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aot2015-NO08_SRR1761682_USA_scaffold_2_curated_prodigal-single.1__X__X__00261

Bact-Vir

aot2015-NO08_SRR1761682_USA_scaffold_2_curated_prodigal-single.1__X__X__00261

Identity

Kingdom:
phage

Quality

88.1 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 9-166
PDB
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF09704.16 best Cas_Cas5d 30.1 6.50e-07 98.7% 66.8%
CATH (13)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3vzhA00 3.30.70.2660 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.96 76.0 6.94e-01 100.0% 65.5%
3kg4A00 3.30.70.2660 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.93 75.0 7.01e-01 100.0% 70.1%
5h9fJ00 3.30.70.2660 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.70 66.0 5.80e-01 100.0% 71.2%
3nwrA01 3.30.70.150 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RuBisCO large subunit, N-terminal domain 0.59 40.0 4.52e-01 100.0% 92.4%
2wmfA03 2.60.220.10 Mainly Beta › Sandwich › Chondroitinase Ac; Chain A, domain 3 › Polysaccharide lyase family 8-like, C-terminal 0.57 23.0 2.53e-01 94.3% 42.9%
8c46A01 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.55 38.0 4.31e-01 100.0% 95.6%
2v8hA02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.55 37.0 4.21e-01 100.0% 91.4%
3n5fA02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.54 37.0 4.19e-01 100.0% 94.7%
5erdB05 2.60.40.60 Mainly Beta › Sandwich › Immunoglobulin-like › Cadherins 0.54 29.0 3.53e-01 100.0% 81.9%
4pxdA02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.53 36.0 4.11e-01 100.0% 94.8%
1wzaA03 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.53 19.0 2.56e-01 91.1% 57.0%
3io1A02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.53 35.0 4.02e-01 100.0% 92.2%
1rgxA02 2.60.40.4230 Mainly Beta › Sandwich › Immunoglobulin-like › Resistin head domain 0.52 21.0 3.20e-01 80.4% 90.6%
ECOD (40)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
1346899 304.158.1.2 a+b two layers › Alpha-beta plaits › CRISPR system Cas5 homologs › CRISPR system Cas5 homologs › Cas_Cas5d 0.95 80.0 7.01e-01 100.0% 63.0%
4952413 304.158.1.0 a+b two layers › Alpha-beta plaits › CRISPR system Cas5 homologs › CRISPR system Cas5 homologs 0.85 57.0 5.37e-01 100.0% 57.8%
4662659 304.158.1.2 a+b two layers › Alpha-beta plaits › CRISPR system Cas5 homologs › CRISPR system Cas5 homologs › Cas_Cas5d 0.85 82.0 7.10e-01 100.0% 72.0%
5075411 304.158.1.2 a+b two layers › Alpha-beta plaits › CRISPR system Cas5 homologs › CRISPR system Cas5 homologs › Cas_Cas5d 0.85 66.0 5.92e-01 100.0% 60.5%
5021424 304.158.1.2 a+b two layers › Alpha-beta plaits › CRISPR system Cas5 homologs › CRISPR system Cas5 homologs › Cas_Cas5d 0.84 71.0 6.14e-01 100.0% 60.0%
5013690 304.158.1.2 a+b two layers › Alpha-beta plaits › CRISPR system Cas5 homologs › CRISPR system Cas5 homologs › Cas_Cas5d 0.84 64.0 5.81e-01 100.0% 60.5%
5083152 304.158.1.2 a+b two layers › Alpha-beta plaits › CRISPR system Cas5 homologs › CRISPR system Cas5 homologs › Cas_Cas5d 0.80 77.0 6.84e-01 100.0% 74.8%
4946705 304.158.1.0 a+b two layers › Alpha-beta plaits › CRISPR system Cas5 homologs › CRISPR system Cas5 homologs 0.79 73.0 6.15e-01 100.0% 61.6%
4928785 304.158.1.2 a+b two layers › Alpha-beta plaits › CRISPR system Cas5 homologs › CRISPR system Cas5 homologs › Cas_Cas5d 0.79 65.0 5.72e-01 100.0% 60.0%
4996327 304.158.1.2 a+b two layers › Alpha-beta plaits › CRISPR system Cas5 homologs › CRISPR system Cas5 homologs › Cas_Cas5d 0.79 73.0 6.17e-01 100.0% 63.2%
3078808 304.158.1.0 a+b two layers › Alpha-beta plaits › CRISPR system Cas5 homologs › CRISPR system Cas5 homologs 0.79 70.0 6.28e-01 100.0% 69.3%
4929253 304.158.1.2 a+b two layers › Alpha-beta plaits › CRISPR system Cas5 homologs › CRISPR system Cas5 homologs › Cas_Cas5d 0.78 61.0 5.25e-01 100.0% 55.6%
5071665 304.158.1.2 a+b two layers › Alpha-beta plaits › CRISPR system Cas5 homologs › CRISPR system Cas5 homologs › Cas_Cas5d 0.78 71.0 5.95e-01 100.0% 60.8%
4583752 304.158.1.0 a+b two layers › Alpha-beta plaits › CRISPR system Cas5 homologs › CRISPR system Cas5 homologs 0.77 69.0 6.29e-01 100.0% 73.2%
4877693 304.158.1.2 a+b two layers › Alpha-beta plaits › CRISPR system Cas5 homologs › CRISPR system Cas5 homologs › Cas_Cas5d 0.75 64.0 5.36e-01 100.0% 55.5%
4200050 304.158.1.2 a+b two layers › Alpha-beta plaits › CRISPR system Cas5 homologs › CRISPR system Cas5 homologs › Cas_Cas5d 0.75 71.0 5.93e-01 100.0% 63.1%
4967166 304.158.1.2 a+b two layers › Alpha-beta plaits › CRISPR system Cas5 homologs › CRISPR system Cas5 homologs › Cas_Cas5d 0.72 68.0 5.82e-01 100.0% 69.2%
4989910 304.158.1.2 a+b two layers › Alpha-beta plaits › CRISPR system Cas5 homologs › CRISPR system Cas5 homologs › Cas_Cas5d 0.71 63.0 5.52e-01 100.0% 65.3%
2388895 304.158.1.2 a+b two layers › Alpha-beta plaits › CRISPR system Cas5 homologs › CRISPR system Cas5 homologs › Cas_Cas5d 0.71 63.0 5.37e-01 100.0% 61.1%
5066096 304.139.1.2 a+b two layers › Alpha-beta plaits › Cas7-related › CRISPR-associated protein Cas7/Csa2-related › RAMPs 0.67 63.0 5.55e-01 100.0% 86.8%
5075938 304.139.1.2 a+b two layers › Alpha-beta plaits › Cas7-related › CRISPR-associated protein Cas7/Csa2-related › RAMPs 0.66 61.0 5.57e-01 100.0% 95.1%
5078902 304.139.1.2 a+b two layers › Alpha-beta plaits › Cas7-related › CRISPR-associated protein Cas7/Csa2-related › RAMPs 0.65 60.0 5.00e-01 100.0% 90.7%
4938539 304.51.1.2 a+b two layers › Alpha-beta plaits › CRISPR transcript (pre-crRNA) processing endoribonuclease-related › CRISPR transcript (pre-crRNA) processing endoribonuclease-related › RAMPs 0.65 59.0 4.30e-01 98.7% 100.0%
4234646 304.139.1.1 a+b two layers › Alpha-beta plaits › Cas7-related › CRISPR-associated protein Cas7/Csa2-related › DevR 0.64 59.0 4.70e-01 100.0% 97.4%
4933932 304.139.1.1 a+b two layers › Alpha-beta plaits › Cas7-related › CRISPR-associated protein Cas7/Csa2-related › DevR 0.64 59.0 4.68e-01 100.0% 78.1%
5036240 304.139.1.2 a+b two layers › Alpha-beta plaits › Cas7-related › CRISPR-associated protein Cas7/Csa2-related › RAMPs 0.64 59.0 5.05e-01 100.0% 84.3%
4955148 304.139.1.2 a+b two layers › Alpha-beta plaits › Cas7-related › CRISPR-associated protein Cas7/Csa2-related › RAMPs 0.63 58.0 5.09e-01 99.4% 72.2%
5008483 304.139.1.1 a+b two layers › Alpha-beta plaits › Cas7-related › CRISPR-associated protein Cas7/Csa2-related › DevR 0.63 58.0 4.64e-01 100.0% 94.8%
5009917 304.139.1.2 a+b two layers › Alpha-beta plaits › Cas7-related › CRISPR-associated protein Cas7/Csa2-related › RAMPs 0.63 58.0 4.47e-01 100.0% 84.3%
4996027 304.139.1.2 a+b two layers › Alpha-beta plaits › Cas7-related › CRISPR-associated protein Cas7/Csa2-related › RAMPs 0.62 58.0 4.88e-01 100.0% 80.4%
2428749 304.139.1.2 a+b two layers › Alpha-beta plaits › Cas7-related › CRISPR-associated protein Cas7/Csa2-related › RAMPs 0.62 58.0 4.72e-01 100.0% 80.5%
5017739 304.139.1.2 a+b two layers › Alpha-beta plaits › Cas7-related › CRISPR-associated protein Cas7/Csa2-related › RAMPs 0.62 57.0 4.87e-01 100.0% 69.6%
3979231 872.1.1.4 a+b two layers › Dodecin subunit-like › Flavin-binding protein dodecin-like › Flavin-binding protein dodecin-like › DUF4312 0.59 33.0 4.11e-01 81.6% 89.5%
1346750 304.139.1.4 a+b two layers › Alpha-beta plaits › Cas7-related › CRISPR-associated protein Cas7/Csa2-related › Cas_CT1975 0.59 54.0 4.13e-01 100.0% 76.8%
5067017 304.139.1.2 a+b two layers › Alpha-beta plaits › Cas7-related › CRISPR-associated protein Cas7/Csa2-related › RAMPs 0.57 53.0 4.90e-01 100.0% 86.0%
5068389 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.57 31.0 3.67e-01 100.0% 75.5%
4948553 304.139.1.2 a+b two layers › Alpha-beta plaits › Cas7-related › CRISPR-associated protein Cas7/Csa2-related › RAMPs 0.55 51.0 4.24e-01 100.0% 69.1%
1780607 304.25.1.1 a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain › M20_dimer 0.54 37.0 4.19e-01 100.0% 94.8%
3490645 304.47.1.0 a+b two layers › Alpha-beta plaits › SEA domain › SEA domain 0.50 41.0 4.39e-01 97.5% 100.0%
8624 929.1.1.1 beta duplicates or obligate multimers › Resistin › Resistin › Resistin › Resistin 0.50 22.0 2.81e-01 82.9% 69.7%
D2 high residues 181-238
PDB
Domain cluster: representative
CATH (36)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3vzhA00 3.30.70.2660 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.90 65.0 4.36e-01 96.6% 22.7%
2h36X00 3.30.160.300 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.64 44.0 3.63e-01 98.3% 38.9%
4ec6A00 3.10.450.540 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.62 45.0 3.73e-01 98.3% 42.2%
3gveA00 3.60.21.10 Alpha Beta › 4-Layer Sandwich › Purple Acid Phosphatase; chain A, domain 2 › Metallo-dependent phosphatases 0.62 50.0 3.21e-01 96.6% 91.6%
3djwA00 3.30.160.300 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.61 43.0 3.72e-01 98.3% 45.3%
2qkdA01 2.20.25.420 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › ZPR1, zinc finger domain 0.61 40.0 4.29e-01 98.3% 81.2%
3n54B01 6.20.190.10 Special › Other non-globular › Nuclear Transport Factor 2; Chain: A, › Nutrient germinant receptor protein C, domain 1 0.60 43.0 4.26e-01 98.3% 73.8%
4odjA01 3.30.300.10 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › 0.58 49.0 4.03e-01 98.3% 60.2%
3ub1D02 3.10.450.540 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.58 40.0 3.29e-01 94.8% 37.7%
2ltjA00 2.20.230.10 Mainly Beta › Single Sheet › Resuscitation-promoting factor rpfb fold › Resuscitation-promoting factor rpfb. 0.56 47.0 3.88e-01 96.6% 56.8%
3q90B00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.56 38.0 3.00e-01 94.8% 31.5%
1nnvA01 3.10.450.140 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › dsDNA mimic, putative 0.56 44.0 3.81e-01 100.0% 53.0%
4nkbA01 3.30.1120.120 Alpha Beta › 2-Layer Sandwich › Arylsulfatase, C-terminal domain › 0.56 41.0 3.30e-01 89.7% 40.4%
1av4A03 2.70.98.20 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › Copper amine oxidase, catalytic domain 0.55 46.0 2.79e-01 96.6% 67.5%
4n6qA00 2.60.40.3960 Mainly Beta › Sandwich › Immunoglobulin-like › Velvet domain 0.55 47.0 3.41e-01 100.0% 49.4%
2p0wA02 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.55 43.0 3.42e-01 100.0% 39.8%
7vd7A01 3.10.450.530 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › Ribonuclease toxin, BrnT, of type II toxin-antitoxin system 0.55 37.0 3.29e-01 96.6% 44.6%
1pzdA01 2.60.40.1480 Mainly Beta › Sandwich › Immunoglobulin-like › Coatomer, gamma subunit, appendage domain 0.54 40.0 3.06e-01 84.5% 47.4%
1y8cA02 2.20.25.110 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › S-adenosyl-L-methionine-dependent methyltransferases 0.54 36.0 3.58e-01 98.3% 66.7%
4r8oA00 2.40.128.720 Mainly Beta › Beta Barrel › Lipocalin › 0.54 35.0 3.10e-01 96.6% 40.8%
4aghA00 2.30.31.10 Mainly Beta › Roll › Transcriptional Co-activator pc4; Chain A › Transcriptional Coactivator Pc4; Chain A 0.53 35.0 3.31e-01 96.6% 51.2%
3byqA00 3.30.1330.110 Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › BB2672 0.53 41.0 2.95e-01 100.0% 27.2%
1ar0A00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.53 38.0 3.13e-01 100.0% 37.6%
3lb6C01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.53 45.0 3.97e-01 98.3% 73.9%
5ocrA00 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.52 41.0 2.84e-01 100.0% 31.3%
2k54A00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.52 44.0 3.54e-01 100.0% 92.7%
2rfrA00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.52 40.0 3.04e-01 100.0% 33.1%
3akoC00 2.40.155.10 Mainly Beta › Beta Barrel › Green Fluorescent Protein › Green fluorescent protein 0.52 35.0 2.73e-01 98.3% 28.2%
4joiA00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.52 42.0 3.28e-01 94.8% 80.9%
3eo5A01 2.20.230.10 Mainly Beta › Single Sheet › Resuscitation-promoting factor rpfb fold › Resuscitation-promoting factor rpfb. 0.52 43.0 3.86e-01 100.0% 75.0%
2pi2D00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.51 43.0 3.46e-01 98.3% 80.5%
4ckbD03 2.40.50.830 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.51 38.0 3.05e-01 94.8% 36.6%
3opyA01 3.10.180.90 Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 0.51 41.0 3.14e-01 94.8% 48.4%
1fyhB02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.50 43.0 3.63e-01 100.0% 69.9%
2d9uA00 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.50 33.0 3.19e-01 100.0% 55.4%
2l6mA00 3.30.160.400 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.50 38.0 3.28e-01 98.3% 49.5%
ECOD (17)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3930732 2004.1.1.442 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SMC_N, AAA_21 0.62 53.0 3.28e-01 96.6% 31.8%
4104949 9.1.1.0 beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins 0.62 45.0 3.75e-01 94.8% 43.8%
3645476 295.1.1.1 a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain › PC4 0.58 40.0 3.44e-01 96.6% 43.0%
5070456 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.57 42.0 3.54e-01 84.5% 67.3%
3281942 222.1.1.24 a+b two layers › Thioesterase/thiol ester dehydrase-isomerase-like › Thioesterase/thiol ester dehydrase-isomerase › Thioesterase/thiol ester dehydrase-isomerase › AfsA 0.56 43.0 3.27e-01 94.8% 63.4%
4973793 243.5.1.0 a+b two layers › Cystatin-like › Amine oxidase N-terminal region › Amine oxidase N-terminal region 0.55 37.0 3.35e-01 93.1% 46.7%
4538264 11.1.1.44 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Alpha_adaptinC2 0.55 42.0 3.48e-01 86.2% 59.6%
3579772 241.1.1.0 a+b two layers › Type III secretory system chaperone-like › Type III secretory system chaperone › Type III secretory system chaperone 0.53 40.0 2.95e-01 98.3% 28.2%
4288641 222.1.1.0 a+b two layers › Thioesterase/thiol ester dehydrase-isomerase-like › Thioesterase/thiol ester dehydrase-isomerase › Thioesterase/thiol ester dehydrase-isomerase 0.52 42.0 3.07e-01 94.8% 53.7%
5038984 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.52 39.0 3.36e-01 86.2% 64.8%
4943899 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.51 35.0 2.92e-01 72.4% 61.8%
3601108 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.51 40.0 3.37e-01 87.9% 89.5%
1283692 2.1.1.102 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › MCEL_GT_OB 0.51 37.0 3.00e-01 96.6% 35.8%
3604519 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.51 42.0 3.40e-01 96.6% 80.8%
4943817 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.51 38.0 3.04e-01 86.2% 69.6%
4644110 11.1.1.1197 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › DUF3281 0.51 36.0 2.95e-01 89.7% 36.8%
3831714 2484.1.1.15 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › GDA1_CD39 0.50 43.0 3.10e-01 100.0% 35.6%