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nucleocapsid_protein

Euk-Vir

Phocine_morbillivirus

nucleocapsid_protein__YP_009177597__Phocine_morbillivirus__11240

Identity

Accession:
YP_009177597 ↗
Protein ID:
nucleocapsid_protein
Kingdom:
euk

Quality

72.5 mean pLDDT

Taxonomy

Orthornavirae› Negarnaviricota› Monjiviricetes› Mononegavirales› Paramyxoviridae› Morbillivirus› Phocine_morbillivirus

TaxID: 11240

Cluster

View cluster (62 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 medium residues 32-140
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF00973.26 best Paramyxo_ncap 80.4 1.90e-22 100.0% 26.2%
CATH (42)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2ajtA01 3.40.50.10940 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.60 51.0 4.37e-01 93.6% 85.7%
7uvpA01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.58 50.0 3.76e-01 93.6% 97.4%
1rxxC01 3.75.10.10 Alpha Beta › 5-stranded Propeller › L-arginine/glycine Amidinotransferase; Chain A › L-arginine/glycine Amidinotransferase; Chain A 0.57 47.0 3.37e-01 89.9% 73.4%
5ix8A01 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.55 43.0 3.88e-01 85.3% 91.2%
3hutA01 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.55 46.0 3.86e-01 93.6% 91.3%
1e8cA02 3.40.1190.10 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Mur-like, catalytic domain 0.55 48.0 3.79e-01 98.2% 95.8%
4rv5A01 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.55 46.0 3.81e-01 94.5% 92.8%
3graA00 3.40.50.880 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Class I glutamine amidotransferase (GATase) domain 0.55 47.0 4.02e-01 97.2% 98.9%
3td9A01 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.55 46.0 3.85e-01 94.5% 92.5%
2xvyA01 3.40.50.1400 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.55 45.0 4.22e-01 91.7% 94.2%
7d27A02 3.40.1190.10 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Mur-like, catalytic domain 0.54 48.0 3.80e-01 99.1% 97.4%
3lkbA01 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.54 46.0 3.72e-01 94.5% 87.9%
4mptA01 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.54 45.0 3.65e-01 94.5% 91.6%
1usgA01 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.54 45.0 3.76e-01 94.5% 91.5%
2p6wA00 3.90.550.10 Alpha Beta › Alpha-Beta Complex › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A 0.53 43.0 3.53e-01 88.1% 91.7%
4q6bA01 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.53 43.0 3.56e-01 88.1% 92.0%
3lopA01 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.53 45.0 3.69e-01 95.4% 91.4%
3ckmA01 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.53 45.0 3.86e-01 94.5% 90.4%
1a8uA00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.53 43.0 3.30e-01 91.7% 89.2%
3i2fA02 1.10.3020.10 Mainly Alpha › Orthogonal Bundle › alpha-amino acid ester hydrolase ( Helical cap domain) › alpha-amino acid ester hydrolase ( Helical cap domain) 0.53 34.0 3.58e-01 74.3% 73.7%
4evsA01 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.53 44.0 3.73e-01 94.5% 91.9%
4kv7A01 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.52 44.0 3.65e-01 95.4% 88.7%
4m88A01 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.52 44.0 3.61e-01 94.5% 91.5%
4evqA01 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.52 44.0 3.66e-01 94.5% 92.6%
4ft4A02 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.52 45.0 3.17e-01 96.3% 95.3%
3lw7A00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.52 43.0 3.71e-01 89.9% 98.2%
3n0xA01 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.52 44.0 3.67e-01 96.3% 92.3%
3okpA02 3.40.50.2000 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Glycogen Phosphorylase B; 0.52 44.0 3.70e-01 93.6% 77.2%
1f2dA02 3.40.50.1100 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.51 39.0 4.01e-01 79.8% 100.0%
7vi8A01 3.20.20.370 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycoside hydrolase/deacetylase 0.51 43.0 3.35e-01 93.6% 92.8%
5ujwD00 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.51 43.0 3.32e-01 92.7% 96.8%
3d02A01 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.51 43.0 3.94e-01 93.6% 89.8%
3quaA00 3.40.50.450 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.51 42.0 3.62e-01 90.8% 96.1%
3u80A00 3.40.50.9100 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Dehydroquinase, class II 0.51 42.0 4.04e-01 91.7% 90.6%
1tjyA01 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.51 43.0 3.85e-01 96.3% 84.0%
3g85A01 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.51 42.0 3.90e-01 92.7% 79.7%
2qpqA01 3.40.190.150 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Bordetella uptake gene, domain 1 0.50 44.0 3.79e-01 96.3% 73.8%
4o53A00 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.50 43.0 3.31e-01 93.6% 97.6%
3gbvA01 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.50 42.0 3.91e-01 92.7% 86.4%
1szpB02 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.50 42.0 3.45e-01 93.6% 70.1%
4rsmD01 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.50 42.0 3.78e-01 95.4% 89.6%
4qrnB00 3.20.20.140 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Metal-dependent hydrolases 0.50 44.0 3.15e-01 100.0% 53.2%
ECOD (26)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
2756727 566.1.1.1 ↗ alpha complex topology › P40 nucleoprotein-like › P40 nucleoprotein-related › P40 nucleoprotein-related › Paramyxo_ncap 0.92 88.0 5.75e-01 100.0% 27.9%
2749214 566.1.1.1 ↗ alpha complex topology › P40 nucleoprotein-like › P40 nucleoprotein-related › P40 nucleoprotein-related › Paramyxo_ncap 0.85 77.0 5.09e-01 95.4% 28.3%
2996711 566.1.1.1 ↗ alpha complex topology › P40 nucleoprotein-like › P40 nucleoprotein-related › P40 nucleoprotein-related › Paramyxo_ncap 0.83 75.0 4.92e-01 95.4% 26.1%
2769765 566.1.1.1 ↗ alpha complex topology › P40 nucleoprotein-like › P40 nucleoprotein-related › P40 nucleoprotein-related › Paramyxo_ncap 0.82 78.0 5.12e-01 100.0% 27.8%
2521251 566.1.1.1 ↗ alpha complex topology › P40 nucleoprotein-like › P40 nucleoprotein-related › P40 nucleoprotein-related › Paramyxo_ncap 0.79 72.0 4.81e-01 98.2% 27.1%
3496890 2011.1.1.0 ↗ a/b three-layered sandwiches › Phosphorylase/hydrolase-like › Zn-dependent exopeptidases › Zn-dependent exopeptidases 0.60 51.0 3.44e-01 94.5% 48.6%
3715107 2011.1.1.2 ↗ a/b three-layered sandwiches › Phosphorylase/hydrolase-like › Zn-dependent exopeptidases › Zn-dependent exopeptidases › Peptidase_M14,Pepdidase_M14_N 0.59 51.0 3.35e-01 97.2% 42.9%
3516066 2004.1.1.162 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Rad51 0.55 47.0 3.54e-01 95.4% 94.1%
3401822 2004.1.1.162 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Rad51 0.55 48.0 3.62e-01 96.3% 89.6%
3811489 2004.1.1.14 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › GTP_EFTU 0.55 47.0 3.59e-01 95.4% 76.2%
3645353 632.1.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase middle domain › Families 57/38 glycoside transferase middle domain 0.55 39.0 4.17e-01 89.0% 88.9%
3971108 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.54 40.0 4.39e-01 79.8% 94.4%
3458091 632.1.1.13 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase middle domain › Families 57/38 glycoside transferase middle domain › Rx_N 0.54 38.0 4.25e-01 89.0% 95.3%
4205283 2007.1.19.4 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › FabD/lysophospholipase-like › SAT 0.53 44.0 3.24e-01 91.7% 93.4%
3441901 632.1.1.13 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase middle domain › Families 57/38 glycoside transferase middle domain › Rx_N 0.53 36.0 4.10e-01 83.5% 97.5%
4032348 2004.1.1.347 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_24 0.52 44.0 3.43e-01 93.6% 89.6%
4991789 2006.1.1.1 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › Hydrolase 0.52 44.0 3.40e-01 92.7% 96.0%
3182943 7590.1.1.3 ↗ a/b three-layered sandwiches › Middle domain in Argonaute homologs › Middle domain in Argonaute homologs › Middle domain in Argonaute homologs › Piwi,ArgoMid 0.52 44.0 3.76e-01 95.4% 63.2%
3908434 2004.1.1.162 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Rad51 0.52 44.0 3.34e-01 96.3% 87.4%
5051793 7510.1.1.0 ↗ a/b three-layered sandwiches › Isocitrate/Isopropylmalate dehydrogenase-like › Isocitrate/Isopropylmalate dehydrogenase-like › Isocitrate/Isopropylmalate dehydrogenase-like 0.51 43.0 3.99e-01 92.7% 86.2%
3940280 2007.1.2.4 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Periplasmic binding protein-like I › ANF_receptor 0.51 44.0 3.61e-01 94.5% 91.0%
3652435 601.1.2.0 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › I/LWEQ domain (Pfam 01608) 0.51 35.0 3.39e-01 70.6% 79.2%
4934911 2002.1.1.16 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Bac_luciferase 0.51 42.0 2.99e-01 92.7% 98.3%
3240683 2007.1.2.0 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Periplasmic binding protein-like I 0.50 43.0 3.35e-01 95.4% 93.2%
3192179 2004.1.1.414 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › GTP_EFTU, MMR_HSR1 0.50 43.0 3.46e-01 97.2% 86.5%
3665243 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.50 36.0 2.86e-01 78.0% 74.1%
D2 medium residues 141-263
PDB
Domain cluster: rep: nucleocapsid_protein__YP_009512957__Feline_morbillivirus__1170234__D152-264
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF00973.26 best Paramyxo_ncap 168.8 2.60e-49 100.0% 29.8%
D3 medium residues 264-347_488-498
PDB
Domain cluster: rep: N_protein__YP_010085016__Pohorje_myodes_paramyxovirus_1__2116604__D281-361
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF00973.26 best Paramyxo_ncap 160.1 1.10e-46 96.8% 21.8%
D4 medium residues 348-404
PDB