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MF614628.1__ATE84710.1__phi3LM21_p24__00024

Bact-Vir

MF614628.1__ATE84710.1__phi3LM21_p24__00024

Identity

Accession:
MF614628 ↗
Kingdom:
phage

Quality

93.9 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Sinorhizobium_phage_phi3LM21

TaxID: 2029634

Cluster

View cluster (3 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 15-93
PDB
Domain cluster: representative
CATH (43)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1pprM01 1.40.10.10 Mainly Alpha › Alpha solenoid › Peridinin-chlorophyll Protein, Chain M › Peridinin-chlorophyll A binding 0.76 48.0 3.82e-01 96.2% 32.9%
2ib0A01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.67 46.0 3.84e-01 70.9% 46.7%
3na7A00 1.10.287.1490 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.65 41.0 2.89e-01 98.7% 21.1%
3tc1B00 1.10.600.10 Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase 0.64 55.0 3.80e-01 100.0% 52.5%
4l0rB00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.64 42.0 4.33e-01 98.7% 72.6%
7d3uC01 1.10.287.3510 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.63 47.0 4.27e-01 79.7% 80.4%
4aflA00 6.10.140.1740 Special › Helix non-globular › Helix Hairpins › 0.63 41.0 3.82e-01 98.7% 52.0%
1pd3A00 1.10.287.230 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.62 41.0 4.75e-01 100.0% 98.1%
1kvkA02 3.30.70.890 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › GHMP kinase, C-terminal domain 0.62 44.0 3.62e-01 100.0% 39.9%
3fggA00 1.10.3950.10 Mainly Alpha › Orthogonal Bundle › putative ecf-type sigma factor negative effector from bacillus cereus › putative ecf-type sigma factor negative effector from bacillus cereus 0.61 45.0 3.69e-01 78.5% 73.5%
1nzeA00 1.20.120.290 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Oxygen-evolving enhancer protein 3 (PsbQ), four-helix up-down bundle 0.61 52.0 4.73e-01 100.0% 94.6%
4d8mA01 1.20.190.10 Mainly Alpha › Up-down Bundle › Delta-Endotoxin; domain 1 › Pesticidal crystal protein, N-terminal domain 0.60 46.0 3.30e-01 100.0% 29.6%
2c9kA01 1.20.190.10 Mainly Alpha › Up-down Bundle › Delta-Endotoxin; domain 1 › Pesticidal crystal protein, N-terminal domain 0.59 51.0 3.73e-01 100.0% 93.3%
2jx0A00 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.59 50.0 4.32e-01 98.7% 92.4%
5xnyA02 1.20.200.10 Mainly Alpha › Up-down Bundle › Fumarase C; Chain A, domain 2 › Fumarase/aspartase (Central domain) 0.59 50.0 3.58e-01 94.9% 81.6%
1cpqA00 1.20.120.10 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Cytochrome c/b562 0.58 51.0 4.40e-01 100.0% 98.4%
4i1mB01 1.20.120.1700 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.58 49.0 4.32e-01 100.0% 84.5%
3kyiA00 1.20.120.160 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › HPT domain 0.58 49.0 4.31e-01 100.0% 75.0%
1ydxA02 1.10.287.1120 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Bipartite methylase S protein 0.58 41.0 3.92e-01 94.9% 64.4%
6a3kA00 1.20.120.10 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Cytochrome c/b562 0.58 50.0 4.34e-01 100.0% 97.7%
1gs0A01 1.20.142.10 Mainly Alpha › Up-down Bundle › Poly(ADP-ribose) Polymerase; domain 1 › Poly(ADP-ribose) polymerase, regulatory domain 0.57 40.0 3.41e-01 72.2% 80.6%
2ke4A00 6.10.140.470 Special › Helix non-globular › Helix Hairpins › 0.57 39.0 3.62e-01 97.5% 57.1%
4iv6B01 1.10.540.10 Mainly Alpha › Orthogonal Bundle › Butyryl-Coa Dehydrogenase, subunit A; domain 1 › Acyl-CoA dehydrogenase/oxidase, N-terminal domain 0.57 47.0 4.19e-01 93.7% 87.1%
1uurA01 1.20.58.240 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › STAT; domain 1 0.57 39.0 3.55e-01 72.2% 93.6%
1zoyA03 1.20.58.100 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Fumarate reductase/succinate dehydrogenase flavoprotein-like, C-terminal domain 0.56 41.0 3.73e-01 81.0% 74.4%
2ic6A00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.56 37.0 3.82e-01 97.5% 74.6%
6xz3A01 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.56 47.0 4.24e-01 100.0% 97.4%
3caxA01 1.20.120.520 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › nmb1532 protein domain like 0.56 46.0 3.54e-01 100.0% 56.2%
6zhiB02 1.20.1270.10 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.55 42.0 4.20e-01 82.3% 79.5%
4wpeA00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.55 42.0 2.94e-01 82.3% 75.3%
2vvyA01 1.10.437.20 Mainly Alpha › Orthogonal Bundle › Apoptosis Regulator Bcl-x › dsDNA poxvirus 0.55 45.0 3.88e-01 93.7% 89.6%
7cj3A01 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.55 49.0 3.43e-01 100.0% 43.0%
1sg2A00 3.30.910.20 Alpha Beta › 2-Layer Sandwich › Protein Binding, DinI Protein; Chain A › Skp domain 0.55 41.0 3.40e-01 100.0% 44.7%
4h63H01 1.20.58.1710 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.55 36.0 3.77e-01 98.7% 75.0%
1txdA01 1.20.900.10 Mainly Alpha › Up-down Bundle › Dbl Homology Domain; Chain A › Dbl homology (DH) domain 0.53 40.0 2.96e-01 82.3% 41.1%
3rvyA01 1.20.120.350 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Voltage-gated potassium channels. Chain C 0.53 44.0 4.07e-01 100.0% 92.1%
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 0.53 45.0 3.71e-01 98.7% 89.7%
3r6nA02 1.20.58.1060 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.52 47.0 3.75e-01 98.7% 79.4%
3k17A02 3.30.70.890 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › GHMP kinase, C-terminal domain 0.52 40.0 3.41e-01 86.1% 85.0%
1k04A02 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.52 43.0 3.95e-01 91.1% 75.0%
2khmA01 1.10.10.1350 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Spidroin domain, C-terminal domain 0.52 37.0 3.36e-01 74.7% 81.5%
3gi7A00 1.20.1270.180 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.52 35.0 3.23e-01 100.0% 53.4%
4ceiA03 6.10.250.2380 Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.51 46.0 4.10e-01 100.0% 98.2%
ECOD (40)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4957637 601.4.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › Histidine kinase associated sensor domains › Histidine kinase associated sensor domains 0.71 52.0 5.02e-01 78.5% 77.8%
3936736 150.1.1.0 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin 0.70 60.0 5.13e-01 98.7% 94.8%
4826576 150.1.1.5 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin › DUF305 0.69 50.0 4.96e-01 77.2% 82.4%
5031425 601.7.1.3 ↗ alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain › PaREP1 0.66 57.0 4.80e-01 93.7% 90.0%
3821192 3843.1.1.0 ↗ alpha complex topology › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K 0.66 49.0 4.80e-01 79.7% 92.9%
3999274 5086.1.1.102 ↗ alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › PTHB1_hp 0.66 43.0 3.92e-01 98.7% 50.5%
4942791 5045.1.1.3 ↗ alpha bundles › F1F0 ATP synthase subunit A › F1F0 ATP synthase subunit A › F1F0 ATP synthase subunit A › V_ATPase_I 0.65 48.0 3.24e-01 79.7% 26.8%
4945431 3843.1.1.0 ↗ alpha complex topology › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K 0.64 47.0 4.40e-01 78.5% 75.0%
3808173 2484.1.1.1 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › HSP70 0.64 44.0 4.50e-01 86.1% 73.3%
3970500 633.5.1.1 ↗ alpha bundles › Bromodomain-like › LemA-like › LemA-like › LemA 0.64 50.0 3.88e-01 82.3% 43.8%
3718408 3922.1.1.0 ↗ alpha bundles › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 0.64 32.0 2.88e-01 77.2% 35.5%
3734743 4177.1.1.0 ↗ alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like 0.64 47.0 3.43e-01 82.3% 66.0%
3980198 5069.1.1.26 ↗ alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Transmembrane di-heme cytochromes › NrfD 0.64 49.0 4.10e-01 82.3% 54.8%
3916065 633.21.1.23 ↗ alpha bundles › Bromodomain-like › Uncharacterized protein PA2107 › Uncharacterized protein PA2107 › CD20 0.63 48.0 3.84e-01 82.3% 50.6%
4886450 511.1.1.1 ↗ beta sandwiches › Heat shock protein 70kD (HSP70), peptide-binding domain › Heat shock protein 70kD (HSP70), peptide-binding domain › Heat shock protein 70kD (HSP70), peptide-binding domain › HSP70 0.62 43.0 4.36e-01 88.6% 71.2%
3740639 601.3.1.1 ↗ alpha bundles › Four-helical up-and-down bundle › Histidine-containing phosphotransfer domain, HPT domain › Histidine-containing phosphotransfer domain, HPT domain › Hpt 0.62 53.0 4.47e-01 100.0% 62.1%
3510392 6157.1.1.1 ↗ alpha bundles › GKAP homology domain 1 › GKAP homology domain 1 › GKAP homology domain 1 › GKAP 0.61 47.0 4.22e-01 82.3% 81.8%
3281670 101.1.2.49 ↗ alpha arrays › HTH › HTH › winged helix domain › PadR,Vir_act_alpha_C 0.61 40.0 3.18e-01 98.7% 31.2%
5013258 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 52.0 4.59e-01 100.0% 91.2%
3216342 601.1.1.95 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin › F_actin_bind 0.61 52.0 4.69e-01 100.0% 96.5%
3605626 192.12.1.0 ↗ alpha bundles › Long alpha-hairpin › Transcriptional repressor TraM › Transcriptional repressor TraM 0.61 42.0 3.85e-01 98.7% 54.3%
3398024 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.61 39.0 3.73e-01 97.5% 54.7%
3272619 601.1.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin 0.58 50.0 4.41e-01 98.7% 97.5%
4954907 632.11.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.58 43.0 4.19e-01 91.1% 72.9%
5044025 632.1.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase middle domain › Families 57/38 glycoside transferase middle domain 0.58 45.0 4.46e-01 88.6% 78.8%
3730380 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.57 50.0 4.09e-01 100.0% 73.3%
4130479 4006.1.1.1 ↗ 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 › PCRF 0.56 45.0 3.94e-01 87.3% 84.2%
3867484 4177.1.1.8 ↗ alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like › BAR_3 0.56 42.0 3.02e-01 82.3% 66.0%
3705783 192.5.1.0 ↗ alpha bundles › Long alpha-hairpin › HR1 repeat › HR1 repeat 0.56 41.0 3.99e-01 78.5% 97.8%
3798533 4177.1.1.0 ↗ alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like 0.55 48.0 3.37e-01 93.7% 71.7%
3744868 192.29.1.286 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) › FKS1_dom2 0.54 47.0 3.72e-01 100.0% 74.9%
3832264 2004.1.1.184 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_11 0.54 43.0 2.73e-01 92.4% 28.8%
3328976 109.4.1.1490 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › MOR2-PAG1_C, MOR2-PAG1_mid 0.53 47.0 2.88e-01 100.0% 20.9%
4955756 632.22.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats 0.52 40.0 4.11e-01 87.3% 88.0%
3304016 601.16.1.8 ↗ alpha bundles › Four-helical up-and-down bundle › FAT domain of focal adhesion kinase › FAT domain of focal adhesion kinase › DUF1218 0.52 42.0 3.46e-01 97.5% 85.3%
3586382 601.1.2.4 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › I/LWEQ domain (Pfam 01608) › Talin_R4 0.52 39.0 3.73e-01 84.8% 82.0%
3731685 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.51 43.0 3.43e-01 100.0% 56.2%
3632799 632.1.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase middle domain › Families 57/38 glycoside transferase middle domain 0.51 41.0 3.47e-01 88.6% 64.4%
3503444 192.8.1.0 ↗ alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain 0.51 41.0 3.98e-01 89.9% 82.2%
3785572 632.22.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats 0.50 38.0 3.60e-01 83.5% 73.0%