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NC_025453.1__YP_009103053.1__PI32_gp17__00017

Bact-Vir

NC_025453.1__YP_009103053.1__PI32_gp17__00017

Identity

Accession:
NC_025453 ↗
Kingdom:
phage

Quality

89.3 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Enterococcus_phage_EFC-1

TaxID: 1486428

Cluster

View cluster (2 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 5-177
PDB
Domain cluster: rep: MK064563__AZI75768.1__SBFV2-gp01__00001__D223-383
Pfam (4)
AccessionNameScoreE-valueQ covHMM cov
PF18766.8 best SWI2_SNF2 40.2 4.40e-10 99.4% 79.1%
PF13604.13 AAA_30 27.8 2.80e-06 95.4% 59.7%
PF00270.36 DEAD 53.5 3.50e-14 89.6% 95.2%
PF04851.22 ResIII 117.7 7.10e-34 86.1% 97.0%
D2 high residues 182-347
PDB
Domain cluster: rep: IMGVR_UViG_3300026211_000011-3300026211-Ga0208132_10019531__D46-252
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF00271.38 best Helicase_C 57.6 2.00e-15 64.5% 90.0%
D3 medium residues 348-402
PDB
Domain cluster: representative
CATH (44)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1u84A00 1.10.340.20 Mainly Alpha › Orthogonal Bundle › Endonuclease III; domain 1 › Apc36109-like domain 0.90 64.0 5.55e-01 74.5% 51.9%
1n5uA01 1.10.246.10 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › 0.83 60.0 4.80e-01 83.6% 40.8%
3umbA02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.80 63.0 5.50e-01 83.6% 81.0%
2w43A02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.79 61.0 6.06e-01 81.8% 78.9%
2bsqA00 3.40.50.1010 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 5'-nuclease 0.79 56.0 4.07e-01 74.5% 55.2%
2no4A02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.78 62.0 5.51e-01 83.6% 80.0%
3b0bB00 1.10.20.10 Mainly Alpha › Orthogonal Bundle › Histone, subunit A › Histone, subunit A 0.78 63.0 5.27e-01 90.9% 52.6%
2ymmA02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.78 62.0 5.55e-01 83.6% 79.5%
1gt0D00 1.10.30.10 Mainly Alpha › Orthogonal Bundle › DNA Binding (I), subunit A › High mobility group box domain 0.78 53.0 4.67e-01 80.0% 49.4%
3tndA00 3.40.50.1010 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 5'-nuclease 0.77 55.0 4.13e-01 74.5% 55.3%
3dsbA01 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.77 54.0 4.41e-01 74.5% 41.6%
3ermB00 1.10.10.710 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › PSPTO_1197 like 0.76 52.0 4.95e-01 78.2% 60.9%
6nklB00 3.40.50.1010 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 5'-nuclease 0.75 53.0 3.95e-01 74.5% 54.1%
3vw4A01 1.10.340.50 Mainly Alpha › Orthogonal Bundle › Endonuclease III; domain 1 › 0.75 59.0 5.01e-01 87.3% 53.3%
4uqfG01 1.10.286.10 Mainly Alpha › Orthogonal Bundle › GTP Cyclohydrolase I; Chain A, domain 1 › GTP cyclohydrolase I, N-terminal domain 0.74 59.0 6.02e-01 87.3% 96.2%
3zfvA02 3.30.70.1900 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.74 58.0 4.22e-01 87.3% 42.3%
3fghA00 1.10.30.10 Mainly Alpha › Orthogonal Bundle › DNA Binding (I), subunit A › High mobility group box domain 0.72 56.0 5.25e-01 83.6% 94.0%
1knzA01 6.10.280.20 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Rotavirus non-structural protein NSP3, N-terminal domain 0.72 58.0 4.73e-01 89.1% 83.3%
3f1xA01 1.10.3130.10 Mainly Alpha › Orthogonal Bundle › serine acetyltransferase, domain 1 › serine acetyltransferase, domain 1 0.72 59.0 4.28e-01 90.9% 42.3%
6jrpA01 1.10.30.10 Mainly Alpha › Orthogonal Bundle › DNA Binding (I), subunit A › High mobility group box domain 0.70 48.0 4.65e-01 80.0% 63.9%
4e6nA02 6.10.140.1010 Special › Helix non-globular › Helix Hairpins › 0.68 52.0 4.83e-01 83.6% 66.7%
3vm9A02 6.10.140.2110 Special › Helix non-globular › Helix Hairpins › 0.68 52.0 5.15e-01 85.5% 80.7%
2oduA02 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.67 51.0 4.02e-01 80.0% 53.3%
2euiA01 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.67 47.0 3.52e-01 74.5% 29.3%
1dj8A00 1.10.890.10 Mainly Alpha › Orthogonal Bundle › 10k-s Protein, Hypothetical Protein A; Chain A › HNS-dependent expression A 0.67 47.0 4.30e-01 78.2% 57.0%
1sg7A00 1.10.1740.70 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › ChaB 0.66 51.0 4.69e-01 87.3% 100.0%
3nvaA01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.66 54.0 3.41e-01 90.9% 31.9%
1icrA00 3.40.109.10 Alpha Beta › 3-Layer(aba) Sandwich › NADH Oxidase › NADH Oxidase 0.64 47.0 3.16e-01 80.0% 19.9%
3u9rB02 3.90.226.10 Alpha Beta › Alpha-Beta Complex › 2-enoyl-CoA Hydratase; Chain A, domain 1 › 2-enoyl-CoA Hydratase; Chain A, domain 1 0.64 52.0 3.29e-01 87.3% 19.4%
3cwzB01 1.20.58.900 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › RUN domain 0.63 46.0 3.51e-01 81.8% 60.3%
2qgsB01 1.10.472.50 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › HD-domain/PDEase-like 0.63 44.0 3.83e-01 74.5% 62.5%
2pmrA00 1.20.1270.90 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › AF1782-like 0.63 43.0 3.83e-01 70.9% 51.3%
5mmiJ02 1.10.10.250 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Ribosomal protein L11/L12, C-terminal domain 0.60 40.0 3.78e-01 72.7% 55.1%
2ctoA01 1.10.30.10 Mainly Alpha › Orthogonal Bundle › DNA Binding (I), subunit A › High mobility group box domain 0.60 41.0 4.04e-01 72.7% 98.4%
1a3qA01 2.60.40.340 Mainly Beta › Sandwich › Immunoglobulin-like › Rel homology domain (RHD), DNA-binding domain 0.59 45.0 3.25e-01 87.3% 40.8%
3u5nA02 1.20.920.10 Mainly Alpha › Up-down Bundle › Histone Acetyltransferase; Chain A › Bromodomain-like 0.59 49.0 3.97e-01 100.0% 67.5%
16vpA00 1.10.1290.10 Mainly Alpha › Orthogonal Bundle › Conserved core of transcriptional regulatory protein vp16 › Alpha trans-inducing (Alpha-TIF) 0.59 49.0 3.12e-01 98.2% 45.0%
3ejnA03 1.20.120.840 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › SusD-like, tetratrico peptide repeats domain 0.59 44.0 3.63e-01 85.5% 45.0%
2lefA00 1.10.30.10 Mainly Alpha › Orthogonal Bundle › DNA Binding (I), subunit A › High mobility group box domain 0.58 46.0 3.99e-01 87.3% 74.4%
1wgfA01 1.10.30.10 Mainly Alpha › Orthogonal Bundle › DNA Binding (I), subunit A › High mobility group box domain 0.58 40.0 4.09e-01 80.0% 77.4%
1ks9A02 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 0.54 41.0 3.21e-01 81.8% 36.6%
2af6A02 6.10.140.450 Special › Helix non-globular › Helix Hairpins › 0.53 38.0 3.74e-01 78.2% 83.9%
4iggA01 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.53 44.0 4.14e-01 90.9% 77.6%
2mpkA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.51 43.0 3.88e-01 90.9% 95.9%
ECOD (56)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4193694 2006.1.4.2 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › PIN 0.92 64.0 4.50e-01 72.7% 47.0%
3831795 589.1.2.1 ↗ alpha arrays › Triger factor/SurA peptide-binding domain-like › Triger factor/SurA peptide-binding domain-like › TF C-terminus (Pfam 05698) › Trigger_C 0.88 75.0 4.89e-01 90.9% 24.4%
2776079 3787.1.1.0 ↗ alpha bundles › HAD superfamily helical bundle insertion domain 0.88 63.0 6.21e-01 74.5% 71.9%
4955486 2006.1.4.0 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like 0.88 61.0 4.74e-01 72.7% 53.6%
4955558 2006.1.4.0 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like 0.87 61.0 4.96e-01 72.7% 62.1%
5012602 2006.1.4.2 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › PIN 0.87 62.0 4.68e-01 74.5% 54.2%
4937791 2006.1.4.2 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › PIN 0.87 61.0 4.47e-01 72.7% 55.8%
3284839 2006.1.4.2 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › PIN 0.87 62.0 4.49e-01 74.5% 58.5%
3643488 192.15.1.11 ↗ alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains › CemA 0.86 70.0 6.33e-01 89.1% 66.7%
3358332 592.2.1.2 ↗ alpha arrays › PWI domain-like › YugE-like › YugE-like › WGG 0.86 65.0 4.86e-01 80.0% 35.2%
5039466 2006.1.4.2 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › PIN 0.86 60.0 4.51e-01 72.7% 55.0%
3962576 148.1.1.0 ↗ alpha arrays › Histone-like › Histone-related › Histone 0.86 59.0 5.13e-01 72.7% 48.2%
4955130 2006.1.4.2 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › PIN 0.86 59.0 4.90e-01 72.7% 60.2%
4937660 2006.1.4.2 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › PIN 0.85 61.0 4.60e-01 74.5% 55.0%
5077623 2006.1.4.2 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › PIN 0.85 61.0 4.55e-01 74.5% 55.6%
3209229 3877.1.1.1 ↗ alpha bundles › Membrane protein insertase YidC-related › Membrane protein insertase YidC-related › Membrane protein insertase YidC › 60KD_IMP 0.85 69.0 4.35e-01 87.3% 18.9%
4937279 2006.1.4.2 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › PIN 0.85 61.0 5.15e-01 74.5% 74.1%
5049832 2006.1.4.0 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like 0.84 59.0 4.46e-01 72.7% 47.9%
4578235 589.1.1.1 ↗ alpha arrays › Triger factor/SurA peptide-binding domain-like › Triger factor/SurA peptide-binding domain-like › Porin chaperone SurA, peptide-binding domain › SurA_N 0.84 69.0 4.83e-01 90.9% 30.0%
3426642 375.1.1.96 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › YABBY 0.83 58.0 6.10e-01 85.5% 80.0%
4937830 2006.1.4.2 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › PIN 0.83 59.0 4.49e-01 74.5% 51.7%
3949089 2006.1.4.2 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › PIN 0.82 59.0 4.28e-01 74.5% 53.6%
4875076 2006.1.1.44 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › Hydrolase, Hydrolase_like 0.82 61.0 3.99e-01 81.8% 20.4%
None — 0.81 63.0 4.19e-01 83.6% 25.4%
3270778 108.1.1.96 ↗ alpha arrays › EF-hand › EF-hand-related › EF-hand › EF-hand_1, EF-hand_6, EF-hand_7 0.81 66.0 5.35e-01 89.1% 50.0%
3643664 108.1.1.0 ↗ alpha arrays › EF-hand › EF-hand-related › EF-hand 0.81 61.0 5.44e-01 80.0% 58.7%
4669270 6026.1.1.42 ↗ alpha duplicates or obligate multimers › cwf21 domain › cwf21 domain › cwf21 domain › CemA 0.80 66.0 5.70e-01 90.9% 58.8%
3989754 592.2.1.0 ↗ alpha arrays › PWI domain-like › YugE-like › YugE-like 0.80 57.0 5.24e-01 74.5% 58.6%
5032016 2006.1.4.2 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › PIN 0.80 56.0 4.39e-01 72.7% 51.8%
169693 2006.1.1.18 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › HAD_2 0.80 63.0 4.16e-01 83.6% 25.2%
4948317 103.5.1.0 ↗ alpha arrays › RuvA-C › post-HMGL domain-like › post-HMGL domain-like 0.79 57.0 5.99e-01 76.4% 98.0%
1154435 108.1.1.29 ↗ alpha arrays › EF-hand › EF-hand-related › EF-hand › EF-hand_7 0.79 59.0 5.42e-01 80.0% 73.2%
3339637 148.1.1.68 ↗ alpha arrays › Histone-like › Histone-related › Histone › PLAC8 0.79 58.0 5.08e-01 100.0% 53.8%
185221 3502.1.1.1 ↗ alpha bundles › uncharacterized conserved protein › uncharacterized conserved protein › uncharacterized conserved protein › YebG 0.78 52.0 4.89e-01 76.4% 56.7%
3879373 621.1.1.1 ↗ alpha bundles › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › GBP_C 0.77 64.0 3.87e-01 94.5% 14.9%
3642427 103.1.1.123 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain › PLAC8 0.77 60.0 5.15e-01 100.0% 54.1%
3809576 103.4.1.5 ↗ alpha arrays › RuvA-C › Elongation factor TFIIS domain 2/ Kix domain of creb binding protein › Elongation factor TFIIS domain 2/ Kix domain of creb binding protein › KIX_2 0.77 51.0 4.87e-01 90.9% 58.5%
4011410 148.1.1.0 ↗ alpha arrays › Histone-like › Histone-related › Histone 0.77 63.0 5.45e-01 94.5% 58.8%
1904338 612.1.1.4 ↗ alpha arrays › Retroviral matrix proteins › Retroviral matrix proteins › Retroviral matrix proteins › Gag_p10 0.75 54.0 4.55e-01 78.2% 46.2%
4341780 4957.1.1.0 ↗ a+b complex topology › helical domain in yeast RNA-polymerases › third helical domain in yeast RNA-polymerase II beta-prime subunit › third helical domain in yeast RNA-polymerase II beta-prime subunit 0.75 51.0 4.85e-01 70.9% 60.0%
3503648 190.1.1.1 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box 0.74 46.0 4.50e-01 87.3% 56.7%
4408604 150.5.1.0 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like 0.74 51.0 3.29e-01 72.7% 29.6%
5070580 181.1.1.0 ↗ 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 0.73 50.0 4.89e-01 70.9% 83.1%
3343513 192.8.1.268 ↗ alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain › CemA 0.72 57.0 4.71e-01 90.9% 48.1%
3198596 592.1.1.6 ↗ alpha arrays › PWI domain-like › PWI domain › PWI domain › Nab2 0.71 52.0 4.40e-01 80.0% 47.4%
4530108 3711.1.1.59 ↗ alpha bundles › LTXXQ motif family protein › LTXXQ motif family protein › LTXXQ motif family protein › CemA 0.71 56.0 4.73e-01 90.9% 50.5%
3398172 190.1.1.1 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box 0.70 47.0 3.79e-01 78.2% 36.2%
4353063 621.1.1.3 ↗ alpha bundles › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › Sey1_3HB 0.70 55.0 4.01e-01 87.3% 30.0%
3469758 3787.3.1.1 ↗ alpha bundles › HAD superfamily helical bundle insertion domain › Insertion domain in cytosolic IMP-GMP specific 5'-nucleotidase › Insertion domain in cytosolic IMP-GMP specific 5'-nucleotidase › 5_nucleotid 0.69 59.0 4.78e-01 100.0% 85.5%
3831850 2002.1.1.0 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels 0.68 57.0 3.34e-01 98.2% 12.0%
5044210 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.67 51.0 4.76e-01 87.3% 65.7%
4999212 2006.1.1.1 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › Hydrolase 0.65 47.0 3.14e-01 80.0% 18.3%
4019120 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.65 52.0 2.97e-01 96.4% 20.5%
4046452 101.1.1.102 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Lin-8 0.63 56.0 4.54e-01 98.2% 55.0%
2474880 397.7.1.0 ↗ few secondary structure elements › Toxic hairpin › Ribosome-inactivating protein luffin P1 › Ribosome-inactivating protein luffin P1 0.56 40.0 4.20e-01 80.0% 95.9%
3518379 3502.1.1.1 ↗ alpha bundles › uncharacterized conserved protein › uncharacterized conserved protein › uncharacterized conserved protein › YebG 0.54 38.0 3.82e-01 78.2% 76.4%
D4 medium residues 403-513
PDB
Domain cluster: rep: IMGVR_UViG_3300020438_002319-3300020438-Ga0211576_100156552__D391-497