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NC_054454.1__YP_010052261.1__KD933_gp54__00054

Bact-Vir

NC_054454.1__YP_010052261.1__KD933_gp54__00054

Identity

Accession:
NC_054454 ↗
Kingdom:
phage

Quality

90.7 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Charlievirus› Mycobacterium_phage_Rebel

TaxID: 2743932

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 8-74
PDB
Domain cluster: representative
CATH (38)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4nkbB02 3.30.1120.130 Alpha Beta › 2-Layer Sandwich › Arylsulfatase, C-terminal domain › 0.73 59.0 5.36e-01 100.0% 66.7%
4kt3B00 3.10.450.170 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › type vi secretion system effector-immunity co pseudomonas protegens 0.72 51.0 4.06e-01 74.6% 47.7%
3eb8B01 3.10.450.460 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › EspG protein, N-terminal domain 0.70 48.0 5.00e-01 71.6% 85.2%
3fgbA00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.65 55.0 3.49e-01 95.5% 73.1%
4hs5A00 3.30.920.10 Alpha Beta › 2-Layer Sandwich › Metal Transport, Frataxin; Chain A › Frataxin/CyaY 0.64 42.0 3.69e-01 83.6% 43.8%
7x36A01 2.120.10.30 Mainly Beta › 6 Propeller › Neuraminidase › TolB, C-terminal domain 0.64 54.0 3.50e-01 95.5% 68.6%
6l4lA02 3.10.310.10 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › Diaminopimelate Epimerase; Chain A, domain 1 0.64 54.0 4.36e-01 97.0% 76.5%
4bhrA00 3.30.1300.70 Alpha Beta › 2-Layer Sandwich › Pantoate--beta-alanine Ligase; Chain: A,domain 2 › 0.62 43.0 4.07e-01 71.6% 66.7%
2w5qA01 3.30.1120.170 Alpha Beta › 2-Layer Sandwich › Arylsulfatase, C-terminal domain › 0.62 44.0 4.05e-01 100.0% 55.9%
4amcA01 2.30.30.20 Mainly Beta › Roll › SH3 type barrels. › Aspartate carbamoyltransferase regulatory subunit, C-terminal domain 0.62 32.0 3.63e-01 76.1% 65.2%
1r75A00 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.60 45.0 3.80e-01 79.1% 86.4%
4u7aA00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.60 50.0 3.17e-01 92.5% 55.1%
2gumB03 2.30.29.100 Mainly Beta › Roll › PH-domain like › 0.60 41.0 3.41e-01 71.6% 90.1%
1twfI02 2.20.25.10 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › 0.60 42.0 4.08e-01 74.6% 90.8%
1cdwA02 3.30.310.10 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › TATA-Binding Protein 0.59 46.0 4.31e-01 95.5% 67.4%
1z1bA01 3.30.160.60 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Classic Zinc Finger 0.59 33.0 3.61e-01 88.1% 64.9%
2i50A00 3.30.40.10 Alpha Beta › 2-Layer Sandwich › Herpes Virus-1 › Zinc/RING finger domain, C3HC4 (zinc finger) 0.59 50.0 4.18e-01 97.0% 91.0%
1aisA02 3.30.310.10 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › TATA-Binding Protein 0.57 45.0 4.21e-01 91.0% 67.8%
4msxA01 3.30.40.10 Alpha Beta › 2-Layer Sandwich › Herpes Virus-1 › Zinc/RING finger domain, C3HC4 (zinc finger) 0.56 48.0 4.31e-01 95.5% 93.5%
1upsA02 2.80.10.50 Mainly Beta › Trefoil › Trefoil (Acidic Fibroblast Growth Factor, subunit A) › 0.56 43.0 3.43e-01 82.1% 97.7%
1hyrC01 3.30.500.10 Alpha Beta › 2-Layer Sandwich › Murine Class I Major Histocompatibility Complex, H2-DB; Chain A, domain 1 › MHC class I-like antigen recognition-like 0.56 45.0 3.41e-01 92.5% 73.3%
2kheA00 3.30.2310.20 Alpha Beta › 2-Layer Sandwich › YaeB-like fold › RelE-like 0.56 38.0 3.53e-01 71.6% 62.9%
1qnaA01 3.30.310.10 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › TATA-Binding Protein 0.56 44.0 3.98e-01 94.0% 63.4%
4dw8A01 3.40.50.1000 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HAD superfamily/HAD-like 0.55 48.0 3.71e-01 100.0% 78.1%
5chtB00 3.90.70.10 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases 0.55 44.0 2.90e-01 89.6% 92.0%
3imoC00 3.30.920.70 Alpha Beta › 2-Layer Sandwich › Metal Transport, Frataxin; Chain A › 0.54 41.0 3.60e-01 83.6% 59.8%
1ex0B02 3.90.260.10 Alpha Beta › Alpha-Beta Complex › Coagulation Factor XIII; Chain A, domain 2 › Transglutaminase-like 0.54 46.0 3.04e-01 100.0% 30.2%
4mtnA01 3.30.1480.10 Alpha Beta › 2-Layer Sandwich › N Utilization Substance Protein A; Chain:P; domain 4 › NusA, N-terminal domain 0.54 43.0 3.94e-01 94.0% 67.4%
7uzsX02 3.90.260.10 Alpha Beta › Alpha-Beta Complex › Coagulation Factor XIII; Chain A, domain 2 › Transglutaminase-like 0.53 44.0 2.97e-01 97.0% 84.1%
1kcgC00 3.30.500.10 Alpha Beta › 2-Layer Sandwich › Murine Class I Major Histocompatibility Complex, H2-DB; Chain A, domain 1 › MHC class I-like antigen recognition-like 0.52 43.0 3.37e-01 100.0% 41.8%
2yztA00 3.30.160.250 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.52 40.0 4.11e-01 100.0% 87.9%
3mhsA01 3.30.40.10 Alpha Beta › 2-Layer Sandwich › Herpes Virus-1 › Zinc/RING finger domain, C3HC4 (zinc finger) 0.51 40.0 3.33e-01 86.6% 74.0%
2kb3A01 2.60.200.20 Mainly Beta › Sandwich › Tumour Suppressor Smad4 › 0.51 42.0 3.50e-01 91.0% 72.5%
3s6gA02 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.51 40.0 3.21e-01 89.6% 58.9%
2aj6A00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.51 44.0 3.70e-01 100.0% 92.5%
2pn2A00 3.30.300.20 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › K homology (KH) domain 0.51 42.0 3.41e-01 95.5% 51.8%
2de6A02 2.20.25.680 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › 0.51 34.0 3.57e-01 97.0% 82.8%
1z01A02 2.20.25.680 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › 0.50 34.0 3.51e-01 94.0% 78.7%
ECOD (58)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3935829 386.1.1.4 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › zf-BED 0.74 36.0 3.86e-01 83.6% 52.5%
4938289 298.1.1.0 ↗ a+b two layers › FwdE/GAPDH domain-like › Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain › Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain 0.73 51.0 3.46e-01 73.1% 78.3%
3806421 247.1.1.38 ↗ a+b four layers › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › CPSF73-100_C 0.72 47.0 4.81e-01 85.1% 69.2%
3400447 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.68 43.0 2.91e-01 100.0% 19.3%
4927858 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.67 49.0 5.29e-01 77.6% 100.0%
3781848 247.1.1.38 ↗ a+b four layers › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › CPSF73-100_C 0.64 45.0 4.48e-01 91.0% 70.0%
3262963 376.1.4.1 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › Ariadne-1 protein homolog › IBR 0.64 38.0 4.13e-01 70.1% 72.7%
3263503 331.4.1.9 ↗ a+b two layers › TBP-like › Kinase associated domain 1, KA1 › Kinase associated domain 1, KA1 › CPSF73-100_C 0.63 45.0 4.38e-01 86.6% 66.7%
3984091 3180.1.1.1 ↗ a+b two layers › LEE-encoded effector EspG N-terminal domain-related › LEE-encoded effector EspG N-terminal domain-related › LEE-encoded effector EspG N-terminal domain-related › EspG 0.63 53.0 4.55e-01 92.5% 61.9%
3503411 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.63 33.0 3.82e-01 79.1% 73.3%
3847020 5.1.5.75 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed › WD40, ANAPC4_WD40 0.62 52.0 3.29e-01 92.5% 61.1%
3556708 247.1.1.38 ↗ a+b four layers › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › CPSF73-100_C 0.62 46.0 4.46e-01 88.1% 69.3%
3403609 247.1.1.38 ↗ a+b four layers › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › CPSF73-100_C 0.62 43.0 4.11e-01 85.1% 62.0%
3670829 5.1.3.144 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › b-prop_At3g26010-like 0.61 50.0 3.26e-01 92.5% 60.9%
3584741 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.61 33.0 3.82e-01 82.1% 73.3%
4815507 4357.1.1.1 ↗ beta barrels › WWE domain › WWE domain › WWE domain › WWE 0.61 44.0 4.02e-01 85.1% 59.3%
3860784 376.1.6.2 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › IBR domain › IBR_1 0.61 39.0 3.98e-01 73.1% 67.7%
5004274 331.1.1.0 ↗ a+b two layers › TBP-like › TATA-box binding protein-like › TATA-box binding protein-like 0.60 47.0 4.62e-01 94.0% 78.7%
4239781 3006.1.1.6 ↗ a+b two layers › Sm-Like archaeal protein Smap3, C-terminal domain › Sm-Like archaeal protein Smap3, C-terminal domain › Sm-Like archaeal protein Smap3, C-terminal domain › CPSF73-100_C 0.60 45.0 4.45e-01 91.0% 74.3%
3566795 386.1.1.64 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › zf-C2H2_12 0.60 35.0 3.48e-01 82.1% 52.9%
3622446 4357.1.1.1 ↗ beta barrels › WWE domain › WWE domain › WWE domain › WWE 0.60 43.0 4.30e-01 91.0% 71.4%
3798336 4357.1.1.0 ↗ beta barrels › WWE domain › WWE domain › WWE domain 0.60 41.0 4.05e-01 85.1% 64.3%
3660442 219.1.1.3 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › UCH 0.59 49.0 3.20e-01 94.0% 90.2%
3254426 5.1.2.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 5-bladed 0.59 44.0 3.57e-01 82.1% 66.7%
3906050 386.1.1.64 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › zf-C2H2_12 0.59 34.0 3.45e-01 82.1% 55.2%
3175626 331.1.1.13 ↗ a+b two layers › TBP-like › TATA-box binding protein-like › TATA-box binding protein-like › CPSF73-100_C 0.58 44.0 4.29e-01 85.1% 72.0%
4017381 331.4.1.9 ↗ a+b two layers › TBP-like › Kinase associated domain 1, KA1 › Kinase associated domain 1, KA1 › CPSF73-100_C 0.58 48.0 4.15e-01 91.0% 74.3%
1033396 243.4.1.1 ↗ a+b two layers › Cystatin-like › DsbC/DsbG N-terminal domain-like › DsbC/DsbG N-terminal domain-like › DsbC_N 0.58 47.0 4.57e-01 89.6% 100.0%
3538735 376.1.1.5 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › zf-UBP 0.58 49.0 4.12e-01 97.0% 90.8%
3577814 376.1.1.5 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › zf-UBP 0.58 49.0 4.84e-01 97.0% 94.3%
3750501 376.1.6.1 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › IBR domain › IBR 0.57 38.0 3.77e-01 76.1% 65.7%
3490378 331.4.1.9 ↗ a+b two layers › TBP-like › Kinase associated domain 1, KA1 › Kinase associated domain 1, KA1 › CPSF73-100_C 0.57 42.0 3.97e-01 85.1% 65.0%
3619550 376.1.1.5 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › zf-UBP 0.57 49.0 4.12e-01 97.0% 92.2%
3843142 376.1.1.5 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › zf-UBP 0.57 48.0 3.87e-01 95.5% 82.2%
3163931 219.1.1.79 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › Transglut_core2 0.56 44.0 3.42e-01 86.6% 44.5%
3998218 376.1.1.5 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › zf-UBP 0.56 47.0 3.71e-01 95.5% 87.8%
3763497 4.1.1.54 ↗ beta barrels › SH3 › SH3 › SH3 › SH3_2 0.55 40.0 3.86e-01 76.1% 89.3%
4336238 241.2.1.1 ↗ a+b two layers › Type III secretory system chaperone-like › Frataxin-like › Frataxin-like › Frataxin_Cyay 0.55 38.0 3.45e-01 86.6% 50.0%
3481222 376.1.1.0 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box 0.55 45.0 4.13e-01 91.0% 91.1%
3255441 376.1.1.5 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › zf-UBP 0.55 43.0 3.48e-01 85.1% 78.3%
3809821 219.1.1.3 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › UCH 0.55 45.0 2.92e-01 94.0% 91.3%
3718492 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.55 45.0 3.20e-01 100.0% 77.6%
3237904 376.1.1.5 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › zf-UBP 0.55 47.0 4.34e-01 95.5% 95.3%
3377025 219.1.1.3 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › UCH 0.54 45.0 2.94e-01 94.0% 92.1%
3906547 376.1.1.5 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › zf-UBP 0.54 42.0 3.51e-01 85.1% 83.3%
4269649 241.2.1.1 ↗ a+b two layers › Type III secretory system chaperone-like › Frataxin-like › Frataxin-like › Frataxin_Cyay 0.54 41.0 3.56e-01 85.1% 56.4%
3503689 331.1.1.1 ↗ a+b two layers › TBP-like › TATA-box binding protein-like › TATA-box binding protein-like › TBP 0.54 46.0 3.93e-01 95.5% 67.3%
3333592 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.53 43.0 2.99e-01 86.6% 34.1%
3739664 247.1.1.38 ↗ a+b four layers › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › CPSF73-100_C 0.53 41.0 4.12e-01 98.5% 81.4%
1507759 376.1.1.5 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › zf-UBP 0.52 41.0 3.32e-01 86.6% 70.9%
2132 6.1.1.0 ↗ beta duplicates or obligate multimers › beta-Trefoil › beta-Trefoil › beta-Trefoil 0.52 41.0 3.31e-01 86.6% 97.7%
3891437 376.1.6.1 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › IBR domain › IBR 0.52 33.0 3.55e-01 70.1% 78.2%
3342083 5.1.3.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed 0.52 44.0 2.94e-01 98.5% 91.2%
3619889 331.23.1.7 ↗ a+b two layers › TBP-like › Integrator IntS9/IntS11 C-terminal domain › Integrator IntS9/IntS11 C-terminal domain › CPSF73-100_C 0.51 43.0 4.29e-01 95.5% 95.7%
3992641 331.4.1.9 ↗ a+b two layers › TBP-like › Kinase associated domain 1, KA1 › Kinase associated domain 1, KA1 › CPSF73-100_C 0.51 43.0 4.26e-01 95.5% 94.3%
3262703 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.51 34.0 3.82e-01 100.0% 94.0%
3832604 219.1.1.0 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases 0.51 39.0 2.28e-01 86.6% 48.2%
3614286 219.1.1.3 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › UCH 0.50 41.0 2.71e-01 97.0% 92.1%