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term4_saliva_scaffold_12_prodigal-single.1__X__X__00235

Bact-Vir

term4_saliva_scaffold_12_prodigal-single.1__X__X__00235

Identity

Kingdom:
phage

Quality

64.3 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 74-132_321-416
PDB
Domain cluster: representative
CATH (8)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
5ajiB03 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.56 31.0 3.78e-01 97.4% 84.2%
4c8yA01 3.30.70.1890 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.53 32.0 3.75e-01 100.0% 85.7%
3bf4A01 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.53 32.0 3.83e-01 98.7% 91.9%
5g5gC03 3.30.365.10 Alpha Beta › 2-Layer Sandwich › Aldehyde Oxidoreductase; domain 4 › Aldehyde oxidase/xanthine dehydrogenase, molybdopterin binding domain 0.52 32.0 3.91e-01 94.8% 98.9%
2ewcB00 3.30.1330.40 Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › RutC-like 0.51 28.0 3.10e-01 95.5% 63.6%
3gz7B00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.51 29.0 3.44e-01 73.5% 83.7%
3kg0A00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.51 29.0 3.45e-01 76.1% 85.6%
6c6uN00 3.30.70.940 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › NusG, N-terminal domain 0.50 28.0 3.34e-01 100.0% 81.6%
ECOD (11)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5040231 304.39.1.1 ↗ a+b two layers › Alpha-beta plaits › Mechanosensitive channel protein MscS (YggB), C-terminal domain › Mechanosensitive channel protein MscS (YggB), C-terminal domain › MS_channel_3rd 0.55 31.0 3.75e-01 98.7% 84.0%
5064074 304.39.1.1 ↗ a+b two layers › Alpha-beta plaits › Mechanosensitive channel protein MscS (YggB), C-terminal domain › Mechanosensitive channel protein MscS (YggB), C-terminal domain › MS_channel_3rd 0.53 30.0 3.68e-01 97.4% 85.0%
3823835 304.4.1.78 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › DUF7036 0.53 34.0 3.99e-01 100.0% 95.2%
3401247 3016.1.1.0 ↗ a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases 0.52 28.0 3.49e-01 96.1% 86.0%
5029187 304.39.1.1 ↗ a+b two layers › Alpha-beta plaits › Mechanosensitive channel protein MscS (YggB), C-terminal domain › Mechanosensitive channel protein MscS (YggB), C-terminal domain › MS_channel_3rd 0.52 28.0 3.59e-01 94.2% 95.2%
4201475 301.6.1.1 ↗ a+b three layers › Bacillus chorismate mutase-like › Tubulin C-terminal domain-like › Tubulin C-terminal domain-like › Tubulin_C 0.51 33.0 3.10e-01 97.4% 52.1%
4981301 304.39.1.1 ↗ a+b two layers › Alpha-beta plaits › Mechanosensitive channel protein MscS (YggB), C-terminal domain › Mechanosensitive channel protein MscS (YggB), C-terminal domain › MS_channel_3rd 0.51 30.0 3.64e-01 99.4% 93.7%
6994 301.7.1.0 ↗ a+b three layers › Bacillus chorismate mutase-like › YjgF-like › YjgF-like 0.51 26.0 2.95e-01 89.7% 61.7%
2426536 304.57.1.1 ↗ a+b two layers › Alpha-beta plaits › Rpp14/Pop5-like › Rpp14/Pop5-like › RNase_P_Rpp14 0.51 30.0 3.33e-01 100.0% 71.9%
3390019 304.151.1.0 ↗ a+b two layers › Alpha-beta plaits › Ferredoxin-like domain of receptor-type protein tyrosine phosphatase › Ferredoxin-like domain of receptor-type protein tyrosine phosphatase 0.50 31.0 3.65e-01 99.4% 86.4%
3972232 304.4.1.0 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel 0.50 29.0 3.41e-01 76.1% 84.0%
D2 high residues 433-521
PDB
Domain cluster: representative
CATH (20)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3a5zB01 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.76 49.0 5.66e-01 89.9% 92.1%
6s8zA01 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.75 48.0 5.59e-01 89.9% 93.5%
1uebA01 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.73 47.0 5.44e-01 89.9% 92.1%
3m9qA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.73 53.0 5.81e-01 89.9% 93.1%
7oc3A01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.70 50.0 4.95e-01 91.0% 70.7%
3oyyA01 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.69 44.0 4.96e-01 89.9% 87.9%
4iupA02 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.68 48.0 5.32e-01 91.0% 90.3%
6f2mA02 2.40.30.290 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › 0.67 39.0 4.01e-01 94.4% 59.8%
2qkdA01 2.20.25.420 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › ZPR1, zinc finger domain 0.63 31.0 4.10e-01 84.3% 87.5%
1txqA00 2.30.30.190 Mainly Beta › Roll › SH3 type barrels. › CAP Gly-rich-like domain 0.62 48.0 5.32e-01 94.4% 98.6%
1w4sA00 2.30.30.490 Mainly Beta › Roll › SH3 type barrels. › Bromo adjacent homology (BAH) domain 0.61 55.0 4.66e-01 100.0% 95.2%
4b6mB00 2.30.30.190 Mainly Beta › Roll › SH3 type barrels. › CAP Gly-rich-like domain 0.60 51.0 5.36e-01 96.6% 100.0%
1whlA00 2.30.30.190 Mainly Beta › Roll › SH3 type barrels. › CAP Gly-rich-like domain 0.57 52.0 5.12e-01 98.9% 93.7%
3agjF01 2.30.30.870 Mainly Beta › Roll › SH3 type barrels. › Pelota, domain A 0.55 46.0 4.06e-01 92.1% 63.8%
2iw3A05 2.40.50.990 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.54 41.0 3.85e-01 88.8% 66.1%
3kw2A01 2.40.240.20 Mainly Beta › Beta Barrel › Ribosomal Protein L25; Chain P › Hypothetical PUA domain-like; domain 1 0.53 27.0 3.03e-01 95.5% 58.8%
1olzA01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.53 43.0 2.68e-01 87.6% 37.5%
4it7A00 3.10.450.10 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.52 41.0 3.89e-01 86.5% 83.2%
5ds1A00 2.60.40.790 Mainly Beta › Sandwich › Immunoglobulin-like › 0.51 30.0 2.99e-01 84.3% 54.3%
4exrA02 3.10.450.40 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.50 31.0 3.42e-01 86.5% 77.5%
ECOD (44)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3741680 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.81 49.0 6.17e-01 89.9% 100.0%
4028885 4.1.1.57 ↗ beta barrels › SH3 › SH3 › SH3 › EFP_N 0.80 52.0 5.99e-01 91.0% 90.8%
3599172 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.78 52.0 5.93e-01 92.1% 92.3%
4101580 4.1.1.57 ↗ beta barrels › SH3 › SH3 › SH3 › EFP_N 0.77 51.0 5.85e-01 92.1% 92.3%
3608236 4.1.1.57 ↗ beta barrels › SH3 › SH3 › SH3 › EFP_N 0.77 49.0 5.68e-01 89.9% 89.2%
4292289 4.1.1.57 ↗ beta barrels › SH3 › SH3 › SH3 › EFP_N 0.76 50.0 5.74e-01 92.1% 92.3%
4201878 4.1.1.57 ↗ beta barrels › SH3 › SH3 › SH3 › EFP_N 0.76 50.0 5.74e-01 92.1% 92.3%
4041586 4.1.1.57 ↗ beta barrels › SH3 › SH3 › SH3 › EFP_N 0.76 50.0 5.76e-01 92.1% 92.3%
4284764 4.1.1.57 ↗ beta barrels › SH3 › SH3 › SH3 › EFP_N 0.76 50.0 5.75e-01 92.1% 92.3%
3824699 4.8.1.0 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.76 51.0 5.92e-01 93.3% 95.4%
4104219 4.1.1.57 ↗ beta barrels › SH3 › SH3 › SH3 › EFP_N 0.76 50.0 5.69e-01 91.0% 92.3%
3306779 4.1.1.57 ↗ beta barrels › SH3 › SH3 › SH3 › EFP_N 0.75 48.0 5.54e-01 89.9% 89.2%
4051625 4.1.1.57 ↗ beta barrels › SH3 › SH3 › SH3 › EFP_N 0.75 50.0 5.67e-01 92.1% 92.3%
3410370 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.75 54.0 6.00e-01 94.4% 94.3%
4077367 4.1.1.57 ↗ beta barrels › SH3 › SH3 › SH3 › EFP_N 0.75 50.0 5.73e-01 91.0% 93.8%
3265170 4.1.1.57 ↗ beta barrels › SH3 › SH3 › SH3 › EFP_N 0.75 48.0 5.49e-01 89.9% 89.2%
4037383 4.1.1.57 ↗ beta barrels › SH3 › SH3 › SH3 › EFP_N 0.75 48.0 5.48e-01 89.9% 89.2%
4213539 4.1.1.57 ↗ beta barrels › SH3 › SH3 › SH3 › EFP_N 0.74 47.0 5.40e-01 89.9% 87.7%
3590827 4.1.1.57 ↗ beta barrels › SH3 › SH3 › SH3 › EFP_N 0.74 49.0 5.59e-01 92.1% 92.3%
4146937 4.1.1.57 ↗ beta barrels › SH3 › SH3 › SH3 › EFP_N 0.74 49.0 5.56e-01 92.1% 92.3%
4135259 4.1.1.57 ↗ beta barrels › SH3 › SH3 › SH3 › EFP_N 0.74 49.0 5.58e-01 91.0% 92.3%
4038269 4.1.1.57 ↗ beta barrels › SH3 › SH3 › SH3 › EFP_N 0.74 48.0 5.50e-01 91.0% 90.8%
3948467 4.1.1.57 ↗ beta barrels › SH3 › SH3 › SH3 › EFP_N 0.74 49.0 5.59e-01 89.9% 92.3%
4446791 4.1.1.57 ↗ beta barrels › SH3 › SH3 › SH3 › EFP_N 0.73 48.0 5.52e-01 95.5% 92.3%
4524363 4.1.1.57 ↗ beta barrels › SH3 › SH3 › SH3 › EFP_N 0.73 48.0 5.51e-01 92.1% 92.3%
4158157 4.1.1.57 ↗ beta barrels › SH3 › SH3 › SH3 › EFP_N 0.72 46.0 5.25e-01 89.9% 89.2%
3728855 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.71 50.0 5.47e-01 91.0% 88.0%
3886492 4.1.1.154 ↗ beta barrels › SH3 › SH3 › SH3 › DUF4772 0.71 52.0 5.64e-01 94.4% 90.7%
142633 4.1.1.57 ↗ beta barrels › SH3 › SH3 › SH3 › EFP_N 0.69 44.0 4.96e-01 89.9% 87.9%
3828614 4.1.1.158 ↗ beta barrels › SH3 › SH3 › SH3 › DUF3444 0.67 60.0 5.61e-01 97.8% 100.0%
5032255 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.65 44.0 4.82e-01 89.9% 88.6%
5029166 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.64 50.0 5.43e-01 91.0% 97.3%
3485387 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.62 48.0 5.18e-01 89.9% 96.0%
4015826 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.61 48.0 4.16e-01 86.5% 99.3%
3593976 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.61 51.0 4.44e-01 95.5% 60.8%
3267804 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.60 53.0 5.07e-01 94.4% 95.0%
4989942 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.59 39.0 3.90e-01 91.0% 66.7%
4018672 4.1.1.225 ↗ beta barrels › SH3 › SH3 › SH3 › DUF7025 0.58 52.0 4.76e-01 97.8% 78.3%
3624304 4.8.1.0 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.55 48.0 4.76e-01 94.4% 92.6%
4987019 243.3.1.0 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.55 37.0 4.02e-01 86.5% 82.7%
3487081 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.55 42.0 4.13e-01 96.6% 75.0%
4932514 4.23.1.2 ↗ beta barrels › SH3 › Dom34/Pelota N-terminal domain-like › Dom34/Pelota N-terminal domain-like › PF26356 0.54 45.0 4.07e-01 92.1% 66.7%
3898777 4.1.1.327 ↗ beta barrels › SH3 › SH3 › SH3 › IRF-2BP1_2_M 0.54 46.0 3.84e-01 94.4% 58.1%
3731226 243.1.1.0 ↗ a+b two layers › Cystatin-like › NTF2-like › NTF2-like 0.50 41.0 3.41e-01 86.5% 78.7%
D3 medium residues 145-320
PDB
Domain cluster: representative
CATH (7)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1t3aA00 3.90.1240.10 Alpha Beta › Alpha-Beta Complex › Zincin-like › "Metalloproteases (""zincins""), catalytic domain like" 0.61 56.0 4.23e-01 97.2% 79.3%
3u1nB01 1.10.3210.10 Mainly Alpha › Orthogonal Bundle › Hypothetical protein af1432 › Hypothetical protein af1432 0.56 46.0 3.76e-01 93.8% 47.0%
4l63A00 3.40.390.10 Alpha Beta › 3-Layer(aba) Sandwich › Collagenase (Catalytic Domain) › Collagenase (Catalytic Domain) 0.56 48.0 4.30e-01 93.2% 68.7%
4l7aA00 3.40.390.70 Alpha Beta › 3-Layer(aba) Sandwich › Collagenase (Catalytic Domain) › 0.56 46.0 4.10e-01 89.8% 81.2%
3rh2A00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.53 38.0 3.61e-01 73.3% 73.2%
2iaiA02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.52 36.0 4.04e-01 71.0% 100.0%
3hd6A00 1.10.3430.10 Mainly Alpha › Orthogonal Bundle › Ammonium transporter fold › Ammonium transporter AmtB like domains 0.51 40.0 3.12e-01 83.0% 93.3%
ECOD (20)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4223692 2498.1.1.58 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › DUF2201_N 0.75 56.0 5.75e-01 93.8% 79.4%
3290645 2498.1.1.29 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › Peptidase_M78 0.67 38.0 4.50e-01 75.0% 80.0%
3586986 2498.1.1.29 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › Peptidase_M78 0.67 47.0 5.23e-01 85.2% 92.6%
None — 0.62 46.0 4.20e-01 86.9% 58.3%
4537352 2498.1.1.29 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › Peptidase_M78 0.61 45.0 4.72e-01 85.8% 81.9%
4929032 2498.1.1.0 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" 0.61 41.0 4.33e-01 93.8% 76.8%
5053045 2498.1.1.0 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" 0.60 45.0 4.12e-01 93.8% 60.0%
5014658 2498.1.1.0 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" 0.59 54.0 4.72e-01 98.9% 70.4%
3280531 5067.1.1.4 ↗ alpha bundles › Multidrug efflux transporter AcrB transmembrane domain › Multidrug efflux transporter AcrB transmembrane domain › Multidrug efflux transporter AcrB transmembrane domain › MMPL 0.58 44.0 3.94e-01 78.4% 84.1%
4143650 2498.4.1.1 ↗ mixed a+b and a/b › Zincin-like › HSP90 C-terminal domain (C-terminal part of Pfam 00183) › HSP90 C-terminal domain (C-terminal part of Pfam 00183) › HSP90 0.58 34.0 4.00e-01 93.2% 83.3%
3277622 2498.1.1.0 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" 0.57 52.0 3.96e-01 100.0% 57.0%
4978358 2498.1.1.0 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" 0.56 51.0 4.00e-01 100.0% 55.6%
5072067 2498.1.1.0 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" 0.56 51.0 3.99e-01 99.4% 55.8%
5007010 1075.1.1.3 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › ABCG5/ABCG8 transmembrane domain › ABC2_membrane_2 0.55 40.0 3.55e-01 72.7% 88.8%
3838762 2498.1.1.10 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › Peptidase_M48 0.55 49.0 4.09e-01 95.5% 68.0%
4469650 2498.4.1.1 ↗ mixed a+b and a/b › Zincin-like › HSP90 C-terminal domain (C-terminal part of Pfam 00183) › HSP90 C-terminal domain (C-terminal part of Pfam 00183) › HSP90 0.54 33.0 3.88e-01 94.3% 86.2%
4024134 2498.1.1.65 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › MATCAP 0.53 49.0 3.83e-01 98.9% 72.2%
4934407 1075.3.1.1 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Type I ABC importer transmembrane domain fold › Type I ABC importer transmembrane domain fold › BPD_transp_1 0.52 37.0 3.54e-01 71.6% 89.8%
3647744 192.15.1.0 ↗ alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains 0.51 33.0 3.88e-01 77.3% 92.0%
4938875 2498.5.1.0 ↗ mixed a+b and a/b › Zincin-like › GroEL-intermediate domain like › GroEL-intermediate domain like 0.50 30.0 3.76e-01 70.5% 98.1%