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NC_048085.1__YP_009814398.1__HOU40_gp011__00011

Bact-Vir

NC_048085.1__YP_009814398.1__HOU40_gp011__00011

Identity

Accession:
NC_048085 ↗
Kingdom:
phage

Quality

65.8 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Herelleviridae› Harbinvirus› Lactobacillus_phage_Bromius

TaxID: 2315485

Cluster

Singleton — not in a non-trivial cluster

3D Structure

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Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 137-195
PDB
Domain cluster: representative
CATH (53)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4u1cA01 4.10.860.10 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › UVR domain 0.91 64.0 6.79e-01 79.7% 82.7%
2fu2A00 1.20.1440.50 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › Ta0600-like 0.88 73.0 6.55e-01 96.6% 66.7%
2r9iA00 1.10.287.80 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ATP synthase, gamma subunit, helix hairpin domain 0.86 65.0 6.08e-01 79.7% 77.5%
2v6yA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.85 62.0 5.66e-01 79.7% 60.0%
3kdqA00 6.10.320.10 Special › Helix non-globular › Ferritin › 0.84 63.0 4.51e-01 78.0% 44.1%
1sr2A00 1.20.120.160 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › HPT domain 0.83 57.0 4.52e-01 78.0% 37.1%
4mtxD00 1.10.287.130 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Signal transduction histidine kinase, dimerisation/phosphotransfer (DHp) domain 0.82 62.0 5.22e-01 79.7% 57.9%
1ydxA02 1.10.287.1120 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Bipartite methylase S protein 0.82 62.0 5.27e-01 79.7% 63.3%
2ic6A00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.81 61.0 5.74e-01 79.7% 71.8%
6z74C02 1.20.120.530 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › GntR ligand-binding domain-like 0.81 62.0 4.38e-01 79.7% 30.8%
4e6nA02 6.10.140.1010 Special › Helix non-globular › Helix Hairpins › 0.81 61.0 5.88e-01 79.7% 78.8%
2yv9B02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.80 59.0 4.44e-01 78.0% 38.8%
2ip6A00 1.20.1440.140 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 0.80 73.0 6.33e-01 100.0% 67.8%
4h63H01 1.20.58.1710 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.79 59.0 5.52e-01 79.7% 68.1%
1orjD00 1.20.120.340 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Flagellar protein FliS 0.79 72.0 5.53e-01 100.0% 49.6%
3a98A02 1.20.1270.350 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Dedicator of cytokinesis N-terminal subdomain 0.77 68.0 6.02e-01 100.0% 81.6%
5b1aC01 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.76 55.0 5.23e-01 78.0% 66.2%
3t6gB00 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.75 65.0 5.06e-01 100.0% 59.7%
4aurA01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.75 64.0 4.08e-01 93.2% 96.3%
1dt9A01 3.30.960.10 Alpha Beta › 2-Layer Sandwich › Translation, Eukaryotic Peptide Chain Release Factor Subunit 1; Chain A › eRF1 domain 1 0.75 68.0 5.56e-01 100.0% 82.9%
4h63K00 1.10.287.3490 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.75 55.0 4.67e-01 79.7% 61.2%
3gn4A00 6.10.220.10 Special › Helix non-globular › Helical scaffold and wing domains of SecA › 0.74 66.0 5.01e-01 100.0% 44.2%
7t7kA01 1.20.930.60 Mainly Alpha › Up-down Bundle › Transcription Elongation Factor S-II; Chain A › 0.74 65.0 5.23e-01 100.0% 89.0%
1z5zA02 1.20.120.850 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › SWI2/SNF2 ATPases, N-terminal domain 0.74 58.0 5.31e-01 89.8% 65.8%
2f93B00 1.10.287.470 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.74 53.0 5.66e-01 84.7% 88.2%
8d3mA02 1.20.120.920 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › CRISPR-associated endonuclease Cas1, C-terminal domain 0.73 62.0 4.19e-01 100.0% 28.7%
1j1jA02 1.20.58.200 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Translin; domain 2 0.72 54.0 4.76e-01 79.7% 58.8%
1k04A02 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.70 59.0 5.04e-01 100.0% 81.7%
1xfiA02 1.20.1700.10 Mainly Alpha › Up-down Bundle › AF1104-like › AF1104-like 0.69 59.0 5.19e-01 100.0% 78.9%
3m7gA02 1.10.8.1010 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.68 57.0 5.03e-01 100.0% 81.1%
4etrB00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.68 57.0 4.65e-01 100.0% 87.7%
6fakA02 1.10.246.10 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › 0.68 50.0 4.57e-01 79.7% 58.0%
2zxqA06 1.20.1270.70 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Designed single chain three-helix bundle 0.67 56.0 5.46e-01 100.0% 87.9%
1lrzA03 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.67 48.0 4.83e-01 79.7% 75.8%
2m6uA00 1.20.81.20 Mainly Alpha › Up-down Bundle › Receptor-associated Protein › 0.67 56.0 5.15e-01 100.0% 87.8%
2mpkA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.67 49.0 4.64e-01 83.1% 64.9%
3rlfF01 1.20.58.370 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › MalF N-terminal region-like 0.66 59.0 5.16e-01 98.3% 72.1%
2cazC00 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.65 46.0 4.58e-01 79.7% 71.9%
1ni3A03 1.10.150.300 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Obg-related GTPase Ych/YyaF, coiled-coil domain 0.64 52.0 4.63e-01 96.6% 76.9%
2hfiA00 1.20.120.440 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › YppE-like 0.62 53.0 4.29e-01 100.0% 57.7%
1s8nA02 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 0.62 48.0 4.84e-01 100.0% 84.5%
3anwA01 1.20.58.1030 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.61 44.0 3.68e-01 79.7% 46.0%
3e22A03 1.10.287.600 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.61 45.0 4.64e-01 79.7% 90.7%
2ba0A03 3.30.1370.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › K Homology domain, type 1 0.58 50.0 4.50e-01 98.3% 84.3%
4nphA02 1.20.1270.330 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.58 46.0 4.34e-01 91.5% 97.3%
1wy9A00 1.10.238.10 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › EF-hand 0.57 47.0 3.89e-01 93.2% 82.0%
3cxbA03 1.10.1740.30 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › Secreted effector protein SifA helical domain 0.56 50.0 4.53e-01 100.0% 80.2%
3a06B03 1.10.1740.10 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif 0.56 49.0 4.35e-01 100.0% 76.1%
1ez0B01 3.40.605.10 Alpha Beta › 3-Layer(aba) Sandwich › Aldehyde Dehydrogenase; Chain A, domain 1 › Aldehyde Dehydrogenase; Chain A, domain 1 0.56 46.0 3.00e-01 98.3% 49.0%
3e3vA03 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 0.55 39.0 4.07e-01 78.0% 80.4%
4i8qA01 3.40.605.10 Alpha Beta › 3-Layer(aba) Sandwich › Aldehyde Dehydrogenase; Chain A, domain 1 › Aldehyde Dehydrogenase; Chain A, domain 1 0.54 49.0 3.06e-01 100.0% 58.3%
1n5uA01 1.10.246.10 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › 0.53 46.0 3.88e-01 100.0% 70.9%
2hg2A01 3.40.605.10 Alpha Beta › 3-Layer(aba) Sandwich › Aldehyde Dehydrogenase; Chain A, domain 1 › Aldehyde Dehydrogenase; Chain A, domain 1 0.52 44.0 2.89e-01 100.0% 54.5%
ECOD (48)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
184601 633.2.1.1 ↗ alpha bundles › Bromodomain-like › Carnobacteriocin B2 immunity protein › Carnobacteriocin B2 immunity protein › EntA_Immun 0.88 73.0 6.55e-01 96.6% 66.7%
3962000 5069.1.1.104 ↗ alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Transmembrane di-heme cytochromes › Alpha-E 0.87 80.0 5.77e-01 100.0% 52.3%
3703064 4163.1.1.1 ↗ alpha bundles › GINS helical bundle-like › GINS helical bundle-like › PSF1 N-terminal domain-like › Sld5 0.85 63.0 4.64e-01 78.0% 35.7%
3596042 4163.1.1.0 ↗ alpha bundles › GINS helical bundle-like › GINS helical bundle-like › PSF1 N-terminal domain-like 0.85 63.0 4.67e-01 78.0% 37.0%
3289740 605.1.1.4 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA_3 0.84 64.0 6.40e-01 79.7% 91.7%
3482224 192.10.1.0 ↗ alpha bundles › Long alpha-hairpin › DnaK suppressor protein DksA, alpha-hairpin domain › DnaK suppressor protein DksA, alpha-hairpin domain 0.84 61.0 5.94e-01 76.3% 69.2%
4787440 109.4.1.117 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › STAG,SCD 0.84 64.0 4.30e-01 79.7% 25.0%
3693029 4121.1.1.0 ↗ a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like 0.84 63.0 4.36e-01 79.7% 27.2%
5048061 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 0.84 63.0 6.56e-01 79.7% 98.2%
3976663 3812.1.1.1 ↗ alpha bundles › Type III secretion protein YscE › Type III secretion protein YscE › Type III secretion protein YscE › T3SS_needle_E 0.83 63.0 6.12e-01 79.7% 83.1%
3586386 3939.1.1.0 ↗ alpha duplicates or obligate multimers › XRCC4 C-terminal oligomerization domain › XRCC4 C-terminal oligomerization domain › XRCC4 C-terminal oligomerization domain 0.83 63.0 3.82e-01 79.7% 15.3%
4085341 622.1.1.1 ↗ alpha bundles › YvfG-like › HSC20 (HSCB), C-terminal oligomerisation domain › HSC20 (HSCB), C-terminal oligomerisation domain › HSCB_C 0.83 63.0 5.25e-01 79.7% 62.1%
4528489 633.2.1.0 ↗ alpha bundles › Bromodomain-like › Carnobacteriocin B2 immunity protein › Carnobacteriocin B2 immunity protein 0.83 76.0 6.38e-01 100.0% 63.2%
3931393 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 0.83 75.0 5.81e-01 100.0% 52.0%
4492444 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.82 60.0 5.70e-01 78.0% 65.7%
3256686 568.1.1.0 ↗ few secondary structure elements › p8-MTCP1-related › p8-MTCP1-related › p8-MTCP1-related 0.80 59.0 6.10e-01 78.0% 85.5%
3635280 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.79 72.0 5.42e-01 100.0% 55.6%
4996294 601.28.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › VPS28 C-terminal domain-like › VPS28 C-terminal domain-like 0.79 71.0 6.03e-01 100.0% 69.5%
4026646 3567.1.1.0 ↗ a+b duplicates or obligate multimers › MPER trimer › MPER trimer › MPER trimer 0.79 59.0 5.21e-01 79.7% 56.5%
4340169 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 0.78 64.0 5.01e-01 96.6% 43.1%
3713784 632.7.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain 0.78 70.0 6.17e-01 100.0% 74.1%
5044067 632.11.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.78 69.0 6.01e-01 100.0% 74.4%
3173181 192.17.1.0 ↗ alpha bundles › Long alpha-hairpin › Rabenosyn-5 Rab-binding domain-like › Rabenosyn-5 Rab-binding domain-like 0.76 64.0 5.31e-01 91.5% 62.0%
4297295 632.7.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain 0.74 65.0 6.04e-01 100.0% 78.7%
3331738 633.4.1.0 ↗ alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor 0.74 64.0 5.36e-01 100.0% 74.3%
4123155 3236.1.1.5 ↗ alpha complex topology › Cation-proton antiporter › Cation-proton antiporter (CPA) › Cation-proton antiporter (CPA) › Na_H_antiport_1 0.74 55.0 3.28e-01 79.7% 11.2%
4952876 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.73 61.0 5.38e-01 94.9% 87.8%
4947125 832.1.1.2 ↗ a+b three layers › N-terminal domain of eukaryotic peptide chain release factor subunit 1, ERF1 › N-terminal domain of eukaryotic peptide chain release factor subunit 1, ERF1 › N-terminal domain of eukaryotic peptide chain release factor subunit 1, ERF1 › eRF1_2 0.73 66.0 4.96e-01 100.0% 62.9%
4524350 1025.1.1.1 ↗ alpha bundles › Stonustoxin helical domain › Stonustoxin helical domain › Stonustoxin helical domain › Stonustoxin_helical 0.73 62.0 5.15e-01 100.0% 82.7%
4272154 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.73 62.0 5.38e-01 100.0% 68.4%
2885637 109.3.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat 0.72 62.0 4.05e-01 100.0% 27.4%
3527036 109.21.1.4 ↗ alpha superhelices › Repetitive alpha hairpins › Nucleoporin NUP85/Nucleoporin NUP145 C-terminal domain › Nucleoporin NUP85/Nucleoporin NUP145 C-terminal domain › Sec16_C,Sec16 0.72 61.0 3.56e-01 91.5% 66.5%
3595691 904.1.1.0 ↗ few secondary structure elements › B-box zinc-binding domain-like › B-box zinc-binding domain › B-box zinc-binding domain 0.71 51.0 3.59e-01 74.6% 26.5%
1779572 1003.1.1.0 ↗ a+b complex topology › CRISPR-associated endonuclease Cas9 wedge domain › CRISPR-associated endonuclease Cas9 wedge domain › CRISPR-associated endonuclease Cas9 wedge domain 0.70 57.0 3.74e-01 89.8% 29.1%
3372032 5028.1.1.0 ↗ extended segments › Sec-beta subunit › Sec-beta subunit › Sec-beta subunit 0.69 52.0 5.38e-01 81.4% 94.5%
3605419 1189.1.1.3 ↗ alpha bundles › VSG (variant surface glycoprotein) N-terminal domain and haptoglobin-hemoglobin receptor › VSG (variant surface glycoprotein) N-terminal domain and haptoglobin-hemoglobin receptor › VSG (variant surface glycoprotein) N-terminal domain and haptoglobin-hemoglobin receptor › GARP 0.68 57.0 4.03e-01 100.0% 82.0%
3625011 174.1.1.0 ↗ few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.68 57.0 4.33e-01 100.0% 56.1%
3703099 2006.1.1.0 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like 0.67 50.0 3.07e-01 78.0% 91.3%
5001078 633.2.1.0 ↗ alpha bundles › Bromodomain-like › Carnobacteriocin B2 immunity protein › Carnobacteriocin B2 immunity protein 0.67 58.0 5.04e-01 100.0% 63.2%
3321494 632.2.1.27 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Bacterial immunoglobulin/albumin-binding domains › Bacterial immunoglobulin/albumin-binding domains › GAUT_1 0.67 56.0 4.92e-01 100.0% 71.6%
3320255 605.3.1.0 ↗ alpha duplicates or obligate multimers › ROP-like › Nonstructural protein ns2, Nep, M1-binding domain › Nonstructural protein ns2, Nep, M1-binding domain 0.67 48.0 5.09e-01 79.7% 94.0%
4983118 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.67 48.0 4.21e-01 79.7% 64.2%
3222796 601.19.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › Apolipoprotein › Apolipoprotein 0.66 56.0 3.92e-01 98.3% 63.4%
4964045 5058.1.1.16 ↗ alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › MS_channel_1st_1 0.65 55.0 4.84e-01 93.2% 81.2%
3423387 611.9.1.0 ↗ alpha bundles › N-cbl like › Resistance protein (Rx) N-terminal domain › Resistance protein (Rx) N-terminal domain 0.63 53.0 4.46e-01 100.0% 53.6%
3661727 3755.4.1.0 ↗ alpha bundles › YscO-like › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain 0.62 44.0 3.15e-01 79.7% 24.4%
3743178 592.1.1.0 ↗ alpha arrays › PWI domain-like › PWI domain › PWI domain 0.52 44.0 3.48e-01 98.3% 55.6%
3380884 103.4.1.5 ↗ 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 › KIX_2 0.51 40.0 3.88e-01 98.3% 88.0%