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NC_028820.1__YP_009200399.1__AVV33_gp257__00138

Bact-Vir

NC_028820.1__YP_009200399.1__AVV33_gp257__00138

Identity

Accession:
NC_028820 ↗
Kingdom:
phage

Quality

90.9 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pantevenvirales› Straboviridae› Tegunavirus› Yersinia_phage_vB_YenM_TG1

TaxID: 1589265

Cluster

View cluster (4 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 medium residues 38-105
PDB
Domain cluster: representative
CATH (29)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1x4tA01 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.77 56.0 6.01e-01 88.2% 89.7%
1ykhA00 6.10.140.200 Special › Helix non-globular › Helix Hairpins › 0.76 58.0 5.14e-01 88.2% 57.9%
3jcuZ00 1.10.287.740 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Photosystem II PsbZ, reaction centre 0.75 55.0 5.78e-01 89.7% 86.9%
3d36B02 1.10.287.130 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Signal transduction histidine kinase, dimerisation/phosphotransfer (DHp) domain 0.74 55.0 5.78e-01 91.2% 90.2%
2etnB01 1.10.287.180 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Transcription elongation factor, GreA/GreB, N-terminal domain 0.74 60.0 5.83e-01 89.7% 78.9%
1gaxA05 1.10.287.380 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Valyl-tRNA synthetase, C-terminal domain 0.74 59.0 5.83e-01 89.7% 80.8%
1ij5A01 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.73 63.0 6.08e-01 94.1% 89.5%
2yevC00 6.10.280.110 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.72 58.0 6.02e-01 86.8% 93.7%
3jc6D01 1.20.58.1030 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.72 60.0 4.55e-01 91.2% 59.9%
3u0cA00 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.72 60.0 4.60e-01 91.2% 47.7%
3f5cB00 1.10.565.10 Mainly Alpha › Orthogonal Bundle › Retinoid X Receptor › Retinoid X Receptor 0.71 56.0 4.11e-01 100.0% 32.2%
6cgaC02 1.20.58.860 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.69 54.0 5.20e-01 83.8% 78.2%
4u7iA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.69 54.0 4.82e-01 83.8% 65.6%
3fppA03 6.10.140.1990 Special › Helix non-globular › Helix Hairpins › 0.68 57.0 5.22e-01 91.2% 72.7%
4e6nA02 6.10.140.1010 Special › Helix non-globular › Helix Hairpins › 0.67 52.0 5.30e-01 89.7% 87.9%
2gtaA00 1.10.287.1080 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › MazG-like 0.66 55.0 4.93e-01 98.5% 64.9%
2x9xA04 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.66 49.0 5.29e-01 91.2% 100.0%
4dwlA00 1.20.1440.60 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 23S rRNA-intervening sequence 0.65 52.0 4.52e-01 89.7% 55.6%
4nsmA00 6.10.250.2770 Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.64 53.0 5.27e-01 91.2% 85.9%
4a64A01 1.20.1310.10 Mainly Alpha › Up-down Bundle › 5 helical Cullin repeat like › Cullin Repeats 0.64 57.0 4.61e-01 100.0% 82.6%
1ni3A03 1.10.150.300 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Obg-related GTPase Ych/YyaF, coiled-coil domain 0.64 47.0 4.33e-01 80.9% 61.5%
4a4kA01 1.20.1500.20 Mainly Alpha › Up-down Bundle › YheA-like fold › 0.63 48.0 4.09e-01 91.2% 50.4%
3hr0B01 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.59 46.0 4.48e-01 88.2% 98.7%
4qxbB00 6.10.280.250 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.59 42.0 4.22e-01 79.4% 75.0%
1wncB00 1.20.5.300 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.59 47.0 4.52e-01 89.7% 96.3%
4okvE00 6.10.140.1890 Special › Helix non-globular › Helix Hairpins › 0.57 45.0 4.58e-01 89.7% 89.2%
8b6jF01 1.10.287.20 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Ubiquinol-cytochrome C reductase hinge domain 0.56 40.0 4.05e-01 95.6% 79.1%
3t57A02 1.20.1180.10 Mainly Alpha › Up-down Bundle › Udp N-acetylglucosamine O-acyltransferase; Domain 2 › Udp N-acetylglucosamine O-acyltransferase, C-terminal domain 0.56 42.0 4.15e-01 100.0% 74.7%
5t9gB03 3.20.20.80 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases 0.53 43.0 2.94e-01 100.0% 51.9%
ECOD (17)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3465280 632.7.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain 0.76 58.0 5.51e-01 80.9% 68.8%
3386700 304.58.1.0 ↗ a+b two layers › Alpha-beta plaits › FepE-like › FepE-like 0.75 63.0 4.06e-01 92.6% 21.0%
4950966 192.30.1.0 ↗ alpha bundles › Long alpha-hairpin › SepCysE N-terminal domain › SepCysE N-terminal domain 0.74 59.0 6.22e-01 89.7% 100.0%
3412885 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.74 56.0 5.73e-01 83.8% 84.6%
4207093 632.1.1.33 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase middle domain › Families 57/38 glycoside transferase middle domain › DUF5614 0.73 52.0 5.38e-01 91.2% 80.0%
3473423 1203.1.2.0 ↗ alpha bundles › Shroom domain 2 › Shroom domain 2 › Human SD2 0.72 60.0 4.69e-01 91.2% 95.2%
3692941 601.14.1.1 ↗ alpha bundles › Four-helical up-and-down bundle › Hemerythrin › Hemerythrin › Hemerythrin 0.71 63.0 4.62e-01 100.0% 43.2%
4446401 7015.1.1.0 ↗ alpha bundles › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain 0.71 64.0 4.94e-01 100.0% 62.1%
185014 3393.1.1.1 ↗ extended segments › CAA3-type cytochrome c oxidase subunit IV › CAA3-type cytochrome c oxidase subunit IV › CAA3-type cytochrome c oxidase subunit IV › CAA3_Cox_suIV 0.70 58.0 5.96e-01 89.7% 95.3%
4196235 159.1.1.1 ↗ alpha bundles › all-alpha NTP pyrophosphatases › all-alpha NTP pyrophosphatases › Hypothetical protein AF_0060 › MazG 0.67 58.0 5.06e-01 95.6% 69.0%
3625044 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.67 57.0 4.86e-01 92.6% 61.9%
4022243 101.1.2.517 ↗ alpha arrays › HTH › HTH › winged helix domain › RNA_pol_Rpc82, HTH_9, POLR3C_WHD 0.65 53.0 3.24e-01 94.1% 98.8%
3741614 101.1.2.236 ↗ alpha arrays › HTH › HTH › winged helix domain › POLR3C_WHD 0.62 51.0 3.87e-01 91.2% 38.8%
4443506 101.1.2.517 ↗ alpha arrays › HTH › HTH › winged helix domain › RNA_pol_Rpc82, HTH_9, POLR3C_WHD 0.60 50.0 3.15e-01 95.6% 96.5%
3665082 109.4.1.80 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › RRN3 0.60 49.0 2.96e-01 94.1% 18.1%
3288637 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 0.59 50.0 4.92e-01 95.6% 85.3%
4504660 306.7.1.1 ↗ a+b two layers › Glucose permease domain IIB-like › Trigger factor ribosome-binding domain › Trigger factor ribosome-binding domain › Trigger_N 0.54 38.0 3.27e-01 76.5% 64.3%