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CBX88966.1

Arc-Vir

FR725450__CBX88966.1__X__00022

Identity

Accession:
FR725450 ↗
Protein ID:
CBX88966.1 ↗
Kingdom:
archaea

Quality

83.2 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Nitrososphaera_phage_Pro-Nvie1

TaxID: 927392

Cluster

Singleton — not in a non-trivial cluster

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 12-67_81-137
PDB
Domain cluster: representative
CATH (8)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4gxbA03 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.69 59.0 6.19e-01 92.9% 100.0%
1j0wB00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.65 55.0 5.79e-01 92.0% 98.1%
3rv0B03 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.64 33.0 3.85e-01 80.5% 70.9%
1h10A00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.63 56.0 5.52e-01 92.9% 94.9%
1gkuB07 2.60.510.20 Mainly Beta › Sandwich › EV matrix protein fold › 0.58 40.0 4.20e-01 71.7% 87.3%
1h2iA01 3.30.390.80 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › DNA repair protein Rad52/59/22 0.56 41.0 3.82e-01 77.0% 66.9%
4dduA07 2.60.510.20 Mainly Beta › Sandwich › EV matrix protein fold › 0.53 37.0 3.84e-01 71.7% 86.0%
3gw6D02 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 0.50 39.0 3.49e-01 83.2% 87.6%
ECOD (31)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4929636 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.98 84.0 8.94e-01 98.2% 99.0%
4928517 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.85 71.0 6.73e-01 93.8% 75.8%
5058109 220.1.1.76 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › bPH_2 0.79 61.0 6.81e-01 85.0% 100.0%
3956353 220.1.1.76 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › bPH_2 0.78 57.0 6.60e-01 82.3% 100.0%
3439990 220.1.1.76 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › bPH_2 0.76 55.0 6.09e-01 82.3% 92.2%
5039031 220.1.1.76 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › bPH_2 0.75 60.0 6.11e-01 86.7% 84.5%
3290954 220.1.1.76 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › bPH_2 0.75 61.0 6.63e-01 86.7% 100.0%
3670792 243.3.1.67 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin › Phytochelatin_C 0.72 33.0 4.22e-01 73.5% 73.8%
4003463 220.1.1.168 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › Tmpp129 0.72 57.0 5.52e-01 85.8% 75.2%
3621723 5069.1.3.0 ↗ alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Fumarate reductase respiratory complex transmembrane subunits 0.72 57.0 4.32e-01 85.8% 37.6%
5007103 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.71 49.0 5.75e-01 88.5% 100.0%
3929074 220.1.1.125 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_PLEKHM2 0.65 59.0 5.26e-01 95.6% 76.7%
3594762 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.64 39.0 4.60e-01 80.5% 87.5%
3577911 220.1.1.15 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › BBL5 0.64 57.0 5.19e-01 95.6% 76.6%
3476190 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.63 52.0 4.61e-01 89.4% 100.0%
3698605 330.1.1.2 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › Ribosomal_S5 0.62 40.0 4.22e-01 81.4% 72.0%
3596066 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.62 55.0 5.35e-01 94.7% 93.6%
3614844 220.1.1.15 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › BBL5 0.62 55.0 5.08e-01 93.8% 81.4%
5071482 264.2.1.0 ↗ beta barrels › LigT-like › Prokaryotic type I DNA topoisomerase beta-barrel domain › Prokaryotic type I DNA topoisomerase beta-barrel domain 0.59 41.0 3.99e-01 70.8% 92.8%
3173646 277.1.1.1 ↗ a+b two layers › PX domain › PX domain › PX domain › PX 0.59 43.0 3.79e-01 75.2% 90.3%
4106397 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.59 33.0 3.91e-01 84.1% 81.3%
4003604 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.58 47.0 4.85e-01 85.8% 100.0%
3300200 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.56 50.0 4.72e-01 97.3% 85.9%
3735697 330.1.1.19 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › DSRM_2 0.55 32.0 3.63e-01 81.4% 78.8%
5012842 243.3.1.0 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.54 32.0 3.61e-01 77.9% 76.5%
5062048 264.2.1.0 ↗ beta barrels › LigT-like › Prokaryotic type I DNA topoisomerase beta-barrel domain › Prokaryotic type I DNA topoisomerase beta-barrel domain 0.54 43.0 4.02e-01 85.0% 89.3%
4113520 325.1.7.0 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif 0.54 33.0 3.67e-01 77.9% 80.0%
4438762 243.3.1.3 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin › PepSY 0.53 31.0 3.44e-01 77.0% 72.9%
5021368 2005.1.1.18 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › NAD_synthase 0.53 37.0 2.69e-01 100.0% 25.6%
4031371 264.2.1.1 ↗ beta barrels › LigT-like › Prokaryotic type I DNA topoisomerase beta-barrel domain › Prokaryotic type I DNA topoisomerase beta-barrel domain › Topoisom_bac 0.52 37.0 3.53e-01 74.3% 90.7%
4017740 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.51 39.0 3.89e-01 83.2% 86.7%
D2 medium residues 143-198
PDB
Domain cluster: rep: MH517022.1__AXF41381.1__SHAb15599_00011__00010__DFULL
Pfam (3)
AccessionNameScoreE-valueQ covHMM cov
PF12773.14 best DZR 44.5 1.90e-11 78.6% 100.0%
PF13240.12 Zn_Ribbon_1 25.2 1.40e-05 41.1% 95.7%
PF13240.12 Zn_Ribbon_1 31.1 1.90e-07 39.3% 95.7%
CATH (5)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4xxbB00 2.30.30.380 Mainly Beta › Roll › SH3 type barrels. › Zn-finger domain of Sec23/24 0.74 47.0 5.32e-01 80.4% 85.7%
2ebqA00 4.10.1060.10 Few Secondary Structures › Irregular › ZNF265 like › Zinc finger, RanBP2-type 0.72 47.0 5.10e-01 89.3% 80.9%
5an9H00 4.10.1060.50 Few Secondary Structures › Irregular › ZNF265 like › 0.70 44.0 4.56e-01 87.5% 69.2%
2gnrA01 6.10.30.10 Special › Helix non-globular › Lyase 2-enoyl-coa Hydratase; Chain A, domain 2 › 0.61 39.0 3.71e-01 71.4% 53.6%
1tpmA00 2.10.70.10 Mainly Beta › Ribbon › Complement Module; domain 1 › Complement Module, domain 1 0.52 37.0 3.85e-01 75.0% 86.0%
ECOD (52)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3537853 375.1.1.4 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › zf-RanBP 0.88 44.0 5.96e-01 85.7% 100.0%
378154 375.1.1.4 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › zf-RanBP 0.88 49.0 6.27e-01 76.8% 96.9%
3216791 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.88 47.0 6.10e-01 94.6% 100.0%
3701761 375.1.1.133 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › zf-ribbon_3 0.83 45.0 5.48e-01 71.4% 85.7%
3231449 375.1.1.4 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › zf-RanBP 0.81 46.0 5.33e-01 83.9% 80.0%
3269360 375.4.1.0 ↗ few secondary structure elements › Rubredoxin-like › Nucleolar RNA-binding protein Nop10-like › Nucleolar RNA-binding protein Nop10-like 0.80 44.0 5.37e-01 92.9% 100.0%
4158088 375.1.1.218 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Zn_Ribbon_1 0.80 49.0 5.42e-01 82.1% 77.8%
3216893 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.80 45.0 5.25e-01 89.3% 80.0%
4940675 375.1.1.6 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Ribosomal_L40e 0.79 47.0 5.49e-01 80.4% 85.0%
3702569 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.78 49.0 5.38e-01 92.9% 80.0%
2880112 375.1.1.4 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › zf-RanBP 0.78 48.0 5.67e-01 91.1% 92.1%
4997635 376.1.1.182 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › Zn_ribbon_3 0.76 46.0 4.08e-01 80.4% 43.8%
3793409 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.75 54.0 3.58e-01 80.4% 19.1%
3719412 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.75 47.0 3.66e-01 92.9% 30.0%
5047644 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.75 47.0 5.17e-01 82.1% 80.0%
3610910 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.73 47.0 4.79e-01 78.6% 67.3%
4946660 386.1.1.420 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › DZR 0.73 47.0 4.34e-01 82.1% 52.9%
3609074 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.71 46.0 5.07e-01 100.0% 84.4%
3709219 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.70 46.0 5.14e-01 94.6% 95.0%
4948217 375.4.1.0 ↗ few secondary structure elements › Rubredoxin-like › Nucleolar RNA-binding protein Nop10-like › Nucleolar RNA-binding protein Nop10-like 0.68 39.0 4.45e-01 73.2% 77.5%
3712416 375.1.1.187 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Zf_2nd_IFT121 0.68 55.0 5.13e-01 89.3% 91.4%
5051725 375.2.1.0 ↗ few secondary structure elements › Rubredoxin-like › YfgJ-like › YfgJ-like 0.68 39.0 4.48e-01 91.1% 100.0%
4241211 375.1.1.204 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › PolC_DP2_central 0.67 54.0 4.39e-01 89.3% 47.6%
4944118 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.66 51.0 5.26e-01 87.5% 86.8%
3258538 304.9.1.1 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RRM_1 0.65 48.0 3.01e-01 76.8% 45.6%
4002569 376.1.1.78 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › Zf_2nd_IFT121 0.65 52.0 4.80e-01 91.1% 85.3%
4336402 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.64 54.0 3.70e-01 96.4% 87.3%
4941232 375.1.1.204 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › PolC_DP2_central 0.63 49.0 3.92e-01 89.3% 41.7%
5071597 375.1.1.204 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › PolC_DP2_central 0.63 48.0 4.87e-01 89.3% 87.3%
5032007 375.1.1.204 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › PolC_DP2_central 0.62 48.0 3.96e-01 89.3% 45.7%
3709218 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.62 54.0 4.41e-01 100.0% 58.3%
4942509 375.1.1.204 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › PolC_DP2_central 0.61 47.0 4.10e-01 89.3% 53.3%
5036185 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.61 48.0 4.79e-01 89.3% 83.3%
None — 0.61 49.0 4.17e-01 91.1% 72.6%
3895601 376.1.1.78 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › Zf_2nd_IFT121 0.61 48.0 4.16e-01 91.1% 72.6%
3601822 376.1.1.0 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box 0.61 49.0 4.27e-01 92.9% 77.8%
3601630 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.60 52.0 3.32e-01 100.0% 61.3%
5001541 2500.1.1.5 ↗ a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › NRDD 0.60 52.0 2.98e-01 100.0% 13.2%
5050748 375.1.1.204 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › PolC_DP2_central 0.60 47.0 3.97e-01 89.3% 49.0%
5056549 375.1.1.204 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › PolC_DP2_central 0.60 47.0 3.81e-01 89.3% 44.5%
3399740 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.60 44.0 4.86e-01 82.1% 97.8%
3554999 376.1.1.0 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box 0.60 46.0 4.24e-01 85.7% 77.3%
3479896 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.59 40.0 4.53e-01 91.1% 97.5%
3704673 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.59 52.0 3.87e-01 98.2% 75.7%
5076714 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.58 46.0 4.68e-01 87.5% 90.9%
5058430 2002.1.1.120 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Radical_SAM 0.58 41.0 2.62e-01 76.8% 20.9%
3718984 375.10.1.0 ↗ few secondary structure elements › Rubredoxin-like › Zinc finger domain of DNA polymerase-alpha › Zinc finger domain of DNA polymerase-alpha 0.58 47.0 4.45e-01 87.5% 83.1%
3609075 375.1.1.4 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › zf-RanBP 0.57 49.0 4.11e-01 100.0% 75.0%
5055053 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.57 45.0 4.48e-01 98.2% 88.3%
5027411 2500.1.1.0 ↗ a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel 0.56 48.0 2.78e-01 98.2% 56.4%
3214278 376.1.1.21 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › zf-RING_2 0.54 37.0 2.76e-01 71.4% 34.2%
3430608 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.50 40.0 3.94e-01 91.1% 90.0%