Back to structures

N_protein

Euk-Vir

Oliviers_shrew_virus_1

N_protein__YP_009388599__Oliviers_shrew_virus_1__2012619

Identity

Accession:
YP_009388599 ↗
Protein ID:
N_protein
Kingdom:
euk

Quality

68.7 mean pLDDT

Cluster

Singleton — not in a non-trivial cluster

3D Structure

Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 63-116
PDB
Domain cluster: representative
CATH (49)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1p65A00 6.10.140.90 Special › Helix non-globular › Helix Hairpins › 0.87 79.0 7.79e-01 100.0% 96.5%
4alzA03 3.30.70.1770 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.69 41.0 3.84e-01 96.3% 50.0%
4uwmA00 3.20.20.30 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Luciferase-like domain 0.65 47.0 2.80e-01 75.9% 88.1%
1kgqA01 1.10.166.10 Mainly Alpha › Orthogonal Bundle › Tetrahydrodipicolinate-N-succinyltransferase; Chain A, domain 1 › Tetrahydrodipicolinate-N-succinyltransferase, N-terminal domain 0.63 43.0 3.90e-01 70.4% 71.4%
1u5tA02 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 47.0 4.22e-01 94.4% 60.0%
6qpqB00 1.10.10.580 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Structural maintenance of chromosome 1. Chain E 0.61 42.0 3.67e-01 72.2% 67.9%
2rdpA00 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 3.78e-01 94.4% 85.7%
1s12A00 3.30.70.1490 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Cysteine protease Prp 0.60 52.0 4.39e-01 100.0% 75.5%
1fokA02 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 4.25e-01 90.7% 100.0%
2vxzA01 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 39.0 3.67e-01 94.4% 54.5%
4rs8A00 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 43.0 3.83e-01 79.6% 92.9%
2obpA00 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 43.0 3.80e-01 90.7% 51.9%
2w01B00 3.30.70.1230 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Nucleotide cyclase, GGDEF domain 0.59 51.0 3.51e-01 100.0% 44.2%
6mfxA02 3.30.559.10 Alpha Beta › 2-Layer Sandwich › Chloramphenicol Acetyltransferase › Chloramphenicol acetyltransferase-like domain 0.58 38.0 2.77e-01 96.3% 22.5%
3mwmA01 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 40.0 3.55e-01 75.9% 50.7%
2l01A00 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 39.0 3.52e-01 87.0% 49.4%
3broD00 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 47.0 3.60e-01 92.6% 89.6%
4uhiA01 1.10.630.10 Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450 0.58 46.0 2.85e-01 100.0% 38.6%
2felA00 1.20.200.10 Mainly Alpha › Up-down Bundle › Fumarase C; Chain A, domain 2 › Fumarase/aspartase (Central domain) 0.58 44.0 2.66e-01 81.5% 19.0%
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 0.57 43.0 3.84e-01 88.9% 97.8%
3rq1D01 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.57 43.0 3.07e-01 81.5% 45.1%
7dklA01 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 47.0 3.75e-01 94.4% 59.6%
3cjnA00 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 43.0 3.38e-01 94.4% 65.8%
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 0.55 39.0 3.43e-01 79.6% 95.7%
3znuA00 3.30.70.1060 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Dimeric alpha+beta barrel 0.55 47.0 3.90e-01 94.4% 73.4%
5xyiK00 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 38.0 3.25e-01 90.7% 44.4%
3r31A01 3.40.605.10 Alpha Beta › 3-Layer(aba) Sandwich › Aldehyde Dehydrogenase; Chain A, domain 1 › Aldehyde Dehydrogenase; Chain A, domain 1 0.55 41.0 2.71e-01 83.3% 79.4%
1hywA00 3.30.1580.10 Alpha Beta › 2-Layer Sandwich › Head-to-tail joining protein W, gpW › Head-to-tail joining protein W 0.55 32.0 3.21e-01 94.4% 50.0%
8d3mA02 1.20.120.920 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › CRISPR-associated endonuclease Cas1, C-terminal domain 0.55 43.0 2.98e-01 98.1% 47.1%
8agaA01 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 0.54 44.0 3.38e-01 90.7% 100.0%
3e54A00 3.10.28.10 Alpha Beta › Roll › Endonuclease I-creI › Homing endonucleases 0.54 41.0 3.09e-01 88.9% 60.4%
3l09A02 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 0.54 38.0 3.43e-01 79.6% 100.0%
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 0.54 40.0 3.36e-01 85.2% 74.0%
3ez2A01 1.10.1660.30 Mainly Alpha › Orthogonal Bundle › Multidrug-efflux Transporter Regulator; Chain: A; Domain 2 › 0.53 38.0 3.67e-01 83.3% 77.1%
2qvoA00 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 40.0 3.62e-01 90.7% 97.7%
3nqoB00 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 44.0 3.12e-01 94.4% 74.6%
1u5tB02 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 38.0 3.49e-01 72.2% 65.2%
1vk8A00 3.30.70.930 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.52 44.0 3.80e-01 100.0% 67.7%
3bjoA00 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 42.0 3.36e-01 87.0% 83.5%
4uyiA00 3.30.710.10 Alpha Beta › 2-Layer Sandwich › Potassium Channel Kv1.1; Chain A › Potassium Channel Kv1.1; Chain A 0.52 40.0 3.21e-01 100.0% 39.4%
4gyiA01 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 37.0 3.26e-01 81.5% 87.1%
3lpzA01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.52 44.0 2.76e-01 94.4% 29.8%
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 0.52 35.0 3.38e-01 72.2% 60.9%
2v1nA01 1.10.10.2030 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › DNA/RNA-binding protein Kin17, conserved domain 0.51 43.0 3.61e-01 98.1% 52.5%
4fx5A03 1.20.120.1690 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.51 41.0 3.32e-01 96.3% 47.0%
3u5eI02 3.30.60.300 Alpha Beta › 2-Layer Sandwich › Wheat Germ Agglutinin (Isolectin 2); domain 1 › 0.51 29.0 3.09e-01 72.2% 55.3%
7dvrA01 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 40.0 3.11e-01 94.4% 90.8%
1u0tB01 3.40.50.10330 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Probable inorganic polyphosphate/atp-NAD kinase; domain 1 0.51 40.0 2.98e-01 94.4% 33.8%
1fxkB00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.50 43.0 3.39e-01 94.4% 58.7%
ECOD (48)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
2036553 808.1.1.2 a+b duplicates or obligate multimers › Arterivirus nucleocapsid protein › Arterivirus nucleocapsid protein › Arterivirus nucleocapsid protein › Arteri_nucleo 0.89 78.0 7.72e-01 94.4% 91.1%
5059632 101.1.2.673 alpha arrays › HTH › HTH › winged helix domain › HTH_HVO_0163_N 0.68 42.0 3.66e-01 72.2% 42.5%
5057765 4955.1.1.0 a+b two layers › permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit › permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit › permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit 0.67 35.0 3.05e-01 87.0% 33.8%
2323881 3433.1.2.1 a+b duplicates or obligate multimers › ParB dimerization domain › ParB dimerization domain › Chromosome-encoded ParB dimerization domain › ParB_dimer 0.66 35.0 3.58e-01 75.9% 50.0%
3657579 101.1.2.267 alpha arrays › HTH › HTH › winged helix domain › Nse4_C 0.64 43.0 3.97e-01 70.4% 54.3%
3439131 101.1.2.407 alpha arrays › HTH › HTH › winged helix domain › WHD_ORC2 0.64 48.0 3.85e-01 92.6% 40.4%
3506709 101.1.2.267 alpha arrays › HTH › HTH › winged helix domain › Nse4_C 0.63 43.0 3.43e-01 70.4% 34.5%
3408042 603.1.1.0 alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.62 52.0 3.15e-01 94.4% 44.8%
3412689 101.1.2.281 alpha arrays › HTH › HTH › winged helix domain › Tfb2 0.62 41.0 3.27e-01 70.4% 30.8%
3695413 101.1.2.65 alpha arrays › HTH › HTH › winged helix domain › Rad21_Rec8 0.62 44.0 3.59e-01 75.9% 52.0%
3505845 101.1.2.407 alpha arrays › HTH › HTH › winged helix domain › WHD_ORC2 0.61 46.0 3.75e-01 92.6% 44.0%
4959083 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.60 43.0 3.11e-01 79.6% 48.8%
3782485 148.1.3.0 alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.59 43.0 3.55e-01 85.2% 86.1%
3301908 101.1.2.281 alpha arrays › HTH › HTH › winged helix domain › Tfb2 0.58 40.0 3.41e-01 72.2% 41.1%
4968601 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.58 42.0 3.35e-01 72.2% 64.8%
3172091 101.1.2.496 alpha arrays › HTH › HTH › winged helix domain › WH_eIF2D 0.58 46.0 3.89e-01 90.7% 54.7%
3597278 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.56 41.0 3.47e-01 92.6% 46.7%
4025070 101.1.2.407 alpha arrays › HTH › HTH › winged helix domain › WHD_ORC2 0.56 49.0 3.82e-01 100.0% 50.0%
3339574 101.1.2.385 alpha arrays › HTH › HTH › winged helix domain › HRQ1_WHD 0.56 41.0 3.59e-01 83.3% 85.6%
3972594 3714.1.1.1 a+b two layers › Lon-like protease MtaLonC helical domain › Lon-like protease MtaLonC helical domain › Lon-like protease MtaLonC helical domain › LonC_helical 0.56 46.0 3.04e-01 96.3% 58.8%
4993306 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.56 41.0 3.60e-01 83.3% 87.8%
3268538 101.1.2.267 alpha arrays › HTH › HTH › winged helix domain › Nse4_C 0.56 44.0 3.53e-01 88.9% 70.4%
3743466 101.1.2.267 alpha arrays › HTH › HTH › winged helix domain › Nse4_C 0.55 44.0 3.63e-01 90.7% 79.0%
4632150 304.56.1.0 a+b two layers › Alpha-beta plaits › CRISPR associated protein Cas2-like › CRISPR associated protein Cas2-like 0.55 46.0 3.83e-01 92.6% 58.9%
3725361 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.55 39.0 3.50e-01 83.3% 96.7%
3466238 206.1.1.14 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › ABC1 0.55 46.0 2.69e-01 92.6% 35.3%
3679669 101.1.2.267 alpha arrays › HTH › HTH › winged helix domain › Nse4_C 0.54 45.0 3.58e-01 92.6% 74.5%
4018469 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.54 40.0 3.38e-01 85.2% 88.6%
4948576 101.1.2.37 alpha arrays › HTH › HTH › winged helix domain › E2F_TDP 0.54 38.0 3.57e-01 72.2% 67.7%
5035585 2003.1.1.22 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › GFO_IDH_MocA 0.54 37.0 2.47e-01 72.2% 87.9%
3961816 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.53 37.0 4.05e-01 70.4% 88.9%
5072831 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.53 38.0 3.68e-01 79.6% 77.8%
5040361 101.1.2.673 alpha arrays › HTH › HTH › winged helix domain › HTH_HVO_0163_N 0.53 36.0 2.91e-01 70.4% 38.1%
5082299 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.53 36.0 2.95e-01 70.4% 42.1%
3983904 101.1.2.14 alpha arrays › HTH › HTH › winged helix domain › HTH_5 0.53 40.0 3.35e-01 87.0% 77.1%
3168448 101.1.2.154 alpha arrays › HTH › HTH › winged helix domain › CDT1_C 0.53 41.0 3.22e-01 90.7% 38.0%
3786964 101.1.10.1 alpha arrays › HTH › HTH › Cyclin-like › Cyclin_N 0.52 45.0 3.16e-01 100.0% 33.0%
3929748 109.4.1.1303 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › HAT_PRP39_N, HAT_PRP39_C 0.52 42.0 2.54e-01 88.9% 16.1%
4979509 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.52 40.0 3.53e-01 94.4% 98.9%
5040012 101.1.2.135 alpha arrays › HTH › HTH › winged helix domain › MarR_2 0.52 39.0 3.46e-01 88.9% 95.6%
4970952 3715.1.1.1 a+b two layers › Ribosomal protein L22e › Ribosomal protein L22e › Ribosomal protein L22e › Ribosomal_L22e 0.52 41.0 3.73e-01 98.1% 95.3%
3214720 192.2.1.1 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.52 44.0 3.66e-01 94.4% 69.5%
5042104 4955.1.1.0 a+b two layers › permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit › permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit › permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit 0.52 36.0 3.24e-01 74.1% 72.5%
3403242 1017.1.1.1 a+b two layers › Rrs1 › Rrs1 › Rrs1 › RRS1 0.51 37.0 3.34e-01 79.6% 81.2%
3996571 101.1.2.53 alpha arrays › HTH › HTH › winged helix domain › Mnd1 0.51 35.0 3.63e-01 72.2% 82.0%
4937548 304.54.1.0 a+b two layers › Alpha-beta plaits › CcmK-like › CcmK-like 0.51 39.0 3.94e-01 85.2% 94.5%
4993580 101.1.2.15 alpha arrays › HTH › HTH › winged helix domain › MarR 0.50 35.0 3.32e-01 74.1% 66.2%
5037176 101.1.2.92 alpha arrays › HTH › HTH › winged helix domain › HTH_11 0.50 36.0 3.22e-01 83.3% 88.9%