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KJ534580.1__AHX01121.1__M316_0056__00056

Bact-Vir

KJ534580.1__AHX01121.1__M316_0056__00056

Identity

Accession:
KJ534580 ↗
Kingdom:
phage

Quality

88.9 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Nitrincola_phage_1M3-16

TaxID: 1472912

Cluster

View cluster (5 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 7-69
PDB
Domain cluster: rep: IMGVR_UViG_3300021492_000027-3300021492-Ga0190336_100000264__D5-73
CATH (36)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1c3qA00 3.40.1190.20 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Ribokinase 0.74 57.0 3.64e-01 82.5% 53.9%
4ic1D00 3.90.320.10 Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › 0.71 49.0 3.37e-01 71.4% 26.7%
4r5qA00 3.90.320.10 Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › 0.71 50.0 3.43e-01 74.6% 22.3%
4s1hA00 3.40.1190.20 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Ribokinase 0.67 55.0 3.58e-01 92.1% 51.9%
2x65A00 3.90.550.10 Alpha Beta › Alpha-Beta Complex › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A 0.61 49.0 3.19e-01 93.7% 72.8%
1ir6A02 3.10.310.30 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › 0.61 50.0 3.96e-01 90.5% 55.0%
1a79A01 3.40.1350.10 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.60 43.0 3.73e-01 76.2% 53.0%
3ieyA02 3.40.1350.10 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.60 42.0 3.69e-01 74.6% 51.0%
3n05A01 3.60.110.10 Alpha Beta › 4-Layer Sandwich › Nitrilase/N-carbamoyl-D-aminoacid amidohydrolase › Carbon-nitrogen hydrolase 0.60 52.0 3.38e-01 98.4% 40.3%
3ieyB00 3.40.1350.150 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.60 41.0 3.20e-01 74.6% 33.6%
4cyfA01 3.60.110.10 Alpha Beta › 4-Layer Sandwich › Nitrilase/N-carbamoyl-D-aminoacid amidohydrolase › Carbon-nitrogen hydrolase 0.59 50.0 3.32e-01 100.0% 22.7%
2znrA00 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.58 45.0 3.38e-01 88.9% 84.3%
1tigA00 3.30.110.10 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor IF3 › Translation initiation factor 3 (IF-3), C-terminal domain 0.58 39.0 3.55e-01 71.4% 96.6%
3h4rA00 3.90.320.10 Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › 0.58 43.0 3.02e-01 82.5% 35.6%
2zyzC00 3.40.1350.10 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.57 40.0 3.59e-01 76.2% 54.2%
7d44I01 3.90.550.10 Alpha Beta › Alpha-Beta Complex › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A 0.56 43.0 2.96e-01 88.9% 85.2%
2gu0A02 3.30.428.20 Alpha Beta › 2-Layer Sandwich › HIT family, subunit A › Rotavirus NSP2 fragment, C-terminal domain 0.56 47.0 3.63e-01 98.4% 45.3%
3bfmA01 3.30.930.10 Alpha Beta › 2-Layer Sandwich › BirA Bifunctional Protein; domain 2 › Bira Bifunctional Protein; Domain 2 0.56 45.0 3.45e-01 98.4% 73.7%
2vz8A06 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.56 46.0 3.02e-01 100.0% 79.5%
3vmmA01 3.40.50.20 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.56 47.0 3.80e-01 100.0% 97.0%
1okjB01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.55 45.0 3.69e-01 93.7% 96.9%
1wyzA02 3.30.950.10 Alpha Beta › 2-Layer Sandwich › Methyltransferase, Cobalt-precorrin-4 Transmethylase; Domain 2 › Tetrapyrrole methylase, C-terminal domain 0.55 41.0 3.57e-01 85.7% 80.9%
2f1rA00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.55 44.0 3.35e-01 87.3% 39.2%
2x5nA01 3.40.50.410 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › von Willebrand factor, type A domain 0.55 45.0 3.41e-01 98.4% 43.6%
1hywA00 3.30.1580.10 Alpha Beta › 2-Layer Sandwich › Head-to-tail joining protein W, gpW › Head-to-tail joining protein W 0.55 38.0 3.96e-01 76.2% 84.5%
4meaA00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.55 47.0 3.03e-01 100.0% 25.0%
3qz1D00 1.10.630.10 Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450 0.54 46.0 2.84e-01 100.0% 64.3%
1go4A00 3.30.900.10 Alpha Beta › 2-Layer Sandwich › Cell Cycle, Spindle Assembly Checkpoint Protein; Chain A › HORMA domain 0.54 43.0 2.99e-01 85.7% 29.1%
1gefA00 3.40.1350.10 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.54 45.0 3.71e-01 96.8% 51.7%
3lmmA03 3.30.565.60 Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › 0.54 46.0 3.42e-01 100.0% 42.7%
4htyA00 3.20.20.80 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases 0.53 45.0 2.87e-01 95.2% 26.7%
3r3pB00 3.40.960.10 Alpha Beta › 3-Layer(aba) Sandwich › Endonuclease; Chain A › VSR Endonuclease 0.53 43.0 3.78e-01 92.1% 78.6%
4be9B00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.52 41.0 2.44e-01 87.3% 35.6%
3lfjB00 3.40.35.10 Alpha Beta › 3-Layer(aba) Sandwich › Fructose Permease › Phosphotransferase system, sorbose subfamily IIB component 0.52 40.0 3.07e-01 88.9% 38.6%
1gsaA01 3.40.50.20 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.51 38.0 3.16e-01 84.1% 53.9%
1bleA00 3.40.35.10 Alpha Beta › 3-Layer(aba) Sandwich › Fructose Permease › Phosphotransferase system, sorbose subfamily IIB component 0.50 37.0 2.91e-01 84.1% 42.2%
ECOD (43)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3348902 109.4.1.1291 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, PPR_3, DYW_deaminase, E_motif 0.73 49.0 2.83e-01 71.4% 7.7%
3302114 109.4.1.619 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › DYW_deaminase 0.71 53.0 4.15e-01 90.5% 37.0%
3321758 109.4.1.1285 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, DYW_deaminase, Eplus_motif, E_motif 0.71 49.0 2.80e-01 79.4% 7.6%
3681440 109.4.1.1267 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, DYW_deaminase, E_motif 0.70 52.0 3.01e-01 84.1% 9.0%
3643646 109.4.1.2680 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, DYW_deaminase, TPR_24 0.70 51.0 3.07e-01 85.7% 11.9%
3346510 109.4.1.1291 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, PPR_3, DYW_deaminase, E_motif 0.70 49.0 2.83e-01 84.1% 7.8%
3318145 109.4.1.1521 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, DYW_deaminase, Eplus_motif, E_motif 0.70 51.0 3.37e-01 85.7% 18.8%
3837823 109.4.1.1383 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, PPR_3, DYW_deaminase, Eplus_motif, E_motif 0.70 52.0 2.94e-01 87.3% 7.3%
None — 0.70 52.0 4.08e-01 90.5% 37.0%
3651804 109.4.1.1520 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, DYW_deaminase, E_motif 0.70 51.0 3.02e-01 87.3% 9.8%
3677917 109.3.1.320 ↗ alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat › DYW_deaminase 0.70 51.0 4.03e-01 85.7% 37.0%
3369165 109.4.1.1525 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, DYW_deaminase 0.69 50.0 3.29e-01 87.3% 17.5%
3648991 2492.1.1.39 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › DYW_deaminase 0.69 51.0 4.04e-01 85.7% 38.5%
3371543 109.4.1.1599 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, DYW_deaminase 0.69 49.0 3.20e-01 85.7% 17.1%
3829181 109.4.1.2332 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR_2, DYW_deaminase 0.69 51.0 3.21e-01 85.7% 14.6%
3807903 109.4.1.2208 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, DYW_deaminase, Eplus_motif, E_motif, TPR_24 0.68 50.0 2.86e-01 81.0% 8.0%
3678845 109.4.1.1267 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, DYW_deaminase, E_motif 0.68 49.0 2.85e-01 87.3% 7.8%
3975571 219.1.1.8 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › NLPC_P60 0.67 56.0 3.97e-01 92.1% 86.8%
5038176 2008.2.1.1 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › tRNA-intron endonuclease catalytic domain-like › tRNA-intron endonuclease catalytic domain-like › tRNA_int_endo 0.66 45.0 4.26e-01 76.2% 57.7%
3727336 2006.1.6.0 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like 0.65 55.0 3.65e-01 98.4% 33.2%
3677688 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.64 54.0 4.08e-01 93.7% 72.7%
4979123 2004.1.1.97 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › MobB 0.63 37.0 2.68e-01 93.7% 19.4%
4081638 2008.2.1.1 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › tRNA-intron endonuclease catalytic domain-like › tRNA-intron endonuclease catalytic domain-like › tRNA_int_endo 0.63 43.0 3.58e-01 73.0% 65.8%
3368873 2008.2.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › tRNA-intron endonuclease catalytic domain-like › tRNA-intron endonuclease catalytic domain-like 0.61 43.0 3.51e-01 76.2% 38.4%
3582144 2008.2.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › tRNA-intron endonuclease catalytic domain-like › tRNA-intron endonuclease catalytic domain-like 0.60 41.0 3.52e-01 79.4% 42.6%
4953465 109.4.1.5 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_1 0.59 48.0 3.49e-01 93.7% 31.8%
3980132 823.1.1.1 ↗ a+b two layers › Head-to-tail joining protein W, gpW › Head-to-tail joining protein W, gpW › Head-to-tail joining protein W, gpW › gpW 0.59 44.0 4.67e-01 81.0% 92.7%
4282186 7514.1.1.1 ↗ a/b three-layered sandwiches › Ferredoxin reductase-like, C-terminal NADP-linked domain › Ferredoxin reductase-like, C-terminal NADP-linked domain › Ferredoxin reductase-like, C-terminal NADP-linked domain › NAD_binding_1 0.57 47.0 3.57e-01 95.2% 82.4%
3277900 3105.1.1.3 ↗ a+b three layers › thylakoid acid phosphatase domain-related › thylakoid acid phosphatase domain-related › thylakoid acid phosphatase domain-related › DUF6676 0.57 48.0 3.94e-01 96.8% 50.0%
4973217 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.57 32.0 2.85e-01 74.6% 41.2%
3905461 148.1.3.371 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › BTB 0.57 44.0 3.73e-01 90.5% 67.5%
4938924 4146.1.1.0 ↗ alpha bundles › YqgQ-like › YqgQ-like › YqgQ-like 0.56 43.0 4.00e-01 85.7% 100.0%
5072012 2008.1.1.3 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Hjc 0.56 38.0 3.48e-01 71.4% 53.3%
5064817 2004.1.1.97 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › MobB 0.56 44.0 3.44e-01 87.3% 45.0%
5054173 2003.6.1.4 ↗ a/b three-layered sandwiches › Rossmann-like › Ribokinase-like › Ribokinase-like › ADP_PFK_GK 0.55 48.0 2.98e-01 96.8% 24.9%
3604204 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.54 44.0 3.30e-01 95.2% 95.0%
1721777 2006.1.4.11 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › PRORP 0.54 44.0 3.17e-01 90.5% 38.3%
4973244 2004.1.1.97 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › MobB 0.53 42.0 3.21e-01 90.5% 95.1%
5029986 3261.1.1.0 ↗ a+b two layers › amino-terminal domain of OmpATb › amino-terminal domain of OmpATb › amino-terminal domain of OmpATb 0.52 37.0 3.93e-01 85.7% 85.5%
4967749 2004.1.1.97 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › MobB 0.52 42.0 3.26e-01 88.9% 96.4%
4995435 2004.1.1.97 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › MobB 0.51 43.0 3.21e-01 95.2% 78.8%
4033553 304.26.1.1 ↗ a+b two layers › Alpha-beta plaits › MTH1187/YkoF-like › MTH1187/YkoF-like › Thiamine_BP 0.51 40.0 3.39e-01 87.3% 51.4%
3996858 2485.1.1.1 ↗ a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like › Thioredoxin 0.50 35.0 3.52e-01 74.6% 83.1%