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NC_055807.1__YP_010103278.1__KNU65_gp60__00078

Bact-Vir

NC_055807.1__YP_010103278.1__KNU65_gp60__00078

Identity

Accession:
NC_055807 ↗
Kingdom:
phage

Quality

76.9 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 48-90
PDB
Domain cluster: representative
CATH (34)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1wzoA01 2.30.30.370 Mainly Beta › Roll › SH3 type barrels. › FAH 0.79 62.0 6.41e-01 97.7% 97.5%
4dq2A03 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.71 60.0 5.91e-01 97.7% 93.6%
1l8rA00 3.10.260.20 Alpha Beta › Roll › Mlu1-box Binding Protein; DNA-binding Domain › Ski 0.68 49.0 3.76e-01 79.1% 86.1%
1r5bA03 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.67 55.0 4.18e-01 97.7% 65.5%
3fm8D03 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.66 53.0 4.15e-01 97.7% 80.6%
1bm8A00 3.10.260.10 Alpha Beta › Roll › Mlu1-box Binding Protein; DNA-binding Domain › Transcription regulator HTH, APSES-type DNA-binding domain 0.66 52.0 3.97e-01 88.4% 69.7%
2kcjA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.63 51.0 3.96e-01 97.7% 74.1%
3fssA02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.63 52.0 4.25e-01 97.7% 82.6%
1wb1A03 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.63 53.0 3.97e-01 100.0% 56.4%
3udcA02 2.30.30.60 Mainly Beta › Roll › SH3 type barrels. › 0.63 48.0 4.69e-01 97.7% 94.0%
4pq0A02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.62 52.0 4.16e-01 97.7% 72.0%
4eg9A00 2.50.20.40 Mainly Beta › Clam › outer membrane lipoprotein receptor (LolB), chain A › 0.61 47.0 2.97e-01 86.0% 23.4%
2q18X01 3.10.330.40 Alpha Beta › Roll › Vcp-like ATPase; Chain A, domain 2 › 0.61 50.0 4.43e-01 100.0% 98.6%
2bf6A02 2.40.220.10 Mainly Beta › Beta Barrel › Intramolecular trans-sialidase; domain 3 › Intramolecular Trans-sialidase; Domain 3 0.60 46.0 4.16e-01 93.0% 86.4%
3f5rA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.60 46.0 3.64e-01 97.7% 73.5%
3wndA03 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.60 51.0 4.03e-01 100.0% 62.8%
3ge2A00 2.40.128.50 Mainly Beta › Beta Barrel › Lipocalin › 0.60 47.0 3.92e-01 97.7% 88.8%
2jwpA00 2.60.120.430 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding lectin 0.59 48.0 3.33e-01 100.0% 55.2%
5umsA02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.59 48.0 3.83e-01 97.7% 70.6%
2zzeA03 2.40.30.130 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › 0.59 46.0 3.75e-01 97.7% 44.9%
3pvlA04 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.58 44.0 3.66e-01 97.7% 77.8%
4bi3A01 3.90.1720.80 Alpha Beta › Alpha-Beta Complex › endopeptidase fold (from Nostoc punctiforme) › 0.58 47.0 3.84e-01 100.0% 50.5%
4hs5A00 3.30.920.10 Alpha Beta › 2-Layer Sandwich › Metal Transport, Frataxin; Chain A › Frataxin/CyaY 0.56 41.0 3.24e-01 83.7% 35.2%
1ekgA00 3.30.920.10 Alpha Beta › 2-Layer Sandwich › Metal Transport, Frataxin; Chain A › Frataxin/CyaY 0.56 39.0 3.06e-01 81.4% 91.6%
7vcnA02 2.60.40.1140 Mainly Beta › Sandwich › Immunoglobulin-like › Collagen-binding surface protein Cna, B-type domain 0.56 41.0 3.22e-01 97.7% 35.0%
1sg5A01 2.30.30.400 Mainly Beta › Roll › SH3 type barrels. › Rof-like 0.54 41.0 3.66e-01 100.0% 68.8%
8p2aA01 3.90.1010.20 Alpha Beta › Alpha-Beta Complex › Sufe protein. Chain: A › 0.54 42.0 3.57e-01 97.7% 98.9%
3hurA01 2.40.37.10 Mainly Beta › Beta Barrel › Lyase, Ornithine Decarboxylase; Chain A, domain 1 › Lyase, Ornithine Decarboxylase; Chain A, domain 1 0.54 44.0 3.09e-01 97.7% 32.3%
1dmlA00 3.70.10.10 Alpha Beta › Box › Proliferating Cell Nuclear Antigen › 0.53 38.0 2.46e-01 83.7% 44.6%
1w2tA02 2.60.120.560 Mainly Beta › Sandwich › Jelly Rolls › Exo-inulinase; domain 1 0.53 42.0 3.13e-01 100.0% 76.1%
2knoA01 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.53 40.0 3.10e-01 88.4% 52.7%
5w7zA01 3.10.150.10 Alpha Beta › Roll › DNA Polymerase III; Chain A, domain 2 › DNA Polymerase III, subunit A, domain 2 0.52 37.0 2.91e-01 81.4% 96.5%
1f2uB00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.51 36.0 2.83e-01 97.7% 42.8%
2yrtA00 4.10.1130.20 Few Secondary Structures › Irregular › btk motif of tyrosine-protein kinase itk › 0.50 36.0 3.17e-01 74.4% 64.0%
ECOD (55)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4991638 11.9.1.1 beta sandwiches › Immunoglobulin-like beta-sandwich › FAH › FAH › FAA_hydrolase 0.80 70.0 4.21e-01 100.0% 27.8%
4867130 4.10.1.0 beta barrels › SH3 › Fumarylacetoacetate hydrolase, FAH, N-terminal domain › Fumarylacetoacetate hydrolase, FAH, N-terminal domain 0.79 70.0 5.10e-01 100.0% 74.8%
5009412 11.9.1.1 beta sandwiches › Immunoglobulin-like beta-sandwich › FAH › FAH › FAA_hydrolase 0.78 68.0 4.17e-01 100.0% 63.1%
3971219 11.9.1.1 beta sandwiches › Immunoglobulin-like beta-sandwich › FAH › FAH › FAA_hydrolase 0.78 64.0 3.97e-01 100.0% 16.4%
3976629 11.9.1.1 beta sandwiches › Immunoglobulin-like beta-sandwich › FAH › FAH › FAA_hydrolase 0.76 66.0 4.02e-01 100.0% 65.0%
4935681 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.72 59.0 5.54e-01 97.7% 89.1%
3529465 101.1.9.4 alpha arrays › HTH › HTH › Putative DNA-binding domain › Ski_Sno 0.71 52.0 3.91e-01 79.1% 82.9%
4927382 11.9.1.1 beta sandwiches › Immunoglobulin-like beta-sandwich › FAH › FAH › FAA_hydrolase 0.69 58.0 3.56e-01 100.0% 67.2%
5058340 1.1.8.0 beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain 0.68 55.0 4.73e-01 100.0% 57.1%
3248163 220.1.1.1 beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.66 54.0 3.91e-01 97.7% 57.1%
3192436 220.1.1.129 beta barrels › PH domain-like › PH domain-like › PH domain-like › Swc3 0.66 55.0 3.75e-01 100.0% 49.1%
3883825 220.1.1.173 beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_CERK 0.65 55.0 4.08e-01 97.7% 77.1%
3412760 220.1.1.0 beta barrels › PH domain-like › PH domain-like › PH domain-like 0.65 55.0 4.19e-01 97.7% 81.9%
5009595 11.9.1.1 beta sandwiches › Immunoglobulin-like beta-sandwich › FAH › FAH › FAA_hydrolase 0.64 57.0 3.46e-01 100.0% 63.1%
3186776 2002.1.1.0 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels 0.64 45.0 2.68e-01 81.4% 9.6%
3253063 220.1.1.8 beta barrels › PH domain-like › PH domain-like › PH domain-like › GRAM 0.64 55.0 4.10e-01 100.0% 64.3%
5012022 1.1.8.0 beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain 0.64 50.0 4.35e-01 100.0% 54.1%
5024153 1.1.8.9 beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain › aSelB_III 0.62 53.0 4.15e-01 100.0% 58.0%
3611221 220.1.1.19 beta barrels › PH domain-like › PH domain-like › PH domain-like › Rttp106-like_middle 0.62 52.0 4.02e-01 97.7% 75.2%
4539117 220.1.1.19 beta barrels › PH domain-like › PH domain-like › PH domain-like › Rttp106-like_middle 0.62 51.0 3.60e-01 97.7% 61.3%
3599169 220.1.1.0 beta barrels › PH domain-like › PH domain-like › PH domain-like 0.62 51.0 3.97e-01 97.7% 71.4%
5031433 220.1.1.0 beta barrels › PH domain-like › PH domain-like › PH domain-like 0.61 50.0 4.00e-01 100.0% 78.0%
3713382 220.1.1.19 beta barrels › PH domain-like › PH domain-like › PH domain-like › Rttp106-like_middle 0.61 51.0 3.95e-01 97.7% 76.2%
4063575 220.1.1.19 beta barrels › PH domain-like › PH domain-like › PH domain-like › Rttp106-like_middle 0.61 51.0 3.87e-01 97.7% 66.1%
4344687 220.1.1.19 beta barrels › PH domain-like › PH domain-like › PH domain-like › Rttp106-like_middle 0.61 50.0 3.89e-01 97.7% 88.6%
3453949 219.1.1.0 a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases 0.61 51.0 3.12e-01 100.0% 17.2%
3438163 4135.1.1.1 beta duplicates or obligate multimers › MAL13P1.257-like › MAL13P1.257-like › MAL13P1.257-like › CXXC_Zn-b_euk 0.61 52.0 3.51e-01 100.0% 58.8%
3593931 220.1.1.0 beta barrels › PH domain-like › PH domain-like › PH domain-like 0.61 48.0 3.44e-01 97.7% 46.9%
4067146 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.61 49.0 4.87e-01 93.0% 95.6%
4019290 220.1.1.19 beta barrels › PH domain-like › PH domain-like › PH domain-like › Rttp106-like_middle 0.61 50.0 3.75e-01 97.7% 63.3%
3607882 220.1.1.0 beta barrels › PH domain-like › PH domain-like › PH domain-like 0.61 48.0 3.76e-01 97.7% 75.5%
3743110 220.1.1.19 beta barrels › PH domain-like › PH domain-like › PH domain-like › Rttp106-like_middle 0.61 48.0 3.82e-01 97.7% 80.0%
3705577 220.1.1.19 beta barrels › PH domain-like › PH domain-like › PH domain-like › Rttp106-like_middle 0.61 48.0 3.45e-01 97.7% 50.0%
3516743 220.1.1.19 beta barrels › PH domain-like › PH domain-like › PH domain-like › Rttp106-like_middle 0.60 48.0 3.38e-01 97.7% 44.1%
3598862 220.1.1.0 beta barrels › PH domain-like › PH domain-like › PH domain-like 0.60 49.0 3.71e-01 97.7% 76.7%
3468148 219.1.1.0 a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases 0.60 50.0 3.31e-01 100.0% 27.7%
3436173 219.1.1.0 a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases 0.60 49.0 3.00e-01 100.0% 16.9%
3888557 214.1.1.7 a+b two layers › SH2 › SH2 › SH2 › SH2_1 0.60 46.0 3.34e-01 88.4% 52.3%
134104 9.1.1.22 beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins › DUF3642 0.60 47.0 3.92e-01 97.7% 88.8%
4614679 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.60 47.0 4.55e-01 95.3% 100.0%
3823449 219.1.1.3 a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › UCH 0.60 49.0 3.04e-01 100.0% 18.6%
3250883 220.1.1.0 beta barrels › PH domain-like › PH domain-like › PH domain-like 0.59 45.0 3.66e-01 97.7% 79.0%
4481543 220.1.1.150 beta barrels › PH domain-like › PH domain-like › PH domain-like › DUF986 0.59 43.0 3.70e-01 86.0% 88.7%
1142005 1.1.7.40 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › Rep_1B 0.59 44.0 4.22e-01 95.3% 69.8%
4031797 375.1.1.47 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › BshC 0.58 45.0 4.36e-01 97.7% 98.2%
4389625 375.1.1.47 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › BshC 0.58 47.0 4.41e-01 95.3% 90.9%
1489671 375.1.1.47 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › BshC 0.57 44.0 4.25e-01 97.7% 92.9%
4120366 375.1.1.47 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › BshC 0.57 45.0 4.31e-01 95.3% 92.7%
3571636 206.1.3.35 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › DUF5565 0.56 48.0 3.02e-01 100.0% 30.7%
5030235 212.1.1.3 a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › GHMP_kinases_N 0.56 45.0 2.92e-01 95.3% 29.1%
4239498 375.1.1.47 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › BshC 0.55 43.0 4.13e-01 100.0% 96.4%
4203469 375.1.1.47 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › BshC 0.54 45.0 4.26e-01 100.0% 90.9%
4123157 375.1.1.47 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › BshC 0.53 41.0 3.98e-01 100.0% 90.9%
4494270 2498.1.1.2 mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › Astacin 0.53 42.0 2.76e-01 100.0% 71.6%
3535755 214.1.1.0 a+b two layers › SH2 › SH2 › SH2 0.52 38.0 2.82e-01 86.0% 32.1%
D2 high residues 93-168
PDB
CATH (11)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
5cvmA00 3.90.70.10 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases 0.59 51.0 3.47e-01 100.0% 52.6%
4r3dA03 2.60.120.1680 Mainly Beta › Sandwich › Jelly Rolls › 0.56 49.0 4.10e-01 100.0% 71.5%
4cclA02 3.40.366.30 Alpha Beta › 3-Layer(aba) Sandwich › Malonyl-Coenzyme A Acyl Carrier Protein; domain 2 › 50S ribosomal protein L16 arginine hydroxylase; Chain A, Domain 2 0.55 40.0 3.16e-01 77.6% 51.8%
5ixcA01 3.40.1090.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytosolic phospholipase A2 catalytic domain › Cytosolic phospholipase A2 catalytic domain 0.54 45.0 2.89e-01 100.0% 55.6%
3jb9F00 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.52 39.0 3.89e-01 81.6% 82.9%
4pavB00 3.10.180.10 Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 0.51 29.0 2.48e-01 98.7% 30.5%
4f7uG00 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.51 40.0 4.15e-01 85.5% 95.6%
4hs5A00 3.30.920.10 Alpha Beta › 2-Layer Sandwich › Metal Transport, Frataxin; Chain A › Frataxin/CyaY 0.51 38.0 3.46e-01 81.6% 65.7%
1vkdA00 2.115.10.20 Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 0.50 40.0 2.74e-01 92.1% 64.1%
5teqA01 3.30.470.110 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › 0.50 42.0 3.16e-01 100.0% 45.5%
1oruA00 2.40.33.20 Mainly Beta › Beta Barrel › M1 Pyruvate Kinase; Domain 3 › PK beta-barrel domain-like 0.50 44.0 3.38e-01 100.0% 98.9%
ECOD (21)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5036616 4.1.1.13 beta barrels › SH3 › SH3 › SH3 › MS_channel_2nd 0.68 48.0 5.00e-01 75.0% 87.1%
4967397 4.1.1.13 beta barrels › SH3 › SH3 › SH3 › MS_channel_2nd 0.67 47.0 4.98e-01 73.7% 93.8%
3798575 394.1.1.1 few secondary structure elements › Invertebrate chitin-binding proteins › Invertebrate chitin-binding proteins › Invertebrate chitin-binding proteins › CBM_14 0.56 31.0 3.55e-01 73.7% 74.5%
1291570 101.1.2.179 alpha arrays › HTH › HTH › winged helix domain › ROXA-like_wH 0.56 41.0 3.67e-01 77.6% 81.3%
3574157 10.32.1.1 beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › Laminin_B 0.56 48.0 3.75e-01 100.0% 75.0%
3413860 219.1.1.3 a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › UCH 0.56 48.0 3.13e-01 100.0% 48.5%
4647210 5.1.3.28 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › BNR_3 0.56 46.0 2.83e-01 90.8% 29.8%
3247656 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.55 47.0 4.19e-01 96.1% 76.4%
3730941 219.1.1.3 a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › UCH 0.55 46.0 3.05e-01 100.0% 60.0%
4163711 1.1.7.17 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.55 41.0 4.03e-01 81.6% 78.8%
3980228 219.1.1.0 a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases 0.55 46.0 4.04e-01 98.7% 64.8%
3386489 4121.1.1.0 a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like 0.55 41.0 3.18e-01 80.3% 64.7%
4928679 4076.3.1.0 a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.54 28.0 3.30e-01 73.7% 72.0%
3606838 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.53 39.0 3.71e-01 81.6% 71.6%
5008249 304.131.1.0 a+b two layers › Alpha-beta plaits › Phosphonoacetate hydrolase insertion domain › Phosphonoacetate hydrolase insertion domain 0.53 43.0 3.55e-01 89.5% 74.8%
4984958 2004.1.1.87 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SMC_N 0.52 42.0 2.87e-01 96.1% 78.9%
3972267 5.1.5.0 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed 0.51 42.0 2.83e-01 93.4% 71.6%
3240894 206.1.3.0 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp 0.51 39.0 2.81e-01 85.5% 55.5%
223484 241.2.1.1 a+b two layers › Type III secretory system chaperone-like › Frataxin-like › Frataxin-like › Frataxin_Cyay 0.51 38.0 3.46e-01 81.6% 65.7%
4952360 2004.1.1.87 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SMC_N 0.50 41.0 2.69e-01 98.7% 84.6%
3270686 101.1.1.76 alpha arrays › HTH › HTH › Three-helical HTH › Integrase_H2C2 0.50 29.0 2.89e-01 93.4% 50.0%