←Back to structures

PLM4_65_coex_sep16_scaffold_0_prodigal-single.1__X__X__00075

Bact-Vir

PLM4_65_coex_sep16_scaffold_0_prodigal-single.1__X__X__00075

Identity

Kingdom:
phage

Quality

67.7 mean pLDDT

Cluster

Singleton — not in a non-trivial cluster

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 28-110
PDB
Domain cluster: representative
CATH (55)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3akaA00 1.10.238.10 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › EF-hand 0.69 60.0 4.87e-01 98.8% 72.2%
1l0oA00 3.30.565.10 Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › Histidine kinase-like ATPase, C-terminal domain 0.68 55.0 4.58e-01 86.7% 92.9%
3ousA00 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.65 45.0 4.58e-01 72.3% 92.7%
3fbzA01 1.20.58.800 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.64 53.0 4.96e-01 91.6% 77.5%
2a3vB01 1.10.150.130 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Tyrosine recombinase, N-terminal domain 0.64 54.0 5.24e-01 95.2% 88.3%
3zssA02 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.63 41.0 4.27e-01 90.4% 70.9%
2yguC00 1.10.238.190 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › 0.63 51.0 4.52e-01 90.4% 61.0%
3kv0A01 1.10.3520.10 Mainly Alpha › Orthogonal Bundle › Glycolipid transfer protein, GLTP › Glycolipid transfer protein 0.63 55.0 4.40e-01 98.8% 89.4%
4f7nB01 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.62 48.0 4.14e-01 100.0% 51.5%
1zkrB00 1.20.920.50 Mainly Alpha › Up-down Bundle › Histone Acetyltransferase; Chain A › 0.62 54.0 4.59e-01 100.0% 91.0%
1n1bB02 1.10.600.10 Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase 0.62 55.0 3.69e-01 96.4% 82.4%
6ig5A01 1.10.275.10 Mainly Alpha › Orthogonal Bundle › Fumarase C; Chain B, domain 1 › Fumarase/aspartase (N-terminal domain) 0.62 55.0 4.67e-01 100.0% 68.8%
1v4aA03 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.61 53.0 4.32e-01 95.2% 77.8%
1ls1A01 1.20.120.140 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › SRP54, nucleotide-binding domain 0.61 44.0 4.35e-01 78.3% 70.8%
2oo2A00 1.20.1270.90 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › AF1782-like 0.60 41.0 4.32e-01 90.4% 77.6%
3wfdB00 1.20.210.10 Mainly Alpha › Up-down Bundle › Cytochrome C Oxidase; Chain A › Cytochrome c oxidase-like, subunit I domain 0.60 48.0 3.03e-01 86.7% 24.3%
4p9tA01 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.60 49.0 4.35e-01 89.2% 65.8%
4dveA00 1.10.1760.20 Mainly Alpha › Orthogonal Bundle › Arp2/3 complex 21 kDa subunit ARPC3 › 0.60 48.0 3.71e-01 88.0% 61.9%
6gyhA00 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.60 53.0 3.91e-01 100.0% 60.9%
1fouA01 1.10.246.30 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › 0.59 42.0 4.43e-01 85.5% 83.8%
2iw3A02 1.20.1390.20 Mainly Alpha › Up-down Bundle › PWI domain › 0.58 43.0 4.23e-01 92.8% 73.3%
4k0dA00 1.20.120.1730 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.58 47.0 3.94e-01 88.0% 53.1%
4btfA01 1.20.930.20 Mainly Alpha › Up-down Bundle › Transcription Elongation Factor S-II; Chain A › Adaptor protein Cbl, N-terminal domain 0.58 45.0 4.29e-01 95.2% 70.0%
2q7rB00 1.20.120.550 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Membrane associated eicosanoid/glutathione metabolism-like domain 0.58 45.0 3.71e-01 94.0% 46.9%
1qv9A02 6.10.140.120 Special › Helix non-globular › Helix Hairpins › 0.58 43.0 3.97e-01 78.3% 67.0%
4iggB02 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.57 47.0 4.11e-01 88.0% 76.9%
3wurA00 1.20.1420.60 Mainly Alpha › Up-down Bundle › A middle domain of Talin 1 › 0.57 48.0 3.88e-01 94.0% 47.5%
2qdjA03 1.10.472.140 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › 0.57 49.0 4.45e-01 98.8% 80.2%
3ug9A02 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.57 46.0 3.37e-01 88.0% 61.3%
3if8B02 1.20.58.730 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.57 42.0 3.98e-01 78.3% 74.0%
2x0cA01 1.20.1420.10 Mainly Alpha › Up-down Bundle › A middle domain of Talin 1 › Talin, central domain 0.56 45.0 3.52e-01 86.7% 87.1%
2i3fA00 1.10.3520.10 Mainly Alpha › Orthogonal Bundle › Glycolipid transfer protein, GLTP › Glycolipid transfer protein 0.56 47.0 3.67e-01 98.8% 72.3%
3owaB04 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.56 48.0 3.97e-01 97.6% 71.3%
1nigA00 1.20.1200.10 Mainly Alpha › Up-down Bundle › Hypothetical Protein Ta1238; Chain: A; › Cobalamin adenosyltransferase-like 0.56 46.0 3.84e-01 90.4% 82.9%
3sjqC00 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.56 35.0 3.61e-01 73.5% 65.0%
2hoqA02 1.10.150.520 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › 0.55 44.0 4.53e-01 98.8% 96.2%
2qgsB01 1.10.472.50 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › HD-domain/PDEase-like 0.55 43.0 4.29e-01 98.8% 80.7%
3aq1B02 3.30.260.10 Alpha Beta › 2-Layer Sandwich › GROEL; domain 2 › TCP-1-like chaperonin intermediate domain 0.55 46.0 4.21e-01 92.8% 83.6%
2e9fB01 1.10.275.10 Mainly Alpha › Orthogonal Bundle › Fumarase C; Chain B, domain 1 › Fumarase/aspartase (N-terminal domain) 0.55 45.0 4.38e-01 94.0% 81.2%
5b57B00 1.10.3470.10 Mainly Alpha › Orthogonal Bundle › ABC transporter involved in vitamin B12 uptake, BtuC › ABC transporter involved in vitamin B12 uptake, BtuC 0.55 48.0 3.23e-01 98.8% 63.7%
1zvzA02 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.54 43.0 3.87e-01 89.2% 82.3%
3r2cA00 1.10.940.10 Mainly Alpha › Orthogonal Bundle › N-utilizing Substance Protein B Homolog; Chain A › NusB-like 0.54 47.0 4.06e-01 100.0% 94.9%
1rp3A01 1.10.1740.10 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif 0.54 40.0 4.05e-01 83.1% 77.6%
1kyqA03 1.10.3280.10 Mainly Alpha › Orthogonal Bundle › Siro heme synthase C-terminal domain-like › Siroheme synthase; domain 3 0.54 37.0 3.71e-01 88.0% 70.2%
1qkrB00 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.54 45.0 3.60e-01 95.2% 78.9%
6z4xA01 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.53 42.0 3.51e-01 94.0% 47.1%
6p73A02 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.53 46.0 3.90e-01 100.0% 62.2%
6fmhB01 1.10.3160.10 Mainly Alpha › Orthogonal Bundle › Bbcrasp-1 › Bbcrasp-1 0.53 41.0 3.26e-01 84.3% 82.0%
6ks6G02 3.30.260.10 Alpha Beta › 2-Layer Sandwich › GROEL; domain 2 › TCP-1-like chaperonin intermediate domain 0.52 42.0 4.00e-01 92.8% 85.6%
1qdbA02 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.52 45.0 3.83e-01 100.0% 62.2%
3nv9A02 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.51 44.0 3.09e-01 98.8% 73.1%
6pmiF01 1.10.1740.10 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif 0.51 38.0 3.89e-01 83.1% 82.5%
3hwcA03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.51 43.0 3.31e-01 97.6% 68.1%
4yjwA00 1.20.120.930 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Uncharacterised protein PF12889, N-terminal DUF3829 0.51 42.0 3.43e-01 90.4% 58.2%
4iggB06 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.51 44.0 3.32e-01 100.0% 86.5%
ECOD (45)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3629471 5054.1.1.2 ↗ alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels › Ion_trans 0.65 49.0 3.65e-01 79.5% 60.0%
5029372 601.7.1.2 ↗ alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain › HEPN 0.64 50.0 4.28e-01 89.2% 53.1%
5057227 150.1.1.0 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin 0.63 51.0 4.38e-01 86.7% 84.6%
3258290 1128.1.1.1 ↗ alpha bundles › LYR protein › LYR protein › LYR protein › Complex1_LYR 0.63 47.0 4.93e-01 95.2% 86.7%
5051526 4333.1.1.0 ↗ a+b complex topology › DNA methylase specificity domain › DNA methylase specificity domain › DNA methylase specificity domain 0.62 52.0 3.54e-01 90.4% 71.8%
4114241 4952.1.1.0 ↗ alpha arrays › L-aspartase N-terminal domain-like › L-aspartase N-terminal domain-like › L-aspartase N-terminal domain-like 0.62 51.0 4.83e-01 90.4% 75.0%
4195230 150.1.1.0 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin 0.61 50.0 4.40e-01 88.0% 85.8%
3598456 10.13.1.0 ↗ beta sandwiches › jelly-roll › Calcium ATPase, transduction domain A › Calcium ATPase, transduction domain A 0.61 38.0 2.77e-01 71.1% 24.9%
3455585 198.1.1.0 ↗ alpha arrays › Saposin-like › Saposin-like › Saposin-like 0.61 49.0 4.65e-01 89.2% 81.0%
3740494 5001.1.1.6 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Bac_rhodopsin 0.60 55.0 3.91e-01 100.0% 57.1%
1108082 611.7.1.1 ↗ alpha bundles › N-cbl like › Mixed lineage kinase domain-like (MLKL) N-terminal domain › Mixed lineage kinase domain-like (MLKL) N-terminal domain › MLKL_N 0.60 46.0 3.89e-01 81.9% 72.5%
4418637 2003.1.2.15 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › FAD_binding_3 0.59 44.0 2.81e-01 80.7% 78.0%
3570945 3567.1.1.82 ↗ a+b duplicates or obligate multimers › MPER trimer › MPER trimer › MPER trimer › Frag1 0.58 52.0 3.88e-01 100.0% 67.0%
3994526 7579.1.1.1 ↗ a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › COesterase 0.58 50.0 3.01e-01 94.0% 46.8%
5041397 632.11.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.58 45.0 4.54e-01 91.6% 82.4%
4434880 578.1.1.1 ↗ alpha arrays › YcfC-like › YcfC-like › YcfC-like › DUF489 0.58 51.0 3.74e-01 100.0% 70.0%
3963134 605.4.1.4 ↗ alpha duplicates or obligate multimers › ROP-like › ROP protein › ROP protein › DUF202 0.57 46.0 4.31e-01 88.0% 79.0%
3202306 4006.1.1.8 ↗ alpha bundles › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain › Sas10_Utp3 0.57 46.0 4.13e-01 88.0% 85.0%
3718570 101.1.10.9 ↗ alpha arrays › HTH › HTH › Cyclin-like › Cyclin 0.57 48.0 4.26e-01 100.0% 64.0%
4158474 3754.1.1.1 ↗ alpha bundles › Bacterial cell wall synthesis membrane enzyme MraY-related › Bacterial cell wall synthesis membrane enzyme MraY-related › Bacterial cell wall synthesis membrane enzyme MraY-related › Glycos_transf_4 0.57 49.0 3.44e-01 100.0% 50.5%
5001323 4333.1.1.2 ↗ a+b complex topology › DNA methylase specificity domain › DNA methylase specificity domain › DNA methylase specificity domain › TaqI_C 0.57 46.0 3.14e-01 88.0% 72.1%
4965582 4953.2.1.0 ↗ beta barrels › L-aspartase C-terminal domain-like › Lid-like insertion of Propionyl-CoA synthase (PCS) ligase domain › Lid-like insertion of Propionyl-CoA synthase (PCS) ligase domain 0.56 46.0 4.56e-01 94.0% 90.0%
3446288 601.4.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › Histidine kinase associated sensor domains › Histidine kinase associated sensor domains 0.56 46.0 3.86e-01 89.2% 69.3%
3418498 5001.1.1.32 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Solute_trans_a 0.56 49.0 3.33e-01 100.0% 61.5%
3174456 5059.1.1.1 ↗ alpha bundles › Drug/Metabolite transporter › Drug/Metabolite transporter › Drug/Metabolite transporter › EamA 0.56 43.0 2.88e-01 81.9% 93.8%
4940598 632.22.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats 0.56 44.0 4.59e-01 94.0% 94.7%
3245015 3831.1.1.0 ↗ alpha bundles › Secreted protein of unknown function DUF1311 › Secreted protein of unknown function DUF1311 › Secreted protein of unknown function DUF1311 0.56 43.0 4.44e-01 85.5% 85.0%
3228768 5001.1.1.45 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7TM_GPCR_Sra 0.55 48.0 3.29e-01 98.8% 83.4%
4423640 5059.1.1.5 ↗ alpha bundles › Drug/Metabolite transporter › Drug/Metabolite transporter › Drug/Metabolite transporter › UAA 0.55 48.0 3.22e-01 98.8% 74.6%
3622769 101.1.10.13 ↗ alpha arrays › HTH › HTH › Cyclin-like › DUF3452 0.55 50.0 3.80e-01 100.0% 65.8%
3384541 174.1.1.0 ↗ few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.55 48.0 3.93e-01 97.6% 67.1%
5010292 601.30.1.1 ↗ alpha bundles › Four-helical up-and-down bundle › Helical bundle domain in hypothetical protein PH1320 › Helical bundle domain in hypothetical protein PH1320 › NOG1_N 0.55 47.0 3.89e-01 95.2% 67.3%
3969653 142.1.1.3 ↗ alpha complex topology › Sigma2 domain-like › Sigma2 domain of RNA polymerase sigma factors › Sigma2 domain of RNA polymerase sigma factors › Sigma70_r2 0.54 38.0 3.92e-01 84.3% 76.2%
4198348 195.1.1.1 ↗ alpha complex topology › NusB-like › NusB-like › NusB-like › NusB 0.54 46.0 4.06e-01 98.8% 98.5%
3564428 5054.1.1.59 ↗ alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels › Ion_trans, Ion_trans_2 0.54 42.0 2.84e-01 84.3% 47.5%
3518809 5.1.4.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.53 46.0 3.28e-01 100.0% 31.5%
3701680 4953.1.1.0 ↗ beta barrels › L-aspartase C-terminal domain-like › L-aspartase C-terminal domain-like › L-aspartase C-terminal domain-like 0.53 44.0 4.22e-01 94.0% 84.8%
3670866 611.9.1.4 ↗ alpha bundles › N-cbl like › Resistance protein (Rx) N-terminal domain › Resistance protein (Rx) N-terminal domain › Rx_N 0.53 46.0 3.92e-01 98.8% 57.9%
4970826 195.1.1.1 ↗ alpha complex topology › NusB-like › NusB-like › NusB-like › NusB 0.52 45.0 3.84e-01 100.0% 60.0%
1758759 5054.1.1.59 ↗ alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels › Ion_trans, Ion_trans_2 0.52 38.0 2.81e-01 85.5% 28.4%
3748217 103.4.1.2 ↗ 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 › TFIIS_M 0.52 40.0 3.59e-01 84.3% 61.7%
3391392 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.52 38.0 3.87e-01 78.3% 80.0%
3675872 633.6.1.8 ↗ alpha bundles › Bromodomain-like › Acyl-CoA dehydrogenase C-terminal domain-like › Acyl-CoA dehydrogenase C-terminal domain-like › ACOX_C_alpha1 0.51 45.0 3.95e-01 98.8% 94.4%
3785892 4964.1.1.2 ↗ alpha arrays › helical bundle in Bacillus stearothermophilus-like DNA polymerase I › helical bundle in Bacillus stearothermophilus-like DNA polymerase I › helical bundle in Bacillus stearothermophilus-like DNA polymerase I › RNA_pol 0.51 43.0 3.19e-01 100.0% 45.7%
3268426 148.1.3.19 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › AAA_lid_3 0.50 36.0 3.70e-01 75.9% 80.0%