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KY940711.1__ARQ95290.1__X__00058

Bact-Vir

KY940711.1__ARQ95290.1__X__00058

Identity

Accession:
KY940711 ↗
Kingdom:
phage

Quality

66.4 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Bradyrhizobium_phage_BDU-MI-1

TaxID: 1983459

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 10-68
PDB
Domain cluster: representative
CATH (40)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1wbaA00 2.80.10.50 Mainly Beta › Trefoil › Trefoil (Acidic Fibroblast Growth Factor, subunit A) › 0.74 50.0 3.60e-01 71.2% 32.2%
2aehA03 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.70 56.0 4.49e-01 98.3% 45.9%
4hhvA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.67 49.0 4.00e-01 98.3% 43.7%
2ffgA00 3.30.720.20 Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › Protein of unknown function DUF1797 0.67 48.0 4.40e-01 94.9% 57.5%
3qc2B00 2.115.10.20 Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 0.66 50.0 3.02e-01 79.7% 26.6%
5umsA02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.66 47.0 4.00e-01 89.8% 45.1%
2il5A00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.65 51.0 3.72e-01 86.4% 91.4%
2dk7A00 2.20.70.10 Mainly Beta › Single Sheet › Ubiquitin Ligase Nedd4; Chain: W; › 0.65 35.0 3.30e-01 86.4% 41.1%
3jtzA00 3.30.160.390 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Integrase, DNA-binding domain 0.62 50.0 4.70e-01 100.0% 71.4%
4pj2A00 2.40.128.460 Mainly Beta › Beta Barrel › Lipocalin › Periplasmic lysozyme inhibitor of I-type lysozyme 0.61 45.0 3.66e-01 86.4% 39.7%
2rgnB02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.61 49.0 3.80e-01 100.0% 41.5%
6f1uK02 3.90.1150.210 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › F-actin capping protein, beta subunit 0.61 51.0 3.95e-01 100.0% 51.0%
3fwlA02 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.60 50.0 3.05e-01 96.6% 14.5%
2aujD03 2.40.50.100 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › RNA polymerase II/Efflux pump adaptor protein, barrel-sandwich hybrid domain 0.60 41.0 4.13e-01 91.5% 69.4%
2h2yA01 3.10.110.10 Alpha Beta › Roll › Ubiquitin Conjugating Enzyme › Ubiquitin Conjugating Enzyme 0.60 50.0 4.17e-01 100.0% 57.8%
2x5gA00 3.30.720.60 Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › 0.59 37.0 3.31e-01 79.7% 40.7%
3ibsA00 3.40.50.410 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › von Willebrand factor, type A domain 0.59 50.0 3.49e-01 98.3% 98.1%
3gxwC00 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.59 47.0 4.10e-01 94.9% 70.0%
3nixB00 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.58 47.0 2.86e-01 89.8% 83.0%
1sr9A02 3.30.160.270 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Alpha-isopropylmalate synthase LeuA, regulatory domain 0.58 47.0 3.52e-01 94.9% 33.5%
2w9jA00 3.30.720.10 Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › Signal recognition particle alu RNA binding heterodimer, srp9/1 0.58 44.0 4.15e-01 98.3% 67.6%
1nbwA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.58 50.0 3.88e-01 98.3% 43.9%
3buxB03 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.57 41.0 3.79e-01 89.8% 54.7%
1ci3M02 2.40.50.100 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › RNA polymerase II/Efflux pump adaptor protein, barrel-sandwich hybrid domain 0.57 40.0 4.11e-01 93.2% 79.3%
1ykdB02 3.30.450.40 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › GAF domain 0.56 47.0 3.42e-01 100.0% 52.9%
4c4aA04 2.70.160.11 Mainly Beta › Distorted Sandwich › Hnrnp arginine n-methyltransferase1 › Hnrnp arginine n-methyltransferase1 0.56 40.0 2.98e-01 78.0% 94.4%
1z47A03 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.56 39.0 4.18e-01 91.5% 91.8%
6ipaA00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.56 46.0 3.46e-01 98.3% 53.3%
1d4tA00 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.55 44.0 3.72e-01 91.5% 68.3%
1eujA00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.54 45.0 3.42e-01 100.0% 54.3%
4qmgC01 2.40.50.90 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.54 45.0 3.44e-01 100.0% 78.0%
2xp1A02 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.53 43.0 3.90e-01 91.5% 66.3%
3u97A00 3.10.450.530 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › Ribonuclease toxin, BrnT, of type II toxin-antitoxin system 0.52 33.0 3.09e-01 79.7% 49.4%
3qwmA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.51 44.0 3.53e-01 100.0% 49.6%
4a18O00 3.30.390.110 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › 0.51 42.0 3.32e-01 94.9% 52.2%
2xzmZ00 3.30.1230.20 Alpha Beta › 2-Layer Sandwich › Hypothetical Cytosolic Protein; Chain: A; › Ribosomal protein S21 0.51 39.0 3.47e-01 89.8% 58.8%
1i3zA00 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.51 42.0 3.57e-01 94.9% 68.0%
8dc1A01 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.51 43.0 2.90e-01 98.3% 42.7%
4n4iA02 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.51 42.0 3.71e-01 94.9% 86.7%
1x6oA02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.51 40.0 3.68e-01 89.8% 84.8%
ECOD (50)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4091851 6.1.1.2 ↗ beta duplicates or obligate multimers › beta-Trefoil › beta-Trefoil › beta-Trefoil › Kunitz_legume 0.75 51.0 3.62e-01 71.2% 31.4%
5015133 4100.1.1.9 ↗ a+b duplicates or obligate multimers › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › DUF7387 0.72 53.0 5.29e-01 100.0% 76.7%
4969849 2484.1.1.67 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RVT_3 0.71 62.0 4.73e-01 100.0% 42.2%
3476114 2484.1.1.1 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › HSP70 0.70 57.0 3.43e-01 91.5% 32.8%
4965851 4100.1.1.9 ↗ a+b duplicates or obligate multimers › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › DUF7387 0.68 50.0 5.14e-01 100.0% 83.6%
4003164 632.7.1.1 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain › HSP70 0.67 53.0 3.38e-01 91.5% 41.2%
4944829 4100.1.1.0 ↗ a+b duplicates or obligate multimers › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like 0.67 46.0 5.01e-01 94.9% 97.8%
5027968 1.1.5.0 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 0.66 60.0 4.77e-01 100.0% 81.7%
None — 0.64 52.0 3.21e-01 94.9% 33.1%
3487197 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.63 48.0 3.29e-01 79.7% 40.0%
3606311 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.63 47.0 4.39e-01 94.9% 64.0%
3938714 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.60 49.0 3.86e-01 98.3% 42.4%
3812208 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.60 47.0 2.83e-01 88.1% 20.9%
4655639 2003.1.2.58 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › Pyr_redox, Pyr_redox_2 0.60 37.0 2.30e-01 72.9% 10.1%
4323683 101.35.1.5 ↗ alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX › RecX_HTH1 0.60 45.0 3.78e-01 93.2% 45.5%
4278807 218.1.1.8 ↗ a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › HrcA 0.60 49.0 4.03e-01 100.0% 49.1%
4127839 325.1.7.0 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif 0.59 42.0 3.98e-01 93.2% 60.0%
396038 4221.1.1.2 ↗ a+b two layers › YkuJ-like › YkuJ-like › YkuJ-like › PHA01746 0.59 37.0 3.31e-01 79.7% 40.7%
4069377 218.1.1.8 ↗ a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › HrcA 0.59 46.0 3.99e-01 88.1% 97.9%
4072334 218.1.1.8 ↗ a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › HrcA 0.59 47.0 4.05e-01 100.0% 54.0%
4031599 101.1.2.584 ↗ alpha arrays › HTH › HTH › winged helix domain › HrcA 0.58 47.0 4.08e-01 100.0% 56.8%
4065004 218.1.1.8 ↗ a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › HrcA 0.58 47.0 3.86e-01 91.5% 83.6%
4295269 2003.1.2.18 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain 0.58 41.0 2.60e-01 78.0% 97.4%
3289877 394.1.1.1 ↗ few secondary structure elements › Invertebrate chitin-binding proteins › Invertebrate chitin-binding proteins › Invertebrate chitin-binding proteins › CBM_14 0.58 40.0 4.22e-01 72.9% 90.0%
5044391 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.58 36.0 3.76e-01 72.9% 70.0%
3595055 218.1.1.0 ↗ a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like 0.58 48.0 3.76e-01 100.0% 90.3%
4223376 218.1.1.8 ↗ a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › HrcA 0.58 46.0 3.93e-01 93.2% 89.5%
4073485 218.1.1.8 ↗ a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › HrcA 0.57 46.0 3.92e-01 93.2% 88.6%
4297175 218.1.1.8 ↗ a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › HrcA 0.57 48.0 4.28e-01 100.0% 97.8%
5036384 4187.1.1.0 ↗ a+b two layers › NosL/MerB-like › NosL/MerB-like › NosL/MerB-like 0.57 40.0 3.64e-01 86.4% 55.0%
3415928 394.1.1.1 ↗ few secondary structure elements › Invertebrate chitin-binding proteins › Invertebrate chitin-binding proteins › Invertebrate chitin-binding proteins › CBM_14 0.57 40.0 4.00e-01 72.9% 75.0%
3177726 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.57 50.0 3.52e-01 98.3% 31.4%
4385005 218.1.1.8 ↗ a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › HrcA 0.57 44.0 3.80e-01 86.4% 92.6%
3912111 214.1.1.1 ↗ a+b two layers › SH2 › SH2 › SH2 › SH2 0.57 45.0 3.74e-01 91.5% 61.7%
4089654 218.1.1.8 ↗ a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › HrcA 0.57 43.0 3.76e-01 100.0% 50.5%
3270877 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.56 50.0 3.74e-01 98.3% 41.4%
4426619 218.1.1.8 ↗ a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › HrcA 0.56 43.0 3.85e-01 100.0% 56.8%
3923434 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.56 48.0 3.60e-01 96.6% 44.0%
3398839 10.32.1.2 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › F5_F8_type_C 0.55 50.0 3.65e-01 100.0% 87.7%
4036940 218.1.1.8 ↗ a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › HrcA 0.55 44.0 3.88e-01 93.2% 86.3%
4373440 218.1.1.8 ↗ a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › HrcA 0.55 44.0 3.86e-01 100.0% 56.8%
3934453 214.1.1.0 ↗ a+b two layers › SH2 › SH2 › SH2 0.54 44.0 3.60e-01 91.5% 47.8%
4303869 218.1.1.8 ↗ a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › HrcA 0.54 46.0 4.08e-01 98.3% 92.2%
4314572 218.1.1.8 ↗ a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › HrcA 0.54 44.0 3.76e-01 93.2% 89.0%
4232558 218.1.1.8 ↗ a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › HrcA 0.54 42.0 3.68e-01 100.0% 54.0%
3531333 220.1.1.35 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › IQ_SEC7_PH 0.53 45.0 3.30e-01 96.6% 34.5%
4083184 218.1.1.8 ↗ a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › HrcA 0.52 39.0 3.50e-01 100.0% 53.0%
1385077 223.1.1.3 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains › GAF 0.52 42.0 3.18e-01 98.3% 57.8%
3385013 109.21.1.4 ↗ alpha superhelices › Repetitive alpha hairpins › Nucleoporin NUP85/Nucleoporin NUP145 C-terminal domain › Nucleoporin NUP85/Nucleoporin NUP145 C-terminal domain › Sec16_C,Sec16 0.51 41.0 2.45e-01 88.1% 24.3%
4159666 325.1.7.0 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif 0.50 43.0 3.56e-01 98.3% 56.9%