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LC680885.1__BDE75731.1__X__00193

Bact-Vir

LC680885.1__BDE75731.1__X__00193

Identity

Accession:
LC680885 ↗
Kingdom:
phage

Quality

75.3 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Staphylococcus_phage_S6

TaxID: 2913378

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 1-43
PDB
Domain cluster: representative
CATH (27)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
6ldkA01 1.10.730.10 Mainly Alpha › Orthogonal Bundle › Isoleucyl-tRNA Synthetase; Domain 1 › Isoleucyl-tRNA Synthetase; Domain 1 0.92 84.0 5.39e-01 100.0% 25.0%
2a2cA03 1.20.1440.340 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 0.90 80.0 5.50e-01 100.0% 32.6%
1rqgA04 1.10.730.10 Mainly Alpha › Orthogonal Bundle › Isoleucyl-tRNA Synthetase; Domain 1 › Isoleucyl-tRNA Synthetase; Domain 1 0.89 77.0 5.21e-01 100.0% 27.8%
3w8hB00 1.10.12.70 Mainly Alpha › Orthogonal Bundle › Lyase 2-enoyl-coa Hydratase; Chain A, domain 2 › 0.87 73.0 6.26e-01 100.0% 60.6%
3k59A06 1.10.287.690 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › B family DNA polymerase, finger domain 0.84 67.0 6.61e-01 93.0% 83.0%
1d2mA03 6.10.140.240 Special › Helix non-globular › Helix Hairpins › 0.84 74.0 6.41e-01 100.0% 65.2%
1pixA03 3.90.226.10 Alpha Beta › Alpha-Beta Complex › 2-enoyl-CoA Hydratase; Chain A, domain 1 › 2-enoyl-CoA Hydratase; Chain A, domain 1 0.83 70.0 4.16e-01 100.0% 13.4%
2db7A01 6.10.250.980 Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.80 69.0 6.48e-01 100.0% 86.8%
3ilxA02 1.10.287.2170 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.79 64.0 6.44e-01 95.3% 88.6%
1gjsA00 1.10.8.40 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Albumin-binding domain 0.77 63.0 5.52e-01 90.7% 60.0%
4xpwA00 1.20.120.50 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Hemerythrin-like 0.77 67.0 4.76e-01 100.0% 33.6%
2f93B00 1.10.287.470 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.76 63.0 6.05e-01 100.0% 90.2%
3t9jA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.76 64.0 4.47e-01 100.0% 29.2%
3dkqA02 4.10.860.20 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › Rabenosyn, Rab binding domain 0.75 61.0 6.06e-01 100.0% 91.5%
3nymA00 6.10.290.10 Special › Helix non-globular › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.75 63.0 4.61e-01 100.0% 33.9%
1x4tA01 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.73 64.0 5.85e-01 100.0% 98.3%
1j5wA02 1.20.58.180 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Class II aaRS and biotin synthetases; domain 2 0.73 60.0 5.12e-01 100.0% 55.8%
3k6tB00 1.20.5.4010 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.72 56.0 5.50e-01 93.0% 81.6%
7ymiZ01 1.10.287.740 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Photosystem II PsbZ, reaction centre 0.71 62.0 5.65e-01 100.0% 100.0%
2wvxA04 1.20.1610.10 Mainly Alpha › Up-down Bundle › Glycosyl hydrolase family fold › alpha-1,2-mannosidases domains 0.70 60.0 4.03e-01 100.0% 32.9%
4cpgA00 1.20.5.420 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Immunoglobulin FC, subunit C 0.69 55.0 4.85e-01 95.3% 65.2%
4dnnA00 1.20.5.4010 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.69 60.0 5.74e-01 100.0% 96.0%
2rp4A00 6.10.280.60 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Transcription factor p53, C-terminal domain 0.67 56.0 4.89e-01 100.0% 63.4%
5u1xA01 1.10.287.940 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › atp-gated p2x4 ion channel 0.64 51.0 5.10e-01 100.0% 100.0%
1ufhA00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.61 50.0 3.57e-01 100.0% 29.0%
1t07A00 1.10.3880.10 Mainly Alpha › Orthogonal Bundle › YggX-like › Fe(II) trafficking protein YggX 0.60 51.0 4.22e-01 100.0% 85.2%
3tklB01 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.58 49.0 4.45e-01 100.0% 72.6%
ECOD (18)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5030164 101.11.1.0 ↗ alpha arrays › HTH › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 0.88 78.0 6.63e-01 100.0% 62.9%
4340126 3843.1.1.0 ↗ alpha complex topology › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K 0.88 77.0 6.42e-01 100.0% 57.3%
4229778 3390.1.1.0 ↗ extended segments › Photosystem II reaction center protein T, PsbT › Photosystem II reaction center protein T, PsbT › Photosystem II reaction center protein T, PsbT 0.86 75.0 7.16e-01 100.0% 94.0%
3660125 3711.1.1.4 ↗ alpha bundles › LTXXQ motif family protein › LTXXQ motif family protein › LTXXQ motif family protein › DOG1 0.85 73.0 5.90e-01 100.0% 50.6%
3227723 4146.1.1.0 ↗ alpha bundles › YqgQ-like › YqgQ-like › YqgQ-like 0.84 73.0 6.98e-01 100.0% 86.0%
3175298 130.1.1.51 ↗ alpha arrays › LEM/SAP HeH motif-like › LEM/SAP HeH motif › LEM/SAP HeH motif › Tho1_MOS11_C 0.84 73.0 6.59e-01 100.0% 71.7%
3916884 192.29.1.1 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB_dom 0.83 75.0 6.47e-01 100.0% 66.2%
3575095 3826.1.1.0 ↗ alpha bundles › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) 0.83 72.0 6.31e-01 100.0% 66.2%
3779372 220.1.1.115 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_19 0.83 73.0 4.79e-01 100.0% 23.9%
4935885 304.48.1.3 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B 0.81 73.0 4.26e-01 100.0% 12.8%
4878100 616.1.1.2 ↗ alpha arrays › S15/NS1 RNA-binding domain › S15/NS1 RNA-binding domain › S15/NS1 RNA-binding domain › WHEP-TRS 0.80 66.0 6.70e-01 97.7% 97.6%
5007367 3567.1.1.196 ↗ a+b duplicates or obligate multimers › MPER trimer › MPER trimer › MPER trimer › PF27424 0.79 67.0 5.62e-01 97.7% 56.0%
3607406 6026.1.1.0 ↗ alpha duplicates or obligate multimers › cwf21 domain › cwf21 domain › cwf21 domain 0.79 65.0 5.48e-01 100.0% 55.0%
3293917 616.1.1.28 ↗ alpha arrays › S15/NS1 RNA-binding domain › S15/NS1 RNA-binding domain › S15/NS1 RNA-binding domain › RNA_pol_Rpb1_1 0.79 67.0 4.95e-01 100.0% 38.3%
3318561 616.1.1.2 ↗ alpha arrays › S15/NS1 RNA-binding domain › S15/NS1 RNA-binding domain › S15/NS1 RNA-binding domain › WHEP-TRS 0.77 66.0 6.19e-01 100.0% 83.6%
4076265 3390.1.1.0 ↗ extended segments › Photosystem II reaction center protein T, PsbT › Photosystem II reaction center protein T, PsbT › Photosystem II reaction center protein T, PsbT 0.75 64.0 6.18e-01 100.0% 88.0%
4432304 3390.1.1.0 ↗ extended segments › Photosystem II reaction center protein T, PsbT › Photosystem II reaction center protein T, PsbT › Photosystem II reaction center protein T, PsbT 0.74 64.0 6.14e-01 100.0% 92.0%
5017083 304.48.1.3 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B 0.74 65.0 3.97e-01 100.0% 15.9%