundle › Ferritin › Vacuolar protein sorting-associated protein Ist1 0.51 35.0 3.69e-01 83.1% 75.8%
6grjB01 1.20.1170.10 Mainly Alpha › Up-down Bundle › Hemolysin E; Chain: A; › 0.50 44.0 3.83e-01 95.0% 92.0%
3ggyA00 1.20.1260.60 Mainly Alpha › Up-down Bundle › Ferritin › Vacuolar protein sorting-associated protein Ist1 0.50 36.0 3.76e-01 83.1% 79.0%
2kbbA00 1.20.1420.10 Mainly Alpha › Up-down Bundle › A middle domain of Talin 1 › Talin, central domain 0.50 36.0 3.80e-01 86.6% 83.3%
ECOD (24)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3459287 192.29.1.0 alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.71 45.0 4.90e-01 83.6% 76.4%
3551963 601.19.1.23 alpha bundles › Four-helical up-and-down bundle › Apolipoprotein › Apolipoprotein › Tektin 0.70 55.0 5.84e-01 81.1% 98.9%
3595675 4177.1.1.0 alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like 0.69 50.0 4.85e-01 73.6% 92.9%
3736588 4177.1.1.1 alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like › FCH 0.69 53.0 5.00e-01 79.1% 83.3%
3675237 4177.2.1.0 alpha duplicates or obligate multimers › BAR/IMD domain-like › Inhibitor of kappaB kinase beta dimerization domain › Inhibitor of kappaB kinase beta dimerization domain 0.69 56.0 5.08e-01 84.6% 86.4%
3758589 4177.1.1.4 alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like › IMD 0.69 52.0 5.03e-01 77.6% 88.4%
3275874 3882.1.1.1 alpha bundles › Atg17 › Atg17 › Atg17 › ATG17_like 0.68 55.0 4.52e-01 84.6% 71.7%
3709988 1189.1.1.0 alpha bundles › VSG (variant surface glycoprotein) N-terminal domain and haptoglobin-hemoglobin receptor › VSG (variant surface glycoprotein) N-terminal domain and haptoglobin-hemoglobin receptor › VSG (variant surface glycoprotein) N-terminal domain and haptoglobin-hemoglobin receptor 0.66 52.0 5.70e-01 87.6% 100.0%
3174110 4177.2.1.0 alpha duplicates or obligate multimers › BAR/IMD domain-like › Inhibitor of kappaB kinase beta dimerization domain › Inhibitor of kappaB kinase beta dimerization domain 0.65 51.0 4.57e-01 82.1% 82.5%
4540197 4177.2.1.0 alpha duplicates or obligate multimers › BAR/IMD domain-like › Inhibitor of kappaB kinase beta dimerization domain › Inhibitor of kappaB kinase beta dimerization domain 0.65 52.0 5.07e-01 84.1% 84.1%
4284037 192.29.1.0 alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.64 52.0 4.70e-01 83.6% 84.2%
3412278 4177.2.1.0 alpha duplicates or obligate multimers › BAR/IMD domain-like › Inhibitor of kappaB kinase beta dimerization domain › Inhibitor of kappaB kinase beta dimerization domain 0.64 53.0 4.64e-01 87.1% 86.0%
3425999 192.29.1.0 alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.63 46.0 4.70e-01 76.1% 77.4%
3718850 3343.1.1.2 alpha complex topology › gamma-tubulin complex protein 4 (GCP4) › gamma-tubulin complex protein 4 (GCP4) › gamma-tubulin complex protein 4 (GCP4) › GCP_C_terminal,GCP_N_terminal 0.63 53.0 3.77e-01 89.1% 47.5%
3557360 221.1.1.0 a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.63 50.0 4.48e-01 83.1% 82.9%
3563705 4177.1.1.4 alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like › IMD 0.63 53.0 5.07e-01 89.1% 92.6%
3853126 3755.3.1.0 alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.63 50.0 4.45e-01 84.1% 83.8%
3415708 4177.2.1.1 alpha duplicates or obligate multimers › BAR/IMD domain-like › Inhibitor of kappaB kinase beta dimerization domain › Inhibitor of kappaB kinase beta dimerization domain › TBK1_CCD1 0.62 50.0 4.65e-01 83.6% 87.8%
3731859 5050.1.1.0 alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter 0.57 37.0 3.76e-01 88.1% 64.6%
3774121 150.1.1.119 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin › Clusterin 0.57 40.0 4.43e-01 95.5% 90.6%
3810540 3684.1.1.10 alpha complex topology › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like › DUF677 0.55 44.0 4.47e-01 85.1% 90.7%
3979467 604.5.1.2 alpha bundles › Spectrin repeat-like › PhoU-like (Pfam 01895) › PhoU-like (Pfam 01895) › PhoU 0.54 39.0 3.74e-01 93.5% 63.0%
4092982 1075.4.1.1 alpha bundles › Type II ABC exporter transmembrane domain fold › Type I ABC exporter transmembrane domain fold › Type I ABC exporter transmembrane domain fold › ABC_membrane 0.53 46.0 3.15e-01 93.0% 71.0%
1503718 604.21.1.1 alpha bundles › Spectrin repeat-like › T4SS protein CagL › T4SS protein CagL › CagL 0.52 45.0 4.68e-01 99.0% 100.0%