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AP018399.1__BBA65481.1__X__00333

Bact-Vir

AP018399.1__BBA65481.1__X__00333

Identity

Accession:
AP018399 ↗
Kingdom:
phage

Quality

78.7 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Xanthomonas_phage_XacN1

TaxID: 2042251

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 5-109_304-319
PDB
Domain cluster: representative
CATH (34)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1okjB01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.74 61.0 6.00e-01 100.0% 81.1%
4h0oA02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.72 59.0 4.90e-01 86.8% 96.1%
6ioyC02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.72 59.0 4.91e-01 86.8% 96.0%
2ivnA02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.72 50.0 4.57e-01 71.9% 100.0%
2e2oA02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.71 50.0 4.45e-01 71.9% 98.8%
1z05A03 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.71 50.0 4.49e-01 73.6% 97.6%
2a6aB01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.71 57.0 5.76e-01 100.0% 85.7%
2yhwA02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.70 50.0 4.49e-01 72.7% 98.2%
3khyA02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.70 57.0 4.85e-01 86.8% 96.9%
7rheA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.69 52.0 4.56e-01 77.7% 93.1%
3js6A01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.68 62.0 5.21e-01 100.0% 94.6%
3bexA02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.68 48.0 5.01e-01 72.7% 100.0%
1sz2A02 3.40.367.20 Alpha Beta › 3-Layer(aba) Sandwich › Hexokinase; domain 1 › 0.67 47.0 3.97e-01 71.9% 85.0%
5f7qC02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.66 49.0 4.36e-01 76.9% 92.3%
4c23B01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.66 47.0 3.79e-01 74.4% 98.3%
2qxlB01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.66 60.0 5.79e-01 100.0% 94.8%
1zc6B01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.64 57.0 5.54e-01 100.0% 91.2%
2qm1B01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.63 56.0 5.27e-01 100.0% 92.8%
2q2rA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.63 57.0 5.12e-01 100.0% 80.8%
1z05A02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.62 56.0 5.18e-01 100.0% 88.3%
2aa4A01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.62 55.0 5.35e-01 100.0% 97.8%
5b1hA01 3.40.50.1100 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.62 51.0 4.34e-01 90.1% 79.0%
3htvA02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.61 48.0 4.40e-01 86.8% 87.5%
3r8eA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.61 53.0 5.15e-01 100.0% 98.6%
3lm2A02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.58 49.0 4.82e-01 97.5% 88.2%
2o18A00 3.10.520.10 Alpha Beta › Roll › T-fold › ApbE-like domains 0.56 39.0 2.93e-01 71.9% 63.8%
3vvlA01 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.55 50.0 3.85e-01 100.0% 81.6%
1pz1A00 3.20.20.100 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › NADP-dependent oxidoreductase domain 0.54 45.0 3.35e-01 90.9% 82.8%
3ossC00 2.30.30.830 Mainly Beta › Roll › SH3 type barrels. › 0.54 28.0 3.68e-01 99.2% 92.3%
8b4hA01 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.54 48.0 4.36e-01 96.7% 95.1%
1lvoA02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.52 27.0 3.05e-01 94.2% 63.6%
3pm6A00 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.51 42.0 3.26e-01 90.9% 81.5%
3eafA01 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.51 45.0 3.83e-01 100.0% 74.4%
1milA00 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.50 32.0 3.46e-01 72.7% 75.0%
ECOD (35)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5006680 2484.1.1.80 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › HypF_C 0.79 64.0 6.61e-01 86.8% 89.6%
4329721 2484.1.1.80 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › HypF_C 0.77 62.0 6.38e-01 86.8% 87.8%
3602255 2484.1.1.30 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Carbam_trans_N 0.77 61.0 6.74e-01 84.3% 100.0%
4995262 2484.1.1.80 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › HypF_C 0.76 64.0 6.28e-01 90.1% 82.3%
3942429 2484.1.1.12 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Acetate_kinase 0.73 60.0 4.99e-01 86.8% 93.2%
3604487 2484.1.1.30 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Carbam_trans_N 0.73 60.0 5.52e-01 86.0% 95.3%
5081740 2484.1.1.342 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › PF29288 0.71 57.0 5.14e-01 99.2% 62.4%
3258315 2484.1.1.21 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › BcrAD_BadFG 0.69 63.0 5.99e-01 100.0% 97.1%
3596544 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.68 49.0 5.20e-01 73.6% 100.0%
3278014 2484.1.1.8 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › ROK 0.68 55.0 4.73e-01 86.8% 98.4%
5040575 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.68 56.0 5.67e-01 99.2% 88.3%
3284182 2484.1.1.21 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › BcrAD_BadFG 0.67 61.0 4.57e-01 100.0% 98.6%
4966052 2484.1.1.8 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › ROK 0.67 60.0 5.69e-01 100.0% 97.2%
3879695 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.66 60.0 5.61e-01 100.0% 92.0%
3220848 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.66 60.0 5.76e-01 100.0% 97.1%
3504213 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.65 59.0 5.69e-01 100.0% 95.7%
4144736 2484.1.1.37 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Pan_kinase 0.65 53.0 5.50e-01 86.8% 100.0%
4355789 2484.1.1.8 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › ROK 0.65 45.0 4.21e-01 72.7% 99.4%
4264673 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.64 54.0 5.48e-01 100.0% 92.5%
4393186 4263.2.1.1 ↗ a+b two layers › TTHA1528-like › FtsH Periplasmic Domain › FtsH Periplasmic Domain › FtsH_ext 0.62 27.0 3.54e-01 75.2% 72.3%
4626818 2484.1.1.37 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Pan_kinase 0.62 49.0 5.26e-01 84.3% 100.0%
3877310 2004.1.1.250 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Kinesin,Microtub_bd 0.60 46.0 3.01e-01 81.0% 60.7%
3765436 2004.1.1.250 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Kinesin,Microtub_bd 0.58 45.0 3.30e-01 84.3% 95.7%
3838561 3454.1.1.0 ↗ beta barrels › GspC HR domain/PilP-like › GspC HR domain/PilP-like › GspC HR domain/PilP-like 0.57 31.0 4.08e-01 95.9% 100.0%
4986732 331.16.1.1 ↗ a+b two layers › TBP-like › TA0095-like › TA0095-like › DUF5611 0.56 27.0 3.47e-01 94.2% 78.6%
3237099 207.1.1.81 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › FTH 0.56 41.0 3.32e-01 76.9% 47.3%
3244220 207.1.1.81 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › FTH 0.55 40.0 3.30e-01 75.2% 43.8%
3910768 2004.1.1.152 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › KAP_NTPase 0.55 38.0 3.11e-01 71.9% 57.8%
3843531 214.1.1.1 ↗ a+b two layers › SH2 › SH2 › SH2 › SH2 0.54 34.0 3.70e-01 73.6% 76.0%
3980375 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.53 40.0 2.98e-01 81.0% 91.9%
5001411 7515.1.1.6 ↗ a/b three-layered sandwiches › Alkaline phosphatase-like › Alkaline phosphatase-like › Alkaline phosphatase-like › Phosphodiest 0.53 39.0 2.77e-01 76.9% 53.5%
5039538 246.2.1.1 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › Metallo-dependent phosphatases › Metallo-dependent phosphatases › Metallophos 0.53 40.0 3.25e-01 82.6% 74.8%
4023933 2004.1.1.29 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › DEAD 0.51 37.0 3.07e-01 75.2% 56.8%
3088594 2003.1.1.5 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › ADH_zinc_N 0.51 41.0 3.63e-01 86.8% 82.6%
5030895 7516.1.1.0 ↗ a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases 0.50 38.0 2.91e-01 100.0% 32.7%
D2 high residues 143-300
PDB
Domain cluster: rep: MT408532.1__QJT70214.1__SynMITS9220M01_208__00198__D458-586
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF02543.22 best Carbam_trans_N 50.5 3.10e-13 98.1% 33.8%
D3 medium residues 332-393_494-541
PDB
Domain cluster: rep: IMGVR_UViG_3300026195_000272-3300026195-Ga0209312_10048872__D381-437_551-587
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF16861.11 best Carbam_trans_C 33.2 5.20e-08 30.0% 18.8%
D4 medium residues 394-493
PDB
Domain cluster: rep: IMGVR_UViG_3300000164_000245-3300000164-SI39no09_200mDRAFT_10061419__D1-116
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF16861.11 best Carbam_trans_C 107.4 8.30e-31 100.0% 55.9%
D5 medium residues 542-648
PDB
D6 medium residues 649-765
PDB