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NC_031926.1__YP_009322906.1__BOX10_gp34__00034

Bact-Vir

NC_031926.1__YP_009322906.1__BOX10_gp34__00034

Identity

Accession:
NC_031926 ↗
Kingdom:
phage

Quality

79.1 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 227-350_473-506
PDB
CATH (7)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1ohgA01 3.30.2400.10 Alpha Beta › 2-Layer Sandwich › Major capsid protein gp5 fold › Major capsid protein gp5 0.73 62.0 6.42e-01 96.8% 95.2%
6u6pA01 3.30.1070.10 Alpha Beta › 2-Layer Sandwich › Cell Cycle; Chain A › Cell division topological specificity factor MinE 0.67 30.0 4.13e-01 89.9% 83.3%
1jw3A00 3.55.10.10 Alpha Beta › 3-Layer(bab) Sandwich › Archease, Possible Chaperone; Chain: A; domain 1 › Archease domain 0.67 32.0 3.39e-01 97.5% 49.3%
4q7aC02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.60 32.0 3.82e-01 71.5% 75.0%
6vhiA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.59 26.0 3.07e-01 72.2% 57.3%
3dktA01 3.30.2400.30 Alpha Beta › 2-Layer Sandwich › Major capsid protein gp5 fold › 0.55 44.0 4.30e-01 96.2% 77.5%
2obaA00 3.30.479.10 Alpha Beta › 2-Layer Sandwich › Tetrahydropterin Synthase; Chain A › 6-pyruvoyl tetrahydropterin synthase/QueD 0.50 27.0 3.09e-01 70.3% 67.5%
ECOD (44)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
2640765 2485.3.1.1 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_cap_E 0.71 65.0 4.98e-01 98.7% 89.5%
5041371 2485.3.1.0 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 0.71 65.0 5.16e-01 98.7% 90.6%
3965498 2485.3.1.0 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 0.69 64.0 4.96e-01 98.7% 87.3%
2841997 2485.3.1.0 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 0.69 63.0 4.78e-01 98.7% 87.3%
2443966 2485.3.1.1 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_cap_E 0.69 63.0 4.63e-01 99.4% 80.2%
3088027 2485.3.1.3 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid 0.68 63.0 5.23e-01 98.7% 85.8%
2899245 2485.3.1.10 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › DUF5309 0.68 63.0 4.79e-01 98.7% 86.5%
4241362 2485.3.1.0 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 0.68 62.0 5.02e-01 98.7% 86.4%
2651377 2485.3.1.3 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid 0.68 63.0 4.99e-01 98.7% 84.5%
2995325 2485.3.1.9 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › DUF4043 0.67 63.0 4.71e-01 100.0% 82.6%
3942344 2485.3.1.19 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › PF30928 0.67 62.0 4.93e-01 98.7% 84.8%
3090875 2485.3.1.14 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Gp10A-like 0.67 62.0 4.91e-01 98.7% 89.2%
2538948 2485.3.1.3 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid 0.67 62.0 4.94e-01 98.7% 83.9%
3026399 3555.1.1.1 a+b three layers › Major capsid protein GP7 › Major capsid protein GP7 › Major capsid protein GP7 › GP7 0.67 62.0 4.72e-01 98.7% 57.6%
2989363 2485.3.1.3 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid 0.66 61.0 4.83e-01 98.7% 86.7%
2989356 2485.3.1.3 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid 0.66 61.0 4.89e-01 98.7% 87.1%
2989289 2485.3.1.3 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid 0.66 62.0 4.78e-01 100.0% 85.1%
2989372 2485.3.1.3 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid 0.66 61.0 4.87e-01 100.0% 85.2%
2989506 2485.3.1.3 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid 0.66 61.0 4.91e-01 100.0% 89.8%
1877546 2485.3.1.0 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 0.65 59.0 4.79e-01 98.7% 86.7%
2842229 2485.3.1.9 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › DUF4043 0.65 61.0 4.55e-01 100.0% 84.7%
2968064 2485.3.1.0 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 0.64 58.0 4.47e-01 97.5% 88.4%
3963274 2485.3.1.9 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › DUF4043 0.64 59.0 4.46e-01 100.0% 95.3%
2989340 2485.3.1.3 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid 0.64 59.0 4.65e-01 100.0% 85.1%
4884207 2485.3.1.7 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Major_capside 0.63 59.0 4.72e-01 98.7% 85.9%
3944238 2485.3.1.7 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Major_capside 0.63 58.0 4.73e-01 98.7% 92.6%
2841509 2485.3.1.12 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › DUF6260 0.63 59.0 4.71e-01 100.0% 85.7%
2995627 2485.3.1.7 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Major_capside 0.63 58.0 4.64e-01 99.4% 85.7%
5081487 2485.3.1.10 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › DUF5309 0.62 57.0 4.71e-01 98.7% 93.8%
3583655 2485.3.1.5 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Gp23 0.62 57.0 4.46e-01 98.7% 86.6%
2546181 2485.3.1.13 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Gp13-like 0.62 58.0 4.48e-01 100.0% 84.5%
3952452 2485.3.1.3 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid 0.61 56.0 4.55e-01 98.7% 83.6%
4313471 2485.3.1.11 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › SrpI-like 0.61 57.0 4.51e-01 98.7% 82.0%
4890673 2485.3.1.9 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › DUF4043 0.60 56.0 4.26e-01 100.0% 83.4%
3946670 2485.3.1.3 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid 0.58 54.0 4.42e-01 98.7% 82.5%
2639625 2485.3.1.18 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid_4 0.57 51.0 4.26e-01 98.7% 84.3%
5081698 2485.3.1.18 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid_4 0.55 50.0 4.02e-01 98.7% 86.2%
3977985 2485.3.1.18 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid_4 0.55 50.0 3.86e-01 98.7% 71.6%
3510345 922.1.1.0 few secondary structure elements › TSP-1 type 1 repeat › TSP-1 type 1 repeat › TSP-1 type 1 repeat 0.55 16.0 3.08e-01 93.0% 93.3%
3587769 2485.3.1.3 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid 0.53 47.0 3.91e-01 98.7% 84.5%
3588084 2485.3.1.3 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid 0.53 48.0 3.85e-01 98.7% 83.6%
4335295 11.1.1.322 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › ITGAX-like_Ig_3 0.52 27.0 3.05e-01 72.2% 64.2%
5083777 2485.3.1.3 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid 0.52 48.0 3.83e-01 98.7% 82.7%
4991535 2485.3.1.2 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Linocin_M18 0.52 47.0 4.07e-01 98.7% 85.3%
D2 high residues 534-625
PDB
CATH (6)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1ujcA00 3.40.50.1240 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Phosphoglycerate mutase-like 0.59 46.0 3.95e-01 85.9% 67.3%
1hf2A02 2.160.20.70 Mainly Beta › 3 Solenoid › Pectate Lyase C-like › 0.54 48.0 4.62e-01 100.0% 92.5%
4v02C00 2.160.20.70 Mainly Beta › 3 Solenoid › Pectate Lyase C-like › 0.53 46.0 4.23e-01 100.0% 85.2%
2h3gX02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.52 33.0 2.74e-01 92.4% 37.7%
2qxlB05 2.60.34.10 Mainly Beta › Sandwich › Substrate Binding Domain Of DNAk; Chain A, domain 1 › Substrate Binding Domain Of DNAk; Chain A, domain 1 0.51 42.0 3.84e-01 91.3% 73.2%
3c12A02 2.60.40.4070 Mainly Beta › Sandwich › Immunoglobulin-like › 0.51 32.0 3.31e-01 96.7% 66.7%
ECOD (7)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3774325 210.1.3.4 a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_6 0.58 50.0 3.84e-01 95.7% 91.8%
3739365 2.1.1.43 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › Rep_fac-A_3 0.57 42.0 4.06e-01 100.0% 68.3%
3944846 4312.1.1.4 a+b two layers › RelE-like › RelE-like › RelE-like › Gp49 0.55 35.0 3.24e-01 95.7% 50.4%
3389940 708.1.1.4 beta complex topology › ETN0001 domain-like › ETN0001 domain-like › NAC/WRKY/GCM/WOPR domain › FLYWCH 0.55 36.0 3.67e-01 96.7% 67.8%
4962831 274.1.1.66 a+b two layers › Pili subunits › Pili subunits › Pili subunits › DUF7266 0.55 39.0 3.68e-01 76.1% 93.3%
3799969 206.1.3.9 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › Synapsin_C 0.52 36.0 2.72e-01 70.7% 70.5%
3985126 520.1.1.0 beta sandwiches › gp9 N-terminal domain-like › gp9 N-terminal domain-related › gp9 N-terminal domain-related 0.51 37.0 3.91e-01 100.0% 87.5%
D3 high residues 636-724
PDB
CATH (5)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
6o38A04 2.60.120.1230 Mainly Beta › Sandwich › Jelly Rolls › 0.72 64.0 6.47e-01 100.0% 97.8%
6o38A01 2.60.120.1230 Mainly Beta › Sandwich › Jelly Rolls › 0.71 62.0 6.22e-01 97.8% 98.9%
1qexA02 2.60.120.640 Mainly Beta › Sandwich › Jelly Rolls › gp9 0.68 60.0 5.74e-01 100.0% 95.1%
1hf2A02 2.160.20.70 Mainly Beta › 3 Solenoid › Pectate Lyase C-like › 0.59 47.0 4.53e-01 100.0% 75.5%
7bwfA00 3.30.2310.20 Alpha Beta › 2-Layer Sandwich › YaeB-like fold › RelE-like 0.52 33.0 3.41e-01 75.3% 66.7%
ECOD (6)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3964028 4312.2.1.1 a+b two layers › RelE-like › YaeB-like › YaeB-like › TrmO_C 0.63 34.0 3.66e-01 74.2% 61.3%
4940715 274.1.1.0 a+b two layers › Pili subunits › Pili subunits › Pili subunits 0.63 46.0 4.31e-01 77.5% 90.9%
4493843 207.5.1.1 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Cell-division inhibitor MinC-C › Cell-division inhibitor MinC-C › MinC_C 0.56 47.0 4.48e-01 100.0% 79.0%
4651440 207.5.1.1 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Cell-division inhibitor MinC-C › Cell-division inhibitor MinC-C › MinC_C 0.56 47.0 4.44e-01 100.0% 76.4%
5044967 4312.1.1.3 a+b two layers › RelE-like › RelE-like › RelE-like › ParE_toxin 0.54 32.0 3.20e-01 94.4% 56.7%
5080208 4312.1.1.3 a+b two layers › RelE-like › RelE-like › RelE-like › ParE_toxin 0.51 32.0 3.22e-01 75.3% 63.3%
D4 medium residues 1-128
PDB
D5 medium residues 132-212
PDB
D6 medium residues 351-472_507-530
PDB
Domain cluster: representative
CATH (11)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3dktA02 3.30.2320.10 Alpha Beta › 2-Layer Sandwich › hypothetical protein PF0899 fold › hypothetical protein PF0899 domain 0.72 47.0 5.70e-01 94.5% 100.0%
2e0zC03 3.30.2320.10 Alpha Beta › 2-Layer Sandwich › hypothetical protein PF0899 fold › hypothetical protein PF0899 domain 0.71 46.0 5.58e-01 92.5% 100.0%
2pk8A00 3.30.2320.10 Alpha Beta › 2-Layer Sandwich › hypothetical protein PF0899 fold › hypothetical protein PF0899 domain 0.70 43.0 5.28e-01 79.5% 95.7%
2dm9A00 3.30.2320.30 Alpha Beta › 2-Layer Sandwich › hypothetical protein PF0899 fold › ATP synthase, E subunit, C-terminal 0.63 39.0 4.32e-01 84.9% 76.3%
6vq6I01 3.30.2320.30 Alpha Beta › 2-Layer Sandwich › hypothetical protein PF0899 fold › ATP synthase, E subunit, C-terminal 0.60 40.0 4.53e-01 84.2% 89.8%
4efaE02 3.30.2320.30 Alpha Beta › 2-Layer Sandwich › hypothetical protein PF0899 fold › ATP synthase, E subunit, C-terminal 0.60 40.0 4.27e-01 84.9% 77.5%
1yueA03 3.30.2320.40 Alpha Beta › 2-Layer Sandwich › hypothetical protein PF0899 fold › 0.57 44.0 4.81e-01 88.4% 97.5%
2bx2L02 3.40.1260.20 Alpha Beta › 3-Layer(aba) Sandwich › Hypothetical Protein Ychn; Chain: A, › Ribonuclease E, catalytic domain 0.55 37.0 4.18e-01 81.5% 90.0%
3k12D00 3.30.1330.40 Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › RutC-like 0.54 39.0 4.21e-01 85.6% 90.0%
4f9zA02 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.52 24.0 2.69e-01 100.0% 50.0%
1w5eB02 3.30.1330.20 Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › Tubulin/FtsZ, C-terminal domain 0.50 34.0 3.90e-01 81.5% 96.2%
ECOD (22)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4070529 298.4.1.1 a+b two layers › FwdE/GAPDH domain-like › V-type ATPase subunit E › V-type ATPase subunit E › vATP-synt_E 0.70 40.0 3.90e-01 84.9% 50.6%
4097188 298.4.1.2 a+b two layers › FwdE/GAPDH domain-like › V-type ATPase subunit E › V-type ATPase subunit E › FliH 0.70 41.0 4.65e-01 86.3% 76.4%
4559262 298.4.1.0 a+b two layers › FwdE/GAPDH domain-like › V-type ATPase subunit E › V-type ATPase subunit E 0.70 40.0 4.51e-01 84.9% 73.6%
4513585 298.4.1.0 a+b two layers › FwdE/GAPDH domain-like › V-type ATPase subunit E › V-type ATPase subunit E 0.70 42.0 3.83e-01 87.7% 44.6%
4954548 2485.3.1.0 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 0.69 63.0 5.02e-01 97.3% 65.8%
3838428 298.4.1.2 a+b two layers › FwdE/GAPDH domain-like › V-type ATPase subunit E › V-type ATPase subunit E › FliH 0.68 38.0 4.22e-01 84.9% 66.7%
3387325 298.4.1.2 a+b two layers › FwdE/GAPDH domain-like › V-type ATPase subunit E › V-type ATPase subunit E › FliH 0.68 38.0 3.62e-01 84.9% 45.7%
4412841 298.4.1.0 a+b two layers › FwdE/GAPDH domain-like › V-type ATPase subunit E › V-type ATPase subunit E 0.68 41.0 4.24e-01 84.9% 64.4%
4933117 298.4.1.1 a+b two layers › FwdE/GAPDH domain-like › V-type ATPase subunit E › V-type ATPase subunit E › vATP-synt_E 0.67 40.0 3.65e-01 84.9% 44.6%
4935588 298.4.1.1 a+b two layers › FwdE/GAPDH domain-like › V-type ATPase subunit E › V-type ATPase subunit E › vATP-synt_E 0.67 40.0 3.95e-01 84.9% 55.6%
4481707 298.4.1.2 a+b two layers › FwdE/GAPDH domain-like › V-type ATPase subunit E › V-type ATPase subunit E › FliH 0.64 38.0 4.27e-01 84.9% 74.8%
4927835 298.4.1.1 a+b two layers › FwdE/GAPDH domain-like › V-type ATPase subunit E › V-type ATPase subunit E › vATP-synt_E 0.63 39.0 3.49e-01 84.9% 43.8%
5044279 298.4.1.1 a+b two layers › FwdE/GAPDH domain-like › V-type ATPase subunit E › V-type ATPase subunit E › vATP-synt_E 0.63 40.0 4.19e-01 84.9% 69.9%
5023053 298.4.1.1 a+b two layers › FwdE/GAPDH domain-like › V-type ATPase subunit E › V-type ATPase subunit E › vATP-synt_E 0.62 39.0 3.56e-01 84.9% 47.9%
3088027 2485.3.1.3 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid 0.61 55.0 4.45e-01 97.3% 57.1%
4052619 298.4.1.0 a+b two layers › FwdE/GAPDH domain-like › V-type ATPase subunit E › V-type ATPase subunit E 0.60 36.0 3.34e-01 92.5% 45.8%
4313471 2485.3.1.11 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › SrpI-like 0.59 54.0 4.19e-01 97.3% 53.7%
5081698 2485.3.1.18 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid_4 0.58 53.0 4.11e-01 97.3% 60.7%
4563841 3008.1.1.0 a+b three layers › A subdomain in the anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › A subdomain in the anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › A subdomain in the anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases 0.57 32.0 4.02e-01 82.9% 92.9%
4079005 298.4.1.6 a+b two layers › FwdE/GAPDH domain-like › V-type ATPase subunit E › V-type ATPase subunit E › T3SS_SCTL 0.56 38.0 4.12e-01 91.8% 81.6%
3173157 2485.1.1.19 a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like › L51_S25_CI-B8 0.51 31.0 3.36e-01 78.8% 70.8%
3318434 3008.1.1.0 a+b three layers › A subdomain in the anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › A subdomain in the anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › A subdomain in the anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases 0.51 32.0 3.85e-01 77.4% 96.8%