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MN313256.1__QGJ84312.1__X__00026

Bact-Vir

MN313256.1__QGJ84312.1__X__00026

Identity

Accession:
MN313256 ↗
Kingdom:
phage

Quality

82.8 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pseudoalteromonas_phage_XCL1123

TaxID: 2655003

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 6-85
PDB
Domain cluster: rep: OR475272.1__WNM67085.1__SEA_SCHOMBER_64__00064__D3-92
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF01807.26 best Zn_ribbon_DnaG 114.7 2.00e-33 100.0% 79.6%
CATH (25)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1d0qA00 3.90.580.10 Alpha Beta › Alpha-Beta Complex › DNA Primase; Chain A › Zinc finger, CHC2-type domain 0.98 95.0 8.54e-01 100.0% 78.4%
2arhA01 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.60 42.0 3.43e-01 73.8% 60.8%
2p12A01 2.40.380.10 Mainly Beta › Beta Barrel › FomD barrel-like fold › FomD-like 0.58 45.0 3.67e-01 86.3% 75.2%
5h4eA02 3.30.920.50 Alpha Beta › 2-Layer Sandwich › Metal Transport, Frataxin; Chain A › Beta-1,3-glucanase, C-terminal domain 0.58 48.0 4.27e-01 95.0% 86.6%
5zx8A00 3.40.50.1470 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Peptidyl-tRNA hydrolase 0.57 47.0 3.71e-01 93.8% 93.5%
3wndA01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.55 47.0 3.73e-01 96.2% 74.4%
4ixjA02 3.30.1690.20 Alpha Beta › 2-Layer Sandwich › TcpA-like pilin › 0.55 37.0 3.09e-01 70.0% 100.0%
3gd0A02 3.30.920.50 Alpha Beta › 2-Layer Sandwich › Metal Transport, Frataxin; Chain A › Beta-1,3-glucanase, C-terminal domain 0.55 46.0 4.23e-01 98.8% 97.3%
2ehbD00 3.30.310.80 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › Kinase associated domain 1, KA1 0.54 46.0 4.03e-01 96.2% 68.3%
6u5vB07 3.30.1120.100 Alpha Beta › 2-Layer Sandwich › Arylsulfatase, C-terminal domain › 0.54 38.0 3.34e-01 75.0% 58.1%
1g8jB00 2.102.10.10 Mainly Beta › 3-layer Sandwich › Rieske Iron-sulfur Protein › Rieske [2Fe-2S] iron-sulphur domain 0.54 45.0 3.91e-01 93.8% 69.5%
5exvC00 3.40.1570.10 Alpha Beta › 3-Layer(aba) Sandwich › Heme iron utilization protein-like fold › HemS/ChuS/ChuX like domains 0.53 46.0 3.71e-01 100.0% 77.6%
5cxmA00 2.102.10.10 Mainly Beta › 3-layer Sandwich › Rieske Iron-sulfur Protein › Rieske [2Fe-2S] iron-sulphur domain 0.53 35.0 3.31e-01 78.8% 55.6%
2joiA00 3.30.310.190 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › 0.52 43.0 4.12e-01 92.5% 86.5%
2k4jA00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.52 36.0 3.36e-01 72.5% 57.1%
1yqeA01 3.40.630.50 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › AF0625-like 0.52 44.0 3.41e-01 95.0% 83.9%
2wmfA03 2.60.220.10 Mainly Beta › Sandwich › Chondroitinase Ac; Chain A, domain 3 › Polysaccharide lyase family 8-like, C-terminal 0.52 39.0 3.42e-01 82.5% 86.5%
4hs5A00 3.30.920.10 Alpha Beta › 2-Layer Sandwich › Metal Transport, Frataxin; Chain A › Frataxin/CyaY 0.51 43.0 4.03e-01 97.5% 99.0%
4ncbA01 3.30.530.60 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › 0.51 42.0 3.49e-01 91.3% 80.8%
2jpiA00 3.30.310.50 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › Alpha-D-phosphohexomutase, C-terminal domain 0.51 42.0 4.03e-01 96.2% 79.2%
2lioA00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.51 43.0 3.76e-01 100.0% 89.0%
2oviA00 3.40.1570.10 Alpha Beta › 3-Layer(aba) Sandwich › Heme iron utilization protein-like fold › HemS/ChuS/ChuX like domains 0.51 44.0 3.60e-01 100.0% 79.1%
2jh3A03 3.30.1360.190 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › 0.51 43.0 3.96e-01 100.0% 97.3%
2v1lA00 3.10.450.430 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › Protein of unknown function DUF2787 0.51 37.0 3.22e-01 78.8% 80.6%
4d6gA03 2.60.220.10 Mainly Beta › Sandwich › Chondroitinase Ac; Chain A, domain 3 › Polysaccharide lyase family 8-like, C-terminal 0.50 38.0 3.29e-01 82.5% 82.3%
ECOD (53)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
8015 375.1.1.15 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › zf-CHC2 0.98 95.0 8.54e-01 100.0% 78.4%
4166935 375.1.1.15 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › zf-CHC2 0.96 91.0 8.34e-01 100.0% 80.0%
4539347 375.1.1.15 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › zf-CHC2 0.95 91.0 8.28e-01 100.0% 82.0%
4680318 375.1.1.15 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › zf-CHC2 0.95 90.0 8.61e-01 100.0% 90.0%
5003468 375.1.1.15 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › zf-CHC2 0.89 84.0 7.54e-01 100.0% 81.9%
3274279 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.83 66.0 6.45e-01 83.7% 90.6%
4260807 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.81 61.0 6.45e-01 78.8% 100.0%
4940785 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.81 74.0 6.48e-01 100.0% 85.2%
3590274 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.80 75.0 7.17e-01 100.0% 92.2%
3772921 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.77 63.0 5.89e-01 88.7% 84.0%
3943026 375.1.1.39 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Prim_Zn_Ribbon 0.76 68.0 6.16e-01 100.0% 78.9%
4023805 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.75 65.0 6.37e-01 95.0% 98.8%
3928378 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.74 52.0 5.16e-01 75.0% 74.1%
3576759 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.71 55.0 5.76e-01 83.7% 98.6%
4995759 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.70 56.0 5.66e-01 88.7% 96.2%
5044949 241.9.1.0 ↗ a+b two layers › Type III secretory system chaperone-like › YdhG-like › YdhG-like 0.64 48.0 4.18e-01 80.0% 83.3%
3729944 4099.1.1.10 ↗ a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like › Med1 0.62 48.0 4.41e-01 85.0% 95.5%
3698130 216.1.1.14 ↗ a+b two layers › UBC-like › UBC-like › UBC-like › Med1 0.62 47.0 4.31e-01 81.2% 96.2%
4202634 375.1.1.11 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Ribosomal_S27 0.62 31.0 3.51e-01 77.5% 60.0%
5022991 331.1.1.0 ↗ a+b two layers › TBP-like › TATA-box binding protein-like › TATA-box binding protein-like 0.61 46.0 4.49e-01 95.0% 73.3%
5054850 3425.2.1.0 ↗ a+b three layers › Two-component system yycF/yycG regulatory protein yycH-like › YycH C-terminal domain › YycH C-terminal domain 0.58 42.0 2.96e-01 76.2% 62.7%
26896 4184.1.1.2 ↗ beta barrels › MFPT repeat › MFPT repeat › MFPT repeat › MFP2b 0.57 39.0 3.87e-01 71.2% 74.4%
3824290 1.1.1.28 ↗ beta barrels › cradle loop barrel › RIFT-related › acid protease › Asp, TAXi_C, TAXi_N 0.56 41.0 2.77e-01 81.2% 96.9%
3837114 1.1.1.9 ↗ beta barrels › cradle loop barrel › RIFT-related › acid protease › TAXi_C 0.55 39.0 3.17e-01 73.8% 82.7%
5038175 2008.2.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › tRNA-intron endonuclease catalytic domain-like › tRNA-intron endonuclease catalytic domain-like 0.55 40.0 4.05e-01 77.5% 85.0%
3362575 2005.1.1.0 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains 0.55 42.0 2.60e-01 95.0% 12.2%
5060936 331.1.1.0 ↗ a+b two layers › TBP-like › TATA-box binding protein-like › TATA-box binding protein-like 0.54 40.0 3.86e-01 78.8% 68.9%
4042893 2008.2.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › tRNA-intron endonuclease catalytic domain-like › tRNA-intron endonuclease catalytic domain-like 0.54 36.0 3.62e-01 70.0% 81.2%
3996732 5.1.5.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed 0.54 38.0 2.70e-01 75.0% 39.7%
None — 0.54 46.0 4.08e-01 96.2% 71.7%
4963899 2008.1.1.229 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › DUF7116 0.54 39.0 3.57e-01 77.5% 94.5%
5014159 331.3.1.0 ↗ a+b two layers › TBP-like › Bet v1-like › Bet v1-like 0.54 45.0 4.02e-01 100.0% 88.0%
4128787 3439.1.1.0 ↗ a+b two layers › PafA/Dop C-terminal domain › PafA/Dop C-terminal domain › PafA/Dop C-terminal domain 0.54 34.0 3.81e-01 77.5% 86.7%
3599109 331.1.1.0 ↗ a+b two layers › TBP-like › TATA-box binding protein-like › TATA-box binding protein-like 0.54 43.0 3.25e-01 95.0% 35.5%
5007802 331.4.1.36 ↗ a+b two layers › TBP-like › Kinase associated domain 1, KA1 › Kinase associated domain 1, KA1 › PF27851 0.53 44.0 4.42e-01 91.3% 95.0%
3451705 331.4.1.2 ↗ a+b two layers › TBP-like › Kinase associated domain 1, KA1 › Kinase associated domain 1, KA1 › NAF 0.53 45.0 3.81e-01 96.2% 61.4%
4955645 331.2.1.0 ↗ a+b two layers › TBP-like › Phosphoglucomutase, C-terminal domain › Phosphoglucomutase, C-terminal domain 0.53 45.0 4.06e-01 96.2% 87.0%
4958012 331.1.1.0 ↗ a+b two layers › TBP-like › TATA-box binding protein-like › TATA-box binding protein-like 0.53 38.0 3.93e-01 93.8% 82.7%
3391435 11.1.1.53 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › DOMON 0.53 37.0 2.92e-01 72.5% 69.7%
3291702 331.3.1.0 ↗ a+b two layers › TBP-like › Bet v1-like › Bet v1-like 0.53 44.0 3.72e-01 100.0% 73.2%
184667 331.16.1.1 ↗ a+b two layers › TBP-like › TA0095-like › TA0095-like › DUF5611 0.52 43.0 4.12e-01 92.5% 86.5%
3716256 331.1.1.12 ↗ a+b two layers › TBP-like › TATA-box binding protein-like › TATA-box binding protein-like › DUF155 0.52 42.0 3.38e-01 95.0% 42.4%
5024775 2008.2.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › tRNA-intron endonuclease catalytic domain-like › tRNA-intron endonuclease catalytic domain-like 0.52 37.0 3.74e-01 75.0% 87.5%
4928161 331.10.2.0 ↗ a+b two layers › TBP-like › S-adenosylmethionine decarboxylase-related › Bacterial S-adenosylmethionine decarboxylase 0.52 45.0 4.22e-01 100.0% 91.0%
3970247 9.11.1.0 ↗ beta barrels › Lipocalins/Streptavidin › YdhA-like › YdhA-like 0.52 41.0 3.73e-01 86.3% 87.3%
3368463 331.4.1.2 ↗ a+b two layers › TBP-like › Kinase associated domain 1, KA1 › Kinase associated domain 1, KA1 › NAF 0.52 44.0 3.81e-01 96.2% 66.2%
5017022 331.1.1.27 ↗ a+b two layers › TBP-like › TATA-box binding protein-like › TATA-box binding protein-like › CBS 0.52 44.0 3.10e-01 97.5% 28.4%
4964190 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.52 44.0 4.01e-01 100.0% 97.4%
5058484 331.1.1.0 ↗ a+b two layers › TBP-like › TATA-box binding protein-like › TATA-box binding protein-like 0.51 37.0 3.93e-01 90.0% 90.0%
5053646 331.2.1.0 ↗ a+b two layers › TBP-like › Phosphoglucomutase, C-terminal domain › Phosphoglucomutase, C-terminal domain 0.51 42.0 4.19e-01 93.8% 89.4%
3577814 376.1.1.5 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › zf-UBP 0.51 36.0 3.79e-01 73.8% 82.9%
1309199 12.2.1.3 ↗ beta sandwiches › Glycosyl hydrolase domain-like › Hyaluronate lyase-like, C-terminal domain › Hyaluronate lyase-like, C-terminal domain › Glyco_hydro_98C 0.50 38.0 2.99e-01 82.5% 83.1%
5001118 2004.1.1.16 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Arf 0.50 41.0 3.34e-01 93.8% 87.3%
D2 medium residues 119-268
PDB
Domain cluster: representative
CATH (10)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1eucB03 3.40.50.261 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Succinyl-CoA synthetase domains 0.64 47.0 4.82e-01 76.0% 84.9%
4py5A01 3.30.310.10 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › TATA-Binding Protein 0.63 24.0 3.42e-01 70.0% 70.8%
1q1gA00 3.40.50.1580 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Nucleoside phosphorylase domain 0.60 43.0 3.65e-01 74.0% 93.8%
5z5cA02 3.40.50.1100 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.57 30.0 3.47e-01 73.3% 69.4%
2p9bA03 3.40.50.10910 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Amidohydrolase 0.52 36.0 3.93e-01 78.0% 84.7%
2h3hB02 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.52 36.0 3.58e-01 70.7% 73.2%
2v82A00 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.52 33.0 2.95e-01 78.0% 45.9%
3umoA00 3.40.1190.20 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Ribokinase 0.51 45.0 3.58e-01 96.0% 50.5%
4pysA02 3.20.20.80 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases 0.51 43.0 3.20e-01 90.7% 66.5%
2abqA00 3.40.1190.20 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Ribokinase 0.50 44.0 3.52e-01 96.0% 48.5%
ECOD (10)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4675929 2006.1.3.6 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › Toprim domain › Toprim_2 0.69 48.0 5.23e-01 70.7% 100.0%
3966687 2006.1.3.7 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › Toprim domain › Toprim_4 0.68 48.0 5.11e-01 71.3% 100.0%
4305698 2006.1.3.6 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › Toprim domain › Toprim_2 0.67 46.0 5.03e-01 70.0% 97.6%
3964049 2006.1.3.6 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › Toprim domain › Toprim_2 0.67 47.0 5.04e-01 72.0% 100.0%
3948961 2006.1.3.15 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › Toprim domain › Toprim_3 0.66 46.0 5.06e-01 72.0% 100.0%
4967121 2007.1.2.56 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Periplasmic binding protein-like I › DUF116 0.64 35.0 3.96e-01 74.7% 69.6%
5064527 7522.1.1.4 ↗ a/b three-layered sandwiches › TK C-terminal domain-like › TK C-terminal domain-like › TK C-terminal domain-like › PFOR_II 0.63 43.0 4.81e-01 73.3% 89.5%
4403849 2006.1.3.7 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › Toprim domain › Toprim_4 0.63 47.0 5.30e-01 77.3% 99.1%
3941622 2003.6.1.1 ↗ a/b three-layered sandwiches › Rossmann-like › Ribokinase-like › Ribokinase-like › PfkB 0.51 45.0 3.60e-01 96.0% 49.7%
5075699 2003.6.1.1 ↗ a/b three-layered sandwiches › Rossmann-like › Ribokinase-like › Ribokinase-like › PfkB 0.51 46.0 3.43e-01 98.0% 48.4%