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ORF2

Euk-Vir

Nesidiocoris_tenuis_virus

ORF2__YP_009336482__Nesidiocoris_tenuis_virus__1930921

Identity

Accession:
YP_009336482 ↗
Protein ID:
ORF2
Kingdom:
euk

Quality

76.9 mean pLDDT

Taxonomy

Nesidiocoris_tenuis_virus

TaxID: 1930921

Cluster

View cluster (85 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 12-73_115-174
PDB
Domain cluster: representative
Pfam (2)
AccessionNameScoreE-valueQ covHMM cov
PF00978.27 best RdRP_2 62.1 6.40e-17 50.8% 13.6%
PF00978.27 RdRP_2 49.3 5.10e-13 49.2% 13.6%
CATH (3)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2r7rA05 1.10.357.80 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › 0.69 62.0 5.47e-01 98.4% 72.2%
1o14A02 2.20.150.10 Mainly Beta › Single Sheet › putative 5-dehydro-2- deoxygluconokinase like fold › putative 5-dehydro-2- deoxygluconokinase 0.51 23.0 3.33e-01 91.0% 94.3%
2psmA00 1.20.1250.70 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › Interleukin-15/Interleukin-21 0.51 35.0 3.62e-01 71.3% 96.6%
ECOD (6)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4361688 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.72 66.0 4.61e-01 100.0% 41.3%
3983816 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.71 65.0 5.10e-01 100.0% 56.8%
3923013 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.70 65.0 4.63e-01 100.0% 45.2%
3934288 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.70 62.0 5.33e-01 95.9% 87.4%
3241316 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.70 63.0 4.61e-01 100.0% 44.8%
3840293 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.54 30.0 3.01e-01 97.5% 50.0%
D2 medium residues 74-114_175-264
PDB
Domain cluster: rep: RNA_dependent_RNA_polymerase,_partial__YP_002364303__Grapevine_leafroll-associated_virus_10__367121__D252-284_355-434
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF00978.27 best RdRP_2 39.2 5.90e-10 63.4% 15.7%
CATH (19)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1khvA03 3.30.70.270 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain 0.71 57.0 5.75e-01 83.2% 100.0%
3ewgA00 3.30.70.940 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › NusG, N-terminal domain 0.62 38.0 4.58e-01 71.0% 98.8%
3c1mA02 3.30.2130.10 Alpha Beta › 2-Layer Sandwich › VC0802-like › VC0802-like 0.60 46.0 4.29e-01 80.9% 95.1%
3to8A01 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.59 38.0 4.20e-01 71.0% 81.6%
1rkiA01 3.30.70.1650 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › PDO, CxxC motif 0.59 39.0 4.36e-01 74.8% 89.7%
3tviA02 3.30.2130.10 Alpha Beta › 2-Layer Sandwich › VC0802-like › VC0802-like 0.59 45.0 4.27e-01 80.9% 93.7%
2qyxB01 3.30.70.1360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › mj0159-like 0.58 36.0 3.92e-01 77.9% 73.4%
2cyyA02 3.30.70.920 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Lrp/AsnC effector binding domain/regulation of amino acid metabolism (RAM) domain 0.58 40.0 4.57e-01 79.4% 97.9%
2cfxA02 3.30.70.920 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Lrp/AsnC effector binding domain/regulation of amino acid metabolism (RAM) domain 0.58 39.0 4.51e-01 81.7% 100.0%
2m9kA00 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.57 38.0 4.43e-01 70.2% 96.8%
2efpA02 3.30.70.920 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Lrp/AsnC effector binding domain/regulation of amino acid metabolism (RAM) domain 0.57 40.0 4.51e-01 80.9% 98.0%
2ia0B02 3.30.70.920 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Lrp/AsnC effector binding domain/regulation of amino acid metabolism (RAM) domain 0.56 39.0 4.43e-01 76.3% 96.0%
1lxjA00 3.30.70.930 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.54 38.0 4.15e-01 71.8% 94.2%
1yqhA00 3.30.70.930 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.54 38.0 4.16e-01 73.3% 91.3%
1ayeA01 3.30.70.340 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Metallocarboxypeptidase-like 0.53 36.0 4.04e-01 72.5% 90.9%
1g71A01 3.90.920.10 Alpha Beta › Alpha-Beta Complex › DNA primase, PRIM domain › DNA primase, PRIM domain 0.53 44.0 3.65e-01 89.3% 76.7%
1s5jA03 3.90.1600.10 Alpha Beta › Alpha-Beta Complex › Palm domain of DNA polymerase › B family DNA polymerase, palm domain 0.53 47.0 4.47e-01 97.7% 98.1%
2h5eA03 3.30.70.3280 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Peptide chain release factor 3, domain III 0.52 39.0 3.85e-01 77.9% 89.1%
3dpuB03 3.30.310.200 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › 0.51 38.0 4.09e-01 78.6% 100.0%
ECOD (38)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3828472 304.9.1.47 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › DUF4283 0.68 45.0 5.19e-01 79.4% 92.6%
2475411 304.112.1.0 ↗ a+b two layers › Alpha-beta plaits › Argonaute, N-terminal domain › Argonaute, N-terminal domain 0.67 38.0 4.84e-01 75.6% 100.0%
3669756 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.64 41.0 4.90e-01 77.1% 98.8%
3743450 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.64 41.0 4.81e-01 75.6% 93.3%
4022197 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.64 42.0 4.90e-01 71.8% 96.7%
3402464 304.56.1.10 ↗ a+b two layers › Alpha-beta plaits › CRISPR associated protein Cas2-like › CRISPR associated protein Cas2-like › R1_ABCA1 0.63 44.0 4.63e-01 71.0% 86.1%
3648085 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.63 40.0 4.80e-01 79.4% 100.0%
3713228 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.62 44.0 4.79e-01 74.0% 90.0%
3820700 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.60 43.0 4.58e-01 86.3% 86.4%
5004971 304.28.1.38 ↗ a+b two layers › Alpha-beta plaits › Ferredoxin domains in multidrug efflux transporter › Multidrug efflux transporter AcrB pore domain › CAA_C 0.59 48.0 4.34e-01 87.0% 97.8%
3216595 304.7.1.0 ↗ a+b two layers › Alpha-beta plaits › Protease propeptides/inhibitors › Protease propeptides/inhibitors 0.59 38.0 4.42e-01 72.5% 93.3%
4514959 304.20.1.4 ↗ a+b two layers › Alpha-beta plaits › PAP/Archaeal CCA-adding enzyme, C-terminal domain › PAP/Archaeal CCA-adding enzyme, C-terminal domain › CAA_C 0.59 49.0 4.36e-01 87.8% 98.4%
5058210 304.3.1.0 ↗ a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain 0.59 37.0 4.41e-01 70.2% 96.5%
4996284 304.4.1.1 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › AsnC_trans_reg 0.58 37.0 4.33e-01 70.2% 92.2%
4263829 304.9.1.38 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › SET_assoc 0.58 39.0 4.41e-01 71.8% 90.0%
4578112 304.4.1.1 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › AsnC_trans_reg 0.58 38.0 4.46e-01 77.9% 97.8%
3927490 304.7.1.0 ↗ a+b two layers › Alpha-beta plaits › Protease propeptides/inhibitors › Protease propeptides/inhibitors 0.58 39.0 4.51e-01 74.8% 98.9%
3949119 304.48.1.48 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › GGDEF_2 0.58 52.0 4.85e-01 100.0% 96.4%
4537345 304.4.1.1 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › AsnC_trans_reg 0.58 37.0 4.41e-01 77.9% 100.0%
4180000 304.9.1.38 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › SET_assoc 0.58 39.0 4.51e-01 70.2% 100.0%
3974593 304.4.1.1 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › AsnC_trans_reg 0.57 37.0 4.41e-01 74.8% 100.0%
3289257 304.4.1.1 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › AsnC_trans_reg 0.57 37.0 4.39e-01 75.6% 100.0%
4984647 304.4.1.1 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › AsnC_trans_reg 0.56 37.0 4.26e-01 75.6% 96.7%
5001216 304.1.1.0 ↗ a+b two layers › Alpha-beta plaits › GHMP Kinase, C-terminal domain › GHMP Kinase, C-terminal domain 0.56 40.0 4.13e-01 74.8% 100.0%
3518441 304.9.1.1 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RRM_1 0.56 37.0 3.81e-01 76.3% 70.4%
3288076 304.4.1.1 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › AsnC_trans_reg 0.55 39.0 4.40e-01 77.9% 98.9%
4990220 304.4.1.20 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › AsnC_trans_reg2 0.55 41.0 4.41e-01 77.1% 91.8%
4189792 304.4.1.1 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › AsnC_trans_reg 0.55 39.0 4.32e-01 77.1% 95.0%
3164749 304.4.1.1 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › AsnC_trans_reg 0.55 37.0 4.26e-01 75.6% 98.9%
5029121 304.4.1.0 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel 0.55 38.0 4.20e-01 76.3% 92.0%
3947003 304.4.1.1 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › AsnC_trans_reg 0.54 38.0 4.35e-01 78.6% 100.0%
3974796 304.4.1.1 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › AsnC_trans_reg 0.54 38.0 4.22e-01 77.9% 94.0%
5033398 304.4.1.1 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › AsnC_trans_reg 0.54 36.0 4.20e-01 77.1% 100.0%
3339604 304.9.1.47 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › DUF4283 0.54 45.0 4.64e-01 89.3% 95.2%
4315538 304.24.1.4 ↗ a+b two layers › Alpha-beta plaits › EF-G C-terminal domain-like › EF-G C-terminal domain-like › RF3_C 0.53 39.0 3.84e-01 77.1% 89.7%
4977369 304.48.1.3 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B 0.53 47.0 3.82e-01 96.9% 86.0%
4094055 304.56.1.2 ↗ a+b two layers › Alpha-beta plaits › CRISPR associated protein Cas2-like › CRISPR associated protein Cas2-like › CRISPR_Cas2 0.53 37.0 4.09e-01 72.5% 91.3%
5013090 304.4.1.83 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › HTH_24 0.52 38.0 3.43e-01 76.3% 82.2%