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BML_coassembly_scaffold_25_prodigal-single.1__X__X__00029

Bact-Vir

BML_coassembly_scaffold_25_prodigal-single.1__X__X__00029

Identity

Kingdom:
phage

Quality

62.9 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 32-101
PDB
Domain cluster: representative
CATH (47)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2ynqB00 1.25.40.680 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Type VII secretion system EssB, C-terminal-like domain 0.75 54.0 4.16e-01 95.7% 35.1%
2bduA02 1.10.150.340 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Pyrimidine 5'-nucleotidase (UMPH-1), N-terminal domain 0.72 48.0 4.77e-01 87.1% 64.9%
3n4eA01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.64 56.0 4.93e-01 100.0% 93.3%
2a6hC03 3.90.1110.10 Alpha Beta › Alpha-Beta Complex › Dna-directed Rna Polymerase Ii 140kd Polypeptide; Chain: B; domain 3 › RNA polymerase Rpb2, domain 2 0.63 53.0 4.01e-01 97.1% 96.7%
2hzrA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.63 46.0 3.52e-01 77.1% 88.2%
3rr1A01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.63 53.0 4.35e-01 97.1% 69.3%
1vhzA01 3.90.79.10 Alpha Beta › Alpha-Beta Complex › Nucleoside Triphosphate Pyrophosphohydrolase › Nucleoside Triphosphate Pyrophosphohydrolase 0.62 56.0 4.13e-01 100.0% 75.8%
3l8kA02 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.62 34.0 2.85e-01 85.7% 29.0%
3sjnA01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.62 53.0 4.58e-01 100.0% 95.0%
3g3oA00 3.20.100.30 Alpha Beta › Alpha-Beta Barrel › mRNA Triphosphatase Cet1; Chain A › VTC, catalytic tunnel domain 0.62 52.0 3.46e-01 92.9% 38.4%
6ksrA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.62 49.0 3.79e-01 87.1% 86.3%
1rvkA01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.62 53.0 4.52e-01 97.1% 97.4%
3j7aF03 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.62 37.0 3.75e-01 74.3% 59.2%
5yjwA00 3.50.50.100 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › 0.62 44.0 2.63e-01 78.6% 11.5%
1e0bA00 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.61 41.0 4.30e-01 91.4% 78.7%
1mtpA02 2.30.39.10 Mainly Beta › Roll › Alpha-1-antitrypsin; domain 1 › Alpha-1-antitrypsin, domain 1 0.61 37.0 3.37e-01 91.4% 46.2%
2gdqA01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.60 52.0 4.51e-01 95.7% 95.3%
3qszA00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.59 47.0 3.55e-01 88.6% 66.1%
7byjA02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.59 49.0 4.50e-01 94.3% 98.9%
2ychA03 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.58 46.0 3.90e-01 87.1% 95.0%
2gtsA00 1.10.287.850 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HP0062-like domain 0.58 48.0 4.66e-01 90.0% 83.1%
5inwA02 2.30.39.10 Mainly Beta › Roll › Alpha-1-antitrypsin; domain 1 › Alpha-1-antitrypsin, domain 1 0.58 37.0 3.19e-01 91.4% 42.6%
5x6vG00 3.30.450.190 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.57 47.0 3.87e-01 91.4% 98.5%
1ci3M02 2.40.50.100 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › RNA polymerase II/Efflux pump adaptor protein, barrel-sandwich hybrid domain 0.57 41.0 4.40e-01 90.0% 89.7%
1xfsA00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.57 44.0 3.55e-01 88.6% 86.4%
3u12A00 2.30.29.180 Mainly Beta › Roll › PH-domain like › Ubiquitin carboxyl-terminal hydrolase 26/29/37, pleckstrin homology-like domain 0.56 48.0 4.29e-01 98.6% 78.8%
3t0qA00 3.40.850.10 Alpha Beta › 3-Layer(aba) Sandwich › Kinesin › Kinesin motor domain 0.56 45.0 2.96e-01 88.6% 81.2%
2vr3B02 2.60.40.1290 Mainly Beta › Sandwich › Immunoglobulin-like › 0.55 46.0 3.55e-01 91.4% 93.5%
4qrlA00 2.40.128.280 Mainly Beta › Beta Barrel › Lipocalin › 0.55 47.0 4.05e-01 97.1% 60.0%
3cjlA00 3.10.20.850 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Protein of unknown function DUF3861 0.55 37.0 3.46e-01 91.4% 54.5%
3cetB01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.55 44.0 3.87e-01 91.4% 95.5%
5eoxB03 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.54 45.0 3.74e-01 94.3% 57.8%
1nbwA04 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.54 44.0 3.63e-01 91.4% 87.9%
1reoA02 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.54 41.0 3.22e-01 82.9% 61.5%
3a0oA03 2.70.98.70 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › 0.53 38.0 2.64e-01 78.6% 98.9%
1ykdB02 3.30.450.40 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › GAF domain 0.53 45.0 3.37e-01 98.6% 47.6%
1gqyB02 3.40.1190.10 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Mur-like, catalytic domain 0.53 45.0 3.19e-01 95.7% 53.9%
2pm6D01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.53 42.0 2.80e-01 100.0% 22.1%
4nn5C02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 45.0 4.09e-01 100.0% 92.9%
1o97C00 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.52 44.0 3.09e-01 100.0% 88.0%
1lomA00 2.30.60.10 Mainly Beta › Roll › HIV-inactivating Protein, Cyanovirin-n › Cyanovirin-N 0.51 30.0 2.64e-01 95.7% 39.6%
1ix2A00 2.60.40.1220 Mainly Beta › Sandwich › Immunoglobulin-like › 0.51 44.0 3.92e-01 97.1% 98.0%
2nvwA02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.51 35.0 2.53e-01 88.6% 24.8%
3wt0A02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.50 42.0 3.35e-01 98.6% 81.9%
1xksA00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.50 40.0 2.49e-01 100.0% 16.0%
3nixB00 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.50 45.0 2.80e-01 100.0% 62.7%
6gbuD00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.50 29.0 3.01e-01 87.1% 59.4%
ECOD (65)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3769980 284.1.3.4 a+b two layers › FKBP-like › FKBP-like › WNK1 autoinhibitory domain › CCTL2_WNK 0.75 68.0 6.23e-01 100.0% 84.4%
5022543 2002.1.1.36 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Pterin_bind 0.72 63.0 3.78e-01 98.6% 13.7%
3896280 284.1.3.4 a+b two layers › FKBP-like › FKBP-like › WNK1 autoinhibitory domain › CCTL2_WNK 0.72 64.0 6.26e-01 98.6% 100.0%
4483150 277.1.1.1 a+b two layers › PX domain › PX domain › PX domain › PX 0.70 44.0 3.29e-01 88.6% 27.5%
3508714 295.1.1.29 a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain › YjeJ 0.67 58.0 4.51e-01 100.0% 91.3%
4350854 218.1.1.8 a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › HrcA 0.66 52.0 4.56e-01 85.7% 100.0%
4280539 109.21.1.8 alpha superhelices › Repetitive alpha hairpins › Nucleoporin NUP85/Nucleoporin NUP145 C-terminal domain › Nucleoporin NUP85/Nucleoporin NUP145 C-terminal domain › WD40 0.66 50.0 2.80e-01 78.6% 7.5%
3786015 5.1.5.1 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed › WD40 0.65 49.0 2.78e-01 78.6% 8.1%
4320111 218.1.1.8 a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › HrcA 0.65 51.0 4.61e-01 87.1% 99.0%
3789341 2003.1.2.0 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain 0.65 45.0 2.83e-01 80.0% 14.7%
3784757 2003.1.2.0 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain 0.64 44.0 2.64e-01 80.0% 10.1%
3443163 241.2.1.0 a+b two layers › Type III secretory system chaperone-like › Frataxin-like › Frataxin-like 0.64 36.0 3.21e-01 85.7% 36.2%
3474138 2485.1.1.0 a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like 0.63 42.0 3.22e-01 87.1% 31.0%
3180626 4.8.1.36 beta barrels › SH3 › Chromo domain-like › Chromo domain-like › DUF7141 0.62 42.0 4.65e-01 91.4% 98.0%
4931190 2004.1.1.162 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Rad51 0.62 47.0 3.32e-01 100.0% 27.1%
4927362 802.1.1.0 a+b two layers › Hypothetical protein TM0160 › Hypothetical protein TM0160 › Hypothetical protein TM0160 0.62 36.0 4.32e-01 92.9% 91.1%
4069377 218.1.1.8 a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › HrcA 0.62 52.0 4.74e-01 94.3% 95.8%
5053926 319.1.1.0 beta sandwiches › HSP20-like › HSP20-like chaperones › HSP20-like chaperones 0.61 49.0 4.71e-01 100.0% 75.0%
3725498 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.61 41.0 4.17e-01 75.7% 70.0%
4857803 2.1.1.40 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › DNAP_B_exo_N 0.60 31.0 3.93e-01 98.6% 89.2%
4431607 218.1.1.8 a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › HrcA 0.60 51.0 4.59e-01 97.1% 92.0%
4355046 218.1.1.8 a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › HrcA 0.60 51.0 4.65e-01 97.1% 93.7%
3617998 2003.1.10.3 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › PreATP-grasp domain › Synapsin 0.59 45.0 3.84e-01 100.0% 50.9%
3238035 386.1.1.0 few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.59 36.0 4.10e-01 91.4% 86.0%
3222570 220.1.1.0 beta barrels › PH domain-like › PH domain-like › PH domain-like 0.59 49.0 4.22e-01 94.3% 72.2%
4278807 218.1.1.8 a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › HrcA 0.59 49.0 4.34e-01 97.1% 87.3%
3941411 223.1.1.3 a+b three layers › Profilin-like › sensor domains › sensor domains › GAF 0.59 51.0 3.88e-01 98.6% 90.0%
3164555 2484.1.1.0 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.58 51.0 4.04e-01 100.0% 88.7%
4183744 218.1.1.8 a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › HrcA 0.58 50.0 4.45e-01 95.7% 93.0%
4660425 101.35.1.5 alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX › RecX_HTH1 0.58 39.0 3.39e-01 94.3% 42.6%
4323683 101.35.1.5 alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX › RecX_HTH1 0.58 38.0 3.29e-01 92.9% 42.7%
4468322 218.1.1.8 a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › HrcA 0.58 46.0 4.18e-01 90.0% 89.0%
4349950 325.1.7.0 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif 0.57 40.0 4.27e-01 88.6% 85.0%
3938601 101.1.1.76 alpha arrays › HTH › HTH › Three-helical HTH › Integrase_H2C2 0.57 41.0 3.76e-01 100.0% 55.8%
4353121 218.1.1.8 a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › HrcA 0.57 48.0 4.30e-01 94.3% 93.0%
3987859 101.1.2.584 alpha arrays › HTH › HTH › winged helix domain › HrcA 0.57 46.0 4.05e-01 92.9% 80.9%
4062936 218.1.1.8 a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › HrcA 0.56 48.0 4.30e-01 100.0% 88.6%
3579887 5.1.5.62 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed › Beta-prop_LRRK2 0.56 41.0 2.71e-01 100.0% 18.9%
4354219 218.1.1.8 a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › HrcA 0.56 48.0 4.30e-01 97.1% 95.0%
3472026 220.1.1.27 beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_RBD 0.56 45.0 3.83e-01 90.0% 53.3%
3970435 101.1.2.379 alpha arrays › HTH › HTH › winged helix domain › NGO1945_C 0.56 46.0 3.87e-01 91.4% 61.3%
4492087 325.1.7.3 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif › Apocytochr_F_C 0.55 40.0 4.16e-01 94.3% 83.1%
4058734 218.1.1.8 a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › HrcA 0.55 45.0 4.12e-01 92.9% 91.6%
4129953 325.1.7.3 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif › Apocytochr_F_C 0.55 40.0 4.15e-01 94.3% 83.1%
4065004 218.1.1.8 a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › HrcA 0.55 44.0 3.92e-01 92.9% 80.9%
4435672 325.1.7.0 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif 0.55 38.0 3.96e-01 88.6% 78.5%
4320712 218.1.1.8 a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › HrcA 0.55 46.0 4.22e-01 97.1% 92.6%
3278511 213.1.1.0 a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) 0.54 40.0 3.90e-01 92.9% 70.0%
1409395 876.1.1.3 a+b complex topology › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParB/Sulfiredoxin › PFIN 0.54 46.0 3.48e-01 100.0% 81.9%
4398495 109.21.1.8 alpha superhelices › Repetitive alpha hairpins › Nucleoporin NUP85/Nucleoporin NUP145 C-terminal domain › Nucleoporin NUP85/Nucleoporin NUP145 C-terminal domain › WD40 0.54 48.0 2.74e-01 100.0% 35.6%
4609775 218.1.1.8 a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › HrcA 0.54 46.0 4.18e-01 94.3% 81.1%
4385005 218.1.1.8 a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › HrcA 0.53 44.0 3.98e-01 90.0% 88.4%
1385077 223.1.1.3 a+b three layers › Profilin-like › sensor domains › sensor domains › GAF 0.53 45.0 3.44e-01 98.6% 51.4%
3954816 101.1.2.584 alpha arrays › HTH › HTH › winged helix domain › HrcA 0.52 46.0 4.13e-01 95.7% 85.3%
3721277 207.1.1.0 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats 0.52 46.0 3.04e-01 100.0% 24.0%
4107506 325.1.7.0 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif 0.52 36.0 3.78e-01 90.0% 78.5%
4297175 218.1.1.8 a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › HrcA 0.52 44.0 4.08e-01 92.9% 80.0%
4068978 325.1.7.0 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif 0.52 36.0 3.60e-01 90.0% 68.0%
3527704 277.1.1.0 a+b two layers › PX domain › PX domain › PX domain 0.52 43.0 3.82e-01 98.6% 65.5%
3165403 4958.1.1.0 a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit 0.52 36.0 3.79e-01 90.0% 80.0%
4947615 3604.1.1.0 a+b two layers › Uncharacterized protein MK0293 C-terminal domain › Uncharacterized protein MK0293 C-terminal domain › Uncharacterized protein MK0293 C-terminal domain 0.51 38.0 3.97e-01 78.6% 93.8%
4127839 325.1.7.0 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif 0.51 35.0 3.51e-01 90.0% 68.0%
3934453 214.1.1.0 a+b two layers › SH2 › SH2 › SH2 0.51 38.0 3.35e-01 84.3% 68.7%
4338171 2.1.1.118 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › TEBP_OB2-like 0.51 36.0 3.12e-01 77.1% 67.5%
3578208 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.51 29.0 3.21e-01 87.1% 67.3%