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NC_004689.1__NP_818628.1__Barnyardp090__00090

Bact-Vir

NC_004689.1__NP_818628.1__Barnyardp090__00090

Identity

Accession:
NC_004689 ↗
Kingdom:
phage

Quality

78.3 mean pLDDT

3D Structure

Domains

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

D1 high residues 16-75
PDB
Domain cluster: representative
CATH (49)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2yztA00 3.30.160.250 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.71 59.0 5.82e-01 100.0% 86.4%
3zm6A02 3.40.1190.10 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Mur-like, catalytic domain 0.70 51.0 3.47e-01 85.0% 21.5%
3k6qA02 3.30.160.620 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.70 61.0 5.37e-01 100.0% 95.5%
1asuA00 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.68 58.0 4.36e-01 100.0% 52.5%
2nugB02 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.66 50.0 4.80e-01 83.3% 87.3%
3tu3B01 3.30.720.80 Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › 0.65 46.0 4.30e-01 100.0% 59.2%
2ar5A00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.65 46.0 3.72e-01 75.0% 95.7%
2rajA02 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.65 48.0 3.83e-01 80.0% 86.5%
2x6nD00 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.64 55.0 4.03e-01 100.0% 47.8%
3kksB00 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.64 55.0 4.18e-01 100.0% 52.6%
1xteA00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.63 47.0 3.81e-01 80.0% 99.1%
2wzoA01 3.30.160.360 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.62 53.0 4.21e-01 100.0% 53.4%
2yt4A03 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.62 49.0 4.21e-01 91.7% 65.4%
3p0cA00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.62 45.0 3.73e-01 78.3% 91.9%
1c16A02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.61 55.0 4.67e-01 100.0% 92.8%
4m7xA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.61 44.0 3.87e-01 98.3% 51.6%
3lm2A01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.60 47.0 4.07e-01 100.0% 54.6%
1nj1A02 3.40.50.800 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Anticodon-binding domain 0.59 49.0 4.12e-01 93.3% 100.0%
6l4lA02 3.10.310.10 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › Diaminopimelate Epimerase; Chain A, domain 1 0.59 48.0 3.78e-01 93.3% 61.0%
1wu7A03 3.40.50.800 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Anticodon-binding domain 0.58 51.0 4.30e-01 96.7% 96.9%
3lxrF00 1.10.4120.20 Mainly Alpha › Orthogonal Bundle › SopE-like GEF fold › 0.58 47.0 3.50e-01 98.3% 81.2%
2d9xA01 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.57 42.0 3.49e-01 100.0% 43.6%
3hbcA00 3.60.60.10 Alpha Beta › 4-Layer Sandwich › Penicillin V Acylase; Chain A › Penicillin V Acylase; Chain A 0.57 43.0 2.73e-01 80.0% 87.4%
3pg7A02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.57 39.0 3.22e-01 100.0% 39.1%
2wdtC02 3.30.1490.420 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › Ubiquitin carboxyl-terminal hydrolase, domain 2 0.57 49.0 4.20e-01 100.0% 72.3%
4e5xG00 2.60.40.3530 Mainly Beta › Sandwich › Immunoglobulin-like › 0.57 48.0 4.18e-01 100.0% 70.7%
3netB02 3.40.50.800 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Anticodon-binding domain 0.57 47.0 4.08e-01 95.0% 94.9%
1mi1A01 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.56 40.0 3.34e-01 100.0% 42.9%
2fjlA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.56 44.0 3.34e-01 98.3% 35.3%
3obaA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.55 47.0 3.78e-01 100.0% 93.7%
2x5gA00 3.30.720.60 Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › 0.55 41.0 3.64e-01 81.7% 80.2%
7a0kA01 2.130.10.30 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › Regulator of chromosome condensation 1/beta-lactamase-inhibitor protein II 0.54 43.0 2.93e-01 95.0% 46.2%
1g6zA00 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.54 40.0 3.81e-01 100.0% 68.6%
4ktwA00 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.54 46.0 3.45e-01 100.0% 41.9%
3nvnA00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.54 39.0 2.49e-01 81.7% 46.5%
3b5qA00 3.40.720.10 Alpha Beta › 3-Layer(aba) Sandwich › Alkaline Phosphatase, subunit A › Alkaline Phosphatase, subunit A 0.54 43.0 2.58e-01 90.0% 71.3%
3a54A01 2.40.50.340 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.54 46.0 4.00e-01 95.0% 78.9%
2fblB00 2.40.320.10 Mainly Beta › Beta Barrel › Hypothetical Protein Pfu-838710-001 › Hypothetical Protein Pfu-838710-001 0.53 45.0 3.41e-01 95.0% 45.9%
1okjB01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.53 44.0 3.49e-01 100.0% 44.9%
1z87A01 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.52 39.0 3.49e-01 100.0% 53.0%
2kr0A01 2.30.29.70 Mainly Beta › Roll › PH-domain like › Proteasomal ubiquitin receptor Rpn13/ADRM1 0.52 42.0 3.46e-01 100.0% 47.8%
1g29102 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.52 35.0 3.75e-01 71.7% 100.0%
2cofA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.51 38.0 3.27e-01 91.7% 47.7%
1gpqB00 3.40.1420.10 Alpha Beta › 3-Layer(aba) Sandwich › Inhibitor of vertebrate lysozyme, Ivy › Inhibitor of vertebrate lysozyme 0.51 43.0 3.49e-01 100.0% 57.8%
2v1qA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.51 32.0 3.25e-01 98.3% 61.7%
4a6fA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.51 39.0 3.31e-01 100.0% 48.6%
1vybA00 3.60.10.10 Alpha Beta › 4-Layer Sandwich › Deoxyribonuclease I; Chain A › Endonuclease/exonuclease/phosphatase 0.51 37.0 2.64e-01 85.0% 36.0%
4bndA01 3.40.50.1000 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HAD superfamily/HAD-like 0.51 44.0 3.32e-01 100.0% 76.3%
2ei9A00 3.60.10.10 Alpha Beta › 4-Layer Sandwich › Deoxyribonuclease I; Chain A › Endonuclease/exonuclease/phosphatase 0.50 38.0 2.60e-01 81.7% 72.0%
ECOD (67)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5020790 4100.1.1.0 a+b duplicates or obligate multimers › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like 0.75 62.0 6.41e-01 100.0% 100.0%
5061231 4100.1.1.0 a+b duplicates or obligate multimers › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like 0.74 64.0 6.42e-01 100.0% 96.7%
3947062 2484.1.1.194 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › rve, rve_3 0.72 63.0 4.43e-01 100.0% 52.8%
3219930 330.3.1.1 a+b two layers › dsRBD-like › Peptidyl-tRNA hydrolase domain-like › Peptidyl-tRNA hydrolase domain-like › RF-1 0.72 57.0 4.53e-01 88.3% 71.2%
1396826 4100.1.1.0 a+b duplicates or obligate multimers › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like 0.71 59.0 5.79e-01 100.0% 85.1%
4965851 4100.1.1.9 a+b duplicates or obligate multimers › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › DUF7387 0.71 51.0 5.33e-01 85.0% 85.5%
375944 4100.1.1.2 a+b duplicates or obligate multimers › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › PHD_like 0.70 61.0 5.40e-01 100.0% 95.5%
3987293 2004.1.1.159 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Mur_ligase_M 0.69 51.0 3.47e-01 85.0% 21.8%
3864474 277.1.1.1 a+b two layers › PX domain › PX domain › PX domain › PX 0.67 54.0 3.97e-01 90.0% 93.9%
3905030 2484.1.1.0 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.67 57.0 4.09e-01 100.0% 46.2%
3307519 4100.1.1.0 a+b duplicates or obligate multimers › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like 0.65 56.0 5.38e-01 100.0% 90.0%
None 0.65 51.0 3.15e-01 86.7% 20.0%
3930363 2484.1.1.0 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.64 55.0 3.83e-01 100.0% 37.7%
3175837 2004.1.1.0 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.64 54.0 4.06e-01 95.0% 48.0%
3783161 2484.1.1.9 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › rve 0.64 53.0 3.77e-01 100.0% 28.8%
2575628 2484.1.1.9 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › rve 0.63 54.0 4.11e-01 100.0% 52.3%
5028078 5090.1.1.0 beta complex topology › Viral glycoprotein, central and dimerisation domains-like › Viral glycoprotein, central and dimerisation domains › Viral glycoprotein, central and dimerisation domains 0.63 44.0 2.82e-01 73.3% 64.3%
3928301 2484.1.1.0 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.63 53.0 3.86e-01 100.0% 34.1%
4001973 2484.1.1.0 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.62 53.0 4.24e-01 100.0% 67.7%
3258685 2484.1.1.0 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.62 50.0 4.16e-01 93.3% 74.8%
3937267 2484.1.1.9 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › rve 0.62 53.0 3.77e-01 100.0% 42.1%
4578621 2484.1.1.12 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Acetate_kinase 0.62 52.0 3.63e-01 100.0% 58.2%
402817 277.1.1.1 a+b two layers › PX domain › PX domain › PX domain › PX 0.62 47.0 3.93e-01 83.3% 75.5%
3939670 2484.1.1.9 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › rve 0.61 51.0 3.75e-01 100.0% 33.1%
3783181 277.1.1.1 a+b two layers › PX domain › PX domain › PX domain › PX 0.61 47.0 3.94e-01 85.0% 100.0%
3538314 220.1.1.1 beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.60 45.0 3.62e-01 95.0% 40.8%
4192693 220.1.1.76 beta barrels › PH domain-like › PH domain-like › PH domain-like › bPH_2 0.59 47.0 4.21e-01 96.7% 62.4%
3786286 220.1.1.154 beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_EXO84 0.59 43.0 3.20e-01 98.3% 28.8%
3472485 2004.1.1.230 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Tsr1_G-like 0.58 44.0 3.26e-01 83.3% 77.1%
5000498 896.1.1.1 a+b two layers › SRP9/14-like › Signal recognition particle alu RNA binding heterodimer SRP9/14-related › Signal recognition particle alu RNA binding heterodimer SRP9/14-related › Ribosomal_L38e 0.58 42.0 4.27e-01 100.0% 78.3%
3592067 243.4.1.0 a+b two layers › Cystatin-like › DsbC/DsbG N-terminal domain-like › DsbC/DsbG N-terminal domain-like 0.58 40.0 2.90e-01 73.3% 25.0%
5026090 220.1.1.76 beta barrels › PH domain-like › PH domain-like › PH domain-like › bPH_2 0.58 44.0 4.18e-01 96.7% 68.0%
4034140 220.1.1.76 beta barrels › PH domain-like › PH domain-like › PH domain-like › bPH_2 0.58 45.0 4.06e-01 100.0% 61.2%
3506686 2484.1.1.36 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_2 0.57 47.0 3.23e-01 100.0% 25.5%
5039029 220.1.1.76 beta barrels › PH domain-like › PH domain-like › PH domain-like › bPH_2 0.57 44.0 3.85e-01 91.7% 55.6%
3478042 220.1.1.1 beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.57 44.0 3.55e-01 100.0% 42.5%
3439202 220.1.1.30 beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_BEACH 0.57 44.0 3.96e-01 100.0% 60.0%
3380327 5.1.10.14 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 12-bladed › WD40_RFWD3 0.57 39.0 3.36e-01 80.0% 42.0%
3397680 5.1.4.1 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.57 39.0 2.25e-01 73.3% 12.1%
3900116 220.1.1.1 beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.56 43.0 3.55e-01 100.0% 44.3%
4032084 220.1.1.76 beta barrels › PH domain-like › PH domain-like › PH domain-like › bPH_2 0.56 44.0 3.84e-01 95.0% 54.7%
3952480 4.1.1.292 beta barrels › SH3 › SH3 › SH3 › SH3_Rv2311 0.56 36.0 3.91e-01 100.0% 86.7%
4966262 330.7.1.2 a+b two layers › dsRBD-like › PI-Pfui intein middle domain › PI-Pfui intein middle domain › HicA_toxin 0.56 44.0 4.36e-01 95.0% 81.5%
3516087 220.1.1.0 beta barrels › PH domain-like › PH domain-like › PH domain-like 0.56 44.0 4.10e-01 100.0% 69.3%
3219961 2484.1.1.0 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.55 45.0 3.46e-01 100.0% 40.0%
3728845 883.1.1.9 a+b complex topology › Aha1/BPI domain-like › Aha1/BPI domain-like › Aha1/BPI domain-like › SMP_LBD 0.55 45.0 3.26e-01 96.7% 61.0%
3717655 220.1.1.30 beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_BEACH 0.55 42.0 3.56e-01 100.0% 50.0%
4252844 7502.1.1.1 a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.55 45.0 3.82e-01 93.3% 93.3%
3583844 220.1.1.30 beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_BEACH 0.55 42.0 3.17e-01 100.0% 34.0%
3937740 220.1.1.11 beta barrels › PH domain-like › PH domain-like › PH domain-like › Rpn13_ADRM1_Pru 0.54 46.0 3.52e-01 100.0% 42.3%
3461521 243.1.1.0 a+b two layers › Cystatin-like › NTF2-like › NTF2-like 0.54 42.0 3.38e-01 100.0% 43.5%
3544618 4292.2.1.0 a+b two layers › FlaG-like › MAGUK binding stalk (MBS) domain › MAGUK binding stalk (MBS) domain 0.54 46.0 4.12e-01 96.7% 72.9%
4989864 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.53 46.0 3.51e-01 100.0% 48.0%
4087006 213.1.1.1 a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_1 0.53 41.0 3.22e-01 91.7% 67.3%
3578602 535.1.1.0 alpha arrays › BEACH domain › BEACH domain › BEACH domain 0.53 41.0 3.00e-01 100.0% 28.4%
4243735 2484.1.1.36 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_2 0.52 44.0 3.06e-01 100.0% 27.4%
3264331 220.1.1.1 beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.52 45.0 3.75e-01 100.0% 62.7%
3928653 247.1.1.0 a+b four layers › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase 0.52 39.0 2.96e-01 90.0% 40.0%
3787905 4.1.1.92 beta barrels › SH3 › SH3 › SH3 › SH3_9 0.52 34.0 3.26e-01 100.0% 55.7%
3690077 2003.1.2.0 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain 0.52 40.0 2.73e-01 90.0% 70.9%
3584575 220.1.1.1 beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.52 40.0 2.98e-01 100.0% 30.6%
3273237 220.1.1.26 beta barrels › PH domain-like › PH domain-like › PH domain-like › Vps36_ESCRT-II 0.51 38.0 3.08e-01 95.0% 39.2%
3228567 2484.1.1.162 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › F-box 0.51 44.0 3.40e-01 100.0% 50.0%
4055106 71.1.1.2 beta meanders › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › LolA 0.51 37.0 2.70e-01 80.0% 28.1%
3241890 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.50 37.0 3.22e-01 100.0% 49.0%
3627427 883.1.1.9 a+b complex topology › Aha1/BPI domain-like › Aha1/BPI domain-like › Aha1/BPI domain-like › SMP_LBD 0.50 41.0 2.97e-01 100.0% 59.5%
3221722 3180.1.1.2 a+b two layers › LEE-encoded effector EspG N-terminal domain-related › LEE-encoded effector EspG N-terminal domain-related › LEE-encoded effector EspG N-terminal domain-related › F-box 0.50 44.0 3.25e-01 100.0% 47.5%