Back to structures

scnpilot_solids2_trim150_scaffold_133_prodigal-single.1__X__X__00035

Bact-Vir

scnpilot_solids2_trim150_scaffold_133_prodigal-single.1__X__X__00035

Identity

Kingdom:
phage

Quality

61.0 mean pLDDT

Cluster

Singleton — not in a non-trivial cluster

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 13-85
PDB
Domain cluster: representative
CATH (49)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2d9tA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.86 56.0 6.72e-01 82.2% 100.0%
2ckkA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.81 56.0 6.47e-01 83.6% 98.1%
3m9qA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.79 62.0 6.24e-01 82.2% 84.7%
3a5zB01 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.79 55.0 5.90e-01 83.6% 84.1%
4ld6A00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.78 64.0 5.38e-01 91.8% 53.8%
4iupA02 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.78 60.0 6.09e-01 83.6% 81.9%
2mamA00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.77 69.0 5.80e-01 97.3% 89.0%
2l89A00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.74 58.0 5.08e-01 84.9% 57.4%
6s8zA01 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.72 50.0 5.36e-01 83.6% 85.5%
3upuA03 2.30.30.780 Mainly Beta › Roll › SH3 type barrels. › 0.71 54.0 4.43e-01 80.8% 93.9%
4fssB00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.68 52.0 5.68e-01 83.6% 96.7%
1n27A00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.68 53.0 4.78e-01 89.0% 62.5%
4ebrA00 3.30.1460.50 Alpha Beta › 2-Layer Sandwich › Yope Regulator; Chain: A, › 0.67 45.0 3.47e-01 80.8% 31.8%
2e2dC02 2.40.50.120 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.66 49.0 4.56e-01 80.8% 93.6%
3mcrA00 3.30.460.80 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › NADH:ubiquinone oxidoreductase Nqo5 subunit 0.65 46.0 3.59e-01 74.0% 69.5%
1h3zA00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.63 50.0 4.36e-01 84.9% 59.3%
6qp7A01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.63 46.0 2.81e-01 78.1% 29.8%
1tzzB01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.62 45.0 3.78e-01 75.3% 99.2%
4p2iA00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.61 46.0 4.05e-01 83.6% 96.6%
3pnrA00 3.90.70.10 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases 0.60 45.0 3.26e-01 83.6% 37.1%
3ddmA01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.60 44.0 3.65e-01 76.7% 88.8%
3ro6C01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.60 42.0 3.72e-01 74.0% 97.2%
1s1dA00 2.120.10.100 Mainly Beta › 6 Propeller › Neuraminidase › Apyrase 0.59 43.0 2.83e-01 78.1% 32.5%
1olzA01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.58 51.0 3.12e-01 97.3% 36.6%
3l1wA00 3.60.10.10 Alpha Beta › 4-Layer Sandwich › Deoxyribonuclease I; Chain A › Endonuclease/exonuclease/phosphatase 0.57 50.0 3.45e-01 97.3% 84.5%
1xteA00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.57 43.0 3.73e-01 82.2% 85.3%
2bi0A01 3.10.129.10 Alpha Beta › Roll › Thiol Ester Dehydrase; Chain A › Hotdog Thioesterase 0.57 40.0 3.23e-01 75.3% 86.9%
3iayA01 2.40.50.730 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.56 44.0 4.02e-01 87.7% 64.3%
1yqzA03 3.30.390.30 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › FAD/NAD-linked reductase, C-terminal dimerisation domain 0.55 36.0 3.21e-01 71.2% 45.4%
2k75A01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.55 45.0 4.10e-01 91.8% 82.5%
2lpuA00 3.30.1460.50 Alpha Beta › 2-Layer Sandwich › Yope Regulator; Chain: A, › 0.55 37.0 2.93e-01 82.2% 33.8%
7rd0A02 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.55 40.0 2.72e-01 80.8% 99.1%
4ywzB00 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.55 39.0 3.16e-01 75.3% 83.6%
1b7eA01 3.90.350.10 Alpha Beta › Alpha-Beta Complex › Transposase Inhibitor Protein From Tn5; Chain A, domain 1 › Transposase Inhibitor Protein From Tn5; Chain A, domain 1 0.55 46.0 3.32e-01 100.0% 34.1%
2rajA02 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.54 41.0 3.52e-01 83.6% 96.0%
3soyA00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.54 39.0 3.22e-01 78.1% 81.0%
1ocsA00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.54 40.0 3.34e-01 79.5% 94.7%
1nf3C00 2.30.42.10 Mainly Beta › Roll › Pdz3 Domain › PDZ domain 0.53 42.0 3.64e-01 90.4% 83.7%
2xzhA00 2.130.10.110 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › Clathrin heavy-chain terminal domain 0.53 46.0 2.97e-01 97.3% 25.7%
1jz7A02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.53 42.0 3.60e-01 86.3% 89.6%
3irbA02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.52 39.0 4.02e-01 93.2% 88.2%
2kvtA00 3.30.730.30 Alpha Beta › 2-Layer Sandwich › GCC-box Binding Domain › YaiA protein 0.52 35.0 3.56e-01 89.0% 70.4%
3ebwA01 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.51 42.0 3.41e-01 90.4% 59.9%
3icsA02 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.50 35.0 2.49e-01 74.0% 48.8%
2dn6A00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.50 38.0 3.31e-01 82.2% 65.2%
6d92A01 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.50 34.0 2.45e-01 71.2% 25.8%
6pfzD02 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.50 34.0 2.44e-01 72.6% 50.2%
7mwzD01 3.40.50.12100 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Stimulator of interferon genes protein 0.50 41.0 3.16e-01 93.2% 47.8%
3fm2A00 3.40.1570.10 Alpha Beta › 3-Layer(aba) Sandwich › Heme iron utilization protein-like fold › HemS/ChuS/ChuX like domains 0.50 38.0 3.18e-01 83.6% 63.9%
ECOD (68)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3826141 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.87 70.0 6.49e-01 84.9% 77.8%
3691144 4.8.1.0 beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.84 68.0 6.95e-01 84.9% 92.9%
3473981 4.1.1.12 beta barrels › SH3 › SH3 › SH3 › PWWP 0.83 71.0 5.81e-01 90.4% 69.6%
3723834 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.83 67.0 6.88e-01 84.9% 91.4%
2157301 4.1.1.78 beta barrels › SH3 › SH3 › SH3 › TTD 0.83 64.0 6.49e-01 83.6% 82.2%
1144815 4.1.1.103 beta barrels › SH3 › SH3 › SH3 › SH3_12 0.82 65.0 6.31e-01 83.6% 82.5%
3557649 4.8.1.20 beta barrels › SH3 › Chromo domain-like › Chromo domain-like › PWP3A-B_N 0.78 64.0 5.59e-01 89.0% 60.0%
4602887 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.78 54.0 5.41e-01 71.2% 97.3%
3750522 4.1.1.218 beta barrels › SH3 › SH3 › SH3 › PWP3A-B_N 0.78 64.0 5.45e-01 89.0% 57.3%
3925915 809.2.1.0 a+b two layers › BLIP-like › BT0923-like › BT0923-like 0.77 48.0 5.66e-01 72.6% 92.0%
3996695 3256.1.1.0 a+b two layers › DUF2233 N-terminal domain › DUF2233 N-terminal domain › DUF2233 N-terminal domain 0.76 47.0 5.32e-01 72.6% 83.6%
3230100 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.75 47.0 5.30e-01 72.6% 83.6%
3784770 4.8.1.0 beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.74 59.0 5.90e-01 84.9% 92.0%
4976092 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.74 56.0 5.22e-01 83.6% 65.6%
3645842 4.1.1.162 beta barrels › SH3 › SH3 › SH3 › DUF502 0.74 57.0 5.54e-01 83.6% 75.0%
145843 4.1.1.12 beta barrels › SH3 › SH3 › SH3 › PWWP 0.74 58.0 5.08e-01 84.9% 57.4%
3666058 2.1.1.44 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › Dna2 0.72 50.0 4.59e-01 72.6% 90.5%
5031616 4.26.1.0 beta barrels › SH3 › Chromatin protein Cren7 › Chromatin protein Cren7 0.71 48.0 5.36e-01 71.2% 94.5%
3253266 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.70 54.0 4.79e-01 83.6% 61.9%
3770802 4.1.1.248 beta barrels › SH3 › SH3 › SH3 › CABIT 0.69 53.0 4.80e-01 83.6% 77.2%
4549698 4.8.1.10 beta barrels › SH3 › Chromo domain-like › Chromo domain-like › MSL3_chromo-like 0.69 63.0 5.68e-01 98.6% 76.8%
3173646 277.1.1.1 a+b two layers › PX domain › PX domain › PX domain › PX 0.67 54.0 4.20e-01 89.0% 90.3%
5018717 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.67 46.0 5.12e-01 72.6% 94.5%
5022323 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.66 48.0 5.08e-01 75.3% 89.2%
3640971 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.66 51.0 4.02e-01 83.6% 81.3%
5048974 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.66 51.0 4.46e-01 83.6% 56.4%
3317450 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.66 47.0 4.11e-01 75.3% 73.6%
3911618 277.1.1.1 a+b two layers › PX domain › PX domain › PX domain › PX 0.65 50.0 3.82e-01 83.6% 72.6%
3253267 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.65 51.0 4.89e-01 84.9% 72.9%
3802227 2484.1.1.197 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1, DNA_pol_B_exo2 0.65 46.0 2.61e-01 75.3% 22.8%
3700460 220.1.1.1 beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.64 46.0 3.84e-01 75.3% 44.8%
3997614 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.64 46.0 3.90e-01 75.3% 71.7%
3225768 883.1.1.0 a+b complex topology › Aha1/BPI domain-like › Aha1/BPI domain-like › Aha1/BPI domain-like 0.63 53.0 4.03e-01 91.8% 54.7%
3222288 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.63 51.0 4.40e-01 89.0% 64.3%
4979057 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.62 50.0 4.70e-01 89.0% 75.6%
3617004 220.1.1.0 beta barrels › PH domain-like › PH domain-like › PH domain-like 0.62 44.0 3.83e-01 75.3% 52.2%
3757490 4.1.1.248 beta barrels › SH3 › SH3 › SH3 › CABIT 0.61 48.0 4.35e-01 83.6% 72.6%
4995179 236.3.1.1 beta barrels › GroES-like › AF1531-like › AF1531-like › DUF655 0.61 47.0 4.48e-01 82.2% 77.6%
4226251 375.1.1.252 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › PF27302 0.61 37.0 3.98e-01 75.3% 73.3%
3881192 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.60 53.0 3.95e-01 94.5% 45.3%
139759 218.1.1.1 a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › MR_MLE_N 0.60 47.0 4.04e-01 83.6% 99.1%
3954203 211.1.1.0 a+b two layers › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase 0.60 42.0 4.25e-01 75.3% 80.0%
4931409 220.1.1.0 beta barrels › PH domain-like › PH domain-like › PH domain-like 0.60 45.0 3.78e-01 82.2% 71.5%
4505972 323.1.1.3 a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases › AMP-binding 0.59 40.0 2.64e-01 75.3% 16.2%
5049571 2.1.1.17 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › OB_aCoA_assoc 0.59 48.0 4.13e-01 90.4% 65.5%
3927710 277.1.1.1 a+b two layers › PX domain › PX domain › PX domain › PX 0.59 44.0 3.49e-01 83.6% 87.9%
3824181 375.1.1.21 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › zf-ZPR1 0.58 39.0 4.20e-01 75.3% 83.3%
3903935 246.3.1.1 a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like › Exo_endo_phos 0.58 47.0 3.07e-01 87.7% 90.9%
4024738 220.1.1.243 beta barrels › PH domain-like › PH domain-like › PH domain-like › PF30062 0.58 41.0 3.68e-01 75.3% 58.1%
4982570 3604.1.1.1 a+b two layers › Uncharacterized protein MK0293 C-terminal domain › Uncharacterized protein MK0293 C-terminal domain › Uncharacterized protein MK0293 C-terminal domain › Ni_insertion 0.58 32.0 3.31e-01 74.0% 52.9%
3481564 330.1.1.0 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.57 45.0 4.38e-01 84.9% 86.3%
5026424 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.56 47.0 4.29e-01 90.4% 81.1%
4610051 295.1.1.43 a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain › PF29940 0.55 41.0 3.18e-01 82.2% 73.9%
4019054 220.1.1.13 beta barrels › PH domain-like › PH domain-like › PH domain-like › DCP1 0.55 46.0 3.68e-01 98.6% 63.0%
None 0.55 46.0 2.58e-01 90.4% 23.1%
3800763 304.114.1.0 a+b two layers › Alpha-beta plaits › Family B DNA polymerase insertion domain › Family B DNA polymerase insertion domain 0.55 45.0 3.05e-01 90.4% 70.5%
5011932 330.2.1.5 a+b two layers › dsRBD-like › Ribosome binding protein Y (YfiA homologue) › Ribosome binding protein Y (YfiA homologue) › PF29181 0.54 46.0 4.06e-01 93.2% 65.7%
3347865 220.1.1.78 beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_2 0.54 41.0 3.57e-01 84.9% 68.3%
3492229 330.1.1.0 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.53 42.0 3.86e-01 86.3% 72.6%
4169235 330.6.1.1 a+b two layers › dsRBD-like › 2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain › 2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain › LeuA_dimer 0.53 46.0 3.93e-01 98.6% 76.4%
4956937 2484.1.1.59 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › NurA 0.52 44.0 2.95e-01 100.0% 85.6%
3607857 330.1.1.0 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.52 41.0 3.74e-01 87.7% 83.0%
4405445 243.3.1.0 a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.52 37.0 3.84e-01 78.1% 82.9%
3521698 220.1.1.1 beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.51 35.0 3.00e-01 91.8% 42.5%
5045089 330.2.1.5 a+b two layers › dsRBD-like › Ribosome binding protein Y (YfiA homologue) › Ribosome binding protein Y (YfiA homologue) › PF29181 0.51 42.0 3.88e-01 93.2% 73.0%
3819309 330.1.1.5 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › DND1_DSRM 0.51 44.0 4.16e-01 93.2% 83.5%
3553821 220.1.1.0 beta barrels › PH domain-like › PH domain-like › PH domain-like 0.51 34.0 2.96e-01 91.8% 42.5%
3538024 5.1.3.6 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › Kelch_1 0.50 40.0 2.70e-01 90.4% 96.0%