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NC_011103.1__YP_002117613.1__RM163_055__00055

Bact-Vir

NC_011103.1__YP_002117613.1__RM163_055__00055

Identity

Accession:
NC_011103 ↗
Kingdom:
phage

Quality

71.3 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Rhizobium_phage_16-3

TaxID: 10704

Cluster

View cluster (2 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 14-67
PDB
Domain cluster: rep: MN988538.1__QIG74535.1__EVC10_027__00027__D9-61
CATH (40)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2zhgA00 1.10.1660.10 Mainly Alpha › Orthogonal Bundle › Multidrug-efflux Transporter Regulator; Chain: A; Domain 2 › 0.79 72.0 5.44e-01 100.0% 52.1%
4r24B00 1.10.1660.10 Mainly Alpha › Orthogonal Bundle › Multidrug-efflux Transporter Regulator; Chain: A; Domain 2 › 0.79 69.0 5.96e-01 100.0% 62.4%
3qaoA00 1.10.1660.10 Mainly Alpha › Orthogonal Bundle › Multidrug-efflux Transporter Regulator; Chain: A; Domain 2 › 0.76 67.0 4.92e-01 100.0% 46.4%
5i41B00 1.10.1660.10 Mainly Alpha › Orthogonal Bundle › Multidrug-efflux Transporter Regulator; Chain: A; Domain 2 › 0.73 62.0 5.88e-01 100.0% 79.1%
4lhfA00 6.10.200.10 Special › Helix non-globular › Multidrug-efflux Transporter Regulator; Chain: A; Domain 2 › Regulatory phage protein Cox 0.69 59.0 5.21e-01 96.3% 72.2%
1z4hA01 1.10.238.160 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › 0.68 54.0 5.38e-01 100.0% 87.9%
1sd4A01 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 0.63 50.0 4.80e-01 90.7% 76.6%
3cuoD00 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 0.61 51.0 4.32e-01 96.3% 56.4%
6uvuA01 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 0.61 52.0 4.26e-01 100.0% 51.0%
2nnnC00 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 0.60 50.0 3.92e-01 100.0% 43.2%
2l02A00 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 0.60 44.0 4.01e-01 90.7% 56.1%
2co5A00 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 0.59 50.0 4.34e-01 100.0% 65.2%
1tbxB00 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 0.59 49.0 4.26e-01 100.0% 65.6%
5trdA01 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 0.58 49.0 4.37e-01 100.0% 65.5%
1z6tA04 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 0.58 49.0 4.32e-01 98.1% 64.7%
1wi9A01 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 0.58 43.0 4.25e-01 85.2% 75.9%
3qphA01 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 0.57 42.0 3.62e-01 100.0% 46.4%
2cxiA03 3.30.56.10 Alpha Beta › 2-Layer Sandwich › Phenylalanyl-tRNA Synthetase; Chain B, domain 1 › 0.57 46.0 4.40e-01 100.0% 91.4%
1stzA01 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 0.57 46.0 4.13e-01 98.1% 65.9%
1qgiA01 3.30.386.10 Alpha Beta › 2-Layer Sandwich › Chitosanase; Chain A, domain 2 › Chitosanase, subunit A, domain 2 0.57 44.0 3.34e-01 88.9% 95.9%
2x4hA00 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 0.57 46.0 3.58e-01 100.0% 39.5%
1bjaA00 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 0.57 46.0 3.91e-01 98.1% 53.7%
1lnwF01 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 0.56 45.0 3.59e-01 96.3% 41.1%
1jgsA00 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 0.56 46.0 3.58e-01 100.0% 42.0%
2xfvA00 3.10.260.30 Alpha Beta › Roll › Mlu1-box Binding Protein; DNA-binding Domain › 0.56 46.0 3.76e-01 94.4% 61.1%
1gkuB08 1.10.290.10 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; domain 4 › Topoisomerase I, domain 4 0.56 45.0 3.66e-01 98.1% 90.8%
2jhjA02 1.10.340.30 Mainly Alpha › Orthogonal Bundle › Endonuclease III; domain 1 › Hypothetical protein; domain 2 0.56 43.0 3.49e-01 92.6% 51.7%
2jscB01 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 0.56 46.0 4.13e-01 96.3% 66.3%
2esnA01 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 0.55 43.0 3.74e-01 88.9% 66.3%
4b8xA00 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 0.55 45.0 3.48e-01 100.0% 38.6%
1gkuB06 1.10.460.10 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; domain 2 › Topoisomerase I, domain 2 0.55 45.0 3.38e-01 100.0% 35.3%
2zj2A03 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 0.55 46.0 4.08e-01 100.0% 72.6%
5zyrA02 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 0.53 42.0 3.22e-01 100.0% 33.8%
6g1dA01 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 43.0 3.82e-01 96.3% 72.0%
1go4A00 3.30.900.10 Alpha Beta › 2-Layer Sandwich › Cell Cycle, Spindle Assembly Checkpoint Protein; Chain A › HORMA domain 0.52 42.0 2.98e-01 98.1% 94.9%
3l86A00 3.40.1160.10 Alpha Beta › 3-Layer(aba) Sandwich › Carbamate kinase › Acetylglutamate kinase-like 0.51 40.0 2.80e-01 100.0% 41.6%
3f0zA02 1.10.340.30 Mainly Alpha › Orthogonal Bundle › Endonuclease III; domain 1 › Hypothetical protein; domain 2 0.51 40.0 3.30e-01 98.1% 47.9%
5y2vC01 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 0.51 41.0 3.66e-01 96.3% 69.4%
2gqfA01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.51 41.0 2.77e-01 100.0% 28.9%
4aimA03 3.30.1370.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › K Homology domain, type 1 0.50 37.0 3.48e-01 83.3% 74.6%
ECOD (66)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5028046 101.1.9.0 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain 0.87 74.0 7.39e-01 100.0% 90.9%
3955723 101.1.9.16 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › HTH_17 0.86 69.0 7.15e-01 94.4% 94.0%
4375315 101.1.9.16 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › HTH_17 0.86 70.0 7.20e-01 96.3% 96.0%
5030468 101.1.9.0 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain 0.85 72.0 6.07e-01 100.0% 56.7%
3840108 101.1.9.95 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › DUF3972 0.85 71.0 6.89e-01 100.0% 83.3%
4191032 101.1.9.16 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › HTH_17 0.85 72.0 7.41e-01 100.0% 100.0%
5053673 101.1.9.0 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain 0.84 74.0 7.00e-01 100.0% 83.1%
5032504 101.1.9.16 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › HTH_17 0.83 69.0 6.94e-01 100.0% 90.9%
3589467 101.1.9.16 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › HTH_17 0.82 68.0 5.84e-01 100.0% 58.8%
3604634 101.1.9.0 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain 0.81 72.0 6.98e-01 100.0% 93.3%
3976015 101.1.9.17 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › MerR_1 0.81 71.0 6.22e-01 100.0% 66.3%
4950846 101.1.9.16 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › HTH_17 0.80 67.0 6.90e-01 100.0% 100.0%
3960483 101.1.9.0 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain 0.80 65.0 6.74e-01 96.3% 98.0%
3282088 101.1.9.84 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › MerR, MerR_1 0.80 69.0 5.74e-01 98.1% 72.6%
3387406 101.1.9.17 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › MerR_1 0.79 70.0 5.56e-01 98.1% 64.8%
3972191 101.1.9.82 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › MerR-DNA-bind, MerR_1 0.79 68.0 5.00e-01 98.1% 37.1%
3281256 101.1.9.16 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › HTH_17 0.79 69.0 6.06e-01 100.0% 66.3%
3954117 101.1.9.16 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › HTH_17 0.79 69.0 5.93e-01 100.0% 62.4%
3290892 101.1.9.17 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › MerR_1 0.79 71.0 5.64e-01 100.0% 61.9%
4518241 101.1.9.17 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › MerR_1 0.79 71.0 6.32e-01 100.0% 85.3%
3966930 101.1.9.82 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › MerR-DNA-bind, MerR_1 0.79 71.0 5.55e-01 100.0% 58.2%
3953197 101.1.9.16 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › HTH_17 0.79 69.0 5.69e-01 100.0% 55.8%
4547937 101.1.9.16 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › HTH_17 0.79 64.0 6.31e-01 100.0% 86.2%
4096952 101.1.9.17 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › MerR_1 0.78 69.0 5.36e-01 98.1% 58.3%
3589675 101.1.9.16 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › HTH_17 0.78 63.0 6.49e-01 98.1% 98.0%
3290830 101.1.9.17 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › MerR_1 0.78 67.0 5.24e-01 98.1% 45.2%
5001454 101.1.9.0 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain 0.77 67.0 6.08e-01 100.0% 73.3%
3286117 101.1.9.82 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › MerR-DNA-bind, MerR_1 0.77 68.0 5.17e-01 100.0% 51.2%
3284986 101.1.9.82 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › MerR-DNA-bind, MerR_1 0.77 65.0 5.04e-01 98.1% 43.3%
3838564 101.1.9.0 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain 0.76 67.0 6.47e-01 98.1% 88.3%
4954942 101.1.9.0 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain 0.76 66.0 6.24e-01 100.0% 84.6%
3281873 101.1.9.84 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › MerR, MerR_1 0.76 67.0 4.37e-01 100.0% 28.3%
3975516 101.1.9.82 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › MerR-DNA-bind, MerR_1 0.76 66.0 5.29e-01 98.1% 59.0%
3284779 101.1.9.17 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › MerR_1 0.76 64.0 4.91e-01 98.1% 41.6%
3952885 101.1.9.16 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › HTH_17 0.75 62.0 6.38e-01 98.1% 100.0%
4995042 101.1.9.16 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › HTH_17 0.75 66.0 5.73e-01 100.0% 90.6%
3279459 101.1.9.82 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › MerR-DNA-bind, MerR_1 0.75 65.0 5.00e-01 98.1% 43.1%
3589130 101.1.9.16 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › HTH_17 0.74 61.0 6.07e-01 98.1% 92.7%
5027627 101.1.9.0 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain 0.73 64.0 6.40e-01 100.0% 98.2%
2876157 101.1.9.105 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › PF30176 0.73 58.0 5.87e-01 100.0% 92.5%
3708093 108.1.1.0 ↗ alpha arrays › EF-hand › EF-hand-related › EF-hand 0.62 51.0 4.54e-01 100.0% 68.6%
3218298 5054.1.1.2 ↗ alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels › Ion_trans 0.62 44.0 2.55e-01 74.1% 23.2%
3911093 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.58 47.0 3.08e-01 100.0% 20.1%
3854160 148.1.3.35 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › TOR1A_C 0.58 48.0 4.86e-01 96.3% 100.0%
4374756 101.1.2.92 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_11 0.58 49.0 4.31e-01 100.0% 63.5%
3304578 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.58 44.0 2.56e-01 96.3% 9.0%
4030786 101.1.2.111 ↗ alpha arrays › HTH › HTH › winged helix domain › RQC 0.58 48.0 4.05e-01 100.0% 77.0%
5011250 101.1.2.30 ↗ alpha arrays › HTH › HTH › winged helix domain › TrmB 0.57 47.0 3.87e-01 100.0% 48.2%
4998355 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.57 46.0 3.85e-01 98.1% 49.5%
3220963 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.57 39.0 2.76e-01 74.1% 54.7%
3537579 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.57 43.0 4.01e-01 90.7% 69.3%
3715717 221.1.2.0 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Alpha-L RNA-binding motif 0.56 46.0 4.36e-01 100.0% 75.7%
4679870 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.56 45.0 3.90e-01 96.3% 58.9%
5003768 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.56 47.0 4.32e-01 100.0% 73.3%
164145 213.1.1.0 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) 0.55 47.0 3.41e-01 100.0% 52.7%
3410704 2007.1.2.4 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Periplasmic binding protein-like I › ANF_receptor 0.55 40.0 2.77e-01 90.7% 20.4%
5077794 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.54 42.0 3.92e-01 90.7% 67.1%
5051503 101.1.2.927 ↗ alpha arrays › HTH › HTH › winged helix domain › DUF7347 0.54 43.0 3.67e-01 96.3% 54.0%
4395667 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.54 45.0 4.04e-01 100.0% 66.3%
3753230 2004.1.1.139 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Torsin 0.53 42.0 2.84e-01 100.0% 80.7%
5077428 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.53 45.0 3.88e-01 100.0% 71.1%
4980207 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.53 41.0 3.39e-01 100.0% 43.3%
None — 0.53 41.0 2.73e-01 94.4% 20.0%
3935822 101.1.2.178 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_61 0.52 42.0 3.72e-01 100.0% 72.2%
3683342 109.4.1.629 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › DUF629 0.50 37.0 2.36e-01 87.0% 65.6%
4034282 130.1.1.0 ↗ alpha arrays › LEM/SAP HeH motif-like › LEM/SAP HeH motif › LEM/SAP HeH motif 0.50 37.0 3.39e-01 85.2% 82.5%