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LacPavin_0818_WC55_scaffold_2946_prodigal-single.1__X__X__00174
Bact-VirLacPavin_0818_WC55_scaffold_2946_prodigal-single.1__X__X__00174
Identity
- Kingdom:
- phage
Quality
79.4
mean pLDDT
Cluster
Singleton — not in a non-trivial cluster
3D Structure
Domains
high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.
D1
high
residues 14-78
Domain cluster:
rep: NC_015281.1__YP_004322738.1__SShM2_072__00072__D15-71
CATH (45)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2fb5A01 | 1.10.287.770 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › YojJ-like | 0.75 | 52.0 | 5.02e-01 | 76.9% | 65.3% |
| 4gr6B00 | 1.10.1200.210 | Mainly Alpha › Orthogonal Bundle › Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A › Chaperonin-like RbcX | 0.71 | 52.0 | 4.38e-01 | 76.9% | 51.4% |
| 4aflA00 | 6.10.140.1740 | Special › Helix non-globular › Helix Hairpins › | 0.71 | 50.0 | 4.30e-01 | 75.4% | 47.1% |
| 2yqyA00 | 1.20.120.450 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › dinb family like domain | 0.71 | 61.0 | 4.86e-01 | 93.8% | 100.0% |
| 5grqA00 | 1.10.8.810 | Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Daxx helical bundle domain | 0.71 | 59.0 | 5.26e-01 | 90.8% | 70.0% |
| 2qffA00 | 1.20.1270.10 | Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › | 0.70 | 58.0 | 5.60e-01 | 92.3% | 93.2% |
| 2oduA02 | 1.20.58.60 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.69 | 48.0 | 4.07e-01 | 76.9% | 44.8% |
| 1z23A00 | 1.20.120.830 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Serine-rich domain | 0.69 | 61.0 | 4.55e-01 | 100.0% | 69.9% |
| 1qsdA00 | 1.20.58.90 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.69 | 50.0 | 4.27e-01 | 76.9% | 62.7% |
| 2gf4A00 | 1.20.1270.110 | Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Uncharacterised protein family UPF0058 | 0.67 | 59.0 | 5.35e-01 | 100.0% | 78.4% |
| 3ilkA02 | 1.10.8.590 | Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › | 0.66 | 58.0 | 5.73e-01 | 96.9% | 95.6% |
| 3tbiB02 | 6.10.140.1670 | Special › Helix non-globular › Helix Hairpins › | 0.66 | 48.0 | 4.15e-01 | 76.9% | 62.0% |
| 3fppA03 | 6.10.140.1990 | Special › Helix non-globular › Helix Hairpins › | 0.66 | 48.0 | 4.33e-01 | 76.9% | 76.1% |
| 2odvA01 | 1.20.58.60 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.66 | 61.0 | 5.00e-01 | 100.0% | 88.4% |
| 6ncrA02 | 1.10.240.10 | Mainly Alpha › Orthogonal Bundle › Tyrosyl-Transfer RNA Synthetase › Tyrosyl-Transfer RNA Synthetase | 0.66 | 59.0 | 4.96e-01 | 100.0% | 63.9% |
| 2oznB01 | 1.20.1270.90 | Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › AF1782-like | 0.66 | 55.0 | 5.24e-01 | 98.5% | 100.0% |
| 5wp3B00 | 1.10.132.20 | Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor | 0.65 | 50.0 | 4.21e-01 | 80.0% | 54.9% |
| 2ieqA00 | 1.20.5.300 | Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › | 0.62 | 44.0 | 4.05e-01 | 76.9% | 79.5% |
| 8gccA03 | 1.10.268.10 | Mainly Alpha › Orthogonal Bundle › Topoisomerase; domain 3 › Topoisomerase, domain 3 | 0.61 | 45.0 | 3.80e-01 | 76.9% | 77.9% |
| 2w02B01 | 1.10.150.640 | Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › AcsD, thumb domain, helical bundle | 0.61 | 46.0 | 4.48e-01 | 83.1% | 90.5% |
| 1eo0A00 | 1.20.930.10 | Mainly Alpha › Up-down Bundle › Transcription Elongation Factor S-II; Chain A › Conserved domain common to transcription factors TFIIS, elongin A, CRSP70 | 0.61 | 48.0 | 4.56e-01 | 95.4% | 74.0% |
| 2ns6A00 | 3.30.930.30 | Alpha Beta › 2-Layer Sandwich › BirA Bifunctional Protein; domain 2 › | 0.61 | 53.0 | 3.90e-01 | 100.0% | 97.3% |
| 1gt0D00 | 1.10.30.10 | Mainly Alpha › Orthogonal Bundle › DNA Binding (I), subunit A › High mobility group box domain | 0.60 | 43.0 | 4.11e-01 | 76.9% | 81.0% |
| 2qgmA02 | 3.30.1870.10 | Alpha Beta › 2-Layer Sandwich › EreA/ChaN-like, small alpha-beta sandwich › EreA-like; domain 2 | 0.60 | 39.0 | 3.80e-01 | 84.6% | 59.7% |
| 3v5uA01 | 6.10.280.80 | Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › NCX, peripheral helical region | 0.60 | 38.0 | 3.66e-01 | 75.4% | 53.9% |
| 3qx3A04 | 1.10.268.10 | Mainly Alpha › Orthogonal Bundle › Topoisomerase; domain 3 › Topoisomerase, domain 3 | 0.59 | 43.0 | 3.70e-01 | 76.9% | 85.0% |
| 1rylA00 | 3.40.1760.10 | Alpha Beta › 3-Layer(aba) Sandwich › Hypothetical protein yfbM fold › YfbM-like super family | 0.58 | 49.0 | 3.68e-01 | 92.3% | 68.2% |
| 1urvA00 | 1.10.490.10 | Mainly Alpha › Orthogonal Bundle › Globin-like › Globins | 0.58 | 44.0 | 3.41e-01 | 83.1% | 65.6% |
| 4m52A01 | 3.50.50.60 | Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain | 0.57 | 44.0 | 3.02e-01 | 84.6% | 23.9% |
| 4cc9B00 | 1.20.5.4730 | Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › | 0.57 | 48.0 | 4.27e-01 | 98.5% | 66.3% |
| 2kg7B00 | 1.10.287.1060 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like | 0.57 | 41.0 | 3.67e-01 | 78.5% | 54.6% |
| 6wv5A01 | 1.20.1440.130 | Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › VKOR domain | 0.57 | 49.0 | 3.90e-01 | 96.9% | 80.9% |
| 1wmwB00 | 1.10.600.10 | Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase | 0.56 | 49.0 | 3.14e-01 | 96.9% | 25.1% |
| 3l0aA00 | 3.90.320.10 | Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › | 0.56 | 44.0 | 2.97e-01 | 87.7% | 81.6% |
| 4b4yA00 | 1.10.490.10 | Mainly Alpha › Orthogonal Bundle › Globin-like › Globins | 0.55 | 46.0 | 3.50e-01 | 90.8% | 42.3% |
| 2kr5A01 | 1.10.1200.10 | Mainly Alpha › Orthogonal Bundle › Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A › ACP-like | 0.55 | 37.0 | 3.58e-01 | 70.8% | 68.4% |
| 1x3kA01 | 1.10.490.10 | Mainly Alpha › Orthogonal Bundle › Globin-like › Globins | 0.55 | 47.0 | 3.59e-01 | 93.8% | 42.2% |
| 7oq4Z01 | 1.20.120.950 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Uncharacterised protein DUF5062 | 0.54 | 44.0 | 3.94e-01 | 96.9% | 79.6% |
| 1n5uA05 | 1.10.246.10 | Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › | 0.53 | 43.0 | 3.73e-01 | 96.9% | 76.8% |
| 1g03A00 | 1.10.375.10 | Mainly Alpha › Orthogonal Bundle › Human Immunodeficiency Virus Type 1 Capsid Protein › Human Immunodeficiency Virus Type 1 Capsid Protein | 0.53 | 44.0 | 3.52e-01 | 93.8% | 61.9% |
| 4ri6A02 | 1.20.1050.10 | Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › | 0.52 | 42.0 | 3.39e-01 | 87.7% | 64.7% |
| 2whnA00 | 1.20.81.30 | Mainly Alpha › Up-down Bundle › Receptor-associated Protein › Type II secretion system (T2SS), domain F | 0.52 | 41.0 | 3.54e-01 | 90.8% | 78.2% |
| 1k8kD01 | 3.30.1460.20 | Alpha Beta › 2-Layer Sandwich › Yope Regulator; Chain: A, › | 0.51 | 42.0 | 3.37e-01 | 98.5% | 82.1% |
| 3ktdD02 | 1.10.3660.10 | Mainly Alpha › Orthogonal Bundle › 6-phosphogluconate dehydrogenase C-terminal fold › 6-phosphogluconate dehydrogenase C-terminal like domain | 0.51 | 38.0 | 3.25e-01 | 81.5% | 80.7% |
| 1zvuA03 | 1.10.268.10 | Mainly Alpha › Orthogonal Bundle › Topoisomerase; domain 3 › Topoisomerase, domain 3 | 0.51 | 46.0 | 3.51e-01 | 98.5% | 49.3% |
ECOD (34)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3575635 | 4044.1.1.0 ↗ | alpha bundles › Helical bundle domain in prismane-like proteins › Helical bundle domain in prismane-like proteins › Helical bundle domain in prismane-like proteins | 0.74 | 67.0 | 6.00e-01 | 100.0% | 88.9% |
| 3655694 | 4992.1.1.0 ↗ | extended segments › RelB-like › RelB-like › RelB-like | 0.73 | 53.0 | 4.85e-01 | 76.9% | 60.0% |
| 3511777 | 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 | 51.0 | 3.61e-01 | 73.8% | 74.2% |
| 4550535 | 4006.1.1.0 ↗ | 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 | 0.72 | 62.0 | 5.13e-01 | 98.5% | 99.2% |
| 3781135 | 3311.1.1.3 ↗ | alpha arrays › Uncharacterized protein CV_1783 › Uncharacterized protein CV_1783 › Uncharacterized protein CV_1783 › PF29045 | 0.72 | 52.0 | 4.40e-01 | 76.9% | 50.5% |
| 5014330 | 148.1.3.402 ↗ | alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › Rad50_zn_hook | 0.68 | 50.0 | 4.18e-01 | 76.9% | 81.8% |
| 5023516 | 3922.1.1.269 ↗ | 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 › Rad50_zn_hook | 0.68 | 50.0 | 3.34e-01 | 76.9% | 50.2% |
| 4024699 | 3871.1.1.1 ↗ | alpha duplicates or obligate multimers › PHIST › PHIST › PHIST › PRESAN | 0.67 | 59.0 | 4.57e-01 | 100.0% | 85.5% |
| 3892225 | 6157.1.1.1 ↗ | alpha bundles › GKAP homology domain 1 › GKAP homology domain 1 › GKAP homology domain 1 › GKAP | 0.67 | 57.0 | 4.82e-01 | 100.0% | 88.7% |
| 4988252 | 601.7.1.1 ↗ | alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain › HepT-like | 0.67 | 57.0 | 4.84e-01 | 100.0% | 65.2% |
| 3349382 | 605.1.1.0 ↗ | alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase | 0.67 | 57.0 | 4.46e-01 | 98.5% | 61.4% |
| 5074047 | 601.7.1.1 ↗ | alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain › HepT-like | 0.66 | 55.0 | 4.69e-01 | 100.0% | 78.3% |
| 3872910 | 1105.1.1.1 ↗ | alpha complex topology › Retinol uptake receptor STRA6 › Retinol uptake receptor STRA6 › Retinol uptake receptor STRA6 › RBP_receptor | 0.66 | 43.0 | 2.53e-01 | 95.4% | 7.5% |
| 4982050 | 632.11.1.0 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like | 0.66 | 57.0 | 5.65e-01 | 100.0% | 100.0% |
| 4260684 | 605.1.1.147 ↗ | alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › TMEM151 | 0.65 | 46.0 | 3.75e-01 | 75.4% | 51.2% |
| 3096486 | 5082.1.1.0 ↗ | alpha bundles › Cation efflux protein transmembrane domain-like › Cation efflux protein transmembrane domain-like › Cation efflux protein transmembrane domain-like | 0.63 | 42.0 | 3.45e-01 | 70.8% | 38.3% |
| 3224794 | 150.5.1.0 ↗ | alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like | 0.63 | 45.0 | 4.33e-01 | 80.0% | 65.3% |
| 3787647 | 192.2.1.31 ↗ | alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › PRA1 | 0.62 | 42.0 | 3.77e-01 | 72.3% | 89.0% |
| 3876590 | 3291.1.1.0 ↗ | alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related | 0.62 | 43.0 | 4.02e-01 | 75.4% | 60.0% |
| 3331225 | 5042.1.1.0 ↗ | extended segments › Magnesium transport protein CorA, transmembrane region › Magnesium transport protein CorA, transmembrane region › Magnesium transport protein CorA, transmembrane region | 0.61 | 46.0 | 4.49e-01 | 80.0% | 74.3% |
| 4942387 | 632.7.1.66 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain › DUF2304 | 0.61 | 51.0 | 4.45e-01 | 100.0% | 80.9% |
| 3397145 | 101.1.1.10 ↗ | alpha arrays › HTH › HTH › Three-helical HTH › ARID | 0.61 | 38.0 | 3.25e-01 | 96.9% | 37.3% |
| 3691242 | 601.1.1.0 ↗ | alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin | 0.60 | 52.0 | 3.74e-01 | 100.0% | 68.3% |
| 3280697 | 5059.1.1.0 ↗ | alpha bundles › Drug/Metabolite transporter › Drug/Metabolite transporter › Drug/Metabolite transporter | 0.60 | 44.0 | 2.91e-01 | 80.0% | 37.9% |
| 4016111 | 604.9.1.0 ↗ | alpha bundles › Spectrin repeat-like › Ribosomal protein S20 › Ribosomal protein S20 | 0.60 | 38.0 | 3.69e-01 | 72.3% | 56.0% |
| 3259751 | 605.1.1.0 ↗ | alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase | 0.57 | 44.0 | 4.06e-01 | 80.0% | 77.5% |
| None | — | 0.57 | 51.0 | 3.72e-01 | 100.0% | 39.4% | |
| 4527062 | 2003.1.2.49 ↗ | a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › FAD_binding_2+FAD_binding_3 | 0.55 | 45.0 | 3.15e-01 | 100.0% | 44.4% |
| 4277306 | 4974.1.1.0 ↗ | alpha bundles › CRISPR-Cas system first helical domain › CRISPR-Cas system first helical domain › CRISPR-Cas system RNase C2c2 first helical domain | 0.55 | 50.0 | 3.82e-01 | 100.0% | 68.3% |
| 3868871 | 213.1.1.1 ↗ | a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_1 | 0.54 | 48.0 | 3.36e-01 | 96.9% | 65.9% |
| 3935542 | 4016.1.1.1 ↗ | alpha bundles › alpha-helical domain in type II DNA topoisomerase › alpha-helical domain in type II DNA topoisomerase › alpha-helical domain in type II DNA topoisomerase › DNA_topoisoIV | 0.54 | 47.0 | 3.54e-01 | 93.8% | 53.3% |
| 4961944 | 192.15.1.225 ↗ | alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains › DUF4212 | 0.54 | 40.0 | 3.55e-01 | 80.0% | 56.8% |
| 3892899 | 7579.1.1.89 ↗ | a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › COesterase, BD-FAE | 0.53 | 42.0 | 2.59e-01 | 100.0% | 52.2% |
| 3959880 | 101.1.2.0 ↗ | alpha arrays › HTH › HTH › winged helix domain | 0.52 | 47.0 | 4.17e-01 | 98.5% | 80.0% |