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term4_saliva_scaffold_12_prodigal-single.1__X__X__00007

Bact-Vir

term4_saliva_scaffold_12_prodigal-single.1__X__X__00007

Identity

Kingdom:
phage

Quality

65.1 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 1-47
PDB
D2 high residues 63-210
PDB
D3 high residues 220-282
PDB
Domain cluster: representative
CATH (47)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
5j3tA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.67 54.0 4.39e-01 90.5% 51.6%
2wsuA01 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.67 59.0 4.60e-01 100.0% 83.5%
6n44A00 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.67 59.0 4.58e-01 100.0% 84.9%
5gm0A01 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.66 58.0 4.47e-01 100.0% 79.7%
3ap9A00 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.66 59.0 4.45e-01 100.0% 79.5%
3zsjA00 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.66 59.0 4.57e-01 100.0% 84.8%
3i8tA00 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.66 58.0 4.51e-01 100.0% 84.3%
1e2tA02 3.30.1120.150 Alpha Beta › 2-Layer Sandwich › Arylsulfatase, C-terminal domain › 0.65 47.0 4.22e-01 92.1% 55.8%
4ccdA03 2.60.120.560 Mainly Beta › Sandwich › Jelly Rolls › Exo-inulinase; domain 1 0.65 57.0 4.03e-01 100.0% 60.5%
1w5rA01 3.30.2140.10 Alpha Beta › 2-Layer Sandwich › Arylamine N-acetyltransferase fold › Arylamine N-acetyltransferase 0.65 44.0 3.20e-01 92.1% 26.0%
5ejrA03 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.65 50.0 4.75e-01 88.9% 76.2%
3zpyB00 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.64 56.0 3.78e-01 100.0% 59.9%
5dzeA00 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.64 56.0 3.98e-01 100.0% 72.9%
2dhkA01 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.63 48.0 4.24e-01 87.3% 92.0%
4nswA02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.62 48.0 4.10e-01 87.3% 85.3%
2gzaA01 3.30.450.90 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.61 50.0 4.22e-01 92.1% 76.9%
4xtvB02 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.60 43.0 4.65e-01 93.7% 100.0%
1dfvA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.60 53.0 3.88e-01 100.0% 64.2%
1txdA02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.59 47.0 3.93e-01 92.1% 62.0%
8d3lA01 3.100.10.20 Alpha Beta › Ribosomal Protein L15; Chain: K; domain 2 › Ribosomal Protein L15; Chain: K; domain 2 › CRISPR-associated endonuclease Cas1, N-terminal domain 0.59 45.0 4.04e-01 82.5% 86.4%
1q67A01 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.59 48.0 3.84e-01 95.2% 61.4%
4bjzA01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.59 47.0 3.54e-01 90.5% 59.5%
2rh0A01 2.60.40.790 Mainly Beta › Sandwich › Immunoglobulin-like › 0.59 41.0 4.15e-01 74.6% 90.6%
2lydA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.58 44.0 3.56e-01 85.7% 73.1%
7kfuC01 3.100.10.20 Alpha Beta › Ribosomal Protein L15; Chain: K; domain 2 › Ribosomal Protein L15; Chain: K; domain 2 › CRISPR-associated endonuclease Cas1, N-terminal domain 0.58 44.0 4.19e-01 82.5% 85.3%
2ra9A02 2.30.270.10 Mainly Beta › Roll › duf1285 protein fold › duf1285 protein 0.57 45.0 4.40e-01 93.7% 79.5%
3apuB00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.57 50.0 3.67e-01 100.0% 61.6%
2o30A00 2.60.40.790 Mainly Beta › Sandwich › Immunoglobulin-like › 0.57 44.0 4.05e-01 84.1% 68.3%
2dmoA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.57 42.0 4.21e-01 100.0% 77.9%
1epaA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.56 50.0 3.75e-01 100.0% 66.3%
1hxdA03 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.56 37.0 4.05e-01 73.0% 100.0%
1ex4B02 2.30.30.10 Mainly Beta › Roll › SH3 type barrels. › Integrase, C-terminal domain superfamily, retroviral 0.56 42.0 4.29e-01 96.8% 89.8%
2gumB03 2.30.29.100 Mainly Beta › Roll › PH-domain like › 0.56 49.0 3.99e-01 100.0% 90.1%
1kkeA02 2.60.90.20 Mainly Beta › Sandwich › Adenovirus Type 5 Fiber Protein (Receptor Binding Domain) › Virus attachment protein , globular domain 0.55 41.0 3.16e-01 79.4% 98.6%
3gmgA00 3.30.70.1880 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Protein of unknown function DUF881 0.55 43.0 3.40e-01 88.9% 54.5%
2k57A00 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.55 42.0 4.46e-01 92.1% 98.2%
3q6kA00 2.120.10.30 Mainly Beta › 6 Propeller › Neuraminidase › TolB, C-terminal domain 0.54 39.0 2.45e-01 76.2% 39.5%
4qa8A00 2.50.20.20 Mainly Beta › Clam › outer membrane lipoprotein receptor (LolB), chain A › 0.54 46.0 3.29e-01 100.0% 84.3%
2gtiA01 3.30.160.820 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Nsp15 N-terminal domain-like 0.54 41.0 4.18e-01 85.7% 87.5%
2ra6C00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.54 46.0 3.61e-01 100.0% 72.0%
3fvcA01 2.30.30.1230 Mainly Beta › Roll › SH3 type barrels. › 0.54 40.0 3.75e-01 82.5% 77.5%
3tzgA00 2.40.160.150 Mainly Beta › Beta Barrel › Porin › 0.53 42.0 2.91e-01 90.5% 44.8%
4n06A01 3.100.10.20 Alpha Beta › Ribosomal Protein L15; Chain: K; domain 2 › Ribosomal Protein L15; Chain: K; domain 2 › CRISPR-associated endonuclease Cas1, N-terminal domain 0.53 39.0 3.68e-01 82.5% 78.0%
2ra2B00 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.52 41.0 4.22e-01 90.5% 94.8%
4i0nA00 2.70.240.10 Mainly Beta › Distorted Sandwich › Leukocidin-like › Leukocidin/porin MspA 0.51 38.0 2.49e-01 79.4% 70.8%
2dk3A00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.51 43.0 3.99e-01 100.0% 76.7%
3oc4A02 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.51 42.0 3.50e-01 95.2% 95.8%
ECOD (40)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4967982 4076.4.1.0 ↗ a+b two layers › L9 N-domain-like › primase chain A, C-terminal domain › primase chain A, C-terminal domain 0.75 50.0 5.78e-01 100.0% 97.7%
3878636 3794.1.1.0 ↗ a+b two layers › Methylcrotonyl-CoA carboxylase alpha-subunit BT domain-related › Methylcrotonyl-CoA carboxylase alpha-subunit BT domain-related › Barrel domain in methylcrotonyl-CoA carboxylase alpha-subunit 0.65 39.0 2.99e-01 74.6% 26.2%
3790351 220.1.1.13 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › DCP1 0.65 52.0 4.28e-01 90.5% 55.0%
3505913 221.1.1.112 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › ULD_3 0.65 52.0 4.34e-01 87.3% 76.1%
3390227 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.65 52.0 4.47e-01 90.5% 91.4%
3246415 10.1.1.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases 0.64 55.0 4.43e-01 98.4% 95.2%
3604468 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.63 48.0 4.56e-01 87.3% 96.2%
4944397 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.63 40.0 4.37e-01 82.5% 80.0%
4991701 10.1.1.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases 0.62 55.0 3.81e-01 100.0% 67.0%
5044987 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.62 52.0 4.44e-01 95.2% 57.1%
3602759 4.8.1.0 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.62 50.0 5.06e-01 92.1% 98.3%
4582465 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.62 49.0 4.18e-01 90.5% 70.9%
3223650 227.1.1.12 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › Rad9 0.62 48.0 3.73e-01 85.7% 85.5%
4971298 319.1.1.0 ↗ beta sandwiches › HSP20-like › HSP20-like chaperones › HSP20-like chaperones 0.62 47.0 4.50e-01 82.5% 78.7%
4989457 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.62 38.0 4.12e-01 82.5% 76.0%
4949985 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.62 49.0 4.66e-01 93.7% 75.0%
3515993 220.1.1.13 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › DCP1 0.61 48.0 4.04e-01 90.5% 52.5%
4027872 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.61 48.0 4.34e-01 90.5% 69.5%
3508939 220.1.1.13 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › DCP1 0.61 51.0 4.08e-01 95.2% 54.6%
3235619 207.1.1.0 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats 0.61 42.0 2.77e-01 74.6% 16.1%
3388895 220.1.1.170 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_alsin 0.60 48.0 4.10e-01 92.1% 54.5%
3624119 2.3.1.2 ↗ beta barrels › OB-fold › TIMP-like › TIMP-like › NTR 0.60 43.0 3.34e-01 77.8% 95.9%
2816212 3239.1.1.1 ↗ alpha complex topology › Cas1 › Cas1 › Cas1 › Cas_Cas1 0.59 44.0 2.81e-01 82.5% 22.0%
3988065 243.3.1.0 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.58 39.0 3.74e-01 81.0% 58.7%
3828345 219.1.1.91 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › EDR1 0.57 39.0 2.72e-01 71.4% 88.1%
3593970 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.57 49.0 3.50e-01 100.0% 63.6%
3925408 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.56 40.0 4.33e-01 95.2% 98.0%
3669786 4.8.1.0 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.56 37.0 4.03e-01 74.6% 86.0%
3607176 101.17.1.4 ↗ alpha arrays › HTH › IHF-like DNA-binding proteins › IHF-like DNA-binding proteins › HU-CCDC81_euk_2 0.56 32.0 2.96e-01 76.2% 43.9%
4073461 2484.1.1.12 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Acetate_kinase 0.56 48.0 3.40e-01 95.2% 61.6%
5058457 4.17.1.1 ↗ beta barrels › SH3 › GatD N-terminal domain-like › GatD N-terminal domain-like › GatD_N 0.56 42.0 4.17e-01 93.7% 80.0%
4141799 2003.1.5.213 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › MTS, tRNA_U5-meth_tr 0.54 37.0 2.33e-01 71.4% 49.0%
3440727 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.53 44.0 2.49e-01 92.1% 12.7%
3994644 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.53 48.0 2.67e-01 100.0% 26.8%
4044269 4.17.1.1 ↗ beta barrels › SH3 › GatD N-terminal domain-like › GatD N-terminal domain-like › GatD_N 0.52 41.0 3.98e-01 95.2% 80.0%
4514555 1.1.5.18 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › FMN_bind_2 0.51 40.0 2.87e-01 87.3% 71.8%
4929875 4.11.1.0 ↗ beta barrels › SH3 › LexA/Signal peptidase › LexA/Signal peptidase 0.51 39.0 3.48e-01 95.2% 55.0%
4376273 2.14.1.1 ↗ beta barrels › OB-fold › HupF/HypC-like › HupF/HypC-like › HupF_HypC 0.51 35.0 3.23e-01 74.6% 60.0%
4940665 9.16.1.0 ↗ beta barrels › Lipocalins/Streptavidin › Hypothetical protein Atu4866 › Hypothetical protein Atu4866 0.50 42.0 3.91e-01 93.7% 98.8%
3236689 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.50 35.0 3.71e-01 87.3% 89.1%
D4 high residues 347-400
PDB
Domain cluster: representative
CATH (9)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
7e42A01 1.10.1200.10 Mainly Alpha › Orthogonal Bundle › Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A › ACP-like 0.65 45.0 4.13e-01 74.1% 93.2%
3d6wB02 2.20.25.10 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › 0.65 44.0 4.91e-01 77.8% 97.4%
5nr1A01 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.64 48.0 3.92e-01 83.3% 82.1%
3aiiA03 2.40.240.10 Mainly Beta › Beta Barrel › Ribosomal Protein L25; Chain P › Ribosomal Protein L25; Chain P 0.63 42.0 3.52e-01 94.4% 41.6%
5teqA01 3.30.470.110 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › 0.62 50.0 3.48e-01 100.0% 31.1%
5elaA01 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.60 40.0 3.49e-01 70.4% 96.6%
4bndA01 3.40.50.1000 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HAD superfamily/HAD-like 0.57 46.0 3.42e-01 96.3% 91.7%
2jwkA00 3.30.420.270 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › 0.56 47.0 4.28e-01 98.1% 82.4%
1xovA03 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.54 38.0 3.52e-01 100.0% 55.6%
ECOD (18)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3416712 377.9.1.0 ↗ few secondary structure elements › Glucocorticoid receptor-like › HIT/MYND zinc finger-like › HIT/MYND zinc finger-like 0.80 46.0 5.20e-01 87.0% 77.5%
3540261 376.1.2.28 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › Cysteine-rich domain › zf-FCS 0.79 55.0 5.53e-01 74.1% 98.2%
3394477 377.9.1.0 ↗ few secondary structure elements › Glucocorticoid receptor-like › HIT/MYND zinc finger-like › HIT/MYND zinc finger-like 0.62 47.0 4.64e-01 85.2% 93.3%
4444512 394.1.1.2 ↗ few secondary structure elements › Invertebrate chitin-binding proteins › Invertebrate chitin-binding proteins › Invertebrate chitin-binding proteins › CBM_19 0.62 41.0 4.44e-01 98.1% 84.4%
4935756 242.2.1.0 ↗ a+b two layers › Homing endonucleases-like › tRNA-intron endonuclease N-terminal domain-like › tRNA-intron endonuclease N-terminal domain-like 0.60 42.0 4.27e-01 96.3% 76.4%
3252862 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.60 45.0 3.63e-01 94.4% 40.9%
3996291 4351.1.1.1 ↗ alpha arrays › ATP12-like › ATP12-like › ATP12-like › ATP12 0.59 39.0 2.67e-01 70.4% 16.8%
4970736 3054.1.1.0 ↗ alpha arrays › Insert all-alpha domain in prim-pol › Insert all-alpha domain in prim-pol › Insert all-alpha domain in prim-pol 0.57 38.0 3.41e-01 94.4% 47.5%
3764448 887.1.1.4 ↗ a+b two layers › Ribosomal protein L30p/L7e › Ribosomal protein L30p/L7e › Ribosomal protein L30p/L7e › Ribosomal_L30_N 0.57 43.0 3.02e-01 88.9% 53.8%
3930805 221.1.1.0 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.55 39.0 3.55e-01 81.5% 100.0%
3686820 5.1.4.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.54 39.0 2.34e-01 77.8% 79.8%
3484161 2485.1.1.0 ↗ a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like 0.54 41.0 3.34e-01 90.7% 94.2%
4443892 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 0.52 39.0 3.89e-01 85.2% 94.5%
3969513 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.52 44.0 2.84e-01 98.1% 85.2%
3659638 887.1.1.2 ↗ a+b two layers › Ribosomal protein L30p/L7e › Ribosomal protein L30p/L7e › Ribosomal protein L30p/L7e › Ribosomal_L30,Ribosomal_L30_N 0.51 38.0 2.59e-01 85.2% 65.5%
3680494 887.1.1.1 ↗ a+b two layers › Ribosomal protein L30p/L7e › Ribosomal protein L30p/L7e › Ribosomal protein L30p/L7e › Ribosomal_L30 0.51 38.0 2.60e-01 85.2% 65.5%
4465946 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 0.51 36.0 3.65e-01 81.5% 96.4%
4173826 310.1.1.0 ↗ a+b two layers › RRF/tRNA synthetase additional domain-like › Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain › Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain 0.51 37.0 3.02e-01 77.8% 94.0%