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MW218148.1__QPI17027.1__X__00108

Bact-Vir

MW218148.1__QPI17027.1__X__00108

Identity

Accession:
MW218148 ↗
Kingdom:
phage

Quality

80.2 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Staphylococcus_phage_vB_StaM_SA1

TaxID: 2785444

Cluster

View cluster (2 members)

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 high residues 3-45_149-177
PDB
Domain cluster: rep: OR836606.1__WRM43346.1__X__00015__D2-47_151-175
CATH (29)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1jx4A04 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.65 50.0 4.51e-01 83.3% 61.2%
4u7cB04 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.63 48.0 4.22e-01 83.3% 58.7%
5h5oA00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.62 36.0 3.01e-01 84.7% 32.8%
4djhA01 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.61 54.0 3.58e-01 98.6% 66.9%
4pofA03 2.20.28.10 Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › 0.60 40.0 4.49e-01 83.3% 98.0%
2nsaA00 1.10.3120.10 Mainly Alpha › Orthogonal Bundle › Trigger factor, domain 2 › Trigger factor, C-terminal domain 0.59 40.0 3.08e-01 70.8% 98.2%
2c60A01 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.58 47.0 4.58e-01 88.9% 91.1%
3weeA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.57 43.0 3.30e-01 84.7% 82.0%
4ntqB00 3.30.2450.20 Alpha Beta › 2-Layer Sandwich › Secreted effector protein pipB2 fold › 0.56 39.0 3.15e-01 72.2% 86.2%
1wx9A00 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.56 44.0 4.19e-01 86.1% 75.6%
2o3iA01 3.40.1610.10 Alpha Beta › 3-Layer(aba) Sandwich › CV3147-like fold › CV3147-like domain 0.56 48.0 3.39e-01 97.2% 53.8%
3maeA00 3.30.559.10 Alpha Beta › 2-Layer Sandwich › Chloramphenicol Acetyltransferase › Chloramphenicol acetyltransferase-like domain 0.56 46.0 3.23e-01 91.7% 32.9%
3axsA01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.54 37.0 2.47e-01 72.2% 31.7%
6djwA01 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.54 45.0 4.57e-01 91.7% 91.7%
7c2fB01 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.54 42.0 4.05e-01 98.6% 73.3%
2jxtA01 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.53 42.0 4.16e-01 93.1% 84.2%
3bkrA00 3.30.1050.10 Alpha Beta › 2-Layer Sandwich › Nonspecific Lipid-transfer Protein; Chain A › SCP2 sterol-binding domain 0.53 35.0 3.06e-01 100.0% 41.2%
2qnuA00 3.40.1730.10 Alpha Beta › 3-Layer(aba) Sandwich › pa0076 fold › pa0076 domain 0.52 40.0 2.96e-01 86.1% 62.6%
2dtgE06 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 36.0 3.28e-01 87.5% 51.5%
3hulA02 3.30.70.890 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › GHMP kinase, C-terminal domain 0.52 39.0 3.35e-01 80.6% 97.4%
2mlbA00 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.52 41.0 4.00e-01 87.5% 84.8%
2xzlA02 2.40.30.230 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › 0.51 35.0 3.47e-01 83.3% 65.8%
2dziA00 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.51 40.0 3.95e-01 87.5% 82.7%
4ep4A00 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.51 41.0 3.19e-01 88.9% 95.8%
4nurA03 3.30.1050.10 Alpha Beta › 2-Layer Sandwich › Nonspecific Lipid-transfer Protein; Chain A › SCP2 sterol-binding domain 0.51 34.0 2.90e-01 70.8% 68.7%
1ca1A02 2.60.60.20 Mainly Beta › Sandwich › Lipoxygenase-1 › PLAT/LH2 domain 0.51 40.0 3.43e-01 87.5% 76.7%
1qysA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.51 40.0 3.72e-01 86.1% 92.4%
2dliA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 36.0 3.34e-01 91.7% 57.1%
2mraA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.50 39.0 3.37e-01 86.1% 82.9%
ECOD (28)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3600531 4012.3.1.0 ↗ a+b two layers › SSHS domain › SSHS domain in CRISPR-associated endonuclease Cas9 › SSHS domain in CRISPR-associated endonuclease Cas9 0.66 46.0 5.25e-01 84.7% 100.0%
4995774 375.1.1.185 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Zn_ribbon_8 0.64 36.0 4.48e-01 77.8% 100.0%
5012895 3115.1.1.0 ↗ a+b two layers › GP2-like › RplX-like › RplX-like 0.60 39.0 4.40e-01 83.3% 89.1%
5052959 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.59 39.0 4.34e-01 88.9% 89.1%
3996505 221.1.1.0 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.58 46.0 4.39e-01 87.5% 85.9%
3510560 244.1.1.0 ↗ a+b two layers › FAD-linked reductases, C-terminal domain-like › FAD-linked reductases-C › FAD-linked reductases-C 0.58 45.0 3.21e-01 87.5% 83.3%
3734833 304.14.1.0 ↗ a+b two layers › Alpha-beta plaits › Sporulation related repeat (SPOR) › Sporulation related repeat (SPOR) 0.58 44.0 4.15e-01 84.7% 98.9%
3604593 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.57 39.0 4.22e-01 88.9% 92.7%
2816300 221.1.1.34 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › YukD 0.57 46.0 4.05e-01 91.7% 72.3%
3671030 109.4.1.1267 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, DYW_deaminase, E_motif 0.56 41.0 2.42e-01 77.8% 21.4%
3802293 109.4.1.2064 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, DYW_deaminase, E_motif, TPR_24 0.56 40.0 2.55e-01 77.8% 31.1%
3679857 109.4.1.2337 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, PPR_3, DYW_deaminase, E_motif, TPR_24 0.55 40.0 2.58e-01 77.8% 34.1%
3420651 109.4.1.1521 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, DYW_deaminase, Eplus_motif, E_motif 0.55 40.0 2.60e-01 77.8% 37.4%
3646564 109.4.1.1267 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, DYW_deaminase, E_motif 0.55 39.0 2.36e-01 76.4% 19.5%
3495654 221.1.1.0 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.55 44.0 4.02e-01 87.5% 90.5%
3802543 109.4.1.1267 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, DYW_deaminase, E_motif 0.55 39.0 2.36e-01 77.8% 21.7%
3679318 109.4.1.1992 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_1, PPR_2, PPR_3, DYW_deaminase, E_motif 0.55 40.0 2.36e-01 77.8% 21.2%
3834352 3075.1.1.0 ↗ a+b two layers › ubiquitin-binding domain from PLAA › ubiquitin-binding domain from PLAA › ubiquitin-binding domain from PLAA 0.55 39.0 2.43e-01 83.3% 12.4%
3807903 109.4.1.2208 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, DYW_deaminase, Eplus_motif, E_motif, TPR_24 0.53 37.0 2.21e-01 73.6% 20.5%
2831852 3115.1.1.1 ↗ a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.53 43.0 3.91e-01 94.4% 65.3%
3821185 109.4.1.1476 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_1, PPR_2, DYW_deaminase, E_motif 0.52 38.0 2.22e-01 79.2% 15.4%
3217778 2492.1.1.0 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like 0.52 39.0 3.52e-01 86.1% 95.5%
4945149 1075.1.2.1 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › MacB transmembrane domain › FtsX 0.51 44.0 2.71e-01 100.0% 80.7%
3443843 109.4.1.1291 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, PPR_3, DYW_deaminase, E_motif 0.51 37.0 2.20e-01 75.0% 21.2%
3346510 109.4.1.1291 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, PPR_3, DYW_deaminase, E_motif 0.51 37.0 2.21e-01 76.4% 20.8%
4022896 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.51 40.0 3.16e-01 91.7% 64.6%
3320228 109.4.1.1285 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, DYW_deaminase, Eplus_motif, E_motif 0.51 37.0 2.20e-01 77.8% 20.3%
3444049 109.4.1.1285 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, DYW_deaminase, Eplus_motif, E_motif 0.50 37.0 2.20e-01 76.4% 22.6%
D2 high residues 50-146
PDB
Domain cluster: rep: OR836606.1__WRM43346.1__X__00015__D52-147
CATH (24)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3fl7A05 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.72 40.0 4.23e-01 100.0% 61.6%
3fzxA00 2.40.360.20 Mainly Beta › Beta Barrel › YmcC-like fold › 0.71 55.0 4.21e-01 81.4% 95.3%
3qt2A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.71 41.0 4.14e-01 100.0% 56.7%
1x5aA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.63 36.0 3.78e-01 100.0% 60.4%
6u7iB02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.62 37.0 3.85e-01 100.0% 63.0%
4p2qE01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.61 48.0 4.52e-01 100.0% 69.8%
2gtlM02 2.40.128.620 Mainly Beta › Beta Barrel › Lipocalin › 0.59 44.0 3.70e-01 79.4% 70.5%
1lfoA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.59 43.0 3.95e-01 77.3% 98.4%
1yjdC00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.58 46.0 4.33e-01 100.0% 69.5%
4e5xG00 2.60.40.3530 Mainly Beta › Sandwich › Immunoglobulin-like › 0.57 31.0 3.18e-01 100.0% 50.5%
6nifA01 3.30.900.10 Alpha Beta › 2-Layer Sandwich › Cell Cycle, Spindle Assembly Checkpoint Protein; Chain A › HORMA domain 0.57 49.0 3.89e-01 95.9% 66.7%
4m7xA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.57 43.0 4.46e-01 79.4% 96.7%
2dt8A02 3.30.1180.10 Alpha Beta › 2-Layer Sandwich › Hypothetical Protein Tm841; Chain: A;domain 3 › 0.55 45.0 4.13e-01 87.6% 99.2%
3cvzB01 3.30.1490.290 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › Low molecular weight S-layer protein, domain 1 0.54 40.0 4.01e-01 100.0% 76.8%
1e8oA00 3.30.720.10 Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › Signal recognition particle alu RNA binding heterodimer, srp9/1 0.54 33.0 3.67e-01 92.8% 78.4%
1wthD01 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.54 42.0 4.09e-01 100.0% 76.4%
1wubA00 2.40.128.110 Mainly Beta › Beta Barrel › Lipocalin › Lipid/polyisoprenoid-binding, YceI-like 0.53 41.0 3.48e-01 85.6% 97.2%
1okjB01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.53 42.0 3.94e-01 88.7% 94.5%
1mgpA02 3.30.1180.10 Alpha Beta › 2-Layer Sandwich › Hypothetical Protein Tm841; Chain: A;domain 3 › 0.53 44.0 4.15e-01 92.8% 97.5%
1jg5A00 3.30.1410.10 Alpha Beta › 2-Layer Sandwich › Gtp Cyclohydrolase I Feedback Regulatory Protein; Chain: K › GTP cyclohydrolase I feedback regulatory protein GFRP 0.52 39.0 4.23e-01 82.5% 92.8%
2a6aB01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.52 40.0 3.79e-01 83.5% 96.6%
4ghbA00 2.40.160.190 Mainly Beta › Beta Barrel › Porin › 0.51 38.0 2.87e-01 79.4% 97.3%
2fblB00 2.40.320.10 Mainly Beta › Beta Barrel › Hypothetical Protein Pfu-838710-001 › Hypothetical Protein Pfu-838710-001 0.51 45.0 3.97e-01 100.0% 87.8%
3butA00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 40.0 3.74e-01 100.0% 65.6%
ECOD (26)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5081495 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.74 41.0 3.78e-01 100.0% 43.3%
5081408 11.1.1.608 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Por_Secre_tail 0.67 38.0 4.35e-01 100.0% 75.7%
3950412 11.1.4.130 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like › DUF1416 0.66 37.0 4.08e-01 100.0% 68.0%
4564186 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.65 42.0 3.89e-01 85.6% 51.2%
3709343 868.1.1.0 ↗ a+b complex topology › mRNA triphosphatase CET1-related › mRNA triphosphatase CET1-related › mRNA triphosphatase CET1-related 0.63 54.0 4.85e-01 99.0% 66.2%
3388188 206.1.3.43 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › DUF6815 0.61 53.0 3.96e-01 94.8% 71.7%
4528719 4.1.1.438 ↗ beta barrels › SH3 › SH3 › SH3 › PF27440 0.61 40.0 4.73e-01 94.8% 100.0%
3946522 9.1.1.36 ↗ beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins › DUF3833 0.61 46.0 3.97e-01 81.4% 85.8%
162586 868.1.1.1 ↗ a+b complex topology › mRNA triphosphatase CET1-related › mRNA triphosphatase CET1-related › mRNA triphosphatase CET1-related › CYTH 0.59 50.0 4.15e-01 93.8% 75.8%
3175837 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.58 41.0 3.51e-01 72.2% 84.0%
4958640 71.1.1.0 ↗ beta meanders › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB 0.58 44.0 3.69e-01 82.5% 91.4%
3659764 11.2.1.17 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › NT-C2 0.57 48.0 4.01e-01 100.0% 54.4%
3402087 868.1.1.0 ↗ a+b complex topology › mRNA triphosphatase CET1-related › mRNA triphosphatase CET1-related › mRNA triphosphatase CET1-related 0.57 50.0 4.20e-01 100.0% 83.5%
3586277 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.56 47.0 4.52e-01 100.0% 79.1%
3387958 868.1.1.0 ↗ a+b complex topology › mRNA triphosphatase CET1-related › mRNA triphosphatase CET1-related › mRNA triphosphatase CET1-related 0.55 49.0 4.20e-01 99.0% 80.0%
3891228 4026.1.1.0 ↗ a+b three layers › a+b domain in Rap/Ran-GAP (Pfam 02145) › a+b domain in Rap/Ran-GAP (Pfam 02145) › a+b domain in Rap/Ran-GAP (Pfam 02145) 0.54 48.0 3.97e-01 100.0% 82.8%
3202693 323.1.1.0 ↗ a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases 0.53 42.0 3.54e-01 100.0% 48.6%
5032977 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.53 36.0 3.89e-01 94.8% 85.0%
4984818 2003.1.1.51 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › DFP 0.52 42.0 3.44e-01 90.7% 86.0%
3405489 4026.1.1.0 ↗ a+b three layers › a+b domain in Rap/Ran-GAP (Pfam 02145) › a+b domain in Rap/Ran-GAP (Pfam 02145) › a+b domain in Rap/Ran-GAP (Pfam 02145) 0.52 46.0 3.90e-01 100.0% 75.0%
4959224 10.1.1.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases 0.52 47.0 3.96e-01 100.0% 85.0%
4953226 295.1.1.0 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain 0.52 34.0 3.98e-01 93.8% 98.5%
3276143 4026.1.1.0 ↗ a+b three layers › a+b domain in Rap/Ran-GAP (Pfam 02145) › a+b domain in Rap/Ran-GAP (Pfam 02145) › a+b domain in Rap/Ran-GAP (Pfam 02145) 0.52 46.0 3.80e-01 100.0% 63.9%
5007992 11.1.1.51 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › LEA_2 0.51 40.0 3.65e-01 100.0% 63.8%
4043017 2.1.1.173 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › RADX 0.51 34.0 2.95e-01 70.1% 82.5%
3643822 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.50 38.0 3.29e-01 82.5% 97.0%