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OP021678.1__UVD39688.1__SEA_ROSEPHARIE_3__00003

Bact-Vir

OP021678.1__UVD39688.1__SEA_ROSEPHARIE_3__00003

Identity

Accession:
OP021678 ↗
Kingdom:
phage

Quality

77.0 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Manuelvirus› Streptomyces_phage_RosePharie

TaxID: 2970488

Cluster

View cluster (78 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 257-330
PDB
Domain cluster: representative
CATH (4)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1yf2A02 1.10.287.1120 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Bipartite methylase S protein 0.70 64.0 5.60e-01 100.0% 79.4%
5bviA00 2.60.200.10 Mainly Beta › Sandwich › Tumour Suppressor Smad4 › 0.54 41.0 3.20e-01 85.1% 98.4%
3mk7C01 6.10.280.130 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.53 46.0 4.30e-01 100.0% 92.6%
3s6pG00 6.10.140.1660 Special › Helix non-globular › Helix Hairpins › 0.53 35.0 3.56e-01 100.0% 69.4%
ECOD (26)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3300485 7015.1.1.1 ↗ alpha bundles › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain › DHHC 0.71 56.0 3.70e-01 100.0% 22.6%
3176192 4001.1.1.4 ↗ a+b duplicates or obligate multimers › a+b domain in cullin-like proteins › a+b domain in cullin-like proteins › a+b domain in cullin-like proteins › Cullin_AB 0.68 35.0 3.10e-01 78.4% 35.2%
5083373 4038.1.1.0 ↗ alpha bundles › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein 0.66 60.0 4.06e-01 100.0% 28.1%
3797415 375.10.1.0 ↗ few secondary structure elements › Rubredoxin-like › Zinc finger domain of DNA polymerase-alpha › Zinc finger domain of DNA polymerase-alpha 0.64 57.0 4.81e-01 97.3% 61.7%
5048161 192.2.1.2 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.62 53.0 4.45e-01 100.0% 74.3%
4887185 4970.1.1.0 ↗ alpha bundles › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I 0.62 56.0 4.94e-01 100.0% 96.2%
3970698 3747.1.1.0 ↗ a+b two layers › Flagellar hook protein FlgE D0 domain › Flagellar hook protein FlgE D0 domain › Flagellar hook protein FlgE D0 domain 0.61 53.0 4.72e-01 95.9% 97.1%
None — 0.61 53.0 3.13e-01 100.0% 51.5%
4966910 7518.1.1.6 ↗ a/b three-layered sandwiches › PK C-terminal domain-like › PK C-terminal domain-like › PK C-terminal domain-like › DacZ_A 0.60 37.0 3.08e-01 89.2% 38.3%
3251557 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.59 54.0 4.88e-01 100.0% 79.0%
4252883 3681.1.1.0 ↗ a+b complex topology › Helical hairpin insertion in E. coli DNA-directed RNA polymerase beta subunit › Helical hairpin insertion in E. coli DNA-directed RNA polymerase beta subunit › Helical hairpin insertion in E. coli DNA-directed RNA polymerase beta subunit 0.57 48.0 4.31e-01 100.0% 90.9%
4300460 3681.1.1.0 ↗ a+b complex topology › Helical hairpin insertion in E. coli DNA-directed RNA polymerase beta subunit › Helical hairpin insertion in E. coli DNA-directed RNA polymerase beta subunit › Helical hairpin insertion in E. coli DNA-directed RNA polymerase beta subunit 0.56 48.0 4.36e-01 100.0% 95.2%
3236033 3930.1.1.0 ↗ alpha bundles › Helical bundle insertion in helicase domains › Helical bundle in Hef helicase › Helical bundle in Hef helicase 0.56 49.0 3.94e-01 97.3% 74.5%
3498981 131.1.1.0 ↗ alpha complex topology › PDEase-like › HD-domain/PDEase-like › HD-domain/PDEase-like 0.56 51.0 3.06e-01 100.0% 15.9%
4405669 2004.1.1.94 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ATP_bind_1 0.56 36.0 2.46e-01 100.0% 17.9%
3464786 3562.1.1.0 ↗ alpha bundles › Calcium release-activated calcium channel protein 1 › Calcium release-activated calcium channel protein 1 › Calcium release-activated calcium channel protein 1 0.55 48.0 2.99e-01 100.0% 17.1%
5041262 219.1.1.76 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › DUF553 0.55 44.0 3.33e-01 90.5% 52.3%
3173131 377.1.1.0 ↗ few secondary structure elements › Glucocorticoid receptor-like › LIM domain-like › LIM domain-like 0.55 49.0 4.02e-01 100.0% 83.0%
4173002 3681.1.1.0 ↗ a+b complex topology › Helical hairpin insertion in E. coli DNA-directed RNA polymerase beta subunit › Helical hairpin insertion in E. coli DNA-directed RNA polymerase beta subunit › Helical hairpin insertion in E. coli DNA-directed RNA polymerase beta subunit 0.54 45.0 4.05e-01 98.6% 90.9%
3653688 2004.1.1.19 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Ras 0.54 42.0 3.40e-01 87.8% 69.0%
4029392 375.1.1.179 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › TFIIE_alpha 0.53 46.0 3.49e-01 100.0% 41.1%
4573073 3681.1.1.0 ↗ a+b complex topology › Helical hairpin insertion in E. coli DNA-directed RNA polymerase beta subunit › Helical hairpin insertion in E. coli DNA-directed RNA polymerase beta subunit › Helical hairpin insertion in E. coli DNA-directed RNA polymerase beta subunit 0.52 44.0 3.97e-01 98.6% 84.5%
3594068 3959.1.1.0 ↗ alpha duplicates or obligate multimers › Protein Hikeshi dimerization domain › Protein Hikeshi dimerization domain › Protein Hikeshi dimerization domain 0.52 43.0 4.20e-01 93.2% 86.3%
3600861 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.51 38.0 3.24e-01 83.8% 52.9%
4590834 3681.1.1.0 ↗ a+b complex topology › Helical hairpin insertion in E. coli DNA-directed RNA polymerase beta subunit › Helical hairpin insertion in E. coli DNA-directed RNA polymerase beta subunit › Helical hairpin insertion in E. coli DNA-directed RNA polymerase beta subunit 0.51 42.0 3.76e-01 100.0% 86.1%
3630275 2002.1.1.192 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › AMP_deaminase 0.50 41.0 2.51e-01 94.6% 20.0%
D2 medium residues 1-30_119-239
PDB
Domain cluster: rep: IMGVR_UViG_3300012211_000009-3300012211-Ga0137377_1000030636__D15-67_146-276
CATH (6)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4exrA01 3.10.450.40 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.64 28.0 3.82e-01 93.4% 77.8%
4fd5A00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.55 44.0 3.96e-01 85.4% 91.7%
5gi7A00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.54 43.0 3.89e-01 84.8% 78.1%
3urgA02 2.30.30.530 Mainly Beta › Roll › SH3 type barrels. › Calcium binding protein CcbP, beta-barrel domain 0.54 23.0 3.33e-01 88.7% 92.1%
4ozxA00 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.51 41.0 3.32e-01 84.8% 87.0%
2vy0B00 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.50 45.0 3.73e-01 97.4% 83.7%
ECOD (9)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3076016 4056.1.1.4 ↗ beta barrels › Barrel domain in upper collar protein › Barrel domain in upper collar protein › Barrel domain in upper collar protein › Head-tail_con 0.74 51.0 5.76e-01 77.5% 90.5%
3026414 4056.1.1.4 ↗ beta barrels › Barrel domain in upper collar protein › Barrel domain in upper collar protein › Barrel domain in upper collar protein › Head-tail_con 0.74 55.0 5.93e-01 77.5% 90.6%
2537708 4056.1.1.4 ↗ beta barrels › Barrel domain in upper collar protein › Barrel domain in upper collar protein › Barrel domain in upper collar protein › Head-tail_con 0.73 54.0 5.75e-01 77.5% 86.5%
4031151 4056.1.1.0 ↗ beta barrels › Barrel domain in upper collar protein › Barrel domain in upper collar protein › Barrel domain in upper collar protein 0.71 31.0 4.39e-01 78.1% 84.0%
3110784 4056.1.1.4 ↗ beta barrels › Barrel domain in upper collar protein › Barrel domain in upper collar protein › Barrel domain in upper collar protein › Head-tail_con 0.69 47.0 5.21e-01 77.5% 85.8%
3506427 71.1.1.0 ↗ beta meanders › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB 0.59 33.0 3.59e-01 88.7% 64.8%
3251948 375.1.3.2 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Hypothetical protein MTH1184 › MRNIP 0.56 19.0 2.78e-01 73.5% 66.7%
3936789 213.1.1.0 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) 0.54 44.0 3.84e-01 86.1% 89.3%
2048183 10.1.1.50 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases › Dit-like_CBM2 0.54 46.0 4.00e-01 91.4% 85.7%
D3 medium residues 240-256_331-430
PDB
Domain cluster: representative
CATH (7)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
6vq6H01 1.10.287.3240 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.62 44.0 3.61e-01 72.6% 60.8%
4mtnA01 3.30.1480.10 Alpha Beta › 2-Layer Sandwich › N Utilization Substance Protein A; Chain:P; domain 4 › NusA, N-terminal domain 0.61 25.0 2.76e-01 90.6% 46.3%
3aonA00 1.10.287.3240 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.60 41.0 3.50e-01 70.1% 91.5%
2zdiB00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.58 40.0 4.23e-01 70.9% 79.2%
1mhyD00 1.10.620.20 Mainly Alpha › Orthogonal Bundle › Ribonucleotide Reductase, subunit A › Ribonucleotide Reductase, subunit A 0.51 43.0 2.82e-01 90.6% 59.6%
1zcdA00 1.20.1530.10 Mainly Alpha › Up-down Bundle › Na+/H+ antiporter like fold › Na+/H+ antiporter like domain 0.51 39.0 2.75e-01 81.2% 87.2%
3viqA00 6.10.140.1020 Special › Helix non-globular › Helix Hairpins › 0.51 37.0 3.65e-01 75.2% 79.5%
ECOD (13)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4966910 7518.1.1.6 ↗ a/b three-layered sandwiches › PK C-terminal domain-like › PK C-terminal domain-like › PK C-terminal domain-like › DacZ_A 0.68 29.0 2.95e-01 82.1% 40.0%
4819807 304.11.1.0 ↗ a+b two layers › Alpha-beta plaits › Probable ACP-binding domain of malonyl-CoA ACP transacylase › Probable ACP-binding domain of malonyl-CoA ACP transacylase 0.66 25.0 3.01e-01 83.8% 50.0%
5027304 3926.1.1.1 ↗ alpha bundles › V-type proton ATPase subunit D › V-type proton ATPase subunit D › V-type proton ATPase subunit D › ATP-synt_D 0.59 42.0 3.67e-01 73.5% 76.6%
4933528 3926.1.1.1 ↗ alpha bundles › V-type proton ATPase subunit D › V-type proton ATPase subunit D › V-type proton ATPase subunit D › ATP-synt_D 0.58 41.0 3.35e-01 70.9% 81.0%
3233208 5067.1.1.3 ↗ alpha bundles › Multidrug efflux transporter AcrB transmembrane domain › Multidrug efflux transporter AcrB transmembrane domain › Multidrug efflux transporter AcrB transmembrane domain › Patched 0.58 44.0 2.65e-01 80.3% 90.6%
4975725 3926.1.1.1 ↗ alpha bundles › V-type proton ATPase subunit D › V-type proton ATPase subunit D › V-type proton ATPase subunit D › ATP-synt_D 0.57 40.0 3.26e-01 72.6% 66.7%
4961983 3755.1.1.32 ↗ alpha bundles › YscO-like › Putative type III secretion protein YscO-related › Putative type III secretion protein YscO-related › ATP-synt_D 0.55 40.0 3.22e-01 73.5% 65.7%
4382259 3926.1.1.1 ↗ alpha bundles › V-type proton ATPase subunit D › V-type proton ATPase subunit D › V-type proton ATPase subunit D › ATP-synt_D 0.55 39.0 3.33e-01 73.5% 74.0%
5037750 3926.1.1.1 ↗ alpha bundles › V-type proton ATPase subunit D › V-type proton ATPase subunit D › V-type proton ATPase subunit D › ATP-synt_D 0.54 38.0 3.27e-01 72.6% 73.8%
5056727 3926.1.1.1 ↗ alpha bundles › V-type proton ATPase subunit D › V-type proton ATPase subunit D › V-type proton ATPase subunit D › ATP-synt_D 0.52 37.0 3.01e-01 72.6% 71.2%
4037650 161.1.1.0 ↗ alpha complex topology › Helical scaffold and wing domains of SecA › Helical scaffold and wing domains of SecA › Helical scaffold and wing domains of SecA 0.52 46.0 2.83e-01 99.1% 33.0%
3168821 101.1.10.1 ↗ alpha arrays › HTH › HTH › Cyclin-like › Cyclin_N 0.51 36.0 2.71e-01 73.5% 61.0%
4015130 6166.1.1.0 ↗ alpha bundles › N-terminal domain of Delta(14)-sterol reductase, MaSR1 › N-terminal domain of Delta(14)-sterol reductase, MaSR1 › N-terminal domain of Delta(14)-sterol reductase, MaSR1 0.51 36.0 2.96e-01 75.2% 74.9%
D4 medium residues 433-522
PDB
Domain cluster: representative
CATH (8)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1br0A00 1.20.58.70 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.63 42.0 3.83e-01 70.0% 50.8%
1siqA03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.63 45.0 3.72e-01 74.4% 60.0%
4oydB00 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.61 43.0 3.92e-01 73.3% 55.6%
4izzB02 1.10.10.1680 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › HetR, N-terminal DNA-binding domain 0.60 32.0 3.63e-01 72.2% 69.1%
4y9jA01 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.59 44.0 3.81e-01 80.0% 50.3%
6vudA01 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.58 41.0 3.85e-01 73.3% 59.6%
1tzvA00 1.10.940.10 Mainly Alpha › Orthogonal Bundle › N-utilizing Substance Protein B Homolog; Chain A › NusB-like 0.54 31.0 2.69e-01 71.1% 36.2%
1dbzA01 3.30.540.10 Alpha Beta › 2-Layer Sandwich › Fructose-1,6-Bisphosphatase; Chain A, domain 1 › Fructose-1,6-Bisphosphatase, subunit A, domain 1 0.52 41.0 3.27e-01 86.7% 53.8%
ECOD (10)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5044959 632.22.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats 0.68 51.0 4.94e-01 78.9% 75.0%
5076902 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.66 44.0 4.12e-01 70.0% 56.4%
3984493 325.1.7.28 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif › HH_YBHG 0.64 43.0 3.80e-01 71.1% 46.9%
3941960 5086.1.1.86 ↗ alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › HH_YBHG 0.64 42.0 3.76e-01 70.0% 48.0%
None — 0.64 43.0 3.81e-01 71.1% 46.9%
4014856 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.64 48.0 3.21e-01 80.0% 88.5%
3945031 5086.1.1.86 ↗ alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › HH_YBHG 0.64 42.0 3.77e-01 71.1% 46.9%
3400926 3758.1.1.45 ↗ alpha bundles › Bacterial hemolysins-like › Bacterial hemolysins › Bacterial hemolysins › Not3 0.62 44.0 4.11e-01 95.6% 59.1%
4026974 192.15.1.0 ↗ alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains 0.59 41.0 4.05e-01 73.3% 68.4%
3249557 195.1.1.3 ↗ alpha complex topology › NusB-like › NusB-like › NusB-like › NSUN5_N 0.52 32.0 2.76e-01 72.2% 37.9%