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YP_010358143.1

Arc-Vir

NC_062759__YP_010358143.1__M1M37-gp066__00066

Identity

Accession:
NC_062759 ↗
Protein ID:
YP_010358143.1 ↗
Kingdom:
archaea

Quality

79.4 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Thumleimavirales› Hafunaviridae› Laminvirus› Halorubrum_tailed_virus_25

TaxID: 2878006

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 23-228
PDB
Domain cluster: rep: KC292026__AGM11432.1__HGTV1-134__00102__D37-254
CATH (12)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
5jpnC02 2.40.50.120 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.63 29.0 3.35e-01 93.7% 57.3%
4bwgD00 2.40.50.110 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.59 27.0 3.87e-01 91.3% 90.7%
4z9cB00 2.40.50.110 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.59 31.0 4.08e-01 93.7% 90.4%
1pfsA00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.59 25.0 3.76e-01 92.7% 98.7%
3k59A01 2.40.50.590 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › DNA polymerase B, N domain, beta-barrel 0.58 24.0 3.72e-01 94.7% 92.9%
1xweA01 2.40.50.120 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.57 28.0 3.30e-01 93.7% 65.7%
4dkaC00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.56 24.0 3.78e-01 94.2% 100.0%
1gd7A00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.54 26.0 3.43e-01 92.2% 83.5%
4b43A03 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.52 26.0 3.37e-01 92.2% 82.6%
2crvA01 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.51 25.0 3.52e-01 84.0% 100.0%
1g7sA04 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.50 23.0 3.43e-01 85.0% 100.0%
1r5bA02 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.50 22.0 3.28e-01 84.5% 94.4%
ECOD (21)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5060754 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.64 34.0 4.46e-01 96.1% 92.2%
4469294 2.3.1.0 ↗ beta barrels › OB-fold › TIMP-like › TIMP-like 0.60 28.0 3.67e-01 93.7% 75.8%
4988038 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.55 31.0 3.88e-01 95.1% 90.8%
5029965 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.55 24.0 3.72e-01 83.5% 100.0%
3926448 1.1.7.25 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › AARP2CN 0.55 26.0 3.70e-01 83.5% 94.7%
3263786 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.54 28.0 3.44e-01 96.1% 75.6%
5033640 2.1.1.15 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › tRNA_anti-codon 0.54 27.0 3.52e-01 96.1% 85.5%
3211518 11.1.1.179 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Ig_3 0.54 17.0 2.60e-01 93.2% 62.2%
4027927 1.1.7.19 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › GTP_EFTU_D2 0.54 26.0 3.77e-01 93.2% 98.9%
3705431 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.53 30.0 3.91e-01 93.7% 97.4%
3786548 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.53 26.0 3.71e-01 92.2% 98.9%
317158 2.1.1.16 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › tRNA_bind 0.53 26.0 3.41e-01 92.7% 83.8%
4033192 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.53 30.0 3.73e-01 96.1% 87.7%
3502344 1.1.7.19 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › GTP_EFTU_D2 0.53 25.0 3.61e-01 91.7% 96.8%
3700677 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.53 24.0 3.38e-01 92.2% 85.7%
167481 2.1.1.16 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › tRNA_bind 0.52 25.0 3.24e-01 92.2% 78.0%
158849 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.52 25.0 3.23e-01 84.5% 78.3%
3567962 2.3.1.2 ↗ beta barrels › OB-fold › TIMP-like › TIMP-like › NTR 0.51 28.0 3.54e-01 100.0% 87.2%
4976869 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.51 26.0 3.48e-01 93.7% 89.6%
3738189 2.1.1.81 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › Rrp44_S1 0.50 25.0 3.51e-01 92.7% 100.0%
3257925 11.1.1.29 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › TIG 0.50 22.0 3.22e-01 91.3% 89.5%
D2 high residues 273-327
PDB
Domain cluster: representative
CATH (15)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1svmA01 1.10.10.510 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Zinc finger, large T-antigen D1 domain 0.74 66.0 5.58e-01 100.0% 82.2%
2gxaE01 1.10.10.510 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Zinc finger, large T-antigen D1 domain 0.74 61.0 5.66e-01 100.0% 71.2%
1l9lA00 1.10.225.10 Mainly Alpha › Orthogonal Bundle › NK-Lysin › Saposin-like 0.68 58.0 5.35e-01 100.0% 73.0%
1d5rA01 3.90.190.10 Alpha Beta › Alpha-Beta Complex › Protein-Tyrosine Phosphatase; Chain A › Protein tyrosine phosphatase superfamily 0.64 51.0 3.65e-01 100.0% 28.7%
6ofsA03 3.30.830.10 Alpha Beta › 2-Layer Sandwich › Cytochrome Bc1 Complex; Chain A, domain 1 › Metalloenzyme, LuxS/M16 peptidase-like 0.64 54.0 3.70e-01 100.0% 61.4%
1k78I00 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 0.63 47.0 4.68e-01 100.0% 82.8%
4dwlA00 1.20.1440.60 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 23S rRNA-intervening sequence 0.63 52.0 4.25e-01 94.5% 78.7%
3msyA01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.59 48.0 4.00e-01 100.0% 48.6%
3bz6A02 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 46.0 4.20e-01 90.9% 65.4%
2crbA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.57 45.0 3.74e-01 87.3% 64.9%
3oxfA05 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.56 42.0 3.86e-01 85.5% 61.3%
3ay5A01 1.20.1420.10 Mainly Alpha › Up-down Bundle › A middle domain of Talin 1 › Talin, central domain 0.56 46.0 3.45e-01 90.9% 57.9%
1np7A02 1.25.40.80 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.55 45.0 3.63e-01 96.4% 95.0%
2uubT00 1.20.58.110 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Ribosomal protein S20 0.53 45.0 3.83e-01 98.2% 62.6%
1mn8D00 1.10.150.180 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Gamma-retroviral matrix domain 0.52 41.0 3.55e-01 94.5% 58.8%
ECOD (18)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
2486293 8001.1.1.1 ↗ alpha arrays › N-terminal domain of large tumor antigen › N-terminal domain of large tumor antigen › N-terminal domain of large tumor antigen › PPV_E1_C 0.73 60.0 5.61e-01 100.0% 73.2%
4882224 8001.1.1.2 ↗ alpha arrays › N-terminal domain of large tumor antigen › N-terminal domain of large tumor antigen › N-terminal domain of large tumor antigen › Polyoma_lg_T_C 0.73 63.0 5.32e-01 100.0% 77.1%
4271344 101.1.1.305 ↗ alpha arrays › HTH › HTH › Three-helical HTH › ALS2CR8 0.71 63.0 5.85e-01 100.0% 84.3%
4994576 101.35.1.36 ↗ alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX › PF27234 0.69 54.0 5.13e-01 100.0% 72.5%
4933155 198.1.1.27 ↗ alpha arrays › Saposin-like › Saposin-like › Saposin-like › PF27234 0.67 52.0 4.63e-01 100.0% 57.6%
3982565 101.1.1.202 ↗ alpha arrays › HTH › HTH › Three-helical HTH › HTH_21 0.65 54.0 5.42e-01 100.0% 96.4%
3994046 129.1.1.9 ↗ alpha arrays › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › NAD_Gly3P_dh_C 0.64 52.0 4.43e-01 100.0% 64.8%
2538947 309.1.1.4 ↗ a+b two layers › LuxS, MPP, ThrRS/AlaRS common domain › LuxS, MPP, ThrRS/AlaRS common domain › LuxS/MPP-like metallohydrolase › Peptidase_M16_C 0.64 54.0 3.58e-01 100.0% 53.2%
3688492 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.62 51.0 4.61e-01 100.0% 64.7%
3190506 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.62 51.0 4.67e-01 100.0% 68.8%
4596846 129.1.1.9 ↗ alpha arrays › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › NAD_Gly3P_dh_C 0.59 50.0 3.71e-01 100.0% 43.0%
3461845 109.4.1.883 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR+PPR_2 0.56 46.0 3.57e-01 100.0% 41.4%
3887965 101.1.1.12 ↗ alpha arrays › HTH › HTH › Three-helical HTH › HTH_Tnp_Tc3_2 0.55 41.0 4.16e-01 100.0% 89.1%
3878549 101.1.2.536 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_Tnp_Tc3_2 0.55 41.0 4.16e-01 100.0% 89.1%
3395101 309.1.1.8 ↗ a+b two layers › LuxS, MPP, ThrRS/AlaRS common domain › LuxS, MPP, ThrRS/AlaRS common domain › LuxS/MPP-like metallohydrolase › Peptidase_M16_M 0.53 44.0 2.99e-01 100.0% 54.2%
3800630 109.16.1.1 ↗ alpha superhelices › Repetitive alpha hairpins › TROVE domain-like › TROVE domain-like › TROVE 0.52 42.0 2.64e-01 100.0% 14.1%
3899987 101.1.1.12 ↗ alpha arrays › HTH › HTH › Three-helical HTH › HTH_Tnp_Tc3_2 0.52 39.0 3.58e-01 100.0% 60.0%
5057048 7011.1.1.0 ↗ alpha bundles › RodA transmembrane domain › RodA transmembrane domain › RodA transmembrane domain 0.51 42.0 2.60e-01 100.0% 14.9%