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MF595878.1__ATB52729.1__X__00042

Bact-Vir

MF595878.1__ATB52729.1__X__00042

Identity

Accession:
MF595878 ↗
Kingdom:
phage

Quality

84.3 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 251-405
PDB
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF05065.20 best Phage_capsid 82.9 3.70e-23 99.4% 55.9%
CATH (2)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3bjqA00 3.90.1690.10 Alpha Beta › Alpha-Beta Complex › phage-related protein like fold › phage-related protein like domain 0.73 67.0 5.33e-01 98.1% 76.0%
1ohgA02 3.30.2320.10 Alpha Beta › 2-Layer Sandwich › hypothetical protein PF0899 fold › hypothetical protein PF0899 domain 0.71 47.0 5.68e-01 94.2% 99.0%
ECOD (23)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5083079 2485.3.1.3 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid 0.84 81.0 6.12e-01 100.0% 50.5%
3088027 2485.3.1.3 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid 0.84 77.0 6.20e-01 99.4% 55.2%
3946670 2485.3.1.3 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid 0.83 79.0 6.34e-01 99.4% 60.4%
4954548 2485.3.1.0 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 0.80 75.0 6.06e-01 100.0% 64.4%
2651377 2485.3.1.3 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid 0.79 75.0 5.87e-01 99.4% 57.2%
4031028 2485.3.1.3 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid 0.78 72.0 5.75e-01 97.4% 71.1%
4241362 2485.3.1.0 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 0.76 72.0 5.68e-01 100.0% 56.6%
3075730 2485.3.1.0 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 0.76 71.0 5.40e-01 98.1% 71.9%
4929755 2485.3.1.18 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid_4 0.76 69.0 5.65e-01 97.4% 77.1%
3110786 2485.3.1.14 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Gp10A-like 0.76 70.0 5.30e-01 98.1% 71.2%
3977525 2485.3.1.4 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_cap_P2 0.75 70.0 5.36e-01 100.0% 56.8%
3587769 2485.3.1.3 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid 0.73 69.0 5.45e-01 98.7% 57.2%
2538948 2485.3.1.3 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid 0.72 66.0 5.29e-01 99.4% 55.2%
5083051 2485.3.1.12 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › DUF6260 0.71 65.0 5.25e-01 99.4% 57.2%
4884207 2485.3.1.7 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Major_capside 0.71 66.0 5.28e-01 100.0% 56.2%
3588084 2485.3.1.3 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid 0.70 65.0 5.10e-01 98.7% 57.0%
2639625 2485.3.1.18 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid_4 0.69 63.0 5.17e-01 98.7% 54.6%
5081698 2485.3.1.18 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid_4 0.69 62.0 4.96e-01 97.4% 74.4%
4873245 2485.3.1.2 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Linocin_M18 0.69 54.0 5.90e-01 83.2% 100.0%
2640765 2485.3.1.1 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_cap_E 0.69 62.0 4.73e-01 98.1% 78.5%
3277785 2485.3.1.0 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 0.68 62.0 5.15e-01 96.8% 68.1%
3944238 2485.3.1.7 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Major_capside 0.68 63.0 5.10e-01 99.4% 59.7%
2995627 2485.3.1.7 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Major_capside 0.68 62.0 4.95e-01 99.4% 57.0%
D2 medium residues 1-56
PDB
Domain cluster: representative
CATH (55)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2yxyA01 1.10.287.880 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Hypothetical protein YfhH domain 0.94 69.0 7.29e-01 78.6% 86.0%
2wwxB00 1.20.1260.70 Mainly Alpha › Up-down Bundle › Ferritin › 0.93 70.0 4.57e-01 78.6% 22.0%
1z0jB00 4.10.860.20 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › Rabenosyn, Rab binding domain 0.93 77.0 8.04e-01 87.5% 96.1%
3l0iA01 1.20.120.1520 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.93 70.0 4.70e-01 78.6% 25.0%
2gs4A00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.92 84.0 5.86e-01 100.0% 34.8%
1zs3A00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.92 79.0 5.38e-01 92.9% 29.8%
1yzmA00 4.10.860.20 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › Rabenosyn, Rab binding domain 0.91 71.0 7.73e-01 82.1% 100.0%
2qqyA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.90 76.0 5.51e-01 91.1% 36.2%
2rklF00 1.20.5.420 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Immunoglobulin FC, subunit C 0.90 64.0 6.68e-01 76.8% 80.8%
1nfvA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.89 80.0 5.50e-01 98.2% 32.0%
1sr2A00 1.20.120.160 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › HPT domain 0.89 67.0 5.08e-01 78.6% 78.4%
1om2A00 1.20.960.10 Mainly Alpha › Up-down Bundle › Mitochondrial Import Receptor Subunit Tom20; Chain A › Mitochondrial outer membrane translocase complex, subunit Tom20 domain 0.89 63.0 5.20e-01 75.0% 45.3%
3hiuD00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.88 79.0 5.64e-01 100.0% 36.2%
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 0.88 70.0 6.18e-01 85.7% 61.0%
3n71A03 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.88 67.0 4.38e-01 80.4% 21.1%
2c41C01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.88 72.0 5.14e-01 91.1% 32.9%
1bgfA00 1.10.532.10 Mainly Alpha › Orthogonal Bundle › Transcription Factor, Stat-4 › STAT transcription factor, N-terminal domain 0.87 69.0 5.19e-01 83.9% 42.7%
1vmgA00 1.10.287.1080 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › MazG-like 0.87 71.0 6.16e-01 87.5% 63.4%
1s3qG00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.87 77.0 5.38e-01 98.2% 33.1%
2pmrA00 1.20.1270.90 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › AF1782-like 0.86 67.0 6.02e-01 85.7% 61.8%
1iipA02 1.10.150.160 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › 0.86 78.0 6.71e-01 100.0% 67.1%
3hulA02 3.30.70.890 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › GHMP kinase, C-terminal domain 0.86 55.0 4.25e-01 71.4% 32.2%
1j30A00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.86 78.0 5.68e-01 100.0% 39.7%
2oo2A00 1.20.1270.90 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › AF1782-like 0.85 69.0 6.21e-01 89.3% 64.5%
3nymA00 6.10.290.10 Special › Helix non-globular › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.84 76.0 5.79e-01 100.0% 45.2%
3b2eF00 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.84 75.0 7.29e-01 100.0% 88.7%
2gv9A05 1.10.287.690 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › B family DNA polymerase, finger domain 0.84 67.0 6.60e-01 100.0% 81.4%
7e9uA01 1.50.10.10 Mainly Alpha › Alpha/alpha barrel › Glycosyltransferase › 0.84 74.0 4.28e-01 96.4% 14.8%
3zc0D00 1.20.58.2140 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.84 71.0 4.77e-01 96.4% 27.3%
3t9jA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.83 73.0 5.30e-01 98.2% 37.5%
1vh6A01 6.10.140.1940 Special › Helix non-globular › Helix Hairpins › 0.82 74.0 6.12e-01 100.0% 57.7%
1d2mA03 6.10.140.240 Special › Helix non-globular › Helix Hairpins › 0.82 65.0 6.14e-01 83.9% 75.8%
3kwoA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.82 72.0 5.21e-01 98.2% 36.2%
1tjoB00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.82 73.0 5.06e-01 100.0% 31.4%
2chpA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.82 72.0 5.22e-01 98.2% 36.5%
1wkbA03 1.10.730.10 Mainly Alpha › Orthogonal Bundle › Isoleucyl-tRNA Synthetase; Domain 1 › Isoleucyl-tRNA Synthetase; Domain 1 0.82 69.0 5.31e-01 92.9% 43.0%
1yxrA01 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.82 63.0 5.69e-01 91.1% 62.2%
3uo2B02 1.20.1280.20 Mainly Alpha › Up-down Bundle › Monooxygenase › HscB, C-terminal domain 0.81 74.0 6.42e-01 100.0% 79.8%
2katA00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.81 64.0 4.96e-01 85.7% 40.9%
4u1cA01 4.10.860.10 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › UVR domain 0.81 63.0 6.58e-01 83.9% 90.4%
6tkvA01 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.81 69.0 6.50e-01 96.4% 88.2%
1fpoC02 1.20.1280.20 Mainly Alpha › Up-down Bundle › Monooxygenase › HscB, C-terminal domain 0.81 71.0 5.99e-01 98.2% 59.3%
2lf0A01 4.10.860.10 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › UVR domain 0.80 69.0 6.76e-01 94.6% 88.3%
4od4A02 1.20.120.1780 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › UbiA prenyltransferase 0.79 65.0 5.03e-01 89.3% 68.1%
1rqgA04 1.10.730.10 Mainly Alpha › Orthogonal Bundle › Isoleucyl-tRNA Synthetase; Domain 1 › Isoleucyl-tRNA Synthetase; Domain 1 0.79 68.0 5.01e-01 100.0% 36.4%
6umqA01 1.20.930.60 Mainly Alpha › Up-down Bundle › Transcription Elongation Factor S-II; Chain A › 0.79 70.0 5.45e-01 96.4% 78.3%
2fcwA00 1.20.81.10 Mainly Alpha › Up-down Bundle › Receptor-associated Protein › RAP domain 0.78 68.0 5.54e-01 100.0% 51.9%
1e52A00 4.10.860.10 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › UVR domain 0.78 58.0 5.90e-01 87.5% 82.1%
3l8rA00 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 68.0 5.62e-01 100.0% 57.8%
1jkvA01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.77 67.0 4.61e-01 100.0% 28.4%
1hr5A00 1.20.5.420 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Immunoglobulin FC, subunit C 0.75 56.0 5.93e-01 85.7% 97.9%
1a36A04 1.10.132.10 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › 0.74 62.0 4.47e-01 100.0% 32.0%
1dd3A01 1.20.5.710 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Single helix bin 0.73 53.0 5.35e-01 98.2% 78.9%
1vq8V00 1.10.287.310 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.68 58.0 5.53e-01 96.4% 89.2%
1kfdA02 1.20.1060.10 Mainly Alpha › Up-down Bundle › Taq DNA Polymerase; Chain T, domain 4 › Taq DNA Polymerase; Chain T, domain 4 0.67 55.0 5.24e-01 100.0% 78.9%
ECOD (28)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4582542 192.11.1.1 alpha bundles › Long alpha-hairpin › C-terminal UvrC-binding domain of UvrB › C-terminal UvrC-binding domain of UvrB › UVR 0.98 70.0 6.72e-01 75.0% 66.7%
4513708 192.11.1.1 alpha bundles › Long alpha-hairpin › C-terminal UvrC-binding domain of UvrB › C-terminal UvrC-binding domain of UvrB › UVR 0.96 79.0 7.18e-01 85.7% 68.6%
4432094 192.11.1.1 alpha bundles › Long alpha-hairpin › C-terminal UvrC-binding domain of UvrB › C-terminal UvrC-binding domain of UvrB › UVR 0.95 70.0 7.53e-01 78.6% 89.6%
3965106 605.1.1.4 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA_3 0.94 88.0 7.86e-01 100.0% 74.7%
4477580 5086.1.1.118 alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › BBS2_hp 0.94 86.0 7.34e-01 100.0% 64.7%
4530141 192.11.1.1 alpha bundles › Long alpha-hairpin › C-terminal UvrC-binding domain of UvrB › C-terminal UvrC-binding domain of UvrB › UVR 0.94 76.0 8.04e-01 87.5% 96.0%
4050574 192.17.1.11 alpha bundles › Long alpha-hairpin › Rabenosyn-5 Rab-binding domain-like › Rabenosyn-5 Rab-binding domain-like › UVR 0.94 72.0 6.39e-01 80.4% 60.0%
None 0.93 74.0 4.18e-01 85.7% 9.1%
4489484 2002.1.1.30 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Glyco_hydro_18 0.92 86.0 4.95e-01 100.0% 13.0%
3262528 138.1.1.0 alpha arrays › DNA polymerase III clamp loader subunits, C-terminal domain › DNA polymerase III clamp loader subunits, C-terminal domain › DNA polymerase III clamp loader subunits, C-terminal domain 0.92 69.0 6.00e-01 85.7% 55.0%
3560750 192.17.1.0 alpha bundles › Long alpha-hairpin › Rabenosyn-5 Rab-binding domain-like › Rabenosyn-5 Rab-binding domain-like 0.91 81.0 7.42e-01 96.4% 75.7%
4241645 632.22.1.1 alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats › EzrA 0.91 84.0 6.98e-01 100.0% 61.1%
5028028 632.22.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats 0.91 82.0 6.02e-01 100.0% 40.7%
3448294 3826.1.1.33 alpha bundles › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › eIF-4B 0.91 82.0 7.03e-01 100.0% 64.7%
5008490 159.1.1.1 alpha bundles › all-alpha NTP pyrophosphatases › all-alpha NTP pyrophosphatases › Hypothetical protein AF_0060 › MazG 0.91 83.0 7.02e-01 100.0% 63.6%
4618805 605.1.1.1 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA 0.90 76.0 7.70e-01 91.1% 92.7%
4469597 192.17.1.11 alpha bundles › Long alpha-hairpin › Rabenosyn-5 Rab-binding domain-like › Rabenosyn-5 Rab-binding domain-like › UVR 0.89 69.0 6.97e-01 80.4% 85.5%
5025189 192.17.1.0 alpha bundles › Long alpha-hairpin › Rabenosyn-5 Rab-binding domain-like › Rabenosyn-5 Rab-binding domain-like 0.89 79.0 8.04e-01 96.4% 100.0%
3336677 605.1.1.132 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › DUF641 0.89 77.0 6.92e-01 96.4% 70.7%
3784740 3712.1.1.1 a+b complex topology › Mediator of RNA polymerase II transcription subunit 11 › Mediator of RNA polymerase II transcription subunit 11 › Mediator of RNA polymerase II transcription subunit 11 › Med11 0.88 79.0 7.14e-01 100.0% 73.3%
3233409 604.1.1.0 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.85 78.0 6.07e-01 100.0% 52.2%
4347101 5086.1.1.119 alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › RRG1_C 0.85 77.0 6.44e-01 100.0% 61.1%
4338795 192.2.1.0 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.84 76.0 5.31e-01 100.0% 48.8%
3419469 3444.2.1.0 alpha arrays › DP domain › XPC-binding domain and DDI helical domain › XPC-binding domain 0.84 69.0 6.99e-01 92.9% 90.9%
4386662 3291.1.1.158 alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Seryl_tRNA_N 0.83 73.0 5.75e-01 100.0% 47.8%
4966860 150.1.1.1 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin › Ferritin 0.83 72.0 5.45e-01 98.2% 41.5%
5035275 632.22.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats 0.83 75.0 6.03e-01 100.0% 53.3%
4952823 1174.1.1.1 alpha complex topology › Potassium channel TMEM175 › Potassium channel TMEM175 › Potassium channel TMEM175 › TMEM175 0.71 60.0 4.21e-01 100.0% 28.7%