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NC_023584.1__YP_009007946.1__S-MbCM100_089__00089

Bact-Vir

NC_023584.1__YP_009007946.1__S-MbCM100_089__00089

Identity

Accession:
NC_023584 ↗
Kingdom:
phage

Quality

78.5 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pantevenvirales› Kyanoviridae› Acionnavirus› Synechococcus_phage_S-MbCM100

TaxID: 1340812

Cluster

Singleton — not in a non-trivial cluster

3D Structure

Download PDB Download Scores JSON

Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 medium residues 9-87
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF18454.8 best Mtd_N 42.9 5.00e-11 44.3% 89.2%
CATH (3)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1yu0A01 2.10.10.30 Mainly Beta › Ribbon › Seminal Fluid Protein PDC-109 (Domain B) › 0.78 46.0 5.52e-01 84.8% 92.2%
3hshE00 3.40.1620.70 Alpha Beta › 3-Layer(aba) Sandwich › YefM-like fold › 0.69 41.0 4.77e-01 77.2% 85.5%
1wquA00 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.57 37.0 3.32e-01 77.2% 46.5%
ECOD (4)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
1107990 3761.1.1.1 ↗ beta duplicates or obligate multimers › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Mtd_N 0.77 45.0 5.43e-01 72.2% 92.0%
1505155 3761.1.1.2 ↗ beta duplicates or obligate multimers › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Collagen_trimer 0.70 41.0 4.68e-01 74.7% 80.4%
3917719 3761.1.1.2 ↗ beta duplicates or obligate multimers › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Collagen_trimer 0.69 39.0 4.87e-01 73.4% 97.8%
3704357 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.51 38.0 2.76e-01 87.3% 56.2%
D2 medium residues 96-230
PDB
Domain cluster: representative
D3 medium residues 236-287
PDB
D4 medium residues 288-363
PDB
Domain cluster: rep: MK493321.1__QBQ74980.1__RW110999_102__00095__D288-351
D5 medium residues 364-434
PDB
D6 medium residues 594-646
PDB
Domain cluster: representative
CATH (15)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2gu3A01 3.10.450.40 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.56 43.0 4.11e-01 100.0% 70.8%
4n6tA00 3.10.450.10 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.56 45.0 4.03e-01 98.1% 62.0%
1ep3B01 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.55 44.0 3.64e-01 90.6% 86.9%
2d8iA01 2.30.42.10 Mainly Beta › Roll › Pdz3 Domain › PDZ domain 0.54 44.0 3.83e-01 96.2% 89.8%
7xpkA01 2.30.30.490 Mainly Beta › Roll › SH3 type barrels. › Bromo adjacent homology (BAH) domain 0.54 40.0 3.09e-01 86.8% 43.4%
1z9fA00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.54 44.0 3.84e-01 98.1% 76.4%
4mboA02 2.60.40.1290 Mainly Beta › Sandwich › Immunoglobulin-like › 0.53 40.0 3.04e-01 88.7% 79.6%
2jr1A01 3.30.160.510 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Histone-like nucleoid-structuring protein H-NS 0.53 39.0 3.77e-01 86.8% 68.8%
1gpmA01 3.40.50.880 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Class I glutamine amidotransferase (GATase) domain 0.53 38.0 2.73e-01 83.0% 62.6%
1g2bA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.52 42.0 4.11e-01 98.1% 88.7%
3cqnB00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.52 40.0 2.87e-01 84.9% 54.7%
1h6hA00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.52 42.0 3.27e-01 100.0% 86.0%
1vq8A01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.52 35.0 3.18e-01 86.8% 48.7%
2lccA00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.50 37.0 3.39e-01 83.0% 65.8%
2wueA00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.50 41.0 2.69e-01 100.0% 39.6%
ECOD (8)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3709115 220.1.1.175 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_31 0.59 48.0 3.26e-01 96.2% 47.7%
3734529 304.9.1.21 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RRP7,RRM_Rrp7 0.53 41.0 2.62e-01 86.8% 50.7%
3640509 304.9.1.21 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RRP7,RRM_Rrp7 0.53 40.0 2.72e-01 86.8% 50.2%
3450529 66.1.1.1 ↗ beta sandwiches › ISP domain › ISP domain › ISP domain › Rieske 0.52 40.0 3.70e-01 86.8% 75.7%
3444245 243.3.1.19 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin › DUF3615 0.52 43.0 3.89e-01 96.2% 69.3%
3703231 216.1.1.2 ↗ a+b two layers › UBC-like › UBC-like › UBC-like › Autophagy_act_C 0.52 39.0 2.85e-01 86.8% 70.9%
3593377 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.51 41.0 3.27e-01 92.5% 68.7%
3941717 243.3.1.0 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.50 43.0 3.70e-01 100.0% 81.8%