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NODE_12_length_310542_cov_175.846709.1__X__X__00071

Bact-Vir

NODE_12_length_310542_cov_175.846709.1__X__X__00071

Identity

Kingdom:
phage

Quality

87.4 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 2-74
PDB
Domain cluster: representative
CATH (29)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3d68A01 3.30.70.340 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Metallocarboxypeptidase-like 0.73 52.0 4.80e-01 74.0% 84.8%
3io1A02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.71 50.0 4.28e-01 74.0% 97.4%
2f06A00 3.30.2130.10 Alpha Beta › 2-Layer Sandwich › VC0802-like › VC0802-like 0.69 48.0 3.85e-01 72.6% 93.1%
3ramA02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.66 45.0 3.94e-01 72.6% 94.1%
6muwK00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.63 55.0 4.09e-01 100.0% 53.8%
3vn5A02 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.61 49.0 3.73e-01 90.4% 79.6%
2qmlA00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.61 41.0 3.09e-01 71.2% 81.9%
4jgwA01 1.20.870.10 Mainly Alpha › Up-down Bundle › Son of sevenless (SoS) protein; Chain S, domain 1 › Son of sevenless (SoS) protein Chain: S domain 1 0.60 43.0 3.35e-01 100.0% 35.3%
1i39A01 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.60 49.0 3.92e-01 91.8% 94.8%
7lxuE01 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.60 51.0 3.79e-01 100.0% 94.4%
3n28A02 3.30.70.2020 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.59 43.0 3.78e-01 76.7% 79.2%
6muwB00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.59 48.0 3.57e-01 98.6% 88.2%
3w42A00 3.60.40.10 Alpha Beta › 4-Layer Sandwich › Phosphatase 2c; domain 1 › PPM-type phosphatase domain 0.58 49.0 3.70e-01 100.0% 57.3%
1ekeA01 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.58 48.0 3.72e-01 93.2% 95.9%
1q15A01 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.57 48.0 3.60e-01 98.6% 78.5%
4py5A02 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.57 46.0 3.50e-01 93.2% 78.5%
8f66A01 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.56 48.0 3.57e-01 100.0% 94.3%
2af6A01 3.30.70.3180 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.56 47.0 4.03e-01 100.0% 94.7%
7essA01 3.30.420.140 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › YqgF/RNase H-like domain 0.56 47.0 3.98e-01 98.6% 59.8%
6pfzD02 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.55 37.0 2.61e-01 98.6% 19.8%
3btxA00 2.60.120.590 Mainly Beta › Sandwich › Jelly Rolls › Alpha-ketoglutarate-dependent dioxygenase AlkB-like 0.55 39.0 2.88e-01 75.3% 92.2%
1ywqA00 3.40.109.10 Alpha Beta › 3-Layer(aba) Sandwich › NADH Oxidase › NADH Oxidase 0.55 40.0 2.96e-01 78.1% 83.9%
7pk0A01 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.55 46.0 3.79e-01 91.8% 76.2%
2z0zA00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.53 47.0 3.48e-01 100.0% 92.8%
2o34A00 3.10.520.10 Alpha Beta › Roll › T-fold › ApbE-like domains 0.53 45.0 3.23e-01 100.0% 31.3%
1e94A00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.52 44.0 3.46e-01 100.0% 47.7%
3juwA00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.51 41.0 3.24e-01 91.8% 71.3%
4zj9A00 2.60.40.790 Mainly Beta › Sandwich › Immunoglobulin-like › 0.51 31.0 2.89e-01 79.5% 49.5%
2i7hA00 3.40.109.10 Alpha Beta › 3-Layer(aba) Sandwich › NADH Oxidase › NADH Oxidase 0.50 41.0 3.12e-01 93.2% 52.9%
ECOD (39)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
1843000 304.7.1.1 a+b two layers › Alpha-beta plaits › Protease propeptides/inhibitors › Protease propeptides/inhibitors › Propep_M14 0.73 52.0 4.75e-01 74.0% 83.9%
4672450 210.1.1.5 a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › DUF2121 0.72 53.0 3.79e-01 76.7% 83.9%
3996992 304.7.1.1 a+b two layers › Alpha-beta plaits › Protease propeptides/inhibitors › Protease propeptides/inhibitors › Propep_M14 0.71 49.0 4.54e-01 71.2% 78.9%
5071626 304.48.1.0 a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like 0.67 53.0 3.80e-01 86.3% 61.8%
5016760 304.48.1.32 a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › TiaS-FLD 0.67 54.0 4.19e-01 87.7% 91.3%
4951347 304.48.1.0 a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like 0.67 53.0 4.21e-01 87.7% 89.0%
5027463 304.48.1.32 a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › TiaS-FLD 0.65 52.0 4.03e-01 87.7% 84.8%
4936297 304.48.1.32 a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › TiaS-FLD 0.65 52.0 3.94e-01 87.7% 86.3%
4164611 109.4.1.83 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Suf 0.64 44.0 2.81e-01 71.2% 17.7%
5059859 2484.1.1.16 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RNase_HII 0.62 50.0 3.58e-01 90.4% 77.9%
4930141 2484.1.1.16 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RNase_HII 0.61 49.0 3.67e-01 90.4% 80.0%
1837658 2484.1.1.16 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RNase_HII 0.61 49.0 3.72e-01 90.4% 78.7%
5030842 2003.1.9.15 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › Activating enzymes of the ubiquitin-like proteins › CoA_transf_3 0.60 53.0 3.37e-01 100.0% 23.9%
4172732 7527.1.1.2 a/b three-layered sandwiches › SurE-like/CoA-transferase family III (CaiB/BaiF) › SurE-like/CoA-transferase family III (CaiB/BaiF) › SurE-like/CoA-transferase family III (CaiB/BaiF) › CoA_transf_3 0.60 53.0 3.34e-01 100.0% 24.8%
3727822 7527.1.1.2 a/b three-layered sandwiches › SurE-like/CoA-transferase family III (CaiB/BaiF) › SurE-like/CoA-transferase family III (CaiB/BaiF) › SurE-like/CoA-transferase family III (CaiB/BaiF) › CoA_transf_3 0.60 52.0 3.31e-01 100.0% 26.5%
4887351 7527.1.1.2 a/b three-layered sandwiches › SurE-like/CoA-transferase family III (CaiB/BaiF) › SurE-like/CoA-transferase family III (CaiB/BaiF) › SurE-like/CoA-transferase family III (CaiB/BaiF) › CoA_transf_3 0.60 51.0 3.26e-01 100.0% 24.9%
4990135 7527.1.1.2 a/b three-layered sandwiches › SurE-like/CoA-transferase family III (CaiB/BaiF) › SurE-like/CoA-transferase family III (CaiB/BaiF) › SurE-like/CoA-transferase family III (CaiB/BaiF) › CoA_transf_3 0.59 50.0 3.24e-01 95.9% 25.8%
4243829 2484.1.1.16 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RNase_HII 0.59 46.0 3.44e-01 90.4% 74.1%
4261673 7527.1.1.2 a/b three-layered sandwiches › SurE-like/CoA-transferase family III (CaiB/BaiF) › SurE-like/CoA-transferase family III (CaiB/BaiF) › SurE-like/CoA-transferase family III (CaiB/BaiF) › CoA_transf_3 0.58 49.0 3.20e-01 100.0% 25.7%
None 0.58 48.0 3.61e-01 98.6% 65.9%
5039367 2003.1.3.73 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › Nucleotide-binding domain › CoA_transf_3 0.57 47.0 3.14e-01 95.9% 27.2%
4973409 210.1.1.0 a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits 0.57 49.0 3.47e-01 100.0% 48.8%
None 0.56 47.0 3.58e-01 100.0% 79.5%
3291654 206.1.1.11 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › APH 0.56 43.0 3.02e-01 82.2% 65.8%
4344014 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 0.56 31.0 3.01e-01 86.3% 44.7%
3699596 10.32.1.0 beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.56 42.0 3.24e-01 83.6% 89.2%
4984088 7527.1.1.2 a/b three-layered sandwiches › SurE-like/CoA-transferase family III (CaiB/BaiF) › SurE-like/CoA-transferase family III (CaiB/BaiF) › SurE-like/CoA-transferase family III (CaiB/BaiF) › CoA_transf_3 0.56 47.0 3.07e-01 100.0% 24.6%
5047677 230.4.1.2 a+b two layers › T-fold › ApbE-like › ApbE-like › AbpE_bact 0.56 48.0 4.23e-01 100.0% 95.7%
4024765 210.2.1.2 a+b four layers › Ntn/PP2C › Protein serine/threonine phosphatase 2C, catalytic domain › Protein serine/threonine phosphatase 2C, catalytic domain › SpoIIE 0.56 48.0 3.44e-01 100.0% 54.9%
3342267 9.1.1.0 beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins 0.54 39.0 2.95e-01 100.0% 31.1%
4029616 306.9.1.0 a+b two layers › Glucose permease domain IIB-like › MecA substrate binding domain › MecA substrate binding domain 0.54 38.0 3.88e-01 83.6% 77.1%
3295512 210.1.3.6 a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › DUF3700 0.54 44.0 3.30e-01 100.0% 58.7%
3410148 244.1.1.0 a+b two layers › FAD-linked reductases, C-terminal domain-like › FAD-linked reductases-C › FAD-linked reductases-C 0.53 41.0 3.20e-01 86.3% 90.0%
3615605 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.53 41.0 3.18e-01 84.9% 74.3%
None 0.53 44.0 3.30e-01 100.0% 60.4%
4108185 210.1.1.1 a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.53 44.0 3.49e-01 100.0% 51.4%
3660962 304.9.1.0 a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.52 38.0 3.13e-01 78.1% 83.8%
3233598 213.1.1.49 a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › DUF1248 0.51 37.0 3.10e-01 78.1% 66.7%
3347759 10.12.1.17 beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › 2OG-FeII_Oxy,DIOX_N 0.50 39.0 2.88e-01 84.9% 86.3%
D2 high residues 82-119
PDB
Domain cluster: representative
CATH (18)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3s6iA02 1.10.340.30 Mainly Alpha › Orthogonal Bundle › Endonuclease III; domain 1 › Hypothetical protein; domain 2 0.74 60.0 4.38e-01 100.0% 31.9%
1vinA01 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.73 53.0 3.57e-01 78.9% 23.0%
1oxjA01 1.10.150.50 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Transcription Factor, Ets-1 0.72 57.0 5.01e-01 100.0% 57.4%
3bemB00 3.40.109.10 Alpha Beta › 3-Layer(aba) Sandwich › NADH Oxidase › NADH Oxidase 0.69 59.0 3.70e-01 100.0% 38.8%
4kb2A01 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.68 57.0 4.14e-01 97.4% 75.2%
4k7cA01 3.90.70.10 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases 0.67 50.0 2.88e-01 84.2% 26.4%
5hxgB00 1.10.4000.10 Mainly Alpha › Orthogonal Bundle › Flagellar transcriptional activator fold › Flagellar transcriptional activator FlhD 0.66 52.0 4.53e-01 94.7% 55.4%
2fe1A00 3.40.50.1010 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 5'-nuclease 0.66 55.0 3.89e-01 100.0% 50.0%
2nn4A00 1.10.287.760 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › YqgQ-like 0.65 55.0 4.78e-01 100.0% 67.7%
2rldA00 1.20.1440.60 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 23S rRNA-intervening sequence 0.64 54.0 3.90e-01 100.0% 55.3%
1zmbA02 6.10.170.10 Special › Helix non-globular › Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A › 0.64 51.0 5.22e-01 92.1% 97.2%
2avuB00 1.10.4000.10 Mainly Alpha › Orthogonal Bundle › Flagellar transcriptional activator fold › Flagellar transcriptional activator FlhD 0.62 48.0 3.74e-01 94.7% 34.6%
2zttA00 6.10.140.720 Special › Helix non-globular › Helix Hairpins › 0.62 52.0 4.35e-01 100.0% 75.3%
4y5jA00 1.25.10.10 Mainly Alpha › Alpha Horseshoe › Leucine-rich Repeat Variant › Leucine-rich Repeat Variant 0.59 51.0 3.15e-01 100.0% 33.9%
2go7A02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.56 47.0 3.93e-01 97.4% 95.5%
4dgwB01 1.10.10.790 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Surp module 0.56 43.0 4.04e-01 89.5% 72.0%
5ibkB00 1.20.1280.50 Mainly Alpha › Up-down Bundle › Monooxygenase › 0.52 39.0 3.77e-01 97.4% 69.6%
2ew2A02 1.10.1040.10 Mainly Alpha › Orthogonal Bundle › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 0.51 39.0 2.88e-01 100.0% 67.9%
ECOD (15)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4985070 102.3.1.1 alpha arrays › HhH/H2TH › eIF2alpha middle domain › eIF2alpha middle domain › EIF_2_alpha 0.81 57.0 4.59e-01 76.3% 41.3%
3698416 844.1.1.0 beta barrels › Transcriptional factor tubby, C-terminal domain › Transcriptional factor tubby, C-terminal domain › Transcriptional factor tubby, C-terminal domain 0.74 55.0 3.35e-01 84.2% 12.9%
4959695 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.73 58.0 5.93e-01 92.1% 100.0%
4495082 7523.1.1.8 a/b three-layered sandwiches › Periplasmic binding protein-like II › Periplasmic binding protein-like II › Periplasmic binding protein-like II › SBP_bac_1 0.73 54.0 3.28e-01 84.2% 12.8%
3784506 6058.1.1.1 alpha arrays › C-terminal alpha domain in Alpha-Glycerophosphate Oxidase › C-terminal alpha domain in Alpha-Glycerophosphate Oxidase › C-terminal alpha domain in Alpha-Glycerophosphate Oxidase › DAO_C 0.71 61.0 4.22e-01 100.0% 45.2%
3589830 5043.2.1.8 extended segments › Sensor proteins transmembrane domains › NarQ transmembrane domain › NarQ transmembrane domain › DUF5592 0.71 52.0 4.32e-01 86.8% 44.3%
5079736 102.3.1.1 alpha arrays › HhH/H2TH › eIF2alpha middle domain › eIF2alpha middle domain › EIF_2_alpha 0.69 55.0 4.66e-01 100.0% 50.7%
3189353 548.1.1.1 alpha duplicates or obligate multimers › GRIP domain › GRIP domain › GRIP domain › GRIP 0.67 55.0 5.14e-01 100.0% 82.0%
3511354 4146.1.1.0 alpha bundles › YqgQ-like › YqgQ-like › YqgQ-like 0.66 54.0 5.35e-01 94.7% 92.5%
3607406 6026.1.1.0 alpha duplicates or obligate multimers › cwf21 domain › cwf21 domain › cwf21 domain 0.65 50.0 3.98e-01 94.7% 41.2%
4108320 4952.1.1.0 alpha arrays › L-aspartase N-terminal domain-like › L-aspartase N-terminal domain-like › L-aspartase N-terminal domain-like 0.65 53.0 3.96e-01 94.7% 37.0%
4583463 101.1.13.1 alpha arrays › HTH › HTH › Flagellar transcriptional activator FlhD › FlhD 0.64 49.0 4.26e-01 94.7% 51.4%
4093318 166.1.1.1 alpha superhelices › 1-deoxy-D-xylulose-5-phosphate reductoisomerase-C › 1-deoxy-D-xylulose-5-phosphate reductoisomerase-C › 1-deoxy-D-xylulose-5-phosphate reductoisomerase-C › DXPR_C 0.63 47.0 3.62e-01 84.2% 35.8%
4201024 107.1.1.1 alpha arrays › Cytochrome c-like › Cytochrome c › Cytochrome c › Cytochrom_C 0.62 47.0 3.87e-01 100.0% 42.2%
3928221 4.1.1.310 beta barrels › SH3 › SH3 › SH3 › PF26050 0.60 52.0 3.52e-01 100.0% 27.1%