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NC_041878.1__YP_009594951.1__FDG95_gp568__00411

Bact-Vir

NC_041878.1__YP_009594951.1__FDG95_gp568__00411

Identity

Accession:
NC_041878 ↗
Kingdom:
phage

Quality

78.3 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Mimasvirus› Pectobacterium_phage_vB_PcaM_CBB

TaxID: 2772511

Cluster

View cluster (5 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 6-114
PDB
Domain cluster: representative
CATH (30)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1vk8A00 3.30.70.930 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.77 53.0 5.77e-01 74.3% 83.9%
1lxjA00 3.30.70.930 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.74 53.0 5.44e-01 74.3% 77.7%
4pmwA04 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.74 29.0 3.21e-01 88.1% 44.0%
1lxnA00 3.30.70.930 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.72 52.0 5.44e-01 74.3% 82.7%
1in0A01 3.30.70.860 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.72 46.0 5.50e-01 71.6% 100.0%
1zpwX00 3.30.70.240 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.71 44.0 5.00e-01 73.4% 82.9%
2hiyA01 3.30.70.1280 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › SP0830-like domains 0.70 50.0 5.54e-01 77.1% 93.2%
2iboA00 3.30.70.930 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.69 49.0 5.39e-01 73.4% 89.9%
4kr6A01 3.30.2130.30 Alpha Beta › 2-Layer Sandwich › VC0802-like › 0.69 56.0 4.75e-01 85.3% 95.3%
2c5sA01 3.30.2130.30 Alpha Beta › 2-Layer Sandwich › VC0802-like › 0.69 55.0 4.74e-01 85.3% 97.0%
1h3dA03 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.69 40.0 4.89e-01 73.4% 94.0%
1ufwA00 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.64 45.0 4.81e-01 75.2% 83.2%
2d9oA00 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.64 47.0 4.88e-01 80.7% 83.0%
2m88A01 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.63 43.0 4.69e-01 76.1% 88.4%
6muwJ00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.63 55.0 4.42e-01 94.5% 54.1%
3znuA00 3.30.70.1060 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Dimeric alpha+beta barrel 0.62 44.0 4.73e-01 73.4% 87.2%
3oe3C00 2.40.128.200 Mainly Beta › Beta Barrel › Lipocalin › C-type lysozyme inhibitor 0.62 29.0 3.22e-01 94.5% 52.3%
6w72A01 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.62 43.0 4.13e-01 73.4% 61.8%
1x0pA01 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.61 43.0 4.57e-01 73.4% 83.3%
3bp1A02 3.30.1130.10 Alpha Beta › 2-Layer Sandwich › GTP Cyclohydrolase I, domain 2 › GTP cyclohydrolase I, C-terminal domain/NADPH-dependent 7-cyano-7-deazaguanine reductase, N-terminal domain 0.61 44.0 4.12e-01 92.7% 60.9%
4lvnP00 3.30.70.2380 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.60 41.0 4.65e-01 78.0% 95.1%
6e5bN00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.58 51.0 4.15e-01 95.4% 53.8%
4erdA00 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.58 40.0 4.07e-01 72.5% 72.2%
1yrxC01 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.58 40.0 4.16e-01 73.4% 77.9%
1x60A01 3.30.70.1070 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Sporulation related repeat 0.57 37.0 4.35e-01 72.5% 98.6%
1svdM00 3.30.190.10 Alpha Beta › 2-Layer Sandwich › Ribulose 1,5 Bisphosphate Carboxylase/Oxygenase › Ribulose bisphosphate carboxylase, small subunit 0.56 36.0 3.66e-01 85.3% 64.8%
1milA00 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.56 31.0 3.19e-01 93.6% 54.8%
3frmA00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.52 37.0 2.83e-01 73.4% 32.5%
1s12A00 3.30.70.1490 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Cysteine protease Prp 0.52 39.0 4.14e-01 92.7% 92.6%
6kcvA01 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.51 39.0 3.16e-01 85.3% 63.7%
ECOD (44)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
1290736 304.120.1.6 ↗ a+b two layers › Alpha-beta plaits › Ferredoxin-like domain in ThiI › Ferredoxin-like domain in ThiI › ThiI_fer 0.75 48.0 5.63e-01 70.6% 94.6%
4947478 304.26.1.0 ↗ a+b two layers › Alpha-beta plaits › MTH1187/YkoF-like › MTH1187/YkoF-like 0.75 53.0 5.69e-01 74.3% 86.3%
5040129 304.26.1.1 ↗ a+b two layers › Alpha-beta plaits › MTH1187/YkoF-like › MTH1187/YkoF-like › Thiamine_BP 0.74 51.0 5.49e-01 74.3% 82.1%
5082143 304.26.1.1 ↗ a+b two layers › Alpha-beta plaits › MTH1187/YkoF-like › MTH1187/YkoF-like › Thiamine_BP 0.73 52.0 5.33e-01 74.3% 76.2%
5007807 304.26.1.1 ↗ a+b two layers › Alpha-beta plaits › MTH1187/YkoF-like › MTH1187/YkoF-like › Thiamine_BP 0.73 52.0 5.52e-01 74.3% 84.2%
4033553 304.26.1.1 ↗ a+b two layers › Alpha-beta plaits › MTH1187/YkoF-like › MTH1187/YkoF-like › Thiamine_BP 0.73 52.0 5.33e-01 74.3% 80.0%
3905833 304.8.1.54 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ACT_13 0.72 51.0 5.41e-01 72.5% 97.9%
3509233 304.120.1.12 ↗ a+b two layers › Alpha-beta plaits › Ferredoxin-like domain in ThiI › Ferredoxin-like domain in ThiI › PF26955 0.72 49.0 5.67e-01 70.6% 100.0%
5073020 304.26.1.0 ↗ a+b two layers › Alpha-beta plaits › MTH1187/YkoF-like › MTH1187/YkoF-like 0.72 51.0 5.37e-01 74.3% 82.8%
3988398 304.26.1.1 ↗ a+b two layers › Alpha-beta plaits › MTH1187/YkoF-like › MTH1187/YkoF-like › Thiamine_BP 0.71 50.0 5.32e-01 74.3% 83.2%
5049019 304.26.1.1 ↗ a+b two layers › Alpha-beta plaits › MTH1187/YkoF-like › MTH1187/YkoF-like › Thiamine_BP 0.71 51.0 5.31e-01 75.2% 79.6%
4019157 304.26.1.1 ↗ a+b two layers › Alpha-beta plaits › MTH1187/YkoF-like › MTH1187/YkoF-like › Thiamine_BP 0.71 50.0 5.10e-01 74.3% 74.1%
3702690 304.51.1.0 ↗ a+b two layers › Alpha-beta plaits › CRISPR transcript (pre-crRNA) processing endoribonuclease-related › CRISPR transcript (pre-crRNA) processing endoribonuclease-related 0.71 60.0 4.76e-01 91.7% 75.9%
4976695 304.5.1.0 ↗ a+b two layers › Alpha-beta plaits › GlnB-like › GlnB-like 0.70 45.0 4.95e-01 73.4% 80.0%
5449 304.121.1.1 ↗ a+b two layers › Alpha-beta plaits › SP0830-like › SP0830-like › DUF1697 0.70 50.0 5.39e-01 77.1% 87.2%
4246202 304.56.1.6 ↗ a+b two layers › Alpha-beta plaits › CRISPR associated protein Cas2-like › CRISPR associated protein Cas2-like › UreE_C 0.70 46.0 4.89e-01 73.4% 76.8%
3953647 304.26.1.1 ↗ a+b two layers › Alpha-beta plaits › MTH1187/YkoF-like › MTH1187/YkoF-like › Thiamine_BP 0.70 49.0 5.18e-01 74.3% 83.2%
4073171 304.120.1.11 ↗ a+b two layers › Alpha-beta plaits › Ferredoxin-like domain in ThiI › Ferredoxin-like domain in ThiI › UreE_C 0.69 46.0 4.87e-01 73.4% 76.8%
3535970 304.44.1.0 ↗ a+b two layers › Alpha-beta plaits › Ribosomal protein S10 › Ribosomal protein S10 0.69 59.0 4.99e-01 92.7% 69.4%
4632150 304.56.1.0 ↗ a+b two layers › Alpha-beta plaits › CRISPR associated protein Cas2-like › CRISPR associated protein Cas2-like 0.69 46.0 4.85e-01 73.4% 76.8%
5054467 304.128.1.0 ↗ a+b two layers › Alpha-beta plaits › ferredoxin-like domain in periplasmic region of MacB › ferredoxin-like domain in periplasmic region of MacB 0.69 48.0 5.47e-01 91.7% 97.5%
3768588 304.8.1.54 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ACT_13 0.69 48.0 4.95e-01 72.5% 84.8%
None — 0.69 38.0 2.33e-01 93.6% 8.7%
4414821 304.56.1.2 ↗ a+b two layers › Alpha-beta plaits › CRISPR associated protein Cas2-like › CRISPR associated protein Cas2-like › CRISPR_Cas2 0.68 45.0 4.82e-01 74.3% 77.7%
4967335 304.128.1.0 ↗ a+b two layers › Alpha-beta plaits › ferredoxin-like domain in periplasmic region of MacB › ferredoxin-like domain in periplasmic region of MacB 0.68 48.0 5.32e-01 71.6% 96.5%
4316258 304.56.1.2 ↗ a+b two layers › Alpha-beta plaits › CRISPR associated protein Cas2-like › CRISPR associated protein Cas2-like › CRISPR_Cas2 0.67 45.0 4.96e-01 75.2% 87.1%
4519317 304.56.1.2 ↗ a+b two layers › Alpha-beta plaits › CRISPR associated protein Cas2-like › CRISPR associated protein Cas2-like › CRISPR_Cas2 0.67 44.0 4.89e-01 73.4% 85.9%
4929272 304.22.1.0 ↗ a+b two layers › Alpha-beta plaits › Urease metallochaperone UreE, C-terminal domain › Urease metallochaperone UreE, C-terminal domain 0.66 44.0 4.93e-01 72.5% 92.5%
5080852 304.128.1.0 ↗ a+b two layers › Alpha-beta plaits › ferredoxin-like domain in periplasmic region of MacB › ferredoxin-like domain in periplasmic region of MacB 0.65 48.0 5.35e-01 91.7% 98.8%
3699876 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.64 43.0 4.79e-01 81.7% 88.2%
3278063 304.48.1.48 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › GGDEF_2 0.64 55.0 4.88e-01 94.5% 73.1%
3887865 304.9.1.17 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › DUF1866 0.64 47.0 5.02e-01 77.1% 91.6%
5041788 3715.1.1.0 ↗ a+b two layers › Ribosomal protein L22e › Ribosomal protein L22e › Ribosomal protein L22e 0.64 49.0 5.30e-01 84.4% 97.8%
3320247 304.9.1.1 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RRM_1 0.64 43.0 4.52e-01 72.5% 77.9%
3761481 304.163.1.5 ↗ a+b two layers › Alpha-beta plaits › ATP-binding protein TM_1403 insertion domain › ATP-binding protein TM_1403 insertion domain › R1_ABCA1, PF26955 0.63 52.0 4.53e-01 88.1% 86.7%
4478465 304.1.1.0 ↗ a+b two layers › Alpha-beta plaits › GHMP Kinase, C-terminal domain › GHMP Kinase, C-terminal domain 0.62 43.0 4.14e-01 72.5% 96.1%
162430 304.9.1.17 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › DUF1866 0.62 45.0 4.83e-01 76.1% 91.2%
3701227 304.5.1.0 ↗ a+b two layers › Alpha-beta plaits › GlnB-like › GlnB-like 0.61 44.0 4.51e-01 74.3% 95.2%
3258975 214.1.1.6 ↗ a+b two layers › SH2 › SH2 › SH2 › SH2_2 0.57 39.0 4.03e-01 94.5% 75.0%
3771426 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.55 50.0 3.09e-01 99.1% 60.3%
3313735 304.9.1.7 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › XS 0.55 41.0 3.95e-01 79.8% 82.4%
3588119 304.117.1.3 ↗ a+b two layers › Alpha-beta plaits › Ferredoxin-like domain in YebC › Ferredoxin-like domain in YebC › FakA-like_M 0.53 38.0 4.09e-01 76.1% 90.0%
3517321 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.53 39.0 2.71e-01 78.0% 50.6%
3213192 2004.1.1.87 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SMC_N 0.50 42.0 2.74e-01 92.7% 20.2%