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NC_055059.1__YP_010084026.1__KMD60_gp02__00002

Bact-Vir

NC_055059.1__YP_010084026.1__KMD60_gp02__00002

Identity

Accession:
NC_055059 ↗
Kingdom:
phage

Quality

74.6 mean pLDDT

Taxonomy

Bamfordvirae› Preplasmiviricota› Tectiliviricetes› Kalamavirales› Tectiviridae› Deltatectivirus› Streptomyces_phage_Forthebois

TaxID: 2562185

Cluster

View cluster (2 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 4-54
PDB
Domain cluster: representative
CATH (34)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4e1pA00 3.30.60.230 Alpha Beta › 2-Layer Sandwich › Wheat Germ Agglutinin (Isolectin 2); domain 1 › Lsr2, dimerisation domain 0.73 60.0 5.86e-01 100.0% 85.5%
2o8eA01 3.40.1170.10 Alpha Beta › 3-Layer(aba) Sandwich › MutS, DNA mismatch repair protein, domain I › DNA repair protein MutS, domain I 0.68 55.0 4.19e-01 90.2% 79.3%
2yvkA01 1.20.120.420 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › translation initiation factor eif-2b, domain 1 0.64 43.0 3.12e-01 70.6% 55.4%
2ar5A00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.63 45.0 3.50e-01 76.5% 73.5%
5dymA00 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 0.63 34.0 2.77e-01 100.0% 26.0%
7t8tA01 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.62 48.0 3.70e-01 90.2% 87.8%
1mhyD00 1.10.620.20 Mainly Alpha › Orthogonal Bundle › Ribonucleotide Reductase, subunit A › Ribonucleotide Reductase, subunit A 0.61 48.0 2.80e-01 90.2% 9.0%
2uvaG01 1.20.1050.120 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.61 41.0 3.05e-01 78.4% 26.5%
2kigA00 2.30.29.110 Mainly Beta › Roll › PH-domain like › 0.60 49.0 3.52e-01 94.1% 68.3%
3ulbA01 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.60 48.0 4.25e-01 96.1% 98.8%
1k8kA04 3.90.640.10 Alpha Beta › Alpha-Beta Complex › Actin; Chain A, domain 4 › ATPase, substrate binding domain, subdomain 4 0.59 41.0 3.41e-01 72.5% 78.3%
3hrgA01 3.30.420.250 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Protein of unknown function DUF3822, N-terminal domain 0.59 46.0 3.39e-01 86.3% 86.0%
2l66A00 2.10.260.10 Mainly Beta › Ribbon › Pemi-like Protein 1; Chain: D › 0.59 34.0 3.44e-01 70.6% 50.9%
2dqlA00 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 0.59 41.0 3.19e-01 72.5% 60.9%
4m7xA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.59 40.0 3.39e-01 76.5% 39.6%
3w81A02 3.20.20.80 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases 0.59 34.0 2.05e-01 90.2% 8.2%
2aw4Z00 4.10.830.30 Few Secondary Structures › Irregular › 30s Ribosomal Protein S14; Chain N › Ribosomal protein L31 0.58 45.0 4.14e-01 88.2% 82.9%
1ywlA00 3.40.1440.10 Alpha Beta › 3-Layer(aba) Sandwich › GIY-YIG endonuclease › GIY-YIG endonuclease 0.58 39.0 3.23e-01 70.6% 76.0%
1e3mA01 3.40.1170.10 Alpha Beta › 3-Layer(aba) Sandwich › MutS, DNA mismatch repair protein, domain I › DNA repair protein MutS, domain I 0.57 40.0 3.10e-01 76.5% 45.5%
2a0uB01 1.20.120.420 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › translation initiation factor eif-2b, domain 1 0.57 40.0 2.91e-01 76.5% 55.0%
2uvaG03 3.30.70.3320 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.56 38.0 3.12e-01 72.5% 59.3%
1auvA01 3.30.1490.20 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › ATP-grasp fold, A domain 0.56 39.0 3.76e-01 74.5% 63.3%
2eshA00 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 0.56 37.0 2.95e-01 70.6% 75.4%
3f9uA00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.56 40.0 2.93e-01 76.5% 74.5%
2qbyB03 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 38.0 3.27e-01 74.5% 80.2%
2gukA00 3.30.2190.10 Alpha Beta › 2-Layer Sandwich › PG1857-like › PG1857-like 0.55 45.0 3.66e-01 98.0% 59.5%
2cfaA01 3.30.1360.170 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › 0.54 38.0 2.90e-01 76.5% 76.4%
1ti2B01 3.30.70.20 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.53 38.0 2.89e-01 78.4% 100.0%
5yv7A00 4.10.410.10 Few Secondary Structures › Irregular › Factor Xa Inhibitor › Pancreatic trypsin inhibitor Kunitz domain 0.52 33.0 3.18e-01 80.4% 53.3%
1ceeB00 3.90.810.10 Alpha Beta › Alpha-Beta Complex › SerineThreonine-protein kinase PAK-alpha; Chain A › CRIB domain 0.51 33.0 3.21e-01 96.1% 57.6%
2y3aA01 3.10.20.770 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.51 41.0 2.69e-01 98.0% 33.9%
2qmlA00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.51 44.0 2.97e-01 98.0% 50.8%
2a3vA02 1.10.443.10 Mainly Alpha › Orthogonal Bundle › hpI Integrase; Chain A › Intergrase catalytic core 0.51 40.0 2.73e-01 94.1% 27.5%
2a90A01 3.30.720.50 Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › 0.50 40.0 3.45e-01 100.0% 78.6%
ECOD (72)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5053880 377.1.1.0 ↗ few secondary structure elements › Glucocorticoid receptor-like › LIM domain-like › LIM domain-like 0.92 72.0 7.62e-01 86.3% 93.3%
5034882 4203.1.1.0 ↗ few secondary structure elements › HSP33 redox switch-like › HSP33 redox switch-like › HSP33 redox switch-like 0.91 74.0 7.81e-01 90.2% 97.8%
3237892 376.1.3.0 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › FYVE/PHD zinc finger 0.87 71.0 6.70e-01 92.2% 75.0%
5051696 376.1.3.0 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › FYVE/PHD zinc finger 0.84 62.0 6.06e-01 78.4% 78.2%
3416461 377.1.1.0 ↗ few secondary structure elements › Glucocorticoid receptor-like › LIM domain-like › LIM domain-like 0.83 61.0 6.71e-01 80.4% 100.0%
4120496 377.1.1.8 ↗ few secondary structure elements › Glucocorticoid receptor-like › LIM domain-like › LIM domain-like › Ribosomal_S26e 0.82 64.0 5.66e-01 86.3% 58.7%
3466575 376.1.3.0 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › FYVE/PHD zinc finger 0.82 69.0 6.40e-01 100.0% 73.8%
3593722 376.1.3.0 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › FYVE/PHD zinc finger 0.81 64.0 6.10e-01 88.2% 73.3%
3307915 376.1.3.0 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › FYVE/PHD zinc finger 0.80 58.0 5.38e-01 82.4% 61.5%
4961820 377.1.1.0 ↗ few secondary structure elements › Glucocorticoid receptor-like › LIM domain-like › LIM domain-like 0.79 70.0 6.67e-01 100.0% 90.0%
5049527 376.1.3.0 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › FYVE/PHD zinc finger 0.79 57.0 5.37e-01 76.5% 68.3%
4997007 376.1.3.0 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › FYVE/PHD zinc finger 0.78 64.0 5.71e-01 90.2% 64.3%
3784386 376.1.3.0 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › FYVE/PHD zinc finger 0.78 59.0 6.24e-01 84.3% 93.3%
3596163 242.3.1.0 ↗ a+b two layers › Homing endonucleases-like › DNA repair protein MutS, domain I › DNA repair protein MutS, domain I 0.74 53.0 4.04e-01 76.5% 53.0%
2035461 3380.1.1.1 ↗ a+b duplicates or obligate multimers › Dimerization domain of Lsr2 › Dimerization domain of Lsr2 › Dimerization domain of Lsr2 › Lsr2 0.73 59.0 5.75e-01 100.0% 83.9%
4009252 3371.1.1.2 ↗ few secondary structure elements › Regulator of transcription protein Rtr1 › Regulator of transcription protein Rtr1 › Regulator of transcription protein Rtr1 › PF27493 0.70 56.0 5.71e-01 88.2% 92.0%
4421975 4232.1.1.1 ↗ few secondary structure elements › Ribosomal protein bL28-related › Ribosomal protein bL28-related › Ribosomal protein L28 › Ribosomal_L28 0.69 53.0 5.18e-01 90.2% 76.4%
4096542 4232.1.1.1 ↗ few secondary structure elements › Ribosomal protein bL28-related › Ribosomal protein bL28-related › Ribosomal protein L28 › Ribosomal_L28 0.69 50.0 4.98e-01 90.2% 74.5%
3265494 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.69 49.0 5.18e-01 76.5% 88.9%
5066586 377.1.1.0 ↗ few secondary structure elements › Glucocorticoid receptor-like › LIM domain-like › LIM domain-like 0.69 57.0 5.74e-01 90.2% 92.0%
4342292 4232.1.1.1 ↗ few secondary structure elements › Ribosomal protein bL28-related › Ribosomal protein bL28-related › Ribosomal protein L28 › Ribosomal_L28 0.69 50.0 4.97e-01 90.2% 74.5%
4966035 376.1.3.98 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › FYVE/PHD zinc finger › DUF7562 0.69 59.0 5.58e-01 98.0% 80.0%
3181300 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.68 58.0 4.23e-01 96.1% 62.1%
4323754 4232.1.1.1 ↗ few secondary structure elements › Ribosomal protein bL28-related › Ribosomal protein bL28-related › Ribosomal protein L28 › Ribosomal_L28 0.68 51.0 5.30e-01 90.2% 87.5%
4884617 4001.1.1.4 ↗ a+b duplicates or obligate multimers › a+b domain in cullin-like proteins › a+b domain in cullin-like proteins › a+b domain in cullin-like proteins › Cullin_AB 0.67 46.0 3.77e-01 80.4% 37.5%
4284613 4232.1.1.1 ↗ few secondary structure elements › Ribosomal protein bL28-related › Ribosomal protein bL28-related › Ribosomal protein L28 › Ribosomal_L28 0.66 52.0 4.58e-01 90.2% 79.5%
3860615 376.1.1.27 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › zf-RING_5 0.65 53.0 4.43e-01 98.0% 51.0%
4998735 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.65 45.0 3.27e-01 72.5% 63.0%
3535703 376.1.1.20 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › zf-RING_UBOX 0.65 53.0 4.41e-01 98.0% 51.0%
3977489 377.1.1.117 ↗ few secondary structure elements › Glucocorticoid receptor-like › LIM domain-like › LIM domain-like › PF27493 0.64 52.0 5.30e-01 90.2% 94.0%
4242930 4232.1.1.1 ↗ few secondary structure elements › Ribosomal protein bL28-related › Ribosomal protein bL28-related › Ribosomal protein L28 › Ribosomal_L28 0.64 50.0 4.26e-01 90.2% 82.2%
4946657 376.1.3.0 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › FYVE/PHD zinc finger 0.63 57.0 5.24e-01 100.0% 95.4%
3280385 4.8.1.5 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like › LytTR 0.63 47.0 4.66e-01 84.3% 94.5%
3394577 7039.1.1.1 ↗ a+b complex topology › Helical domain of PCIF1/CAPAM › Helical domain of PCIF1/CAPAM › Helical domain of PCIF1/CAPAM › PCIF1_WW 0.62 45.0 2.89e-01 76.5% 17.0%
4981949 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.61 42.0 3.63e-01 72.5% 82.5%
5049822 376.1.1.0 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box 0.61 45.0 4.68e-01 86.3% 97.8%
3649408 4232.1.1.1 ↗ few secondary structure elements › Ribosomal protein bL28-related › Ribosomal protein bL28-related › Ribosomal protein L28 › Ribosomal_L28 0.60 47.0 4.25e-01 90.2% 79.5%
5063941 316.1.1.0 ↗ a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase 0.60 49.0 3.30e-01 98.0% 82.1%
4965874 101.1.2.30 ↗ alpha arrays › HTH › HTH › winged helix domain › TrmB 0.59 41.0 3.04e-01 72.5% 47.8%
164542 101.1.2.48 ↗ alpha arrays › HTH › HTH › winged helix domain › PadR 0.59 41.0 3.19e-01 72.5% 60.9%
4961270 101.1.2.101 ↗ alpha arrays › HTH › HTH › winged helix domain › Cdc6_C 0.59 41.0 3.28e-01 72.5% 75.2%
1877235 220.1.1.7 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › IRS 0.59 46.0 3.92e-01 90.2% 96.7%
4646072 101.1.2.31 ↗ alpha arrays › HTH › HTH › winged helix domain › TFIIE_alpha 0.59 40.0 2.81e-01 72.5% 37.1%
4934658 304.126.1.0 ↗ a+b two layers › Alpha-beta plaits › ferredoxin-like domain in vacuolar ATP synthase subunit C › ferredoxin-like domain in vacuolar ATP synthase subunit C 0.58 40.0 3.67e-01 72.5% 84.3%
5018514 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.57 38.0 2.87e-01 70.6% 71.9%
4527101 101.1.2.31 ↗ alpha arrays › HTH › HTH › winged helix domain › TFIIE_alpha 0.57 39.0 2.81e-01 72.5% 40.6%
5042462 101.1.2.31 ↗ alpha arrays › HTH › HTH › winged helix domain › TFIIE_alpha 0.57 39.0 2.75e-01 72.5% 40.6%
5078768 101.1.2.819 ↗ alpha arrays › HTH › HTH › winged helix domain › PF27231 0.56 39.0 2.79e-01 72.5% 61.3%
4344487 375.1.1.179 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › TFIIE_alpha 0.56 38.0 2.66e-01 70.6% 35.2%
4961841 101.1.2.101 ↗ alpha arrays › HTH › HTH › winged helix domain › Cdc6_C 0.56 38.0 2.92e-01 72.5% 62.3%
5054122 101.1.2.31 ↗ alpha arrays › HTH › HTH › winged helix domain › TFIIE_alpha 0.56 38.0 2.74e-01 72.5% 40.0%
4507638 101.1.2.31 ↗ alpha arrays › HTH › HTH › winged helix domain › TFIIE_alpha 0.55 37.0 2.66e-01 70.6% 35.2%
3599395 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.55 43.0 2.55e-01 86.3% 31.2%
2391543 101.1.2.48 ↗ alpha arrays › HTH › HTH › winged helix domain › PadR 0.55 38.0 2.57e-01 72.5% 36.0%
5052491 101.1.2.31 ↗ alpha arrays › HTH › HTH › winged helix domain › TFIIE_alpha 0.55 37.0 2.58e-01 72.5% 43.7%
3468397 101.1.2.386 ↗ alpha arrays › HTH › HTH › winged helix domain › WH_DRP 0.55 37.0 2.87e-01 72.5% 80.8%
4314672 101.1.2.101 ↗ alpha arrays › HTH › HTH › winged helix domain › Cdc6_C 0.54 38.0 3.06e-01 74.5% 68.6%
5070883 101.1.2.31 ↗ alpha arrays › HTH › HTH › winged helix domain › TFIIE_alpha 0.54 38.0 3.20e-01 72.5% 71.1%
5030555 3433.1.1.0 ↗ a+b duplicates or obligate multimers › ParB dimerization domain › ParB dimerization domain › Plasmid-encoded ParB dimerization domain 0.54 36.0 3.90e-01 90.2% 87.5%
3271747 3008.1.1.0 ↗ a+b three layers › A subdomain in the anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › A subdomain in the anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › A subdomain in the anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases 0.54 44.0 3.34e-01 90.2% 80.0%
3906082 5.1.4.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.54 37.0 2.29e-01 72.5% 72.4%
5011468 101.1.2.31 ↗ alpha arrays › HTH › HTH › winged helix domain › TFIIE_alpha 0.54 37.0 2.84e-01 72.5% 52.0%
4456198 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.53 37.0 2.59e-01 74.5% 42.2%
4959599 101.1.2.48 ↗ alpha arrays › HTH › HTH › winged helix domain › PadR 0.53 37.0 2.97e-01 72.5% 63.2%
3720527 323.1.1.3 ↗ a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases › AMP-binding 0.53 37.0 2.70e-01 88.2% 23.6%
3621660 384.1.1.1 ↗ few secondary structure elements › BPTI-like › BPTI-like › BPTI-like › Kunitz_BPTI 0.52 38.0 3.47e-01 82.4% 60.0%
5059725 101.1.8.1 ↗ alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Phage_integrase 0.52 40.0 2.89e-01 92.2% 32.8%
4811950 866.1.1.1 ↗ a+b duplicates or obligate multimers › CheC-like › CheC-like › CheC-like › FliM 0.51 38.0 3.39e-01 96.1% 55.4%
4416349 304.162.1.1 ↗ a+b two layers › Alpha-beta plaits › Competence or damage-inducible protein CinA middle domain › Competence or damage-inducible protein CinA middle domain › CinA_KH 0.51 36.0 3.24e-01 78.4% 85.0%
3533135 2492.1.1.36 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › ODR4-like 0.51 44.0 2.92e-01 100.0% 32.1%
4679580 7527.1.1.1 ↗ a/b three-layered sandwiches › SurE-like/CoA-transferase family III (CaiB/BaiF) › SurE-like/CoA-transferase family III (CaiB/BaiF) › SurE-like/CoA-transferase family III (CaiB/BaiF) › SurE 0.51 35.0 2.34e-01 74.5% 59.6%
3937033 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.50 36.0 3.02e-01 82.4% 79.0%