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NC_055710.1__YP_010088706.1__KNT15_gp186__00045

Bact-Vir

NC_055710.1__YP_010088706.1__KNT15_gp186__00045

Identity

Accession:
NC_055710 ↗
Kingdom:
phage

Quality

92.4 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 60-126_158-207
PDB
Domain cluster: representative
CATH (1)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2ehbD00 3.30.310.80 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › Kinase associated domain 1, KA1 0.60 37.0 3.66e-01 100.0% 57.1%
ECOD (10)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
295937 2008.1.1.54 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › R-HINP1I 0.83 79.0 5.97e-01 100.0% 61.1%
5079673 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.78 74.0 5.68e-01 100.0% 65.1%
4955195 2008.1.1.54 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › R-HINP1I 0.78 73.0 5.56e-01 100.0% 60.8%
4966325 2008.1.1.54 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › R-HINP1I 0.71 68.0 5.51e-01 100.0% 61.5%
5017022 331.1.1.27 a+b two layers › TBP-like › TATA-box binding protein-like › TATA-box binding protein-like › CBS 0.64 37.0 2.78e-01 100.0% 23.5%
3894482 314.1.1.0 a+b three layers › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases 0.62 42.0 3.18e-01 100.0% 29.5%
5041419 243.6.1.9 a+b two layers › Cystatin-like › Pre-PUA domain › Pre-PUA domain › TGT_C2 0.62 38.0 4.50e-01 99.1% 90.0%
4930899 243.6.1.9 a+b two layers › Cystatin-like › Pre-PUA domain › Pre-PUA domain › TGT_C2 0.59 37.0 4.44e-01 98.3% 92.5%
3236988 331.2.1.0 a+b two layers › TBP-like › Phosphoglucomutase, C-terminal domain › Phosphoglucomutase, C-terminal domain 0.57 32.0 3.71e-01 99.1% 77.5%
3958915 3012.1.1.0 a+b two layers › Cof C2 cap domain › Cof C2 cap domain › Cof C2 cap domain 0.51 33.0 3.76e-01 100.0% 93.8%
D2 medium residues 1-57_127-157
PDB
CATH (41)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2ostD00 3.40.1350.10 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.74 63.0 5.43e-01 92.0% 69.9%
3ndhA00 3.40.600.30 Alpha Beta › 3-Layer(aba) Sandwich › ECO RV Endonuclease; Chain A › 0.73 63.0 4.72e-01 94.3% 51.9%
2xi5A00 3.40.91.60 Alpha Beta › 3-Layer(aba) Sandwich › Restriction Endonuclease › 0.73 63.0 4.96e-01 95.5% 68.5%
1eyuA00 3.40.210.10 Alpha Beta › 3-Layer(aba) Sandwich › PvuII Endonuclease; Chain A › PVUII Endonuclease, subunit A 0.72 60.0 4.96e-01 90.9% 59.6%
4cgxA00 3.40.91.90 Alpha Beta › 3-Layer(aba) Sandwich › Restriction Endonuclease › Influenza RNA-dependent RNA polymerase subunit PA, endonuclease domain 0.69 57.0 4.68e-01 89.8% 64.0%
1y88A01 3.40.1350.10 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.68 55.0 4.92e-01 87.5% 81.6%
4ic1D00 3.90.320.10 Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › 0.66 56.0 4.37e-01 96.6% 55.8%
2w8mA00 3.40.1350.50 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › D212 PD-(D/E)XK nuclease, catalytic motif 0.66 57.0 4.61e-01 94.3% 73.3%
4cgsA00 3.40.91.90 Alpha Beta › 3-Layer(aba) Sandwich › Restriction Endonuclease › Influenza RNA-dependent RNA polymerase subunit PA, endonuclease domain 0.66 54.0 4.41e-01 89.8% 63.7%
3ijmA00 3.90.1570.20 Alpha Beta › Alpha-Beta Complex › tt1808, chain A › 0.63 56.0 4.75e-01 100.0% 77.4%
3u4qA06 3.90.320.10 Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › 0.63 53.0 3.98e-01 93.2% 83.6%
3qyfA01 3.40.50.10770 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Hypothetical protein VC1899 like domain (Restriction endonuclease-like) 0.62 51.0 4.18e-01 90.9% 92.7%
8d3mI01 3.90.320.10 Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › 0.61 54.0 4.17e-01 100.0% 60.9%
7mi4A01 3.90.320.10 Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › 0.60 53.0 4.16e-01 100.0% 62.1%
3lzdA02 3.40.50.11850 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Diphthamide synthesis DPH1/DPH2 domain 2 0.58 45.0 4.22e-01 83.0% 78.0%
6h1wA01 3.10.580.10 Alpha Beta › Roll › CBS-domain › CBS-domain 0.57 34.0 3.13e-01 73.9% 44.4%
5v07Z01 3.40.50.1010 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 5'-nuclease 0.56 49.0 3.78e-01 98.9% 78.2%
4g0bA02 3.30.559.10 Alpha Beta › 2-Layer Sandwich › Chloramphenicol Acetyltransferase › Chloramphenicol acetyltransferase-like domain 0.54 38.0 2.95e-01 73.9% 79.7%
4oa3A00 3.10.310.50 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › 0.54 44.0 3.78e-01 88.6% 58.2%
2w01B00 3.30.70.1230 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Nucleotide cyclase, GGDEF domain 0.54 46.0 3.66e-01 98.9% 80.7%
3b46A01 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.54 45.0 3.67e-01 93.2% 69.8%
4dqwA02 3.10.580.10 Alpha Beta › Roll › CBS-domain › CBS-domain 0.53 39.0 3.57e-01 76.1% 66.4%
2yzqA01 3.10.580.10 Alpha Beta › Roll › CBS-domain › CBS-domain 0.53 38.0 3.68e-01 80.7% 66.7%
5iipA00 3.10.580.10 Alpha Beta › Roll › CBS-domain › CBS-domain 0.53 38.0 3.50e-01 76.1% 62.1%
3lv9A00 3.10.580.10 Alpha Beta › Roll › CBS-domain › CBS-domain 0.53 38.0 3.33e-01 75.0% 62.3%
3d1lB01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.52 41.0 3.43e-01 85.2% 82.0%
3umoA00 3.40.1190.20 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Ribokinase 0.52 39.0 2.71e-01 79.5% 64.7%
3kpbA00 3.10.580.10 Alpha Beta › Roll › CBS-domain › CBS-domain 0.52 38.0 3.49e-01 78.4% 66.4%
3kh5A01 3.10.580.10 Alpha Beta › Roll › CBS-domain › CBS-domain 0.52 37.0 3.21e-01 76.1% 64.8%
2jjqA03 2.40.50.1070 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.52 42.0 3.63e-01 89.8% 81.0%
1svvB02 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.51 41.0 4.08e-01 87.5% 94.6%
3kxrA02 3.10.580.10 Alpha Beta › Roll › CBS-domain › CBS-domain 0.51 38.0 3.42e-01 79.5% 57.1%
3c6kA01 3.30.160.110 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Sirohaem synthase, central domain 0.51 41.0 4.04e-01 86.4% 87.2%
2uv4A00 3.10.580.10 Alpha Beta › Roll › CBS-domain › CBS-domain 0.51 38.0 3.30e-01 80.7% 62.2%
3i8nB00 3.10.580.10 Alpha Beta › Roll › CBS-domain › CBS-domain 0.51 36.0 3.21e-01 73.9% 64.3%
3ctuA00 3.10.580.10 Alpha Beta › Roll › CBS-domain › CBS-domain 0.51 37.0 3.17e-01 77.3% 55.2%
3kh5A02 3.10.580.10 Alpha Beta › Roll › CBS-domain › CBS-domain 0.51 37.0 3.22e-01 77.3% 65.4%
3zdrA01 3.40.50.1970 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.50 39.0 3.11e-01 85.2% 76.2%
3ksmA02 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.50 40.0 3.41e-01 86.4% 78.7%
2f7lA02 3.40.120.10 Alpha Beta › 3-Layer(aba) Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 3 › Alpha-D-Glucose-1,6-Bisphosphate, subunit A, domain 3 0.50 38.0 3.48e-01 83.0% 61.5%
1r6bX05 1.10.8.60 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.50 34.0 3.30e-01 95.5% 61.6%
ECOD (60)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5026220 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.79 60.0 4.71e-01 79.5% 69.7%
4284098 2008.1.1.198 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › DUF6998 0.74 67.0 5.82e-01 97.7% 70.8%
1837447 2008.1.1.56 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_5 0.74 64.0 5.46e-01 94.3% 71.7%
1560740 2008.1.1.65 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › L_protein_N 0.73 63.0 4.49e-01 95.5% 47.6%
402316 2008.1.1.65 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › L_protein_N 0.73 63.0 4.97e-01 95.5% 68.9%
4983181 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.71 56.0 5.05e-01 84.1% 91.7%
4947545 2008.1.1.4 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Cas_Cas4 0.70 62.0 4.86e-01 100.0% 63.2%
3837602 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.70 62.0 4.31e-01 100.0% 58.4%
3666060 2008.1.1.29 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Dna2 0.68 61.0 4.23e-01 100.0% 66.8%
4933945 2008.1.1.4 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Cas_Cas4 0.68 61.0 4.60e-01 100.0% 54.4%
4953680 2008.1.1.4 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Cas_Cas4 0.68 59.0 4.23e-01 96.6% 74.9%
5045797 2008.1.1.4 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Cas_Cas4 0.66 60.0 4.65e-01 100.0% 60.5%
4859809 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.66 54.0 4.45e-01 89.8% 63.2%
5076203 2008.1.1.4 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Cas_Cas4 0.66 59.0 4.54e-01 98.9% 59.0%
5066595 2008.1.1.4 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Cas_Cas4 0.66 58.0 4.47e-01 96.6% 63.9%
3964058 2008.1.1.4 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Cas_Cas4 0.66 58.0 5.02e-01 98.9% 80.0%
4947992 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.65 51.0 4.78e-01 85.2% 100.0%
5010590 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.65 50.0 4.71e-01 81.8% 96.2%
4031100 282.1.1.0 a+b duplicates or obligate multimers › CBS-domain › CBS-domain › CBS-domain 0.64 36.0 3.96e-01 71.6% 68.6%
4373650 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.63 46.0 4.46e-01 77.3% 100.0%
5005103 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.63 47.0 4.36e-01 78.4% 82.7%
5038175 2008.2.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › tRNA-intron endonuclease catalytic domain-like › tRNA-intron endonuclease catalytic domain-like 0.62 50.0 5.21e-01 88.6% 96.2%
2985793 2008.1.1.4 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Cas_Cas4 0.61 54.0 4.11e-01 100.0% 57.8%
3614641 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.60 52.0 4.02e-01 100.0% 86.9%
4933955 7592.1.1.6 a/b three-layered sandwiches › CARF (CRISPR-associated Rossmann fold) domains › CARF (CRISPR-associated Rossmann fold) domains › CARF (CRISPR-associated Rossmann fold) domains › Csa3_N 0.59 50.0 4.15e-01 90.9% 92.0%
5034409 282.1.1.1 a+b duplicates or obligate multimers › CBS-domain › CBS-domain › CBS-domain › CBS 0.59 36.0 2.93e-01 72.7% 33.1%
3577750 2007.1.16.0 a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Iron-sulphur enzyme Dph2 0.57 50.0 4.32e-01 97.7% 99.3%
4029153 2004.1.1.0 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.57 43.0 2.65e-01 83.0% 24.4%
4990416 282.1.1.1 a+b duplicates or obligate multimers › CBS-domain › CBS-domain › CBS-domain › CBS 0.56 34.0 3.00e-01 73.9% 40.8%
4211664 2003.6.1.1 a/b three-layered sandwiches › Rossmann-like › Ribokinase-like › Ribokinase-like › PfkB 0.56 42.0 2.94e-01 81.8% 81.9%
3981606 3627.1.1.0 alpha bundles › UDP-galactofuranosyl transferase GlfT2 helical domain › UDP-galactofuranosyl transferase GlfT2 helical domain › UDP-galactofuranosyl transferase GlfT2 helical domain 0.55 40.0 3.10e-01 76.1% 43.1%
5082574 2008.1.1.4 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Cas_Cas4 0.55 49.0 4.04e-01 98.9% 60.6%
5023167 282.1.1.1 a+b duplicates or obligate multimers › CBS-domain › CBS-domain › CBS-domain › CBS 0.55 33.0 3.37e-01 72.7% 61.2%
3329169 2006.1.4.4 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › 5_3_exonuc_N 0.55 47.0 3.83e-01 97.7% 87.4%
4956066 282.1.1.1 a+b duplicates or obligate multimers › CBS-domain › CBS-domain › CBS-domain › CBS 0.55 33.0 2.91e-01 73.9% 39.3%
4943625 282.1.1.1 a+b duplicates or obligate multimers › CBS-domain › CBS-domain › CBS-domain › CBS 0.55 33.0 2.83e-01 72.7% 37.1%
5063561 2007.1.16.0 a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Iron-sulphur enzyme Dph2 0.54 41.0 4.02e-01 87.5% 73.0%
3659367 2003.1.7.10 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NagB/RpiA/CoA transferase-like › Rib_5-P_isom_A 0.54 43.0 3.53e-01 87.5% 96.5%
4930769 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.53 45.0 4.31e-01 95.5% 80.0%
4318640 219.1.1.3 a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › UCH 0.53 39.0 2.62e-01 79.5% 59.5%
None 0.53 44.0 3.64e-01 95.5% 94.1%
3638856 268.1.1.0 a+b two layers › Sterol carrier protein-like › Sterol carrier protein, SCP-related › Sterol carrier protein, SCP-related 0.53 36.0 3.86e-01 70.5% 86.7%
3672329 282.1.1.1 a+b duplicates or obligate multimers › CBS-domain › CBS-domain › CBS-domain › CBS 0.52 39.0 3.14e-01 78.4% 60.0%
4993586 282.1.1.1 a+b duplicates or obligate multimers › CBS-domain › CBS-domain › CBS-domain › CBS 0.52 38.0 3.33e-01 77.3% 77.0%
4989744 282.1.1.1 a+b duplicates or obligate multimers › CBS-domain › CBS-domain › CBS-domain › CBS 0.52 37.0 3.31e-01 76.1% 60.0%
3602783 2007.1.16.0 a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Iron-sulphur enzyme Dph2 0.52 44.0 4.22e-01 93.2% 97.0%
4024861 2003.1.5.82 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_31 0.52 43.0 3.12e-01 94.3% 85.5%
3972038 282.1.1.1 a+b duplicates or obligate multimers › CBS-domain › CBS-domain › CBS-domain › CBS 0.52 37.0 3.25e-01 76.1% 57.8%
3520724 282.1.1.1 a+b duplicates or obligate multimers › CBS-domain › CBS-domain › CBS-domain › CBS 0.52 38.0 3.20e-01 76.1% 59.3%
3597764 282.1.1.1 a+b duplicates or obligate multimers › CBS-domain › CBS-domain › CBS-domain › CBS 0.52 37.0 3.00e-01 75.0% 50.0%
5010419 282.1.1.1 a+b duplicates or obligate multimers › CBS-domain › CBS-domain › CBS-domain › CBS 0.51 37.0 3.27e-01 76.1% 58.5%
4947137 282.1.1.10 a+b duplicates or obligate multimers › CBS-domain › CBS-domain › CBS-domain › F420_oxidored 0.51 37.0 3.31e-01 76.1% 62.4%
4196487 323.1.1.0 a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases 0.51 38.0 3.04e-01 80.7% 65.1%
3618571 282.1.1.0 a+b duplicates or obligate multimers › CBS-domain › CBS-domain › CBS-domain 0.51 37.0 3.03e-01 76.1% 66.5%
4978498 282.1.1.1 a+b duplicates or obligate multimers › CBS-domain › CBS-domain › CBS-domain › CBS 0.51 38.0 3.33e-01 79.5% 62.3%
4837526 3105.1.1.1 a+b three layers › thylakoid acid phosphatase domain-related › thylakoid acid phosphatase domain-related › thylakoid acid phosphatase domain-related › TPM_phosphatase 0.51 39.0 3.38e-01 84.1% 57.0%
4965912 282.1.1.1 a+b duplicates or obligate multimers › CBS-domain › CBS-domain › CBS-domain › CBS 0.50 37.0 3.21e-01 77.3% 58.5%
4998377 869.1.1.1 a+b complex topology › Methenyltetrahydromethanopterin cyclohydrolase › Methenyltetrahydromethanopterin cyclohydrolase › Methenyltetrahydromethanopterin cyclohydrolase › MCH 0.50 42.0 2.99e-01 100.0% 71.2%
5058056 282.1.1.1 a+b duplicates or obligate multimers › CBS-domain › CBS-domain › CBS-domain › CBS 0.50 38.0 3.44e-01 80.7% 68.3%
4947426 282.1.1.1 a+b duplicates or obligate multimers › CBS-domain › CBS-domain › CBS-domain › CBS 0.50 37.0 3.35e-01 79.5% 62.9%