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NC_055060.1__YP_010084086.1__KMD61_gp17__00026

Bact-Vir

NC_055060.1__YP_010084086.1__KMD61_gp17__00026

Identity

Accession:
NC_055060 ↗
Kingdom:
phage

Quality

72.3 mean pLDDT

Taxonomy

Bamfordvirae› Preplasmiviricota› Tectiliviricetes› Kalamavirales› Tectiviridae› Deltatectivirus› Streptomyces_phage_WheeHeim

TaxID: 2500797

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 3-75
PDB
Domain cluster: representative
CATH (45)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2d2sA01 1.20.58.1210 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Exo84p, N-terminal helical domain 0.80 46.0 3.87e-01 82.2% 36.2%
1wdzA00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.73 65.0 4.55e-01 100.0% 84.0%
1ls1A01 1.20.120.140 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › SRP54, nucleotide-binding domain 0.72 51.0 4.84e-01 78.1% 61.8%
2gsvA00 6.10.140.40 Special › Helix non-globular › Helix Hairpins › 0.70 41.0 4.32e-01 71.2% 64.2%
1gvnA00 1.10.8.130 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.70 64.0 6.00e-01 100.0% 87.4%
4m70I00 1.20.5.4130 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.69 59.0 5.22e-01 98.6% 64.8%
1j8yF01 1.20.120.140 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › SRP54, nucleotide-binding domain 0.68 53.0 5.05e-01 83.6% 70.9%
1fpoC02 1.20.1280.20 Mainly Alpha › Up-down Bundle › Monooxygenase › HscB, C-terminal domain 0.66 46.0 4.34e-01 75.3% 59.3%
7s0rB01 1.20.81.20 Mainly Alpha › Up-down Bundle › Receptor-associated Protein › 0.65 52.0 5.21e-01 89.0% 84.2%
2aboA00 1.10.437.10 Mainly Alpha › Orthogonal Bundle › Apoptosis Regulator Bcl-x › Blc2-like 0.65 47.0 3.90e-01 76.7% 98.5%
2qytA02 1.10.1040.10 Mainly Alpha › Orthogonal Bundle › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 0.65 45.0 4.11e-01 100.0% 53.5%
4yt2A02 1.20.120.1300 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Hmd, C-terminal helical subdomain 0.65 55.0 4.89e-01 95.9% 67.0%
3bemB00 3.40.109.10 Alpha Beta › 3-Layer(aba) Sandwich › NADH Oxidase › NADH Oxidase 0.64 46.0 3.35e-01 80.8% 26.8%
1u00A02 1.20.1270.10 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.64 56.0 5.15e-01 100.0% 76.0%
1jwjA01 3.90.340.10 Alpha Beta › Alpha-Beta Complex › Nitric Oxide Synthase; Chain A, domain 1 › Nitric Oxide Synthase; Chain A, domain 1 0.63 56.0 4.29e-01 100.0% 67.5%
4m0mA03 1.20.1270.430 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.62 54.0 5.25e-01 97.3% 88.6%
2lmgA00 1.20.1270.10 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.61 51.0 5.13e-01 94.5% 100.0%
3qwuA03 3.30.70.2160 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.61 45.0 3.72e-01 83.6% 41.7%
2b7mA00 1.20.1280.170 Mainly Alpha › Up-down Bundle › Monooxygenase › Exocyst complex component Exo70 0.61 47.0 2.82e-01 83.6% 13.8%
1cnt200 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.60 49.0 4.09e-01 100.0% 50.8%
7kypB01 1.10.3470.10 Mainly Alpha › Orthogonal Bundle › ABC transporter involved in vitamin B12 uptake, BtuC › ABC transporter involved in vitamin B12 uptake, BtuC 0.60 51.0 3.55e-01 98.6% 28.2%
1dkxA02 1.20.1270.10 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.60 55.0 5.39e-01 100.0% 91.3%
4v1gA00 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.60 42.0 4.02e-01 80.8% 62.4%
2y44A00 1.20.1260.80 Mainly Alpha › Up-down Bundle › Ferritin › 0.59 52.0 3.94e-01 100.0% 91.8%
6me6B02 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.59 50.0 3.49e-01 100.0% 96.1%
3a7mA01 1.20.58.380 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Flagellar protein flit. 0.59 41.0 3.63e-01 74.0% 49.1%
4oogC01 1.10.1520.10 Mainly Alpha › Orthogonal Bundle › Ribonuclease iii, N-terminal Endonuclease Domain; Chain A › Ribonuclease III domain 0.59 47.0 3.74e-01 90.4% 64.8%
3hx3A01 1.10.8.20 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › N-terminal domain of phosphatidylinositol transfer protein sec14p 0.59 42.0 4.35e-01 84.9% 82.1%
1gt0D00 1.10.30.10 Mainly Alpha › Orthogonal Bundle › DNA Binding (I), subunit A › High mobility group box domain 0.58 37.0 3.62e-01 74.0% 58.2%
4ymuD00 1.10.3720.10 Mainly Alpha › Orthogonal Bundle › MetI-like fold › MetI-like 0.58 47.0 3.39e-01 89.0% 89.8%
3t46A00 1.20.1270.10 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.57 47.0 4.74e-01 97.3% 92.0%
3okgA01 3.90.220.20 Alpha Beta › Alpha-Beta Complex › Adenine-n6-DNA-methyltransferase TaqI; Chain A, domain 2 › DNA methylase specificity domains 0.56 42.0 3.11e-01 80.8% 74.5%
1ks9A02 1.10.1040.10 Mainly Alpha › Orthogonal Bundle › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 0.56 47.0 4.06e-01 97.3% 98.4%
2l3lA01 1.20.58.1250 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Tubulin Binding Cofactor C, N-terminal domain 0.56 40.0 3.55e-01 75.3% 51.9%
4nbqB02 1.10.10.400 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Polyribonucleotide nucleotidyltransferase, RNA-binding domain 0.56 43.0 4.19e-01 83.6% 80.5%
3k53A02 1.10.287.1770 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.55 40.0 3.65e-01 76.7% 100.0%
1vmgA00 1.10.287.1080 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › MazG-like 0.55 39.0 3.76e-01 74.0% 68.3%
4dxwB01 1.20.120.350 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Voltage-gated potassium channels. Chain C 0.55 40.0 3.60e-01 80.8% 60.6%
3h3mA00 1.20.58.380 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Flagellar protein flit. 0.54 49.0 4.61e-01 100.0% 89.9%
3kflA03 1.10.730.10 Mainly Alpha › Orthogonal Bundle › Isoleucyl-tRNA Synthetase; Domain 1 › Isoleucyl-tRNA Synthetase; Domain 1 0.53 45.0 3.44e-01 94.5% 44.6%
3vs8H00 3.40.47.10 Alpha Beta › 3-Layer(aba) Sandwich › Peroxisomal Thiolase; Chain A, domain 1 › Thiolase/Chalcone synthase 0.53 45.0 2.91e-01 97.3% 63.5%
4bjaA00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.53 46.0 3.47e-01 100.0% 93.4%
4od4A02 1.20.120.1780 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › UbiA prenyltransferase 0.52 44.0 3.81e-01 98.6% 89.9%
2h7oA01 1.20.120.1330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Rac1-binding domain, N-terminal GTPase binding subdomain 0.51 45.0 3.82e-01 100.0% 95.9%
1hs7A00 1.20.58.70 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.51 45.0 4.15e-01 100.0% 86.6%
ECOD (33)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3230413 5001.1.1.0 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like 0.78 70.0 4.89e-01 100.0% 33.0%
3740646 1128.1.1.0 ↗ alpha bundles › LYR protein › LYR protein › LYR protein 0.76 63.0 6.12e-01 91.8% 82.5%
4938670 632.11.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.72 62.0 6.13e-01 95.9% 89.3%
4864636 7008.1.1.1 ↗ alpha arrays › N-terminal domain of hexon-associated protein (IIIa) › N-terminal domain of hexon-associated protein (IIIa) › N-terminal domain of hexon-associated protein (IIIa) › Hex_IIIa 0.72 62.0 5.61e-01 100.0% 71.1%
3340080 103.4.1.2 ↗ 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 › TFIIS_M 0.71 57.0 4.89e-01 89.0% 55.0%
3260787 143.1.1.1 ↗ alpha arrays › PABP domain-like › PABC(PABP) domain › PABC(PABP) domain › PABP 0.71 49.0 4.91e-01 89.0% 70.7%
4360366 632.22.1.1 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats › EzrA 0.71 63.0 5.94e-01 100.0% 94.4%
4192675 632.15.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Staphylococcal complement inhibitor (SCIN) › Staphylococcal complement inhibitor (SCIN) 0.70 64.0 5.83e-01 100.0% 81.1%
4956012 632.11.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.69 63.0 5.55e-01 100.0% 77.1%
4975860 632.22.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats 0.69 62.0 5.93e-01 100.0% 94.1%
5038872 632.11.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.69 55.0 5.65e-01 93.2% 91.4%
4955751 632.22.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats 0.69 62.0 5.76e-01 98.6% 93.3%
5007277 632.11.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.68 60.0 5.76e-01 98.6% 85.9%
5071060 632.15.1.4 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Staphylococcal complement inhibitor (SCIN) › Staphylococcal complement inhibitor (SCIN) › HSP70 0.67 60.0 5.55e-01 100.0% 76.8%
3229885 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 0.67 57.0 5.24e-01 98.6% 83.7%
4295514 632.22.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats 0.66 59.0 5.23e-01 100.0% 83.8%
3376375 103.4.1.0 ↗ 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 0.64 51.0 5.00e-01 89.0% 82.5%
4240705 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 0.64 56.0 5.36e-01 100.0% 94.1%
4959130 632.11.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.63 54.0 5.55e-01 94.5% 97.1%
4385050 103.4.1.21 ↗ 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 › YlaH 0.63 51.0 4.94e-01 100.0% 81.2%
3805429 3562.1.1.33 ↗ alpha bundles › Calcium release-activated calcium channel protein 1 › Calcium release-activated calcium channel protein 1 › Calcium release-activated calcium channel protein 1 › ALMT 0.63 48.0 3.74e-01 82.2% 65.6%
4469387 632.7.1.1 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain › HSP70 0.63 56.0 4.73e-01 100.0% 60.8%
4385343 632.7.1.1 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain › HSP70 0.63 54.0 5.25e-01 95.9% 87.5%
2841790 1189.1.1.1 ↗ 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 › Trypan_glycop 0.62 51.0 3.42e-01 94.5% 80.5%
5007751 7516.1.1.2 ↗ a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Glycos_transf_2 0.61 45.0 3.02e-01 79.5% 20.3%
3622690 601.1.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin 0.61 53.0 4.92e-01 95.9% 91.1%
5031855 632.15.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Staphylococcal complement inhibitor (SCIN) › Staphylococcal complement inhibitor (SCIN) 0.61 52.0 5.08e-01 100.0% 92.5%
3506727 142.1.1.0 ↗ alpha complex topology › Sigma2 domain-like › Sigma2 domain of RNA polymerase sigma factors › Sigma2 domain of RNA polymerase sigma factors 0.59 45.0 3.87e-01 82.2% 91.7%
4936633 3877.1.1.0 ↗ alpha bundles › Membrane protein insertase YidC-related › Membrane protein insertase YidC-related › Membrane protein insertase YidC 0.57 44.0 3.14e-01 80.8% 55.1%
2388821 601.13.1.2 ↗ alpha bundles › Four-helical up-and-down bundle › Flagellar export chaperone FliS › Flagellar export chaperone FliS › FliS 0.56 47.0 4.08e-01 98.6% 74.0%
3204262 5051.1.1.15 ↗ alpha complex topology › Sodium:neurotransmitter symporter family (SNF)-like › Sodium:neurotransmitter symporter family (SNF)-like › Sodium:neurotransmitter symporter family (SNF)-like › K_trans 0.53 46.0 3.09e-01 100.0% 31.1%
3560541 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.52 45.0 4.58e-01 97.3% 98.6%
4147453 192.7.1.2 ↗ alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.50 37.0 3.31e-01 80.8% 92.7%