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NC_048679.1__YP_009835499.1__HWB34_gp24__00024

Bact-Vir

NC_048679.1__YP_009835499.1__HWB34_gp24__00024

Identity

Accession:
NC_048679 ↗
Kingdom:
phage

Quality

57.2 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Nylescharonvirus› Leptospira_phage_LE4

TaxID: 2041383

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 36-192
PDB
Domain cluster: rep: IMGVR_UViG_3300020814_000341-3300020814-Ga0214088_182449110__D102-238
CATH (42)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1at3A00 3.20.16.10 Alpha Beta › Alpha-Beta Barrel › Serine Protease, Human Cytomegalovirus Protease; Chain A › Herpesvirus/Caudovirus protease domain 0.75 62.0 5.48e-01 100.0% 62.7%
1cmvB00 3.20.16.10 Alpha Beta › Alpha-Beta Barrel › Serine Protease, Human Cytomegalovirus Protease; Chain A › Herpesvirus/Caudovirus protease domain 0.71 59.0 5.33e-01 100.0% 65.5%
1o6eA00 3.20.16.10 Alpha Beta › Alpha-Beta Barrel › Serine Protease, Human Cytomegalovirus Protease; Chain A › Herpesvirus/Caudovirus protease domain 0.71 66.0 5.77e-01 100.0% 68.9%
4paaA05 2.40.30.110 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Aminomethyltransferase beta-barrel domains 0.70 36.0 4.90e-01 97.5% 97.5%
1wosA04 2.40.30.110 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Aminomethyltransferase beta-barrel domains 0.70 36.0 4.73e-01 98.1% 89.5%
3girA04 2.40.30.110 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Aminomethyltransferase beta-barrel domains 0.69 35.0 4.83e-01 97.5% 98.7%
2wbmA03 3.30.70.240 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.67 32.0 4.59e-01 98.7% 100.0%
2yweA04 3.30.70.240 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.65 32.0 3.74e-01 100.0% 64.9%
3n79A01 3.30.70.1710 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › BMC (bacterial microcompartment) domain 0.63 33.0 4.45e-01 100.0% 98.7%
2bj3D02 3.30.70.1150 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT-like. Chain A, domain 2 0.63 32.0 4.34e-01 99.4% 93.8%
1q5yC00 3.30.70.1150 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT-like. Chain A, domain 2 0.62 32.0 4.33e-01 99.4% 95.1%
1vx4407 3.30.70.240 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.62 29.0 4.17e-01 96.8% 100.0%
5is2A01 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.61 34.0 4.21e-01 100.0% 91.2%
3c19A01 3.30.70.1380 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Transcriptional regulatory protein pf0864 domain like 0.61 34.0 4.19e-01 100.0% 86.9%
1ywuA00 2.40.10.220 Mainly Beta › Beta Barrel › Thrombin, subunit H › predicted glycosyltransferase like domains 0.60 33.0 3.59e-01 98.7% 63.2%
7cayA01 2.30.130.40 Mainly Beta › Roll › Archaeosine Trna-guanine Transglycosylase; Chain: A, domain 4 › LON domain-like 0.60 33.0 3.97e-01 86.0% 82.0%
6vh5C03 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.60 32.0 4.10e-01 100.0% 89.9%
3oz2A02 3.30.9.10 Alpha Beta › 2-Layer Sandwich › D-Amino Acid Oxidase; Chain A, domain 2 › D-Amino Acid Oxidase, subunit A, domain 2 0.60 35.0 3.51e-01 100.0% 54.4%
2go8A01 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.59 29.0 4.03e-01 100.0% 98.6%
4aq1A01 2.60.40.1220 Mainly Beta › Sandwich › Immunoglobulin-like › 0.59 31.0 3.87e-01 96.2% 84.0%
3luyA03 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.59 32.0 4.03e-01 100.0% 91.0%
3mwbB03 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.58 31.0 3.81e-01 100.0% 82.1%
4ci2B02 2.30.130.40 Mainly Beta › Roll › Archaeosine Trna-guanine Transglycosylase; Chain: A, domain 4 › LON domain-like 0.58 33.0 3.70e-01 86.0% 69.6%
2rhqB06 3.30.70.380 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ferrodoxin-fold anticodon-binding domain 0.57 32.0 4.09e-01 95.5% 100.0%
4mt1A06 3.30.70.1430 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Multidrug efflux transporter AcrB pore domain 0.57 37.0 4.37e-01 100.0% 100.0%
2mq8A00 3.30.70.600 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 0.56 36.0 4.11e-01 100.0% 88.4%
3of6E00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.56 33.0 3.87e-01 96.2% 84.6%
2v9kA04 3.30.70.3190 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.56 38.0 4.45e-01 98.7% 100.0%
4lfhD02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.56 28.0 3.59e-01 91.7% 84.7%
4mt1A07 3.30.70.1440 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Multidrug efflux transporter AcrB pore domain 0.56 34.0 3.99e-01 99.4% 90.2%
4djbA00 3.30.70.2870 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Mastadenovirus E4 ORF3 0.56 40.0 4.44e-01 100.0% 97.5%
4q9cA00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.55 31.0 3.62e-01 90.4% 78.1%
5t0oA03 3.30.70.1320 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Multidrug efflux transporter AcrB pore domain like 0.55 36.0 4.22e-01 96.8% 100.0%
4g7wA00 2.40.30.280 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Vibrio phage CTXphi pIII, N-terminal N1 domain 0.55 32.0 3.96e-01 93.0% 91.8%
1lq9A00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.54 35.0 4.08e-01 100.0% 92.0%
2f7vA02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.54 36.0 4.25e-01 100.0% 99.1%
2e7vA01 3.30.70.960 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › SEA domain 0.54 34.0 4.06e-01 95.5% 95.2%
3oc5A02 2.60.40.3240 Mainly Beta › Sandwich › Immunoglobulin-like › Vibrio cholerae toxin co-regulated pilus biosynthesis protein F, C-terminal domain 0.54 37.0 3.89e-01 97.5% 78.0%
2rb7A02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.52 35.0 4.08e-01 100.0% 98.1%
6lpnA03 3.30.70.2190 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.52 34.0 3.91e-01 100.0% 90.4%
2qswA00 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.52 29.0 3.56e-01 100.0% 91.1%
3f8uD03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 29.0 3.43e-01 96.2% 80.2%
ECOD (53)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3964948 1.1.16.4 ↗ beta barrels › cradle loop barrel › RIFT-related › Mammalian cell entry (MCE) domain › Peptidase_S78 0.88 68.0 7.60e-01 96.8% 100.0%
3585229 50.1.1.2 ↗ beta barrels › Herpes virus serine proteinase, assemblin › Herpes virus serine proteinase, assemblin › Herpes virus serine proteinase, assemblin › Peptidase_S77 0.85 74.0 7.82e-01 95.5% 100.0%
3954964 50.1.1.3 ↗ beta barrels › Herpes virus serine proteinase, assemblin › Herpes virus serine proteinase, assemblin › Herpes virus serine proteinase, assemblin › Peptidase_S78 0.84 74.0 7.68e-01 99.4% 98.6%
5083161 50.1.1.3 ↗ beta barrels › Herpes virus serine proteinase, assemblin › Herpes virus serine proteinase, assemblin › Herpes virus serine proteinase, assemblin › Peptidase_S78 0.82 66.0 6.93e-01 90.4% 90.3%
5039158 50.1.1.3 ↗ beta barrels › Herpes virus serine proteinase, assemblin › Herpes virus serine proteinase, assemblin › Herpes virus serine proteinase, assemblin › Peptidase_S78 0.81 74.0 7.36e-01 94.3% 98.1%
4995675 50.1.1.0 ↗ beta barrels › Herpes virus serine proteinase, assemblin › Herpes virus serine proteinase, assemblin › Herpes virus serine proteinase, assemblin 0.78 69.0 6.83e-01 92.4% 87.9%
3964748 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.77 48.0 5.75e-01 85.4% 92.4%
788 50.1.1.1 ↗ beta barrels › Herpes virus serine proteinase, assemblin › Herpes virus serine proteinase, assemblin › Herpes virus serine proteinase, assemblin › Peptidase_S21 0.75 62.0 5.48e-01 100.0% 62.7%
3286366 1.1.16.1 ↗ beta barrels › cradle loop barrel › RIFT-related › Mammalian cell entry (MCE) domain › MlaD 0.73 41.0 4.42e-01 98.7% 64.4%
1304358 50.1.1.1 ↗ beta barrels › Herpes virus serine proteinase, assemblin › Herpes virus serine proteinase, assemblin › Herpes virus serine proteinase, assemblin › Peptidase_S21 0.72 63.0 5.53e-01 100.0% 64.9%
5038126 1.1.8.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain 0.72 34.0 4.75e-01 99.4% 93.3%
4215822 1.1.8.7 ↗ beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain › YgfZ_barrel 0.71 34.0 4.84e-01 94.3% 100.0%
3284857 1.1.16.1 ↗ beta barrels › cradle loop barrel › RIFT-related › Mammalian cell entry (MCE) domain › MlaD 0.70 41.0 4.25e-01 99.4% 60.7%
3282462 1.1.8.20 ↗ beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain › Beta-barrel_CAF17_C 0.69 35.0 4.87e-01 98.7% 100.0%
4934045 304.24.1.6 ↗ a+b two layers › Alpha-beta plaits › EF-G C-terminal domain-like › EF-G C-terminal domain-like › SBDS_C 0.67 31.0 4.53e-01 97.5% 97.1%
4976207 304.24.1.6 ↗ a+b two layers › Alpha-beta plaits › EF-G C-terminal domain-like › EF-G C-terminal domain-like › SBDS_C 0.67 31.0 4.58e-01 98.7% 100.0%
3290618 1.1.16.1 ↗ beta barrels › cradle loop barrel › RIFT-related › Mammalian cell entry (MCE) domain › MlaD 0.67 41.0 4.35e-01 95.5% 68.6%
4331397 1.1.8.7 ↗ beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain › YgfZ_barrel 0.67 35.0 4.66e-01 87.9% 97.5%
1150480 50.1.1.1 ↗ beta barrels › Herpes virus serine proteinase, assemblin › Herpes virus serine proteinase, assemblin › Herpes virus serine proteinase, assemblin › Peptidase_S21 0.66 43.0 5.23e-01 70.7% 99.0%
4409090 1.1.8.7 ↗ beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain › YgfZ_barrel 0.66 33.0 4.58e-01 95.5% 98.7%
3957231 1.1.16.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Mammalian cell entry (MCE) domain 0.66 41.0 4.84e-01 95.5% 88.2%
4072484 1.1.8.7 ↗ beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain › YgfZ_barrel 0.66 36.0 4.58e-01 100.0% 91.1%
4156994 1.1.8.7 ↗ beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain › YgfZ_barrel 0.66 35.0 4.63e-01 99.4% 98.8%
4947074 304.24.1.0 ↗ a+b two layers › Alpha-beta plaits › EF-G C-terminal domain-like › EF-G C-terminal domain-like 0.65 30.0 4.34e-01 98.1% 98.6%
4943129 304.24.1.0 ↗ a+b two layers › Alpha-beta plaits › EF-G C-terminal domain-like › EF-G C-terminal domain-like 0.64 31.0 4.38e-01 100.0% 96.0%
4160926 304.24.1.6 ↗ a+b two layers › Alpha-beta plaits › EF-G C-terminal domain-like › EF-G C-terminal domain-like › SBDS_C 0.64 31.0 4.28e-01 99.4% 94.7%
4991978 304.24.1.6 ↗ a+b two layers › Alpha-beta plaits › EF-G C-terminal domain-like › EF-G C-terminal domain-like › SBDS_C 0.64 31.0 4.27e-01 99.4% 94.7%
3163708 1.1.16.1 ↗ beta barrels › cradle loop barrel › RIFT-related › Mammalian cell entry (MCE) domain › MlaD 0.64 42.0 4.80e-01 98.7% 88.3%
3263475 244.1.1.0 ↗ a+b two layers › FAD-linked reductases, C-terminal domain-like › FAD-linked reductases-C › FAD-linked reductases-C 0.63 37.0 4.24e-01 98.7% 78.3%
4983133 304.24.1.6 ↗ a+b two layers › Alpha-beta plaits › EF-G C-terminal domain-like › EF-G C-terminal domain-like › SBDS_C 0.62 29.0 4.17e-01 97.5% 98.6%
3615120 375.1.1.207 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › FAZ1_cons 0.61 36.0 4.56e-01 82.2% 100.0%
4182726 304.8.1.9 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ACT_6 0.61 34.0 4.34e-01 100.0% 94.4%
3609518 101.1.1.491 ↗ alpha arrays › HTH › HTH › Three-helical HTH › FAZ1_cons 0.61 37.0 4.54e-01 84.1% 95.0%
3720046 304.55.2.8 ↗ a+b two layers › Alpha-beta plaits › Origin of replication-binding domains › Transposase IS200-like › FAZ1_cons 0.60 36.0 4.49e-01 84.1% 97.9%
3915879 304.12.1.0 ↗ a+b two layers › Alpha-beta plaits › Ribosomal protein S6 › Ribosomal protein S6 0.60 41.0 4.83e-01 100.0% 100.0%
3595804 304.55.2.0 ↗ a+b two layers › Alpha-beta plaits › Origin of replication-binding domains › Transposase IS200-like 0.60 35.0 4.38e-01 83.4% 95.8%
4970211 1.1.8.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain 0.60 37.0 4.40e-01 98.7% 91.4%
3807910 304.8.1.45 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › bHLH-TF_ACT-like_plant 0.58 29.0 3.86e-01 93.0% 91.3%
3713464 375.1.1.207 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › FAZ1_cons 0.58 34.0 4.30e-01 82.2% 100.0%
3318862 304.8.1.45 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › bHLH-TF_ACT-like_plant 0.58 28.0 3.61e-01 93.0% 81.2%
2117623 304.25.1.0 ↗ a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain 0.58 36.0 4.37e-01 100.0% 98.0%
3924669 304.8.1.0 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.57 34.0 4.29e-01 99.4% 98.9%
4342843 304.6.1.3 ↗ a+b two layers › Alpha-beta plaits › FAD-linked oxidases, C-terminal domain › FAD-linked oxidases, C-terminal domain › BBE 0.57 33.0 2.85e-01 100.0% 35.1%
5073850 304.43.1.6 ↗ a+b two layers › Alpha-beta plaits › Hypothetical protein TT1725 › Hypothetical protein TT1725 › FLAD1_M 0.57 28.0 3.92e-01 70.7% 98.7%
4116143 304.8.1.5 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › NIL 0.56 32.0 3.90e-01 100.0% 90.5%
3543605 304.47.1.1 ↗ a+b two layers › Alpha-beta plaits › SEA domain › SEA domain › SEA 0.55 40.0 4.54e-01 99.4% 99.2%
4947808 304.25.1.11 ↗ a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain › Peptidase_M20 0.55 38.0 4.38e-01 99.4% 99.1%
2138593 11.1.1.96 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › C1-set 0.55 29.0 3.53e-01 98.7% 77.5%
4992026 304.39.1.0 ↗ a+b two layers › Alpha-beta plaits › Mechanosensitive channel protein MscS (YggB), C-terminal domain › Mechanosensitive channel protein MscS (YggB), C-terminal domain 0.54 33.0 4.00e-01 81.5% 96.9%
3384902 304.8.1.79 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ALE2_N 0.54 37.0 4.25e-01 100.0% 97.4%
5002717 304.39.1.1 ↗ a+b two layers › Alpha-beta plaits › Mechanosensitive channel protein MscS (YggB), C-terminal domain › Mechanosensitive channel protein MscS (YggB), C-terminal domain › MS_channel_3rd 0.53 31.0 3.73e-01 91.7% 88.0%
3558966 304.47.1.1 ↗ a+b two layers › Alpha-beta plaits › SEA domain › SEA domain › SEA 0.53 39.0 4.22e-01 99.4% 91.5%
2736875 1.1.16.1 ↗ beta barrels › cradle loop barrel › RIFT-related › Mammalian cell entry (MCE) domain › MlaD 0.52 43.0 3.98e-01 99.4% 71.0%
D2 high residues 199-264
PDB
D3 medium residues 383-464
PDB