Back to structures

MT006237.1__QIG78207.1__BIBE0010001c01_00021__00021

Bact-Vir

MT006237.1__QIG78207.1__BIBE0010001c01_00021__00021

Identity

Accession:
MT006237 ↗
Kingdom:
phage

Quality

82.4 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 13-134
PDB
CATH (10)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3hrgA01 3.30.420.250 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Protein of unknown function DUF3822, N-terminal domain 0.64 35.0 3.33e-01 86.1% 43.4%
1c9rA04 3.30.70.270 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain 0.60 34.0 3.63e-01 86.9% 62.6%
3c5mA00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.58 43.0 3.10e-01 78.7% 87.2%
2ltrA00 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.54 41.0 4.44e-01 80.3% 92.4%
1c5kA02 2.120.10.30 Mainly Beta › 6 Propeller › Neuraminidase › TolB, C-terminal domain 0.54 44.0 3.40e-01 86.9% 95.9%
1xfdA01 2.140.10.30 Mainly Beta › 8 Propeller › Methanol Dehydrogenase; Chain A › Dipeptidylpeptidase IV, N-terminal domain 0.53 41.0 2.79e-01 83.6% 92.0%
1d2iA00 3.40.91.20 Alpha Beta › 3-Layer(aba) Sandwich › Restriction Endonuclease › 0.53 46.0 3.82e-01 97.5% 90.5%
1oxxK02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.52 21.0 3.18e-01 86.1% 95.6%
4azzA00 2.60.120.560 Mainly Beta › Sandwich › Jelly Rolls › Exo-inulinase; domain 1 0.51 36.0 3.29e-01 84.4% 54.5%
4cy8A01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.50 40.0 3.23e-01 86.9% 82.6%
ECOD (28)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5039841 330.1.1.36 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › ERF 0.80 67.0 7.03e-01 86.9% 96.4%
4995755 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.72 28.0 4.42e-01 73.0% 95.6%
3636997 7571.1.1.1 a/b three-layered sandwiches › Formyltransferase › Formyltransferase › Formyltransferase › Formyl_trans_N 0.61 47.0 3.79e-01 81.1% 89.1%
3602244 330.1.1.0 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.58 43.0 4.08e-01 77.9% 70.1%
4436049 1190.1.1.1 a+b two layers › Curli production assembly/transport component CsgF › Curli production assembly/transport component CsgF › Curli production assembly/transport component CsgF › CsgF 0.56 33.0 3.61e-01 93.4% 69.0%
4081797 3860.1.1.158 alpha bundles › Myosin VI lever arm › Myosin VI lever arm › Myosin VI lever arm › ThrE 0.56 35.0 3.31e-01 94.3% 51.0%
4541509 5.1.3.20 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › PD40 0.56 46.0 3.47e-01 90.2% 85.6%
None 0.56 46.0 3.50e-01 90.2% 88.5%
3253183 328.8.1.1 a+b two layers › IF3-like › Schlafen 8 › Schlafen 8 › SLFN_AlbA_2 0.55 46.0 3.55e-01 88.5% 75.5%
4599023 5.1.3.136 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › DPPIV_N, PD40 0.54 45.0 3.42e-01 90.2% 90.0%
3261912 5.1.3.0 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed 0.54 37.0 2.85e-01 71.3% 48.5%
None 0.54 45.0 3.42e-01 90.2% 89.3%
4176188 5.1.3.20 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › PD40 0.53 45.0 3.39e-01 91.0% 89.8%
3596879 5.1.4.0 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.53 39.0 2.78e-01 76.2% 88.8%
3637570 1.1.1.19 beta barrels › cradle loop barrel › RIFT-related › acid protease › Pol_BBD 0.53 31.0 3.20e-01 86.1% 59.2%
3484246 5.1.5.0 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed 0.53 38.0 2.64e-01 73.8% 68.0%
3699727 5.1.4.0 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.52 41.0 2.89e-01 81.1% 96.2%
3649825 5.1.3.0 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed 0.52 42.0 3.04e-01 86.1% 97.2%
5044599 5.1.4.14 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Peptidase_S9_N 0.52 42.0 2.61e-01 85.2% 46.9%
4281376 5.1.3.20 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › PD40 0.52 45.0 3.29e-01 93.4% 91.4%
1140096 5.1.3.37 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › YqgU 0.52 40.0 3.01e-01 82.8% 96.3%
3387201 5.1.3.20 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › PD40 0.52 43.0 3.26e-01 91.0% 85.9%
4287726 5.1.3.136 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › DPPIV_N, PD40 0.52 43.0 3.23e-01 90.2% 87.3%
4192565 5.1.4.29 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › PD40 0.51 44.0 3.32e-01 93.4% 95.7%
4952972 7520.1.1.2 a/b three-layered sandwiches › CinA-like › CinA-like › CinA-like › HcgF 0.51 40.0 3.53e-01 83.6% 92.2%
4140248 5.1.4.577 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › YqgU 0.51 42.0 3.10e-01 87.7% 94.8%
5024892 5.1.1.0 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 4-bladed 0.51 35.0 3.02e-01 70.5% 52.1%
3450557 5.1.3.159 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › DUF7595 0.50 38.0 2.85e-01 80.3% 92.6%
D2 high residues 153-209
PDB
Domain cluster: representative
CATH (30)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3asaA01 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.65 56.0 4.31e-01 100.0% 62.6%
1nv8B01 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.65 56.0 5.27e-01 100.0% 81.7%
1irxA04 1.10.10.770 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › 0.64 43.0 3.51e-01 70.2% 75.9%
6vddD01 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.64 57.0 3.97e-01 100.0% 70.3%
3e9lA02 1.20.80.40 Mainly Alpha › Up-down Bundle › Acyl-CoA Binding Protein › Prp8 RNase H domain, fingers region 0.62 54.0 4.60e-01 100.0% 65.3%
5tt5A05 1.10.150.20 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › 5' to 3' exonuclease, C-terminal subdomain 0.60 41.0 3.76e-01 71.9% 77.9%
8hbfB01 3.90.1520.10 Alpha Beta › Alpha-Beta Complex › H-NOX domain › H-NOX domain 0.59 48.0 3.54e-01 100.0% 32.6%
2p1gA01 1.10.3670.10 Mainly Alpha › Orthogonal Bundle › Putative xylanase fold › Putative xylanase like domain 0.58 49.0 3.84e-01 98.2% 48.1%
1jcfA03 3.90.640.10 Alpha Beta › Alpha-Beta Complex › Actin; Chain A, domain 4 › ATPase, substrate binding domain, subdomain 4 0.57 38.0 3.55e-01 70.2% 97.4%
2eqoA01 1.10.418.50 Mainly Alpha › Orthogonal Bundle › Actin-binding Protein, T-fimbrin; domain 1 › Microtubule-binding protein MIP-T3 0.57 49.0 3.81e-01 100.0% 85.5%
2olnA01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.56 45.0 3.17e-01 98.2% 43.4%
3nz4B03 1.10.274.20 Mainly Alpha › Orthogonal Bundle › Enzyme I; Chain A, domain 2 › Phenylalanine ammonia-lyase 1; domain 3 0.56 38.0 3.23e-01 71.9% 83.7%
1kl9A02 1.10.150.190 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Translation initiation factor 2; subunit 1; domain 2 0.55 47.0 4.11e-01 100.0% 77.2%
1mtzA00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.55 45.0 2.91e-01 91.2% 51.0%
1z4hA01 1.10.238.160 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › 0.55 42.0 4.27e-01 100.0% 87.9%
1h97A00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.55 45.0 3.49e-01 98.2% 83.7%
1k82A02 1.10.8.50 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.55 46.0 3.68e-01 98.2% 51.2%
1tdzA02 1.10.8.50 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.55 46.0 3.58e-01 98.2% 47.0%
3oqvA00 3.40.50.11710 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Cyclodipeptide synthase 0.54 40.0 2.77e-01 82.5% 24.2%
4ki9A00 3.90.190.10 Alpha Beta › Alpha-Beta Complex › Protein-Tyrosine Phosphatase; Chain A › Protein tyrosine phosphatase superfamily 0.54 36.0 2.72e-01 70.2% 44.6%
5ojcA00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.54 45.0 3.41e-01 98.2% 75.3%
2wyhB04 1.20.1270.50 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Glycoside hydrolase family 38, central domain 0.53 45.0 3.81e-01 100.0% 74.3%
1bvp103 1.10.170.10 Mainly Alpha › Orthogonal Bundle › Bluetongue Virus 10, subunit 1; domain 3 › Bluetongue Virus 10, subunit 1, domain 3 0.53 43.0 3.79e-01 100.0% 65.6%
3eb2A00 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.52 42.0 2.72e-01 91.2% 83.7%
3efoB01 1.20.120.730 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Sec23/Sec24 helical domain 0.51 35.0 2.64e-01 71.9% 74.8%
1m2oA04 1.20.120.730 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Sec23/Sec24 helical domain 0.51 38.0 2.91e-01 82.5% 60.6%
2ivxB02 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.51 43.0 3.53e-01 100.0% 65.2%
3kzqA00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.51 43.0 3.02e-01 100.0% 27.7%
4xkyA00 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.50 42.0 2.70e-01 94.7% 91.3%
2ex3B01 6.10.250.960 Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.50 43.0 4.00e-01 100.0% 93.4%
ECOD (34)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3347619 170.1.1.16 alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein-C › Retrovirus capsid protein-C › Caulimovir_coat_dom 0.62 47.0 3.60e-01 100.0% 36.2%
3377216 105.1.1.17 alpha duplicates or obligate multimers › HLH-like › HLH, helix-loop-helix DNA-binding domain › HLH, helix-loop-helix DNA-binding domain › Caulimovir_coat_dom 0.61 46.0 4.18e-01 100.0% 58.7%
3364689 170.1.1.16 alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein-C › Retrovirus capsid protein-C › Caulimovir_coat_dom 0.61 46.0 4.13e-01 100.0% 58.7%
3759444 611.8.1.0 alpha bundles › N-cbl like › C-terminal domain of E3 ubiquitin-protein ligase ARIH1 › C-terminal domain of E3 ubiquitin-protein ligase ARIH1 0.61 53.0 3.87e-01 100.0% 56.2%
3393779 873.1.1.5 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain › HNOB 0.59 49.0 3.59e-01 100.0% 31.7%
4571183 101.1.1.0 alpha arrays › HTH › HTH › Three-helical HTH 0.58 43.0 3.56e-01 80.7% 58.1%
3587879 101.1.9.36 alpha arrays › HTH › HTH › Putative DNA-binding domain › MerR 0.57 47.0 3.81e-01 100.0% 48.2%
5014330 148.1.3.402 alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › Rad50_zn_hook 0.57 33.0 2.66e-01 77.2% 30.0%
4629785 3922.1.1.269 alpha bundles › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 › Rad50_zn_hook 0.57 33.0 2.09e-01 77.2% 11.4%
3300206 103.1.1.0 alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain 0.56 42.0 4.13e-01 100.0% 76.9%
3988532 2004.1.1.5 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ABC_tran 0.56 47.0 3.20e-01 100.0% 27.1%
4103780 102.1.1.10 alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › SAM domain-like › DNA_ligase_ZBD,HHH_2 0.56 39.0 2.75e-01 75.4% 60.5%
3572755 330.1.1.6 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › Staufen_C 0.56 41.0 3.35e-01 80.7% 90.4%
4042924 2004.1.1.5 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ABC_tran 0.56 46.0 2.75e-01 100.0% 12.2%
3953392 4033.1.1.1 alpha arrays › Acyl-CoA dehydrogenase N-terminal domain-like › Acyl-CoA dehydrogenase N-terminal domain-like › Acyl-CoA dehydrogenase N-terminal domain-like › Acyl-CoA_dh_N 0.56 41.0 3.40e-01 77.2% 46.3%
3955763 4033.1.1.0 alpha arrays › Acyl-CoA dehydrogenase N-terminal domain-like › Acyl-CoA dehydrogenase N-terminal domain-like › Acyl-CoA dehydrogenase N-terminal domain-like 0.56 37.0 3.15e-01 70.2% 48.4%
3286397 2002.1.1.83 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Amidohydro_1 0.55 42.0 2.54e-01 82.5% 13.3%
4425230 102.2.1.0 alpha arrays › HhH/H2TH › H2TH › H2TH 0.55 37.0 3.72e-01 71.9% 98.3%
4266989 7111.1.1.1 alpha bundles › Ubiquinol-cytochrome C chaperone, C-terminal domain › Ubiquinol-cytochrome C chaperone, C-terminal domain › Ubiquinol-cytochrome C chaperone, C-terminal domain › Ubiq_cyt_C_chap 0.55 45.0 3.38e-01 100.0% 33.9%
4525674 5051.1.1.2 alpha complex topology › Sodium:neurotransmitter symporter family (SNF)-like › Sodium:neurotransmitter symporter family (SNF)-like › Sodium:neurotransmitter symporter family (SNF)-like › AA_permease 0.54 46.0 2.76e-01 100.0% 76.6%
3588955 2004.1.1.5 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ABC_tran 0.53 43.0 3.00e-01 100.0% 26.9%
3494941 103.1.1.0 alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain 0.53 45.0 4.34e-01 100.0% 93.8%
None 0.53 41.0 2.39e-01 91.2% 20.1%
4308332 161.1.1.1 alpha complex topology › Helical scaffold and wing domains of SecA › Helical scaffold and wing domains of SecA › Helical scaffold and wing domains of SecA › SecA_SW 0.53 43.0 3.06e-01 94.7% 79.5%
3840721 609.1.1.1 alpha bundles › Domain of poly(ADP-ribose) polymerase › Domain of poly(ADP-ribose) polymerase › Domain of poly(ADP-ribose) polymerase › PARP_reg 0.53 40.0 3.05e-01 84.2% 78.0%
3270794 609.1.1.1 alpha bundles › Domain of poly(ADP-ribose) polymerase › Domain of poly(ADP-ribose) polymerase › Domain of poly(ADP-ribose) polymerase › PARP_reg 0.53 36.0 2.88e-01 73.7% 74.6%
3190065 5051.1.1.2 alpha complex topology › Sodium:neurotransmitter symporter family (SNF)-like › Sodium:neurotransmitter symporter family (SNF)-like › Sodium:neurotransmitter symporter family (SNF)-like › AA_permease 0.52 44.0 2.65e-01 100.0% 71.3%
4384627 161.1.1.1 alpha complex topology › Helical scaffold and wing domains of SecA › Helical scaffold and wing domains of SecA › Helical scaffold and wing domains of SecA › SecA_SW 0.52 42.0 2.91e-01 96.5% 79.1%
3683341 185.1.1.6 alpha superhelices › Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin-like › Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin/Protein HNS-dependent expression A HdeA › Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin › Tryp_alpha_amyl, Gliadin 0.52 35.0 3.10e-01 70.2% 48.9%
5035455 102.3.1.0 alpha arrays › HhH/H2TH › eIF2alpha middle domain › eIF2alpha middle domain 0.52 45.0 3.97e-01 100.0% 74.1%
4508734 2002.1.1.29 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › DHDPS 0.52 42.0 2.70e-01 91.2% 82.0%
4611567 2002.1.1.29 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › DHDPS 0.51 44.0 2.82e-01 98.2% 92.2%
3672155 244.1.1.0 a+b two layers › FAD-linked reductases, C-terminal domain-like › FAD-linked reductases-C › FAD-linked reductases-C 0.51 41.0 2.99e-01 93.0% 30.6%
4306948 2002.1.1.29 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › DHDPS 0.50 40.0 2.57e-01 89.5% 80.7%