Back to structures

OY979771.1__CAK6624294.1__AUBRB02_MBMBFPCN_00024__00024

Bact-Vir

OY979771.1__CAK6624294.1__AUBRB02_MBMBFPCN_00024__00024

Identity

Accession:
OY979771 ↗
Kingdom:
phage

Quality

80.4 mean pLDDT

Taxonomy

TaxID: 3101665

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 4-79
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF26897.1 best Phage_T4_Y04OP 105.2 5.50e-30 100.0% 24.4%
CATH (26)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3rylA01 1.20.120.1210 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.69 59.0 4.96e-01 98.7% 67.2%
5eufA02 3.30.830.10 Alpha Beta › 2-Layer Sandwich › Cytochrome Bc1 Complex; Chain A, domain 1 › Metalloenzyme, LuxS/M16 peptidase-like 0.65 44.0 3.33e-01 71.1% 78.4%
1wgwA00 1.20.120.140 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › SRP54, nucleotide-binding domain 0.65 55.0 5.09e-01 96.1% 88.9%
6ynwH01 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.64 40.0 4.08e-01 100.0% 64.9%
4v1gA00 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.62 40.0 3.89e-01 100.0% 58.8%
2wgmA01 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.62 40.0 3.98e-01 100.0% 62.2%
1nklA00 1.10.225.10 Mainly Alpha › Orthogonal Bundle › NK-Lysin › Saposin-like 0.61 49.0 4.92e-01 90.8% 93.6%
1a41A02 1.20.120.380 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Type 1-topoisomerase catalytic fragment, domain 2 0.61 47.0 4.41e-01 82.9% 92.6%
1ldjA03 1.20.1310.10 Mainly Alpha › Up-down Bundle › 5 helical Cullin repeat like › Cullin Repeats 0.58 41.0 3.61e-01 73.7% 61.7%
2xokP00 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.58 38.0 3.86e-01 100.0% 68.9%
5dn6J00 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.57 37.0 3.80e-01 100.0% 68.9%
3s0xA01 1.20.120.1220 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.57 43.0 3.56e-01 82.9% 94.6%
6h7bA01 1.10.1900.10 Mainly Alpha › Orthogonal Bundle › c-terminal domain of poly(a) binding protein › c-terminal domain of poly(a) binding protein 0.56 40.0 4.07e-01 76.3% 89.2%
1irxA05 1.10.10.350 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › 0.56 43.0 4.12e-01 85.5% 84.9%
2o7gA00 1.10.1740.10 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif 0.56 43.0 4.12e-01 84.2% 100.0%
3f1bA00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.56 46.0 3.59e-01 96.1% 57.4%
3ppbA00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.55 47.0 3.64e-01 100.0% 60.1%
2r0rB00 1.10.225.10 Mainly Alpha › Orthogonal Bundle › NK-Lysin › Saposin-like 0.55 44.0 4.45e-01 94.7% 96.2%
4oydB00 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.54 38.0 3.31e-01 71.1% 86.3%
1or7B01 1.10.1740.10 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif 0.54 43.0 4.06e-01 89.5% 89.4%
4wqoD00 1.20.1310.10 Mainly Alpha › Up-down Bundle › 5 helical Cullin repeat like › Cullin Repeats 0.53 37.0 3.10e-01 75.0% 55.3%
4dxwA02 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.51 37.0 3.32e-01 77.6% 53.6%
1bbhA00 1.20.120.10 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Cytochrome c/b562 0.51 43.0 3.66e-01 96.1% 81.7%
3pwxA01 1.20.1330.10 Mainly Alpha › Up-down Bundle › f41 fragment of flagellin, N-terminal domain › f41 fragment of flagellin, N-terminal domain 0.51 41.0 3.28e-01 96.1% 55.4%
1a31A04 1.10.132.10 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › 0.50 40.0 3.95e-01 85.5% 86.3%
4cfsA02 1.10.210.20 Mainly Alpha › Orthogonal Bundle › Uteroglobin › 0.50 37.0 3.87e-01 81.6% 88.6%
ECOD (28)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3501219 181.1.1.0 alpha bundles › Domain of the SRP/SRP receptor G proteins-like › Domain of the SRP/SRP receptor G-proteins › Domain of the SRP/SRP receptor G-proteins 0.75 66.0 5.94e-01 100.0% 96.2%
3847082 192.17.1.27 alpha bundles › Long alpha-hairpin › Rabenosyn-5 Rab-binding domain-like › Rabenosyn-5 Rab-binding domain-like › PCM1_C 0.74 65.0 5.71e-01 100.0% 91.3%
3170802 101.1.1.133 alpha arrays › HTH › HTH › Three-helical HTH › Vhr1 0.68 50.0 4.63e-01 77.6% 65.3%
3171699 101.1.1.133 alpha arrays › HTH › HTH › Three-helical HTH › Vhr1 0.67 50.0 4.55e-01 78.9% 63.0%
4392521 2008.1.1.59 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 0.64 51.0 3.47e-01 86.8% 66.3%
5026218 142.1.1.51 alpha complex topology › Sigma2 domain-like › Sigma2 domain of RNA polymerase sigma factors › Sigma2 domain of RNA polymerase sigma factors › Ammonium_transp 0.63 45.0 4.37e-01 77.6% 96.7%
5035414 181.1.1.1 alpha bundles › Domain of the SRP/SRP receptor G proteins-like › Domain of the SRP/SRP receptor G-proteins › Domain of the SRP/SRP receptor G-proteins › SRP54_N 0.63 54.0 5.14e-01 97.4% 97.8%
3659915 192.7.1.45 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Na_sulph_symp 0.63 37.0 3.78e-01 100.0% 58.7%
1147932 5041.1.1.1 extended segments › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › ATP-synt_C 0.62 40.0 3.90e-01 100.0% 58.8%
3876674 101.1.1.0 alpha arrays › HTH › HTH › Three-helical HTH 0.62 45.0 4.25e-01 76.3% 65.6%
3609697 1128.1.1.0 alpha bundles › LYR protein › LYR protein › LYR protein 0.62 38.0 3.10e-01 100.0% 32.4%
5042713 181.1.1.1 alpha bundles › Domain of the SRP/SRP receptor G proteins-like › Domain of the SRP/SRP receptor G-proteins › Domain of the SRP/SRP receptor G-proteins › SRP54_N 0.61 51.0 4.94e-01 96.1% 100.0%
4230185 5041.1.1.1 extended segments › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › ATP-synt_C 0.61 40.0 3.87e-01 100.0% 60.7%
4078112 592.1.1.1 alpha arrays › PWI domain-like › PWI domain › PWI domain › PWI 0.60 42.0 4.19e-01 75.0% 72.2%
4016064 148.1.3.0 alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.59 41.0 4.13e-01 73.7% 72.5%
350072 198.1.1.1 alpha arrays › Saposin-like › Saposin-like › Saposin-like › SapB_2 0.59 46.0 4.50e-01 82.9% 97.5%
3932008 1128.1.1.1 alpha bundles › LYR protein › LYR protein › LYR protein › Complex1_LYR 0.59 36.0 3.62e-01 100.0% 60.0%
3704156 283.1.1.1 a+b duplicates or obligate multimers › Creatinase/aminopeptidase-like › Creatinase/aminopeptidase › Creatinase/aminopeptidase › Peptidase_M24 0.59 50.0 3.84e-01 97.4% 46.5%
3801665 4040.1.1.1 alpha bundles › Fic-like › Fic-like › Fic-like › Fic 0.58 49.0 4.42e-01 98.7% 77.3%
3601886 192.15.1.0 alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains 0.58 41.0 3.68e-01 85.5% 51.8%
4674952 101.11.1.1 alpha arrays › HTH › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › PNPase 0.57 41.0 3.76e-01 75.0% 76.0%
4180013 1128.1.1.8 alpha bundles › LYR protein › LYR protein › LYR protein › PF29574 0.57 39.0 3.71e-01 71.1% 81.1%
3734404 1128.1.1.1 alpha bundles › LYR protein › LYR protein › LYR protein › Complex1_LYR 0.56 40.0 4.00e-01 77.6% 92.5%
3638005 192.15.1.0 alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains 0.54 35.0 3.57e-01 100.0% 66.7%
3337191 230.3.1.1 a+b two layers › T-fold › Elongation factor Ts (EF-Ts), dimerisation domain › Elongation factor Ts (EF-Ts), dimerisation domain › EF_TS 0.53 36.0 2.93e-01 72.4% 68.3%
4047303 101.11.1.1 alpha arrays › HTH › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › PNPase 0.53 40.0 3.64e-01 80.3% 70.5%
4561719 230.3.1.1 a+b two layers › T-fold › Elongation factor Ts (EF-Ts), dimerisation domain › Elongation factor Ts (EF-Ts), dimerisation domain › EF_TS 0.51 35.0 2.98e-01 73.7% 75.4%
3548337 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.50 36.0 3.29e-01 76.3% 69.5%
D2 high residues 82-250
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF26897.1 best Phage_T4_Y04OP 193.9 5.40e-57 100.0% 48.9%
CATH (26)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2w7vA00 3.30.1360.100 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › General secretion pathway protein M, EpsM 0.75 38.0 5.27e-01 76.9% 100.0%
4u9rA01 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.68 27.0 3.78e-01 76.9% 74.4%
1q8bA00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.65 33.0 4.22e-01 71.0% 86.0%
2fb0A00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.64 31.0 4.09e-01 72.2% 83.0%
4za1C00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.64 31.0 4.04e-01 70.4% 82.6%
4o38A01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.63 33.0 4.27e-01 73.4% 87.5%
4zosB00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.63 34.0 4.26e-01 70.4% 87.6%
4z1xA02 3.10.28.10 Alpha Beta › Roll › Endonuclease I-creI › Homing endonucleases 0.63 31.0 3.39e-01 99.4% 55.2%
3bm7A00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.63 33.0 4.10e-01 70.4% 81.1%
4hl9A00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.62 32.0 4.09e-01 70.4% 86.2%
1x7vA00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.62 31.0 4.00e-01 70.4% 82.7%
3e8oB00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.62 33.0 4.13e-01 71.0% 86.0%
2hw6A01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.61 29.0 3.90e-01 71.6% 84.1%
3kg0A00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.61 32.0 4.03e-01 70.4% 85.6%
3kkfA00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.61 33.0 3.99e-01 71.0% 81.9%
4dn9B00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.60 31.0 3.89e-01 71.0% 83.5%
3uebF00 3.30.300.100 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › MTH677-like 0.60 33.0 4.06e-01 78.1% 87.0%
1xdxA01 3.30.1140.40 Alpha Beta › 2-Layer Sandwich › Ribosomal protein S3 C-terminal domain › Tctex-1 0.59 29.0 3.67e-01 98.2% 78.0%
2vd5B01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.58 30.0 2.91e-01 73.4% 42.8%
1sqeA00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.58 31.0 3.85e-01 70.4% 84.2%
4c0tA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.57 29.0 3.75e-01 73.4% 87.0%
1vm0A00 3.30.110.20 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor IF3 › Alba-like domain 0.55 29.0 3.81e-01 74.0% 93.5%
1vs3A02 3.30.70.660 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Pseudouridine synthase I, catalytic domain, C-terminal subdomain 0.54 36.0 3.92e-01 70.4% 79.9%
3wraA01 3.40.830.10 Alpha Beta › 3-Layer(aba) Sandwich › Protocatechuate 4,5-dioxygenase; Chain B › LigB-like 0.52 37.0 3.06e-01 72.2% 66.0%
2bkyX00 3.30.110.20 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor IF3 › Alba-like domain 0.51 27.0 3.61e-01 70.4% 98.8%
3duwA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.50 32.0 2.94e-01 85.8% 47.5%
ECOD (32)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5054060 310.3.1.0 a+b two layers › RRF/tRNA synthetase additional domain-like › General secretion pathway protein M (EpsM) periplasmic domain-related › General secretion pathway protein M (EpsM) periplasmic domain-related 0.72 38.0 5.05e-01 72.2% 98.8%
3165990 310.3.1.22 a+b two layers › RRF/tRNA synthetase additional domain-like › General secretion pathway protein M (EpsM) periplasmic domain-related › General secretion pathway protein M (EpsM) periplasmic domain-related › PF27480, PF30181 0.70 39.0 4.59e-01 78.1% 77.4%
3942261 304.4.1.4 a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › ABM 0.62 32.0 4.03e-01 73.4% 83.0%
5010581 310.3.1.0 a+b two layers › RRF/tRNA synthetase additional domain-like › General secretion pathway protein M (EpsM) periplasmic domain-related › General secretion pathway protein M (EpsM) periplasmic domain-related 0.61 36.0 4.24e-01 73.4% 83.5%
4028357 873.1.1.4 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain › TRAPP 0.61 41.0 4.56e-01 97.0% 86.9%
4086504 304.4.1.4 a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › ABM 0.61 32.0 3.93e-01 70.4% 79.0%
5014209 304.4.1.4 a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › ABM 0.61 33.0 4.14e-01 71.0% 88.0%
3719272 872.3.1.5 a+b two layers › Dodecin subunit-like › YbjQ-like › YbjQ-like › YbjQ_2 0.61 25.0 3.84e-01 79.9% 92.9%
3365319 3012.1.1.11 a+b two layers › Cof C2 cap domain › Cof C2 cap domain › Cof C2 cap domain › PF27677 0.61 31.0 4.20e-01 74.0% 100.0%
4965043 328.5.1.1 a+b two layers › IF3-like › SirA-like › SirA-like › TusA 0.61 29.0 4.18e-01 72.8% 98.7%
4553370 242.1.1.7 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › LAGLIDADG_3 0.59 34.0 4.05e-01 100.0% 81.7%
140759 873.1.1.6 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain › DUF2507 0.59 34.0 3.62e-01 85.8% 62.8%
3948173 304.4.1.0 a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel 0.59 32.0 4.04e-01 72.2% 89.0%
2067736 304.8.1.0 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.58 30.0 3.91e-01 73.4% 87.4%
4928954 873.1.1.0 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain 0.58 35.0 3.87e-01 97.0% 75.4%
3036035 101.1.2.187 alpha arrays › HTH › HTH › winged helix domain › Rep3_C 0.58 35.0 4.29e-01 71.0% 96.2%
3750557 304.47.1.0 a+b two layers › Alpha-beta plaits › SEA domain › SEA domain 0.57 35.0 4.11e-01 72.8% 87.8%
3690206 304.4.1.4 a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › ABM 0.57 31.0 3.63e-01 71.0% 73.3%
3729156 304.4.1.0 a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel 0.57 29.0 3.64e-01 71.0% 81.0%
4026407 304.4.1.0 a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel 0.56 33.0 3.73e-01 73.4% 74.6%
5040659 256.1.1.1 a+b two layers › MTH1598-like › MTH1598-like › MTH1598-like › Archease 0.56 23.0 3.51e-01 76.9% 91.4%
4983783 873.1.1.20 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain › DUF6125 0.56 39.0 4.01e-01 98.8% 73.8%
3989547 306.7.1.1 a+b two layers › Glucose permease domain IIB-like › Trigger factor ribosome-binding domain › Trigger factor ribosome-binding domain › Trigger_N 0.56 28.0 3.26e-01 98.8% 64.8%
4674845 304.4.1.4 a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › ABM 0.55 34.0 3.86e-01 72.2% 81.6%
4127809 328.1.1.1 a+b two layers › IF3-like › AlbA-like › AlbA-like › Alba 0.55 28.0 3.83e-01 72.8% 94.4%
4282776 306.7.1.1 a+b two layers › Glucose permease domain IIB-like › Trigger factor ribosome-binding domain › Trigger factor ribosome-binding domain › Trigger_N 0.55 28.0 3.24e-01 98.8% 64.8%
5051762 873.1.1.13 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain › ATC_hydrolase 0.54 34.0 3.56e-01 95.9% 66.5%
3368757 304.8.1.2 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ACT 0.53 26.0 3.22e-01 76.9% 74.7%
5074227 873.1.1.20 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain › DUF6125 0.53 36.0 3.83e-01 100.0% 76.0%
4412399 306.7.1.1 a+b two layers › Glucose permease domain IIB-like › Trigger factor ribosome-binding domain › Trigger factor ribosome-binding domain › Trigger_N 0.53 27.0 3.20e-01 98.8% 69.6%
4312327 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.51 39.0 4.19e-01 84.6% 91.2%
3672841 206.1.1.1 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.50 36.0 2.81e-01 74.0% 44.6%