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NC_041929.1__YP_009601422.1__FDH46_gp181__00297

Bact-Vir

NC_041929.1__YP_009601422.1__FDH46_gp181__00297

Identity

Accession:
NC_041929 ↗
Kingdom:
phage

Quality

83.2 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Emdodecavirus› Sinorhizobium_phage_phiM7

TaxID: 1647403

Cluster

View cluster (4 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 39-135
PDB
Domain cluster: rep: KP881232.1__AKE44837.1__Sm_phiM9_210__00206__D3-129
CATH (12)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1fpqA02 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 0.71 55.0 4.94e-01 100.0% 61.2%
7vb8A01 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 0.65 46.0 4.41e-01 95.9% 62.8%
3m05B01 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.59 33.0 3.40e-01 94.8% 56.5%
5dcaA11 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 4.48e-01 90.7% 83.8%
3hluA00 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.53 31.0 3.43e-01 95.9% 74.0%
1ciiA02 3.30.305.10 Alpha Beta › 2-Layer Sandwich › Colicin Ia; domain 2 › Colicin Ia; domain 2 0.52 30.0 2.99e-01 100.0% 52.5%
3e8oB00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.52 36.0 3.65e-01 100.0% 70.0%
3bm7A00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.52 36.0 3.56e-01 99.0% 65.1%
1a7gE00 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.52 33.0 3.49e-01 96.9% 74.4%
1tr0A00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.50 37.0 3.67e-01 100.0% 72.6%
4dkjA01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.50 37.0 2.70e-01 77.3% 75.7%
3bguA01 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.50 36.0 3.64e-01 100.0% 76.0%
ECOD (73)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3831199 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.76 49.0 4.81e-01 82.5% 61.0%
4029192 101.1.2.236 ↗ alpha arrays › HTH › HTH › winged helix domain › POLR3C_WHD 0.74 46.0 3.02e-01 82.5% 16.0%
3853184 101.1.2.68 ↗ alpha arrays › HTH › HTH › winged helix domain › RNA_pol_Rpc34 0.74 49.0 4.17e-01 80.4% 42.6%
3280969 101.1.2.136 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_20 0.72 47.0 4.70e-01 88.7% 65.0%
4951172 101.1.2.14 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_5 0.71 47.0 4.57e-01 93.8% 61.9%
3955994 101.1.2.136 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_20 0.71 45.0 4.77e-01 93.8% 72.9%
3223457 101.1.2.661 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_9, POLR3C_WHD 0.70 42.0 2.95e-01 81.4% 20.7%
3625937 101.1.2.216 ↗ alpha arrays › HTH › HTH › winged helix domain › CED4_WHD 0.69 52.0 4.48e-01 92.8% 51.3%
4135068 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.68 41.0 2.67e-01 81.4% 14.2%
5082509 101.1.2.31 ↗ alpha arrays › HTH › HTH › winged helix domain › TFIIE_alpha 0.68 48.0 4.36e-01 93.8% 54.6%
4117256 101.1.2.88 ↗ alpha arrays › HTH › HTH › winged helix domain › Dimerisation 0.68 48.0 4.38e-01 93.8% 55.4%
3741614 101.1.2.236 ↗ alpha arrays › HTH › HTH › winged helix domain › POLR3C_WHD 0.67 41.0 3.42e-01 82.5% 35.8%
5002609 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.67 49.0 5.01e-01 97.9% 78.9%
3597257 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.67 42.0 4.61e-01 95.9% 77.5%
5082698 101.1.2.914 ↗ alpha arrays › HTH › HTH › winged helix domain › DUF6015 0.67 37.0 3.87e-01 81.4% 57.8%
3637726 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.66 40.0 3.89e-01 77.3% 53.6%
3727445 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.66 46.0 4.54e-01 100.0% 66.7%
4022243 101.1.2.517 ↗ alpha arrays › HTH › HTH › winged helix domain › RNA_pol_Rpc82, HTH_9, POLR3C_WHD 0.66 41.0 2.55e-01 82.5% 11.7%
4940742 101.1.2.554 ↗ alpha arrays › HTH › HTH › winged helix domain › PF30184 0.66 43.0 4.57e-01 87.6% 75.3%
3827266 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.66 48.0 4.19e-01 93.8% 51.0%
4508433 314.1.1.3 ↗ a+b three layers › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › tRNA-synt_2d 0.66 42.0 2.81e-01 92.8% 16.6%
4971999 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.66 49.0 4.55e-01 93.8% 61.6%
3008377 101.1.2.88 ↗ alpha arrays › HTH › HTH › winged helix domain › Dimerisation 0.66 47.0 4.43e-01 92.8% 60.8%
4443506 101.1.2.517 ↗ alpha arrays › HTH › HTH › winged helix domain › RNA_pol_Rpc82, HTH_9, POLR3C_WHD 0.65 40.0 2.60e-01 82.5% 14.6%
4971711 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.64 49.0 4.55e-01 92.8% 64.0%
5037625 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.63 44.0 4.33e-01 92.8% 66.7%
4538612 314.1.1.0 ↗ a+b three layers › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases 0.63 42.0 2.81e-01 100.0% 17.4%
3983446 101.1.2.84 ↗ alpha arrays › HTH › HTH › winged helix domain › CaiF_GrlA 0.62 44.0 4.36e-01 100.0% 70.0%
4017175 101.1.2.312 ↗ alpha arrays › HTH › HTH › winged helix domain › MSC 0.62 46.0 3.49e-01 87.6% 31.4%
3599724 101.1.2.236 ↗ alpha arrays › HTH › HTH › winged helix domain › POLR3C_WHD 0.62 43.0 3.75e-01 99.0% 48.3%
3200378 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.62 44.0 4.38e-01 100.0% 72.0%
5062917 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.61 43.0 3.97e-01 93.8% 55.4%
5030783 242.1.1.3 ↗ a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › Hom_end 0.61 38.0 3.83e-01 92.8% 62.1%
3738271 101.1.2.166 ↗ alpha arrays › HTH › HTH › winged helix domain › MCM6_C 0.61 48.0 4.63e-01 99.0% 74.5%
3662349 101.1.2.386 ↗ alpha arrays › HTH › HTH › winged helix domain › WH_DRP 0.61 46.0 4.31e-01 92.8% 65.0%
3479163 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.61 45.0 4.15e-01 96.9% 59.2%
4928686 304.8.1.0 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.59 40.0 4.15e-01 95.9% 74.4%
3615162 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.59 52.0 3.40e-01 96.9% 42.5%
4201034 101.1.2.41 ↗ alpha arrays › HTH › HTH › winged helix domain › FokI_dom_2 0.59 54.0 4.68e-01 100.0% 79.3%
5011607 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.59 48.0 4.22e-01 92.8% 60.0%
5083964 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.59 42.0 4.18e-01 79.4% 71.0%
4167106 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.59 52.0 3.50e-01 96.9% 44.3%
3580866 101.1.2.394 ↗ alpha arrays › HTH › HTH › winged helix domain › eWH_GTF3C1 0.58 46.0 4.37e-01 86.6% 70.0%
3718689 101.1.2.392 ↗ alpha arrays › HTH › HTH › winged helix domain › SNRNP200_wHTH 0.58 51.0 4.48e-01 96.9% 79.3%
5072186 242.1.1.7 ↗ a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › LAGLIDADG_3 0.57 34.0 3.37e-01 87.6% 53.3%
4971395 242.1.1.0 ↗ a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases 0.57 36.0 3.67e-01 93.8% 64.2%
4953881 101.1.2.554 ↗ alpha arrays › HTH › HTH › winged helix domain › PF30184 0.56 42.0 4.11e-01 87.6% 70.9%
3167709 101.1.2.166 ↗ alpha arrays › HTH › HTH › winged helix domain › MCM6_C 0.56 45.0 4.24e-01 91.8% 72.2%
3604412 242.1.1.0 ↗ a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases 0.56 35.0 3.49e-01 87.6% 59.0%
3811740 2003.1.5.14 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_3 0.56 40.0 2.98e-01 74.2% 76.7%
4993455 242.1.1.0 ↗ a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases 0.56 33.0 3.21e-01 91.8% 48.7%
4994902 101.1.2.914 ↗ alpha arrays › HTH › HTH › winged helix domain › DUF6015 0.56 35.0 3.50e-01 88.7% 59.0%
3255511 375.1.1.179 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › TFIIE_alpha 0.55 47.0 3.70e-01 89.7% 80.0%
3733392 101.1.2.166 ↗ alpha arrays › HTH › HTH › winged helix domain › MCM6_C 0.55 44.0 4.23e-01 89.7% 73.9%
3640260 101.1.2.31 ↗ alpha arrays › HTH › HTH › winged helix domain › TFIIE_alpha 0.55 46.0 3.56e-01 89.7% 74.6%
3187460 375.1.1.179 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › TFIIE_alpha 0.54 45.0 3.63e-01 89.7% 79.5%
4116735 304.4.1.14 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › Dabb 0.54 38.0 3.89e-01 96.9% 75.8%
3264027 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.54 36.0 3.70e-01 82.5% 72.2%
3692895 375.1.1.179 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › TFIIE_alpha 0.54 45.0 3.37e-01 89.7% 67.0%
4028183 304.116.1.1 ↗ a+b two layers › Alpha-beta plaits › Ferredoxin-like domain in release factor › Ferredoxin-like domain in release factor › PCRF 0.54 36.0 3.58e-01 91.8% 62.9%
3990150 304.126.1.1 ↗ a+b two layers › Alpha-beta plaits › ferredoxin-like domain in vacuolar ATP synthase subunit C › ferredoxin-like domain in vacuolar ATP synthase subunit C › V_ATPase_I 0.53 32.0 3.48e-01 95.9% 74.7%
3611256 101.1.2.236 ↗ alpha arrays › HTH › HTH › winged helix domain › POLR3C_WHD 0.53 46.0 2.89e-01 97.9% 82.1%
5022418 304.5.1.7 ↗ a+b two layers › Alpha-beta plaits › GlnB-like › GlnB-like › DUF2179 0.52 30.0 3.43e-01 95.9% 80.0%
3220259 5001.1.1.1 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_1 0.52 41.0 2.87e-01 84.5% 59.4%
5044477 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.52 35.0 3.53e-01 79.4% 68.0%
3702328 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.51 43.0 2.82e-01 90.7% 34.9%
4931230 304.114.1.0 ↗ a+b two layers › Alpha-beta plaits › Family B DNA polymerase insertion domain › Family B DNA polymerase insertion domain 0.51 30.0 3.14e-01 95.9% 61.1%
4022825 304.4.1.0 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel 0.51 35.0 3.44e-01 99.0% 66.7%
5000388 304.44.1.0 ↗ a+b two layers › Alpha-beta plaits › Ribosomal protein S10 › Ribosomal protein S10 0.50 32.0 3.38e-01 95.9% 70.0%
3224634 5001.1.1.41 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7TM_GPCR_Srw 0.50 38.0 2.66e-01 82.5% 52.7%
3655782 101.1.2.598 ↗ alpha arrays › HTH › HTH › winged helix domain › RNA_pol_Rpc82, POLR3C_WHD 0.50 46.0 3.14e-01 97.9% 37.2%
5049218 101.1.9.2 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › SRP19 0.50 39.0 3.88e-01 99.0% 82.0%
166476 304.4.1.14 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › Dabb 0.50 36.0 3.63e-01 100.0% 75.3%