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replication_associated_protein

Euk-Vir

Lake_Sarah-associated_circular_virus-44_Viruses.

replication_associated_protein__YP_009237594__Lake_Sarah-associated_circular_virus-44_Viruses.__X

Identity

Accession:
YP_009237594 ↗
Protein ID:
replication_associated_protein
Kingdom:
euk

Quality

85.6 mean pLDDT

Cluster

View cluster (114 members)

3D Structure

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Domains

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

D1 high residues 148-261
PDB
Domain cluster: rep: replication-associated_protein__YP_009001745__Dragonfly_larvae_associated_circular_virus-5_Viruses.__X__D171-266
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF00910.29 best RNA_helicase 42.9 8.20e-11 76.3% 100.0%
D2 medium residues 4-93
PDB
Domain cluster: rep: replication_associated_protein__YP_009237599__Lake_Sarah-associated_circular_molecule_10_Viruses.__X__D15-119
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF02407.23 best Viral_Rep 27.4 4.70e-06 86.7% 93.9%
CATH (45)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
6h8oA00 3.40.1310.20 Alpha Beta › 3-Layer(aba) Sandwich › Replication Protein E1; Chain: A, › 0.91 86.0 8.48e-01 100.0% 94.7%
3dkxA01 3.40.1310.30 Alpha Beta › 3-Layer(aba) Sandwich › Replication Protein E1; Chain: A, › 0.82 76.0 6.60e-01 100.0% 88.8%
2hw0A00 3.40.1310.20 Alpha Beta › 3-Layer(aba) Sandwich › Replication Protein E1; Chain: A, › 0.81 75.0 6.83e-01 100.0% 82.6%
1l2mA00 3.40.1310.20 Alpha Beta › 3-Layer(aba) Sandwich › Replication Protein E1; Chain: A, › 0.74 68.0 6.18e-01 100.0% 88.1%
1r9wA00 3.40.1310.10 Alpha Beta › 3-Layer(aba) Sandwich › Replication Protein E1; Chain: A, › 0.73 66.0 5.72e-01 100.0% 73.9%
1zpvA00 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.72 53.0 5.44e-01 76.7% 98.8%
2v9kA04 3.30.70.3190 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.71 51.0 4.75e-01 74.4% 99.1%
1pbuA00 3.30.70.1010 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Translation elongation factor EF1B, gamma chain, conserved domain 0.70 63.0 5.21e-01 100.0% 73.5%
4oi3A00 3.30.70.3090 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ORF SCO4226, nickel-binding ferredoxin-like monomer 0.70 51.0 5.41e-01 76.7% 100.0%
2raqA01 3.30.70.1340 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › MTH889-like domain 0.70 51.0 5.21e-01 75.6% 92.9%
2bvfA03 3.40.462.20 Alpha Beta › 3-Layer(aba) Sandwich › Vanillyl-alcohol Oxidase; Chain A, domain 3 › 0.69 61.0 4.72e-01 100.0% 69.5%
2x3gA00 3.30.70.1910 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.69 58.0 5.39e-01 92.2% 85.3%
3nrbB01 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.68 49.0 5.11e-01 75.6% 95.2%
3c19A01 3.30.70.1380 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Transcriptional regulatory protein pf0864 domain like 0.68 49.0 4.83e-01 76.7% 87.9%
5h9fJ00 3.30.70.2660 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.67 60.0 4.51e-01 98.9% 83.6%
2qa1A02 3.30.70.2450 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.66 47.0 5.02e-01 74.4% 100.0%
4do8A00 2.10.60.10 Mainly Beta › Ribbon › CD59 › CD59 0.65 35.0 3.94e-01 82.2% 68.2%
1gpjA01 3.30.460.30 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Glutamyl-tRNA reductase, N-terminal domain 0.65 57.0 4.95e-01 100.0% 80.0%
3amiA02 3.30.830.10 Alpha Beta › 2-Layer Sandwich › Cytochrome Bc1 Complex; Chain A, domain 1 › Metalloenzyme, LuxS/M16 peptidase-like 0.64 46.0 3.60e-01 75.6% 89.4%
2hzmG01 3.30.310.180 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › 0.64 48.0 4.53e-01 83.3% 94.8%
2ebeA00 3.30.70.2290 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Protein of unknown function (DUF3208) 0.64 45.0 4.31e-01 74.4% 90.6%
2vo8A00 2.60.40.680 Mainly Beta › Sandwich › Immunoglobulin-like › 0.63 46.0 3.99e-01 75.6% 62.2%
2ipiA02 3.40.462.20 Alpha Beta › 3-Layer(aba) Sandwich › Vanillyl-alcohol Oxidase; Chain A, domain 3 › 0.61 52.0 3.91e-01 100.0% 62.9%
3vteA03 3.40.462.20 Alpha Beta › 3-Layer(aba) Sandwich › Vanillyl-alcohol Oxidase; Chain A, domain 3 › 0.60 52.0 4.23e-01 100.0% 68.6%
2lxfA00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.59 52.0 4.69e-01 95.6% 73.6%
5a2fA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.58 40.0 3.71e-01 70.0% 85.7%
5d79A03 3.40.462.20 Alpha Beta › 3-Layer(aba) Sandwich › Vanillyl-alcohol Oxidase; Chain A, domain 3 › 0.58 50.0 4.04e-01 100.0% 67.9%
2go8A01 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.58 42.0 4.54e-01 76.7% 97.3%
3f8uD03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.57 39.0 3.79e-01 72.2% 88.7%
3esmA00 2.60.40.2230 Mainly Beta › Sandwich › Immunoglobulin-like › Uncharacterised protein YcnI-like PF07987, DUF1775 0.57 41.0 3.58e-01 75.6% 58.0%
4bfeA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.57 40.0 4.21e-01 74.4% 91.4%
3o4oB03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.56 39.0 3.73e-01 72.2% 83.5%
2c42A03 3.40.920.10 Alpha Beta › 3-Layer(aba) Sandwich › Pyruvate-ferredoxin Oxidoreductase; domain 3 › Pyruvate-ferredoxin oxidoreductase, PFOR, domain III 0.56 39.0 3.00e-01 73.3% 42.0%
6x4tA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.56 38.0 3.97e-01 72.2% 96.5%
3pv7A02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.55 38.0 3.80e-01 71.1% 90.4%
2y3uA02 3.30.980.50 Alpha Beta › 2-Layer Sandwich › Threonyl-tRNA Synthetase; Chain A, domain 2 › 0.55 43.0 4.04e-01 85.6% 93.8%
3d2uA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.55 38.0 3.80e-01 72.2% 90.2%
2cztA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.55 39.0 3.33e-01 75.6% 89.0%
2govA01 3.20.80.10 Alpha Beta › Alpha-Beta Barrel › Multidrug-efflux Transporter 1 Regulator Bmrr; Chain A › Regulatory factor, effector binding domain 0.54 46.0 3.84e-01 98.9% 83.2%
2kt4B01 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.53 37.0 3.20e-01 72.2% 93.0%
2ednA00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 36.0 3.38e-01 72.2% 76.3%
3fn5B00 2.40.260.10 Mainly Beta › Beta Barrel › Sortase; Chain: A; › Sortase 0.51 38.0 3.23e-01 81.1% 95.1%
6jt6A00 2.60.40.1210 Mainly Beta › Sandwich › Immunoglobulin-like › Cellobiose dehydrogenase, cytochrome domain 0.51 36.0 2.95e-01 75.6% 87.7%
6wl5A01 3.20.80.10 Alpha Beta › Alpha-Beta Barrel › Multidrug-efflux Transporter 1 Regulator Bmrr; Chain A › Regulatory factor, effector binding domain 0.51 43.0 3.71e-01 95.6% 83.2%
3gk6A00 3.20.80.10 Alpha Beta › Alpha-Beta Barrel › Multidrug-efflux Transporter 1 Regulator Bmrr; Chain A › Regulatory factor, effector binding domain 0.50 42.0 3.64e-01 97.8% 82.4%
ECOD (60)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
2391478 304.55.1.5 ↗ a+b two layers › Alpha-beta plaits › Origin of replication-binding domains › Origin of replication-binding domains › Viral_Rep 0.91 86.0 8.48e-01 100.0% 94.7%
3621982 304.55.1.5 ↗ a+b two layers › Alpha-beta plaits › Origin of replication-binding domains › Origin of replication-binding domains › Viral_Rep 0.81 75.0 6.98e-01 100.0% 84.5%
2796430 304.55.1.5 ↗ a+b two layers › Alpha-beta plaits › Origin of replication-binding domains › Origin of replication-binding domains › Viral_Rep 0.81 75.0 7.17e-01 100.0% 91.3%
4304749 304.8.1.81 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › REP_ORF2-G2P 0.79 73.0 5.17e-01 100.0% 52.3%
4133039 304.8.1.81 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › REP_ORF2-G2P 0.79 71.0 5.79e-01 98.9% 86.7%
3926520 304.8.1.23 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › Helitron_like_N 0.79 71.0 5.50e-01 97.8% 87.4%
2966256 304.55.1.1 ↗ a+b two layers › Alpha-beta plaits › Origin of replication-binding domains › Origin of replication-binding domains › Gemini_AL1 0.79 73.0 6.85e-01 100.0% 92.6%
3937809 304.55.1.15 ↗ a+b two layers › Alpha-beta plaits › Origin of replication-binding domains › Origin of replication-binding domains › Helitron_like_N 0.79 72.0 5.55e-01 98.9% 87.8%
3503234 304.47.1.0 ↗ a+b two layers › Alpha-beta plaits › SEA domain › SEA domain 0.76 59.0 5.25e-01 82.2% 100.0%
5022932 304.130.1.1 ↗ a+b two layers › Alpha-beta plaits › Uncharacterized protein MK0293 N-terminal domain › Uncharacterized protein MK0293 N-terminal domain › Ni_insertion 0.75 54.0 5.62e-01 76.7% 95.3%
4959045 304.8.1.81 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › REP_ORF2-G2P 0.73 65.0 5.55e-01 100.0% 80.7%
3583072 304.34.1.0 ↗ a+b two layers › Alpha-beta plaits › Nucleoside diphosphate kinases › Nucleoside diphosphate kinases 0.73 62.0 5.72e-01 92.2% 97.4%
3915918 304.55.1.15 ↗ a+b two layers › Alpha-beta plaits › Origin of replication-binding domains › Origin of replication-binding domains › Helitron_like_N 0.73 65.0 4.68e-01 98.9% 81.9%
4030594 304.46.1.1 ↗ a+b two layers › Alpha-beta plaits › eEF1-gamma domain › eEF1-gamma domain › EF1G 0.73 66.0 5.39e-01 98.9% 72.5%
4001734 304.47.1.0 ↗ a+b two layers › Alpha-beta plaits › SEA domain › SEA domain 0.73 53.0 4.85e-01 75.6% 94.8%
3897523 304.12.1.0 ↗ a+b two layers › Alpha-beta plaits › Ribosomal protein S6 › Ribosomal protein S6 0.72 54.0 4.85e-01 78.9% 83.3%
5025196 304.8.1.2 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ACT 0.72 52.0 5.51e-01 76.7% 98.8%
4944337 304.59.1.0 ↗ a+b two layers › Alpha-beta plaits › MTH889-like › MTH889-like 0.71 52.0 5.37e-01 76.7% 100.0%
3273461 304.46.1.1 ↗ a+b two layers › Alpha-beta plaits › eEF1-gamma domain › eEF1-gamma domain › EF1G 0.71 64.0 5.29e-01 100.0% 75.6%
4622719 304.6.1.0 ↗ a+b two layers › Alpha-beta plaits › FAD-linked oxidases, C-terminal domain › FAD-linked oxidases, C-terminal domain 0.71 64.0 4.69e-01 100.0% 62.2%
4956967 304.59.1.1 ↗ a+b two layers › Alpha-beta plaits › MTH889-like › MTH889-like › DUF211 0.71 51.0 5.17e-01 75.6% 87.8%
3786175 304.46.1.1 ↗ a+b two layers › Alpha-beta plaits › eEF1-gamma domain › eEF1-gamma domain › EF1G 0.71 64.0 5.23e-01 100.0% 73.0%
4565255 304.8.1.5 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › NIL 0.70 50.0 5.05e-01 74.4% 91.1%
3596967 304.46.1.0 ↗ a+b two layers › Alpha-beta plaits › eEF1-gamma domain › eEF1-gamma domain 0.70 63.0 5.25e-01 100.0% 72.2%
4964918 304.59.1.1 ↗ a+b two layers › Alpha-beta plaits › MTH889-like › MTH889-like › DUF211 0.70 51.0 5.16e-01 77.8% 95.6%
139956 304.8.1.16 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › 117-like_vir 0.69 58.0 5.39e-01 92.2% 85.3%
5000078 304.59.1.1 ↗ a+b two layers › Alpha-beta plaits › MTH889-like › MTH889-like › DUF211 0.69 51.0 5.04e-01 77.8% 90.5%
4672795 304.8.1.0 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.69 49.0 5.28e-01 74.4% 97.3%
3910541 304.47.1.1 ↗ a+b two layers › Alpha-beta plaits › SEA domain › SEA domain › SEA 0.68 50.0 4.44e-01 77.8% 98.5%
4018050 304.6.1.0 ↗ a+b two layers › Alpha-beta plaits › FAD-linked oxidases, C-terminal domain › FAD-linked oxidases, C-terminal domain 0.67 59.0 4.24e-01 100.0% 56.1%
3289145 304.4.1.0 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel 0.65 49.0 5.06e-01 78.9% 87.1%
3725920 244.1.1.0 ↗ a+b two layers › FAD-linked reductases, C-terminal domain-like › FAD-linked reductases-C › FAD-linked reductases-C 0.65 47.0 4.64e-01 75.6% 88.4%
4051078 304.4.1.71 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › DUF4937 0.65 57.0 5.32e-01 98.9% 100.0%
4465843 382.1.1.0 ↗ few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like 0.65 36.0 3.63e-01 74.4% 54.4%
4029841 304.8.1.0 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.65 46.0 4.14e-01 75.6% 96.1%
3743321 304.102.1.3 ↗ a+b two layers › Alpha-beta plaits › Pseudouridine synthase › Pseudouridine synthase › PseudoU_synth_1 0.64 54.0 3.76e-01 94.4% 68.1%
3876482 4956.1.1.1 ↗ a+b two layers › ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit › ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit › ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_5 0.64 45.0 4.67e-01 73.3% 100.0%
3268891 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.63 46.0 3.42e-01 77.8% 39.2%
5002952 304.4.1.82 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › DUF3303 0.63 46.0 4.63e-01 76.7% 85.6%
4941686 304.8.1.2 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ACT 0.62 43.0 4.80e-01 72.2% 100.0%
3784654 304.8.1.1 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › Thr_dehydrat_C 0.62 47.0 4.68e-01 82.2% 87.2%
4253790 304.102.1.1 ↗ a+b two layers › Alpha-beta plaits › Pseudouridine synthase › Pseudouridine synthase › PseudoU_synth_2 0.61 54.0 4.05e-01 100.0% 73.8%
3402628 11.1.1.97 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › I-set 0.60 42.0 3.71e-01 72.2% 67.7%
1762915 11.1.1.108 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › C2-set_2 0.58 40.0 3.68e-01 70.0% 83.5%
4930126 2003.1.2.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain 0.58 44.0 2.99e-01 81.1% 35.4%
3655848 244.1.1.0 ↗ a+b two layers › FAD-linked reductases, C-terminal domain-like › FAD-linked reductases-C › FAD-linked reductases-C 0.58 45.0 4.49e-01 85.6% 88.4%
3412911 11.1.1.108 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › C2-set_2 0.58 40.0 3.73e-01 71.1% 84.3%
3863526 11.1.1.108 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › C2-set_2 0.58 40.0 3.74e-01 72.2% 86.1%
4032612 1.1.9.45 ↗ beta barrels › cradle loop barrel › RIFT-related › PUA domain › DUF3427 0.55 38.0 3.22e-01 72.2% 58.8%
3722811 1.1.7.24 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › FAD_binding_8 0.55 41.0 3.84e-01 81.1% 91.3%
1219773 11.1.1.96 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › C1-set 0.55 38.0 3.73e-01 72.2% 85.6%
4304538 2003.1.5.5 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › UPF0020 0.54 40.0 2.87e-01 81.1% 61.7%
4954283 881.1.1.0 ↗ a+b three layers › Mog1p/PsbP-like › Mog1p/PsbP-like › Mog1p/PsbP-like 0.53 41.0 3.51e-01 83.3% 59.3%
3259689 11.1.5.109 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f › PF28397 0.53 38.0 3.36e-01 75.6% 79.3%
4069018 382.1.1.7 ↗ few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like › Toxin_cobra-type 0.52 29.0 3.41e-01 92.2% 81.4%
3201398 1.1.7.24 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › FAD_binding_8 0.52 39.0 3.58e-01 81.1% 94.2%
4563436 382.1.1.0 ↗ few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like 0.51 29.0 3.37e-01 92.2% 81.4%
3242055 304.48.1.0 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like 0.51 44.0 2.75e-01 98.9% 34.9%
3880551 11.1.5.7 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f › Adap_comp_sub 0.51 37.0 3.41e-01 75.6% 75.7%
3250716 11.1.5.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f 0.51 36.0 3.50e-01 75.6% 71.4%
D3 medium residues 102-139
PDB
Domain cluster: rep: replication_associated_protein__YP_009237534__Lake_Sarah-associated_circular_virus-39_Viruses.__X__D105-150