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NC_006883.2__YP_214425.1__PSSM2_193__00192

Bact-Vir

NC_006883.2__YP_214425.1__PSSM2_193__00192

Identity

Accession:
NC_006883 ↗
Kingdom:
phage

Quality

88.0 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pantevenvirales› Kyanoviridae› Salacisavirus› Prochlorococcus_phage_P-SSM2

TaxID: 268746

Cluster

Singleton — not in a non-trivial cluster

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 1-65
PDB
Domain cluster: representative
CATH (45)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1vf6C00 1.10.287.650 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › L27 domain 0.74 51.0 5.56e-01 70.8% 96.1%
2oxlA00 1.20.5.5260 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.73 56.0 5.75e-01 89.2% 90.3%
3zciA00 1.20.58.1660 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.69 57.0 4.09e-01 90.8% 58.6%
3s63A00 1.10.225.10 Mainly Alpha › Orthogonal Bundle › NK-Lysin › Saposin-like 0.68 55.0 5.08e-01 100.0% 68.2%
2n5fA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.65 45.0 3.67e-01 100.0% 38.2%
2bnlC00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.65 54.0 4.35e-01 95.4% 91.8%
6xz3A01 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.63 47.0 3.94e-01 83.1% 88.0%
2vkjA00 1.20.58.2030 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.62 43.0 3.62e-01 87.7% 43.4%
1sqgA01 1.10.940.10 Mainly Alpha › Orthogonal Bundle › N-utilizing Substance Protein B Homolog; Chain A › NusB-like 0.62 50.0 4.02e-01 93.8% 75.9%
1vjxA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.62 51.0 3.89e-01 90.8% 65.1%
4g1tA02 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.61 41.0 4.28e-01 100.0% 75.4%
1w33A00 1.10.3160.10 Mainly Alpha › Orthogonal Bundle › Bbcrasp-1 › Bbcrasp-1 0.61 41.0 3.05e-01 70.8% 66.3%
3kkbA00 1.20.120.880 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Histidine kinase (KinB), sensor domain 0.60 49.0 3.92e-01 89.2% 55.6%
2wicA02 1.10.287.1770 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.59 43.0 3.95e-01 80.0% 82.2%
2rpaA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.59 46.0 4.41e-01 86.2% 83.1%
5mlc900 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.59 49.0 4.21e-01 95.4% 86.0%
1t98A01 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.59 49.0 4.58e-01 100.0% 93.1%
1elkA00 1.25.40.90 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.58 46.0 3.52e-01 93.8% 36.6%
2crbA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.58 46.0 4.04e-01 86.2% 66.0%
2q14B01 1.10.3210.10 Mainly Alpha › Orthogonal Bundle › Hypothetical protein af1432 › Hypothetical protein af1432 0.58 40.0 2.76e-01 72.3% 42.5%
2qywA00 1.20.58.400 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › t-snare proteins 0.58 45.0 4.00e-01 84.6% 84.2%
3vkgB03 1.20.58.1120 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Dynein motor heavy chain, linker domain, subdomain 4 0.58 44.0 3.37e-01 81.5% 61.5%
4w8pA02 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.58 45.0 3.66e-01 86.2% 81.5%
5cwhA01 1.25.10.10 Mainly Alpha › Alpha Horseshoe › Leucine-rich Repeat Variant › Leucine-rich Repeat Variant 0.58 45.0 3.41e-01 90.8% 35.3%
2kjgA00 1.20.120.970 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.58 45.0 4.04e-01 98.5% 59.6%
7z67A01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.57 47.0 3.24e-01 90.8% 75.2%
3t6gB00 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.57 45.0 3.63e-01 87.7% 82.1%
1wgwA00 1.20.120.140 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › SRP54, nucleotide-binding domain 0.57 45.0 4.00e-01 90.8% 70.7%
1wn0A00 1.20.120.160 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › HPT domain 0.57 46.0 3.81e-01 95.4% 91.6%
3zssA02 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.56 43.0 4.09e-01 86.2% 82.3%
2oh3A01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.56 45.0 3.59e-01 92.3% 90.3%
1nt2B02 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.55 39.0 3.94e-01 78.5% 73.1%
6cgvM01 1.20.120.1500 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Pre-hexon-linking protein IIIa 0.55 37.0 3.09e-01 72.3% 65.7%
3fseB02 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.54 44.0 3.47e-01 90.8% 87.5%
2rdcA00 1.10.287.800 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › protein ne1242 0.54 42.0 3.41e-01 87.7% 99.2%
1wfdA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.53 43.0 3.84e-01 89.2% 68.8%
5z7qA00 1.20.1330.10 Mainly Alpha › Up-down Bundle › f41 fragment of flagellin, N-terminal domain › f41 fragment of flagellin, N-terminal domain 0.53 41.0 3.12e-01 89.2% 59.1%
4ga4A01 1.20.970.10 Mainly Alpha › Up-down Bundle › Transferase, Pyrimidine Nucleoside Phosphorylase; Chain A, domain 3 › Transferase, Pyrimidine Nucleoside Phosphorylase; Chain C 0.52 37.0 3.74e-01 100.0% 74.6%
2vmaA00 1.20.81.30 Mainly Alpha › Up-down Bundle › Receptor-associated Protein › Type II secretion system (T2SS), domain F 0.52 44.0 3.62e-01 95.4% 63.1%
1go3F02 6.10.140.10 Special › Helix non-globular › Helix Hairpins › 0.52 31.0 3.57e-01 81.5% 80.9%
4c9bB00 1.25.40.180 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.52 42.0 2.86e-01 98.5% 22.4%
2rbdA01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.52 44.0 3.39e-01 95.4% 63.3%
3bjdA01 1.10.1240.20 Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › Lytic transglycosylase, superhelical linker domain 0.52 43.0 4.00e-01 98.5% 78.4%
4wzxA01 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.52 42.0 4.07e-01 90.8% 90.7%
5ffdA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.51 42.0 3.28e-01 90.8% 89.1%
ECOD (45)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3263335 198.1.1.2 ↗ alpha arrays › Saposin-like › Saposin-like › Saposin-like › SapB_2,SapB_1 0.71 59.0 5.51e-01 98.5% 75.0%
3456467 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 0.69 55.0 5.11e-01 90.8% 88.2%
3396075 198.1.1.2 ↗ alpha arrays › Saposin-like › Saposin-like › Saposin-like › SapB_2,SapB_1 0.67 56.0 5.27e-01 100.0% 77.5%
3261605 198.1.1.2 ↗ alpha arrays › Saposin-like › Saposin-like › Saposin-like › SapB_2,SapB_1 0.67 55.0 5.22e-01 100.0% 77.5%
3586746 603.1.1.133 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins › DUF7799 0.67 50.0 4.09e-01 80.0% 84.2%
3612308 604.3.1.0 ↗ alpha bundles › Spectrin repeat-like › BAG domain › BAG domain 0.66 45.0 3.84e-01 72.3% 83.2%
4463756 605.1.1.1 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA 0.65 40.0 3.92e-01 78.5% 57.1%
3704286 604.12.1.8 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › KATNA1_MIT 0.63 49.0 4.23e-01 84.6% 64.0%
4026181 138.1.1.0 ↗ alpha arrays › DNA polymerase III clamp loader subunits, C-terminal domain › DNA polymerase III clamp loader subunits, C-terminal domain › DNA polymerase III clamp loader subunits, C-terminal domain 0.62 52.0 4.62e-01 96.9% 68.0%
3768175 604.3.1.25 ↗ alpha bundles › Spectrin repeat-like › BAG domain › BAG domain › PF30537 0.61 45.0 4.51e-01 90.8% 76.9%
4995419 592.2.1.0 ↗ alpha arrays › PWI domain-like › YugE-like › YugE-like 0.61 48.0 4.44e-01 100.0% 67.1%
3519038 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.61 47.0 3.58e-01 81.5% 83.4%
3516123 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.61 49.0 3.85e-01 87.7% 67.1%
3414767 604.12.1.0 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.61 49.0 4.58e-01 86.2% 81.2%
4037687 639.2.1.0 ↗ alpha arrays › HHA-like › Regulator of acid resistance influenced by indole (AriR) › Regulator of acid resistance influenced by indole (AriR) 0.61 49.0 4.87e-01 95.4% 84.3%
3927225 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.61 45.0 3.19e-01 80.0% 37.8%
3418094 604.12.1.1 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › MIT 0.60 45.0 4.21e-01 80.0% 76.2%
4667176 3755.3.1.517 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › PF29650 0.60 47.0 3.12e-01 84.6% 27.5%
3497029 604.12.1.0 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.60 46.0 4.00e-01 83.1% 64.0%
3605793 604.9.1.0 ↗ alpha bundles › Spectrin repeat-like › Ribosomal protein S20 › Ribosomal protein S20 0.60 47.0 4.53e-01 86.2% 74.7%
3558834 604.12.1.6 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › NRBF2_MIT 0.58 46.0 4.14e-01 86.2% 72.2%
3337263 198.1.1.0 ↗ alpha arrays › Saposin-like › Saposin-like › Saposin-like 0.58 47.0 4.36e-01 96.9% 80.0%
3786072 544.1.1.3 ↗ alpha bundles › Functional domain of the splicing factor Prp18 › Functional domain of the splicing factor Prp18 › Functional domain of the splicing factor Prp18 › PF29121 0.58 47.0 4.06e-01 89.2% 93.0%
5049251 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.58 48.0 3.42e-01 90.8% 59.5%
3931032 109.4.1.285 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PSMD12-CSN4_N 0.57 43.0 2.71e-01 86.2% 14.9%
3717572 5054.1.1.0 ↗ alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels 0.57 41.0 3.34e-01 76.9% 58.4%
3279190 633.11.1.1 ↗ alpha bundles › Bromodomain-like › Nqo1C-terminal domain-like › Nqo1C-terminal domain-like › NADH_4Fe-4S 0.57 48.0 4.16e-01 100.0% 79.1%
3170639 103.1.1.0 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain 0.56 42.0 3.85e-01 81.5% 58.8%
3267491 604.12.1.1 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › MIT 0.56 45.0 4.42e-01 86.2% 91.4%
4351611 150.1.1.6 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin › Mn_catalase 0.56 46.0 3.33e-01 90.8% 87.8%
3724761 604.12.1.0 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.56 45.0 4.38e-01 86.2% 87.1%
3225484 604.12.1.1 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › MIT 0.56 44.0 4.36e-01 86.2% 91.4%
4305528 109.4.1.222 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › DCB 0.56 45.0 3.21e-01 92.3% 37.3%
3958 150.1.1.3 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin › Rubrerythrin 0.56 45.0 3.56e-01 92.3% 87.2%
3435433 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.55 37.0 3.49e-01 70.8% 55.3%
3996406 604.6.1.0 ↗ alpha bundles › Spectrin repeat-like › GAT-like domain › GAT-like domain 0.55 42.0 4.15e-01 87.7% 77.1%
4034237 5055.1.1.0 ↗ extended segments › Small-conductance potassium channel › Small-conductance potassium channel › Small-conductance potassium channel 0.54 45.0 3.78e-01 93.8% 61.7%
3411253 109.4.1.1366 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › DOCK_C-D_N, PF28208 0.53 46.0 2.73e-01 100.0% 13.2%
3877040 1134.1.1.0 ↗ alpha bundles › C-terminal helical domain of alanine-tRNA ligase › C-terminal helical domain of alanine-tRNA ligase › Eukaryotic C-Ala helical domain 0.52 43.0 4.10e-01 90.8% 80.0%
3974601 601.3.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › Histidine-containing phosphotransfer domain, HPT domain › Histidine-containing phosphotransfer domain, HPT domain 0.52 40.0 3.46e-01 87.7% 66.4%
3901917 1134.1.1.7 ↗ alpha bundles › C-terminal helical domain of alanine-tRNA ligase › C-terminal helical domain of alanine-tRNA ligase › Eukaryotic C-Ala helical domain › ALA1 0.52 41.0 4.09e-01 90.8% 84.3%
3725670 627.1.1.0 ↗ alpha complex topology › VPS9 domain › VPS9 domain › VPS9 domain 0.52 45.0 3.52e-01 100.0% 60.0%
3579325 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.52 37.0 3.20e-01 81.5% 46.7%
3581262 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.51 39.0 3.60e-01 87.7% 88.9%
3166324 148.1.3.334 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › PF27180 0.50 38.0 3.16e-01 83.1% 47.5%