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NC_023587.1__YP_009008142.1__S-MbCM7_008__00008

Bact-Vir

NC_023587.1__YP_009008142.1__S-MbCM7_008__00008

Identity

Accession:
NC_023587 ↗
Kingdom:
phage

Quality

52.4 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 18-106
PDB
CATH (9)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4l6v600 1.10.8.110 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Photosystem I, reaction centre, subunit PsaF 0.63 47.0 4.20e-01 95.5% 56.0%
6oi7A01 1.10.3210.10 Mainly Alpha › Orthogonal Bundle › Hypothetical protein af1432 › Hypothetical protein af1432 0.57 50.0 3.98e-01 100.0% 76.0%
2i3fA00 1.10.3520.10 Mainly Alpha › Orthogonal Bundle › Glycolipid transfer protein, GLTP › Glycolipid transfer protein 0.56 41.0 3.14e-01 76.4% 50.5%
2rdcA00 1.10.287.800 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › protein ne1242 0.56 41.0 3.67e-01 79.8% 55.6%
2fp1B00 1.20.59.10 Mainly Alpha › Up-down Bundle › Chorismate Mutase Domain, subunit A › Chorismate mutase 0.53 46.0 3.81e-01 96.6% 64.0%
1gcbA01 3.90.70.10 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases 0.52 45.0 2.99e-01 100.0% 87.7%
6rv2A00 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.51 45.0 3.29e-01 98.9% 48.8%
5ts9B00 1.20.59.10 Mainly Alpha › Up-down Bundle › Chorismate Mutase Domain, subunit A › Chorismate mutase 0.51 45.0 3.70e-01 97.8% 64.0%
6cnzF00 1.20.59.10 Mainly Alpha › Up-down Bundle › Chorismate Mutase Domain, subunit A › Chorismate mutase 0.50 45.0 3.70e-01 97.8% 64.6%
ECOD (13)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3782957 632.7.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain 0.64 37.0 4.01e-01 88.8% 68.0%
5058566 3711.1.1.0 alpha bundles › LTXXQ motif family protein › LTXXQ motif family protein › LTXXQ motif family protein 0.58 50.0 4.99e-01 93.3% 100.0%
3481289 174.1.1.0 few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.57 50.0 4.32e-01 94.4% 74.8%
3924665 604.1.1.136 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › Spectrin_7 0.57 37.0 3.50e-01 97.8% 57.1%
3858695 2004.1.1.0 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.56 43.0 4.39e-01 92.1% 88.2%
3505985 258.1.1.1 a+b complex topology › Methionine synthase activation domain-like › Methionine synthase activation domain-like › Methionine synthase activation domain-like › Met_synt_B12 0.55 50.0 3.30e-01 100.0% 28.5%
4614244 589.1.2.1 alpha arrays › Triger factor/SurA peptide-binding domain-like › Triger factor/SurA peptide-binding domain-like › TF C-terminus (Pfam 05698) › Trigger_C 0.54 47.0 3.74e-01 92.1% 100.0%
3542442 5038.2.1.1 alpha superhelices › Cytochrome c oxidase subunit I-like › MAPEG domain-like › MAPEG domain-like › MAPEG 0.54 45.0 3.85e-01 91.0% 80.7%
4359328 142.1.1.44 alpha complex topology › Sigma2 domain-like › Sigma2 domain of RNA polymerase sigma factors › Sigma2 domain of RNA polymerase sigma factors › GerPC 0.53 46.0 4.49e-01 100.0% 91.0%
4028047 3871.1.1.1 alpha duplicates or obligate multimers › PHIST › PHIST › PHIST › PRESAN 0.53 47.0 3.78e-01 100.0% 56.1%
4055 164.1.1.1 alpha bundles › Chorismate mutase II › Chorismate mutase II › Chorismate mutase II › CM_2 0.53 45.0 3.72e-01 95.5% 63.0%
1146718 164.1.1.1 alpha bundles › Chorismate mutase II › Chorismate mutase II › Chorismate mutase II › CM_2 0.52 45.0 3.72e-01 96.6% 64.4%
3428029 632.1.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase middle domain › Families 57/38 glycoside transferase middle domain 0.50 45.0 4.37e-01 97.8% 100.0%
D2 high residues 545-713
PDB
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF01551.30 best Peptidase_M23 55.0 1.10e-14 66.9% 89.6%
CATH (12)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1qwyA02 2.70.70.10 Mainly Beta › Distorted Sandwich › Glucose Permease (Domain IIA) › Glucose Permease (Domain IIA) 0.88 65.0 6.52e-01 91.1% 73.8%
4bh5A00 2.70.70.10 Mainly Beta › Distorted Sandwich › Glucose Permease (Domain IIA) › Glucose Permease (Domain IIA) 0.88 62.0 7.12e-01 90.5% 93.1%
2hsiB02 2.70.70.10 Mainly Beta › Distorted Sandwich › Glucose Permease (Domain IIA) › Glucose Permease (Domain IIA) 0.88 59.0 6.34e-01 89.9% 78.1%
7qrlA01 2.70.70.10 Mainly Beta › Distorted Sandwich › Glucose Permease (Domain IIA) › Glucose Permease (Domain IIA) 0.86 61.0 6.82e-01 88.2% 90.4%
6jn7A01 2.70.70.10 Mainly Beta › Distorted Sandwich › Glucose Permease (Domain IIA) › Glucose Permease (Domain IIA) 0.85 63.0 6.23e-01 91.1% 72.6%
2gu1A03 2.70.70.10 Mainly Beta › Distorted Sandwich › Glucose Permease (Domain IIA) › Glucose Permease (Domain IIA) 0.85 62.0 7.02e-01 91.1% 95.5%
4rnyA03 2.70.70.10 Mainly Beta › Distorted Sandwich › Glucose Permease (Domain IIA) › Glucose Permease (Domain IIA) 0.79 57.0 6.58e-01 91.1% 96.9%
3tufB00 2.70.70.10 Mainly Beta › Distorted Sandwich › Glucose Permease (Domain IIA) › Glucose Permease (Domain IIA) 0.77 63.0 6.50e-01 92.3% 89.9%
3csqA02 2.70.70.10 Mainly Beta › Distorted Sandwich › Glucose Permease (Domain IIA) › Glucose Permease (Domain IIA) 0.74 61.0 6.18e-01 91.7% 86.6%
3it5G00 2.70.70.10 Mainly Beta › Distorted Sandwich › Glucose Permease (Domain IIA) › Glucose Permease (Domain IIA) 0.64 57.0 5.61e-01 94.1% 92.8%
3c6kA01 3.30.160.110 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Sirohaem synthase, central domain 0.63 32.0 4.15e-01 87.0% 86.2%
2bhoA00 3.30.1460.10 Alpha Beta › 2-Layer Sandwich › Yope Regulator; Chain: A, › 0.56 29.0 3.48e-01 93.5% 73.6%
ECOD (46)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3984086 325.1.6.2 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Duplicated hybrid motif › Peptidase_M23 0.90 62.0 5.88e-01 89.9% 61.0%
3056400 325.1.6.2 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Duplicated hybrid motif › Peptidase_M23 0.88 62.0 7.07e-01 90.5% 92.4%
4379172 325.1.6.2 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Duplicated hybrid motif › Peptidase_M23 0.88 60.0 6.83e-01 90.5% 88.7%
3965283 325.1.6.2 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Duplicated hybrid motif › Peptidase_M23 0.87 60.0 7.07e-01 89.3% 95.9%
3966112 325.1.6.2 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Duplicated hybrid motif › Peptidase_M23 0.87 63.0 6.29e-01 89.9% 71.4%
3590598 325.1.6.2 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Duplicated hybrid motif › Peptidase_M23 0.87 63.0 7.16e-01 91.1% 94.0%
1891424 325.1.6.2 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Duplicated hybrid motif › Peptidase_M23 0.87 59.0 6.98e-01 85.8% 95.9%
4032307 325.1.6.2 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Duplicated hybrid motif › Peptidase_M23 0.87 67.0 7.34e-01 91.7% 95.0%
3974471 325.1.6.0 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Duplicated hybrid motif 0.86 64.0 7.14e-01 90.5% 94.1%
4371098 325.1.6.2 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Duplicated hybrid motif › Peptidase_M23 0.86 58.0 6.86e-01 91.1% 95.8%
None 0.85 63.0 7.02e-01 91.1% 93.3%
3387971 325.1.6.2 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Duplicated hybrid motif › Peptidase_M23 0.85 63.0 6.29e-01 90.5% 73.1%
4471307 325.1.6.2 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Duplicated hybrid motif › Peptidase_M23 0.85 63.0 6.84e-01 90.5% 88.2%
3385726 325.1.6.2 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Duplicated hybrid motif › Peptidase_M23 0.85 63.0 5.68e-01 89.9% 58.6%
4034361 325.1.6.2 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Duplicated hybrid motif › Peptidase_M23 0.84 62.0 6.97e-01 91.7% 94.1%
2663449 325.1.6.2 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Duplicated hybrid motif › Peptidase_M23 0.84 61.0 6.94e-01 88.2% 95.4%
2774289 325.1.6.2 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Duplicated hybrid motif › Peptidase_M23 0.84 61.0 6.28e-01 91.1% 77.3%
3386468 325.1.6.2 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Duplicated hybrid motif › Peptidase_M23 0.83 62.0 6.29e-01 91.1% 77.6%
3279250 325.1.6.2 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Duplicated hybrid motif › Peptidase_M23 0.83 64.0 7.03e-01 94.7% 95.7%
4416013 325.1.6.2 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Duplicated hybrid motif › Peptidase_M23 0.82 68.0 6.99e-01 95.3% 90.0%
3968533 325.1.6.2 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Duplicated hybrid motif › Peptidase_M23 0.81 63.0 6.67e-01 91.1% 88.7%
3838181 325.1.6.0 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Duplicated hybrid motif 0.81 54.0 5.13e-01 91.7% 58.5%
3388302 325.1.6.2 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Duplicated hybrid motif › Peptidase_M23 0.81 57.0 6.66e-01 90.5% 96.8%
4670449 325.1.6.0 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Duplicated hybrid motif 0.79 56.0 6.48e-01 76.3% 96.8%
3290826 325.1.6.2 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Duplicated hybrid motif › Peptidase_M23 0.79 63.0 6.40e-01 95.3% 83.5%
2573963 325.1.6.2 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Duplicated hybrid motif › Peptidase_M23 0.79 63.0 6.11e-01 92.9% 74.7%
3966987 325.1.6.2 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Duplicated hybrid motif › Peptidase_M23 0.79 64.0 6.52e-01 91.1% 86.0%
1907311 325.1.6.2 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Duplicated hybrid motif › Peptidase_M23 0.77 61.0 6.57e-01 92.9% 93.9%
216296 325.1.6.2 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Duplicated hybrid motif › Peptidase_M23 0.77 63.0 6.50e-01 92.3% 89.9%
4999158 325.1.6.0 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Duplicated hybrid motif 0.75 66.0 5.89e-01 91.7% 92.6%
5073481 325.1.6.2 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Duplicated hybrid motif › Peptidase_M23 0.75 65.0 5.91e-01 91.1% 91.8%
3961687 325.1.6.2 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Duplicated hybrid motif › Peptidase_M23 0.75 65.0 6.03e-01 91.1% 91.9%
2774531 325.1.6.2 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Duplicated hybrid motif › Peptidase_M23 0.73 64.0 6.48e-01 91.7% 95.3%
1394279 325.1.6.2 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Duplicated hybrid motif › Peptidase_M23 0.72 64.0 6.60e-01 97.0% 96.9%
4931567 325.1.6.2 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Duplicated hybrid motif › Peptidase_M23 0.72 63.0 6.05e-01 90.5% 87.4%
5018327 325.1.6.2 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Duplicated hybrid motif › Peptidase_M23 0.71 64.0 6.40e-01 94.7% 100.0%
4032028 325.1.6.2 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Duplicated hybrid motif › Peptidase_M23 0.70 63.0 6.19e-01 94.1% 95.6%
5079376 325.1.6.2 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Duplicated hybrid motif › Peptidase_M23 0.70 59.0 5.83e-01 91.1% 83.7%
5034238 325.1.6.2 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Duplicated hybrid motif › Peptidase_M23 0.70 62.0 6.10e-01 92.9% 96.1%
5078228 325.1.6.2 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Duplicated hybrid motif › Peptidase_M23 0.69 57.0 5.90e-01 91.1% 91.3%
5066520 325.1.6.0 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Duplicated hybrid motif 0.68 60.0 5.60e-01 92.9% 83.9%
3283166 325.1.6.2 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Duplicated hybrid motif › Peptidase_M23 0.67 59.0 4.94e-01 91.7% 58.5%
4658045 325.1.6.0 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Duplicated hybrid motif 0.65 57.0 5.32e-01 92.3% 81.6%
4563644 325.1.6.2 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Duplicated hybrid motif › Peptidase_M23 0.64 57.0 5.67e-01 94.1% 92.7%
119413 325.1.6.2 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Duplicated hybrid motif › Peptidase_M23 0.63 57.0 5.58e-01 95.3% 91.8%
3694722 325.1.7.38 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif › PS_Dcarbxylase 0.58 50.0 4.85e-01 90.5% 94.7%
D3 high residues 796-887
PDB
D4 medium residues 212-226_358-422_477-489
PDB
D5 medium residues 527-541_717-795
PDB