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MT375522.1__QLF88118.1__Venkman_gp43__00041

Bact-Vir

MT375522.1__QLF88118.1__Venkman_gp43__00041

Identity

Accession:
MT375522 ↗
Kingdom:
phage

Quality

59.3 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Methylophilales_phage_Venkman_EXVC282S

TaxID: 2727865

Cluster

Singleton — not in a non-trivial cluster

3D Structure

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Domains

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

D1 high residues 395-468
PDB
Domain cluster: representative
CATH (46)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1z0jB00 4.10.860.20 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › Rabenosyn, Rab binding domain 0.96 62.0 7.49e-01 71.6% 96.1%
2gd5A00 6.10.140.1230 Special › Helix non-globular › Helix Hairpins › 0.91 62.0 4.86e-01 70.3% 38.0%
1fpoC02 1.20.1280.20 Mainly Alpha › Up-down Bundle › Monooxygenase › HscB, C-terminal domain 0.91 63.0 5.80e-01 71.6% 72.5%
4b6xA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.89 61.0 6.31e-01 70.3% 78.3%
2gl2B00 1.10.287.1700 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.86 59.0 5.06e-01 70.3% 64.2%
3qo8A01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.86 58.0 5.10e-01 70.3% 59.4%
1j30A00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.84 60.0 4.74e-01 74.3% 51.1%
3b2eF00 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.83 57.0 6.15e-01 70.3% 88.7%
2yxhA00 1.10.287.1080 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › MazG-like 0.83 65.0 5.52e-01 82.4% 54.9%
3onjA00 1.20.58.400 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › t-snare proteins 0.83 75.0 6.83e-01 100.0% 94.8%
2wpvE00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.82 64.0 4.23e-01 100.0% 21.8%
1kqfC00 1.20.950.20 Mainly Alpha › Up-down Bundle › Fumarate Reductase Cytochrome B subunit › Transmembrane di-heme cytochromes, Chain C 0.82 59.0 4.16e-01 75.7% 34.3%
3iqcA00 1.20.120.340 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Flagellar protein FliS 0.81 74.0 6.26e-01 100.0% 68.1%
3mkqA03 1.25.40.470 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.80 54.0 3.83e-01 94.6% 24.5%
2qywA00 1.20.58.400 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › t-snare proteins 0.80 73.0 6.66e-01 100.0% 93.7%
2fb5A01 1.10.287.770 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › YojJ-like 0.80 54.0 5.53e-01 70.3% 73.6%
4gywA01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.79 49.0 4.32e-01 89.2% 44.8%
1j5wA02 1.20.58.180 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Class II aaRS and biotin synthetases; domain 2 0.79 70.0 6.92e-01 100.0% 90.9%
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 0.79 71.0 6.05e-01 100.0% 72.0%
2v6yA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.78 69.0 6.95e-01 100.0% 93.3%
2yfaA02 1.20.1440.210 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 0.78 69.0 5.97e-01 100.0% 64.7%
3agtA00 1.20.120.50 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Hemerythrin-like 0.77 70.0 5.71e-01 100.0% 68.4%
4dwlA00 1.20.1440.60 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 23S rRNA-intervening sequence 0.77 68.0 6.04e-01 100.0% 71.3%
1wcrA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.76 70.0 6.25e-01 100.0% 89.3%
1tjoB00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.76 66.0 5.01e-01 95.9% 78.3%
4fymF00 3.40.50.2020 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.76 70.0 4.97e-01 100.0% 40.7%
4aifA00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.75 67.0 5.34e-01 97.3% 66.0%
3as5A01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.75 49.0 3.61e-01 94.6% 28.1%
1e2aA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.74 68.0 6.09e-01 100.0% 91.2%
7qihA01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.74 48.0 4.31e-01 91.9% 49.5%
2j4bB00 1.25.40.500 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › TFIID subunit TAF5, NTD2 domain 0.73 55.0 4.55e-01 89.2% 45.1%
3c18A02 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.72 64.0 5.39e-01 94.6% 77.1%
5jrcA00 1.20.58.2140 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.72 66.0 4.86e-01 100.0% 58.1%
5fzsA00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.72 48.0 4.25e-01 91.9% 47.7%
1a36A04 1.10.132.10 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › 0.71 48.0 3.69e-01 70.3% 29.7%
2crbA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.71 61.0 5.63e-01 98.6% 73.2%
2xgsB01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.71 46.0 4.69e-01 90.5% 67.1%
2vsyA01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.71 49.0 3.92e-01 97.3% 37.3%
1wleA01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.71 48.0 4.19e-01 70.3% 69.3%
1bgfA00 1.10.532.10 Mainly Alpha › Orthogonal Bundle › Transcription Factor, Stat-4 › STAT transcription factor, N-terminal domain 0.69 60.0 5.04e-01 95.9% 57.3%
2ra1A03 1.20.58.770 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.68 53.0 5.70e-01 95.9% 98.4%
4wk5A00 1.10.600.10 Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase 0.67 58.0 4.04e-01 100.0% 50.8%
3h3mA00 1.20.58.380 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Flagellar protein flit. 0.67 62.0 5.80e-01 100.0% 86.5%
4cqiA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.61 50.0 4.57e-01 97.3% 97.2%
3l1nA02 1.20.1280.140 Mainly Alpha › Up-down Bundle › Monooxygenase › 0.60 51.0 4.89e-01 95.9% 90.8%
3qdnA02 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.53 46.0 4.39e-01 94.6% 96.4%
ECOD (45)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3707335 192.17.1.0 ↗ alpha bundles › Long alpha-hairpin › Rabenosyn-5 Rab-binding domain-like › Rabenosyn-5 Rab-binding domain-like 0.84 66.0 6.61e-01 97.3% 81.3%
2392079 109.3.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat 0.83 61.0 4.07e-01 77.0% 31.6%
3513124 109.4.1.1302 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PF30363 0.83 70.0 4.07e-01 91.9% 14.3%
5045256 604.12.1.0 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.83 74.0 6.72e-01 95.9% 89.5%
4338603 601.14.1.1 ↗ alpha bundles › Four-helical up-and-down bundle › Hemerythrin › Hemerythrin › Hemerythrin 0.82 75.0 6.22e-01 100.0% 72.8%
4985507 604.10.1.0 ↗ alpha bundles › Spectrin repeat-like › Enzyme IIa from lactose specific PTS, IIa-lac › Enzyme IIa from lactose specific PTS, IIa-lac 0.81 74.0 6.94e-01 100.0% 90.0%
3713576 603.1.1.116 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins › PF27980 0.81 72.0 6.76e-01 97.3% 95.6%
3186889 604.12.1.1 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › MIT 0.81 71.0 6.46e-01 97.3% 72.6%
3596490 603.1.1.0 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.81 73.0 6.83e-01 98.6% 96.7%
5002688 109.4.1.186 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › ANAPC3 0.81 73.0 5.02e-01 98.6% 75.4%
4999686 604.12.1.1 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › MIT 0.81 67.0 6.76e-01 95.9% 88.0%
3739117 109.4.1.83 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Suf 0.80 67.0 4.44e-01 93.2% 23.7%
3589921 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.79 69.0 5.42e-01 98.6% 47.3%
3497029 604.12.1.0 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.79 71.0 6.40e-01 98.6% 85.0%
3879426 604.12.1.1 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › MIT 0.79 68.0 6.59e-01 97.3% 84.3%
3995816 604.12.1.0 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.79 70.0 6.65e-01 97.3% 83.5%
5078340 604.12.1.1 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › MIT 0.78 69.0 6.49e-01 95.9% 80.0%
3309583 604.12.1.65 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › MIT_ATG1 0.78 72.0 7.03e-01 100.0% 98.8%
165995 604.12.1.1 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › MIT 0.78 69.0 6.95e-01 100.0% 93.3%
3516214 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.78 72.0 6.73e-01 100.0% 93.3%
3883622 604.12.1.1 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › MIT 0.78 66.0 6.57e-01 95.9% 89.3%
3699282 604.12.1.1 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › MIT 0.78 67.0 6.41e-01 95.9% 81.2%
5048081 604.12.1.0 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.78 68.0 6.77e-01 97.3% 93.3%
3247041 601.1.2.0 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › I/LWEQ domain (Pfam 01608) 0.77 69.0 5.52e-01 97.3% 52.1%
3267491 604.12.1.1 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › MIT 0.77 63.0 6.53e-01 90.5% 92.9%
4944331 109.10.1.1 ↗ alpha superhelices › Repetitive alpha hairpins › Translin › Translin › Translin 0.77 72.0 5.28e-01 100.0% 60.0%
3384014 109.4.1.1269 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, E_motif 0.77 56.0 5.07e-01 91.9% 58.9%
3594772 604.12.1.0 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.77 66.0 6.32e-01 97.3% 81.2%
5056430 604.12.1.0 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.75 62.0 6.37e-01 100.0% 97.1%
3682397 604.12.1.65 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › MIT_ATG1 0.75 69.0 6.23e-01 100.0% 77.6%
3316799 601.18.1.1 ↗ alpha bundles › Four-helical up-and-down bundle › Oxygen-evolving enhancer protein 3 › Oxygen-evolving enhancer protein 3 › PsbQ 0.74 67.0 5.52e-01 100.0% 60.8%
5075267 604.12.1.0 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.74 58.0 6.13e-01 100.0% 93.8%
3773235 604.12.1.1 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › MIT 0.74 65.0 6.05e-01 97.3% 77.8%
5050536 604.12.1.0 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.74 60.0 6.20e-01 100.0% 91.4%
3194235 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.73 54.0 4.99e-01 95.9% 61.1%
3267859 604.12.1.1 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › MIT 0.73 67.0 6.24e-01 100.0% 93.3%
3425962 603.1.1.116 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins › PF27980 0.73 64.0 6.13e-01 100.0% 96.5%
5072726 6155.1.1.0 ↗ alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter 0.73 62.0 6.23e-01 98.6% 93.3%
3448378 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.72 60.0 5.03e-01 91.9% 57.6%
3956529 3883.1.1.1 ↗ alpha bundles › CDP-alcohol phosphotransferase helical bundle domain › CDP-alcohol phosphotransferase helical bundle domain › CDP-alcohol phosphotransferase helical bundle domain › CDP-OH_P_transf 0.71 62.0 4.56e-01 98.6% 36.6%
3610231 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.71 62.0 5.24e-01 100.0% 58.3%
3927513 109.4.1.192 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_8 0.69 61.0 4.59e-01 100.0% 41.1%
4886833 601.48.1.1 ↗ alpha bundles › Four-helical up-and-down bundle › vWA2 C-terminal domain › vWA2 C-terminal domain › ArnB_C 0.68 63.0 5.70e-01 100.0% 77.3%
4975050 3843.1.1.0 ↗ alpha complex topology › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K 0.65 56.0 5.64e-01 97.3% 97.3%
5057941 1075.5.1.0 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Multidrug and toxic compound extrusion (MATE) transporter › Multidrug and toxic compound extrusion (MATE) transporter 0.64 58.0 4.38e-01 100.0% 51.8%
D2 medium residues 32-86
PDB
D3 medium residues 285-327_469-533
PDB
Domain cluster: representative
CATH (4)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1r4vA00 1.10.20.10 Mainly Alpha › Orthogonal Bundle › Histone, subunit A › Histone, subunit A 0.55 36.0 3.26e-01 89.8% 47.0%
1jogA00 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.55 45.0 4.20e-01 100.0% 70.4%
1yhuB00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.52 34.0 3.14e-01 94.4% 49.3%
7kypB01 1.10.3470.10 Mainly Alpha › Orthogonal Bundle › ABC transporter involved in vitamin B12 uptake, BtuC › ABC transporter involved in vitamin B12 uptake, BtuC 0.51 42.0 3.19e-01 92.6% 89.5%
ECOD (5)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3445234 2.9.1.0 ↗ beta barrels › OB-fold › RNB domain-like › RNB domain-like 0.61 41.0 2.80e-01 89.8% 19.7%
4034578 601.7.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain 0.58 39.0 3.67e-01 72.2% 56.2%
2817087 5065.1.1.1 ↗ alpha bundles › Type II ABC importer transmembrane domain fold › Type II ABC importer transmembrane domain fold › Type II ABC importer transmembrane domain fold › ABC-3 0.54 38.0 2.80e-01 73.1% 77.9%
5001160 101.1.10.0 ↗ alpha arrays › HTH › HTH › Cyclin-like 0.52 39.0 3.67e-01 78.7% 86.9%
3782040 101.1.22.0 ↗ alpha arrays › HTH › HTH › double HTH 0.50 31.0 3.08e-01 88.0% 58.3%