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IMGVR_UViG_3300011969_000001-3300011969-Ga0120166_100003810

Arc-Vir

IMGVR_UViG_3300011969_000001-3300011969-Ga0120166_100003810

Identity

Kingdom:
archaea

Quality

85.9 mean pLDDT

Cluster

View cluster (5 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 high residues 1-56
PDB
Domain cluster: representative
D2 high residues 71-246
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF00476.27 best DNA_pol_A 75.3 6.60e-21 88.6% 32.3%
CATH (14)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
6vddA02 1.20.1060.10 Mainly Alpha › Up-down Bundle › Taq DNA Polymerase; Chain T, domain 4 › Taq DNA Polymerase; Chain T, domain 4 0.86 54.0 6.72e-01 74.4% 97.4%
3zsuA00 1.20.120.290 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Oxygen-evolving enhancer protein 3 (PsbQ), four-helix up-down bundle 0.67 28.0 3.38e-01 83.0% 57.6%
2wdqD00 1.20.1300.10 Mainly Alpha › Up-down Bundle › 3 helical TM bundles of succinate and fumarate reductases › Fumarate reductase/succinate dehydrogenase, transmembrane subunit 0.66 36.0 4.55e-01 91.5% 87.6%
1cnt200 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.60 33.0 3.77e-01 88.1% 71.5%
1u5pA01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.59 26.0 3.31e-01 71.0% 66.7%
4kb2A01 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.59 27.0 3.47e-01 100.0% 71.6%
1f6fA00 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.57 38.0 3.78e-01 87.5% 63.9%
2ozbB01 1.10.287.4070 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.55 38.0 4.41e-01 71.6% 96.9%
1quuA01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.54 27.0 3.14e-01 72.2% 65.1%
1v9vA01 1.20.1480.20 Mainly Alpha › Up-down Bundle › hypothetical protein mp506/mpn330, domain 1 › MAST3 pre-PK domain-like 0.54 30.0 3.93e-01 98.3% 100.0%
4wjg400 1.20.1260.80 Mainly Alpha › Up-down Bundle › Ferritin › 0.54 38.0 3.28e-01 72.2% 48.3%
4yjwA00 1.20.120.930 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Uncharacterised protein PF12889, N-terminal DUF3829 0.53 30.0 3.24e-01 95.5% 62.7%
2oexA02 1.20.140.50 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › alix/aip1 like domains 0.52 30.0 2.89e-01 72.2% 49.7%
4jioA01 1.20.120.560 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › alix/aip1 in complex with the ypdl late domain 0.52 27.0 2.85e-01 72.7% 53.4%
ECOD (25)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4072515 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.89 74.0 5.37e-01 100.0% 35.7%
57665 4970.1.1.0 ↗ alpha bundles › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I 0.88 73.0 7.29e-01 100.0% 84.3%
3163747 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.88 71.0 4.97e-01 98.9% 30.0%
4061480 2484.1.1.58 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Taq-exonuc 0.86 69.0 5.47e-01 98.3% 44.5%
3964115 4970.1.1.2 ↗ alpha bundles › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I › DNA_pol_A 0.85 60.0 6.99e-01 100.0% 96.9%
4319500 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.85 70.0 4.91e-01 100.0% 31.2%
3616267 4970.1.1.2 ↗ alpha bundles › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I › DNA_pol_A 0.79 64.0 6.57e-01 100.0% 87.1%
1503978 4970.1.1.2 ↗ alpha bundles › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I › DNA_pol_A 0.79 70.0 6.74e-01 100.0% 83.1%
3505184 4970.1.1.2 ↗ alpha bundles › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I › DNA_pol_A 0.78 64.0 5.68e-01 100.0% 61.6%
3279609 4970.1.1.0 ↗ alpha bundles › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I 0.77 61.0 6.39e-01 100.0% 89.4%
4995739 4970.1.1.2 ↗ alpha bundles › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I › DNA_pol_A 0.75 66.0 6.86e-01 98.9% 100.0%
3473149 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.72 30.0 3.59e-01 72.2% 56.7%
3595357 4970.1.1.0 ↗ alpha bundles › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I 0.71 66.0 6.63e-01 98.9% 98.9%
3716733 4970.1.1.2 ↗ alpha bundles › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I › DNA_pol_A 0.70 64.0 4.89e-01 96.6% 100.0%
5045841 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.63 29.0 3.63e-01 93.8% 68.2%
4467862 603.5.1.0 ↗ alpha bundles › STAT-like › FlgN-like › FlgN-like 0.61 28.0 3.12e-01 86.4% 51.7%
3484929 604.1.1.1 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › Spectrin 0.60 24.0 3.15e-01 71.0% 62.0%
3920960 604.8.1.2 ↗ alpha bundles › Spectrin repeat-like › Smac/diablo › Smac/diablo › Mitofilin 0.58 29.0 3.38e-01 72.2% 65.4%
4988447 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.55 31.0 3.81e-01 95.5% 84.3%
3944747 3291.1.1.0 ↗ alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related 0.54 39.0 3.93e-01 72.2% 97.7%
4998237 3755.3.1.0 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.54 36.0 3.53e-01 72.7% 61.0%
3672316 611.8.1.0 ↗ alpha bundles › N-cbl like › C-terminal domain of E3 ubiquitin-protein ligase ARIH1 › C-terminal domain of E3 ubiquitin-protein ligase ARIH1 0.54 33.0 3.26e-01 96.6% 56.2%
4465966 632.11.1.10 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like › EzrA 0.53 29.0 3.37e-01 96.0% 71.5%
3515526 174.1.1.0 ↗ few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.53 37.0 4.23e-01 72.2% 98.5%
5023098 632.22.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats 0.52 29.0 3.38e-01 95.5% 75.2%
D3 high residues 261-380
PDB
Domain cluster: rep: SRR1747045_scaffold_1_prodigal-single.1__X__X__00021__D31-141
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF00476.27 best DNA_pol_A 34.4 1.70e-08 100.0% 26.8%