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NC_049900.1__YP_009907776.1__H2675_gp43__00043

Bact-Vir

NC_049900.1__YP_009907776.1__H2675_gp43__00043

Identity

Accession:
NC_049900 ↗
Kingdom:
phage

Quality

80.8 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Slepowronvirus› Listeria_phage_LP-HM00113468

TaxID: 2744802

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 87-136
PDB
Domain cluster: rep: NC_031125.1__YP_009292659.1__BIZ66_gp19__00019__D752-813
CATH (33)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3s9xA00 3.10.400.10 Alpha Beta › Roll › Sulfate adenylyltransferase › Sulfate adenylyltransferase 0.77 63.0 4.35e-01 90.0% 81.8%
1i2dA02 3.10.400.10 Alpha Beta › Roll › Sulfate adenylyltransferase › Sulfate adenylyltransferase 0.72 56.0 3.82e-01 86.0% 70.7%
2ablA02 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.72 59.0 4.84e-01 96.0% 67.0%
5dnoA00 3.10.590.10 Alpha Beta › Roll › ph1033 like fold › ph1033 like domains 0.70 61.0 4.30e-01 100.0% 82.3%
1cseI00 3.30.10.10 Alpha Beta › 2-Layer Sandwich › Trypsin Inhibitor V; Chain A › Trypsin Inhibitor V, subunit A 0.67 45.0 4.26e-01 72.0% 61.9%
3td9A02 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.65 54.0 3.82e-01 92.0% 37.1%
1a10I00 3.30.10.10 Alpha Beta › 2-Layer Sandwich › Trypsin Inhibitor V; Chain A › Trypsin Inhibitor V, subunit A 0.65 44.0 4.09e-01 70.0% 60.3%
4epsA01 2.60.40.2620 Mainly Beta › Sandwich › Immunoglobulin-like › Fimbrillin-like 0.65 46.0 3.46e-01 74.0% 43.8%
1amuA02 3.40.50.980 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.64 47.0 3.52e-01 82.0% 39.3%
3r90A00 3.10.400.20 Alpha Beta › Roll › Sulfate adenylyltransferase › 0.64 52.0 3.63e-01 96.0% 47.6%
1t57A00 3.40.1380.20 Alpha Beta › 3-Layer(aba) Sandwich › Pyruvate Kinase; Chain: A, domain 1 › Pyruvate kinase, C-terminal domain 0.64 49.0 3.44e-01 90.0% 81.1%
1ayaA00 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.64 52.0 4.25e-01 96.0% 64.4%
3bqjA01 2.40.510.10 Mainly Beta › Beta Barrel › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Positive stranded ssRNA viruses 0.63 52.0 3.52e-01 94.0% 99.5%
3iteB01 3.40.50.12780 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › ANL, N-terminal domain 0.62 49.0 2.95e-01 96.0% 16.1%
2ci8A01 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.61 48.0 4.70e-01 90.0% 92.9%
2vsqA03 3.40.50.980 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.61 48.0 3.35e-01 94.0% 34.7%
2i5bA00 3.40.1190.20 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Ribokinase 0.61 50.0 3.26e-01 100.0% 42.4%
2cx0A02 2.30.130.10 Mainly Beta › Roll › Archaeosine Trna-guanine Transglycosylase; Chain: A, domain 4 › PUA domain 0.60 48.0 4.16e-01 90.0% 96.4%
1milA00 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.60 49.0 3.98e-01 96.0% 59.6%
2kumA01 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.60 41.0 3.94e-01 72.0% 66.7%
3m6wA03 2.30.130.60 Mainly Beta › Roll › Archaeosine Trna-guanine Transglycosylase; Chain: A, domain 4 › 0.59 46.0 4.32e-01 94.0% 94.0%
4p25D01 2.40.510.10 Mainly Beta › Beta Barrel › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Positive stranded ssRNA viruses 0.59 46.0 3.19e-01 90.0% 96.4%
3d6wB01 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.59 35.0 3.22e-01 72.0% 41.4%
3wknF00 6.20.50.120 Special › Other non-globular › N-terminal domain of TfIIb › 0.59 48.0 5.00e-01 100.0% 100.0%
4amcA01 2.30.30.20 Mainly Beta › Roll › SH3 type barrels. › Aspartate carbamoyltransferase regulatory subunit, C-terminal domain 0.59 42.0 4.35e-01 76.0% 82.6%
3vthA04 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.57 45.0 2.91e-01 86.0% 64.3%
1pm3A00 2.30.30.240 Mainly Beta › Roll › SH3 type barrels. › PRC-barrel domain 0.55 45.0 4.11e-01 94.0% 94.2%
3payB02 2.60.40.2090 Mainly Beta › Sandwich › Immunoglobulin-like › 0.55 44.0 3.39e-01 98.0% 97.7%
1v7lA01 3.20.19.10 Alpha Beta › Alpha-Beta Barrel › Aconitase; domain 4 › Aconitase, domain 4 0.54 41.0 3.00e-01 88.0% 43.3%
2petA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 41.0 3.26e-01 92.0% 53.9%
1rjtA00 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.51 34.0 3.13e-01 70.0% 50.7%
1knwA01 2.40.37.10 Mainly Beta › Beta Barrel › Lyase, Ornithine Decarboxylase; Chain A, domain 1 › Lyase, Ornithine Decarboxylase; Chain A, domain 1 0.51 34.0 2.49e-01 70.0% 81.8%
2iv2X01 2.20.25.90 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › ADC-like domains 0.51 38.0 3.74e-01 84.0% 90.9%
ECOD (43)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3465751 109.4.1.546 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Ecm29 0.78 49.0 2.68e-01 70.0% 4.1%
3612978 206.1.1.1 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.75 51.0 3.09e-01 70.0% 14.9%
5035541 1.1.9.0 ↗ beta barrels › cradle loop barrel › RIFT-related › PUA domain 0.74 58.0 4.71e-01 86.0% 100.0%
3956535 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.69 58.0 4.20e-01 100.0% 56.1%
4042216 1.1.7.70 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › Beta-barrel_GLAA-B_II 0.68 47.0 4.15e-01 74.0% 88.0%
3165125 1.1.9.0 ↗ beta barrels › cradle loop barrel › RIFT-related › PUA domain 0.67 50.0 4.06e-01 84.0% 97.1%
4490158 1.1.13.59 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › Beta-barrel_GLAA-B_II 0.65 46.0 4.06e-01 76.0% 90.7%
3490740 391.1.2.0 ↗ few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › VWC domain-related 0.64 44.0 4.25e-01 84.0% 61.7%
3801699 214.1.1.0 ↗ a+b two layers › SH2 › SH2 › SH2 0.64 53.0 4.20e-01 96.0% 58.2%
4928397 1.1.9.1 ↗ beta barrels › cradle loop barrel › RIFT-related › PUA domain › PUA 0.64 52.0 4.03e-01 96.0% 67.7%
4659422 1.1.9.0 ↗ beta barrels › cradle loop barrel › RIFT-related › PUA domain 0.64 48.0 4.67e-01 88.0% 98.3%
3337354 719.1.1.0 ↗ beta barrels › XRCC4, N-terminal domain-like › XRCC4, N-terminal domain › XRCC4, N-terminal domain 0.63 53.0 4.00e-01 98.0% 90.0%
5048970 1.1.9.0 ↗ beta barrels › cradle loop barrel › RIFT-related › PUA domain 0.63 48.0 4.36e-01 84.0% 100.0%
4557607 1.1.9.11 ↗ beta barrels › cradle loop barrel › RIFT-related › PUA domain › TruB-C_2 0.63 50.0 4.66e-01 92.0% 93.8%
5079425 1.1.9.1 ↗ beta barrels › cradle loop barrel › RIFT-related › PUA domain › PUA 0.63 51.0 4.34e-01 96.0% 94.4%
168 1.1.9.1 ↗ beta barrels › cradle loop barrel › RIFT-related › PUA domain › PUA 0.62 51.0 4.30e-01 96.0% 94.6%
3701932 1.1.9.0 ↗ beta barrels › cradle loop barrel › RIFT-related › PUA domain 0.62 49.0 3.93e-01 96.0% 73.3%
4342581 1.1.9.10 ↗ beta barrels › cradle loop barrel › RIFT-related › PUA domain › TruB_C 0.62 48.0 4.57e-01 88.0% 93.3%
4946184 1.1.9.0 ↗ beta barrels › cradle loop barrel › RIFT-related › PUA domain 0.62 48.0 4.29e-01 92.0% 100.0%
3591571 219.1.1.3 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › UCH 0.61 51.0 2.95e-01 100.0% 57.5%
4087191 1.1.9.11 ↗ beta barrels › cradle loop barrel › RIFT-related › PUA domain › TruB-C_2 0.60 45.0 4.24e-01 88.0% 95.4%
3652288 145.1.1.50 ↗ alpha arrays › F-box domain › F-box domain › F-box domain › Kelch_1 0.59 49.0 3.09e-01 100.0% 51.7%
3883097 214.1.1.1 ↗ a+b two layers › SH2 › SH2 › SH2 › SH2 0.58 47.0 4.36e-01 96.0% 75.7%
3059161 1.1.13.30 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › E217_GP41 0.58 45.0 3.96e-01 90.0% 95.1%
4040604 1.1.9.1 ↗ beta barrels › cradle loop barrel › RIFT-related › PUA domain › PUA 0.58 47.0 3.84e-01 96.0% 84.8%
4625547 1.1.9.1 ↗ beta barrels › cradle loop barrel › RIFT-related › PUA domain › PUA 0.58 46.0 3.74e-01 92.0% 91.4%
3759576 2484.1.1.288 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › PML_C 0.57 39.0 2.53e-01 70.0% 33.7%
3191149 5.1.7.2 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 10-bladed › Sortilin-Vps10 0.57 49.0 2.84e-01 100.0% 26.7%
4554479 4.6.1.2 ↗ beta barrels › SH3 › PRC-barrel domain › PRC-barrel domain › PRC 0.57 49.0 4.16e-01 94.0% 75.0%
3212241 214.1.1.1 ↗ a+b two layers › SH2 › SH2 › SH2 › SH2 0.57 45.0 3.65e-01 100.0% 47.5%
4946341 5.1.10.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 12-bladed 0.57 42.0 2.76e-01 84.0% 16.7%
3194663 59.1.2.2 ↗ beta complex topology › triple barrel › triple barrel › RNase H2 subunits B and C › Ydr279_N 0.56 38.0 3.46e-01 72.0% 70.7%
3783574 4081.1.1.5 ↗ beta sandwiches › Baculovirus p35 protein-related › Baculovirus p35 protein-related › Baculovirus p35 protein-related › Peptidase_M1_N 0.56 41.0 2.80e-01 86.0% 93.0%
3184935 219.1.1.3 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › UCH 0.55 44.0 2.73e-01 100.0% 91.2%
4978876 286.1.1.2 ↗ a+b complex topology › Diaminopimelate epimerase-like › Diaminopimelate epimerase-like › Diaminopimelate epimerase-like › PhzC-PhzF 0.55 44.0 3.27e-01 100.0% 84.4%
4316169 1.1.9.11 ↗ beta barrels › cradle loop barrel › RIFT-related › PUA domain › TruB-C_2 0.54 39.0 3.80e-01 90.0% 93.8%
5014589 2004.1.1.42 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › T2SSE 0.54 40.0 2.51e-01 80.0% 25.6%
4953610 4.6.1.2 ↗ beta barrels › SH3 › PRC-barrel domain › PRC-barrel domain › PRC 0.53 45.0 3.94e-01 96.0% 79.5%
5058925 4.6.1.0 ↗ beta barrels › SH3 › PRC-barrel domain › PRC-barrel domain 0.53 44.0 4.02e-01 96.0% 92.9%
5061066 4.6.1.2 ↗ beta barrels › SH3 › PRC-barrel domain › PRC-barrel domain › PRC 0.52 43.0 3.75e-01 96.0% 61.3%
3237640 4.1.1.287 ↗ beta barrels › SH3 › SH3 › SH3 › DUF5641 0.52 39.0 3.07e-01 82.0% 58.2%
5010554 4.6.1.0 ↗ beta barrels › SH3 › PRC-barrel domain › PRC-barrel domain 0.51 41.0 3.84e-01 96.0% 89.2%
3912151 1170.1.1.1 ↗ beta barrels › IL8-related › IL8-related › IL8 › IL8 0.51 39.0 3.58e-01 86.0% 77.9%
D2 high residues 162-243
PDB
D3 high residues 255-363
PDB
Domain cluster: rep: MZ333134.1__QXG07748.1__X__00016__D390-489
D4 medium residues 19-76
PDB
Domain cluster: rep: MK448727.1__QBX16941.1__Javan291_0065__00065__D1-59