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NC_041877.1__YP_009594461.1__FDG94_gp050__00050

Bact-Vir

NC_041877.1__YP_009594461.1__FDG94_gp050__00050

Identity

Accession:
NC_041877 ↗
Kingdom:
phage

Quality

70.0 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Samunavirus› Pseudomonas_phage_SM1

TaxID: 1772332

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 high residues 27-113
PDB
Domain cluster: representative
CATH (46)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2fhdA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.78 48.0 5.60e-01 92.0% 87.1%
2heqA01 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.77 47.0 5.89e-01 90.8% 100.0%
6uzjA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.75 50.0 5.74e-01 94.3% 93.7%
2dmoA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.75 49.0 5.45e-01 96.6% 85.3%
4iimA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.74 47.0 5.67e-01 95.4% 98.2%
2ekhA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.74 46.0 4.83e-01 90.8% 68.8%
1ov3A02 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.73 45.0 5.53e-01 90.8% 100.0%
1yn8A00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.73 47.0 5.57e-01 92.0% 98.3%
2jxbA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.73 45.0 4.60e-01 90.8% 64.0%
1tg0A00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.72 49.0 5.56e-01 92.0% 92.4%
1gcqB00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.72 46.0 5.60e-01 93.1% 100.0%
6uy8A01 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.72 45.0 5.30e-01 90.8% 93.2%
1jegA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.72 47.0 5.49e-01 92.0% 96.7%
6ghmC02 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.71 46.0 5.29e-01 90.8% 90.6%
2pqhB00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.71 45.0 5.11e-01 92.0% 86.2%
1ug1A00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.71 53.0 5.20e-01 100.0% 73.9%
3urgA02 2.30.30.530 Mainly Beta › Roll › SH3 type barrels. › Calcium binding protein CcbP, beta-barrel domain 0.71 47.0 5.36e-01 94.3% 93.7%
1wfwA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.70 51.0 5.50e-01 96.6% 89.2%
3nmzD00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.70 46.0 4.76e-01 97.7% 70.2%
1x6bA01 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.70 45.0 5.14e-01 92.0% 89.1%
2fpeA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.69 45.0 5.24e-01 95.4% 95.2%
2i0nA01 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.69 44.0 5.29e-01 92.0% 100.0%
6vlfA03 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.68 44.0 5.21e-01 90.8% 98.3%
6gbuD00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.68 47.0 5.35e-01 95.4% 96.9%
2v1qA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.68 44.0 5.22e-01 90.8% 96.7%
2kymA01 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.68 48.0 4.68e-01 97.7% 67.7%
2v1rA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.68 47.0 5.25e-01 90.8% 92.5%
2kxcA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.67 46.0 5.12e-01 93.1% 91.0%
1wjqA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.67 41.0 4.39e-01 93.1% 69.2%
7z0kB01 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.67 46.0 5.28e-01 95.4% 98.4%
4iupB01 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.65 42.0 4.82e-01 93.1% 93.5%
1i1jB00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.63 46.0 4.37e-01 92.0% 64.4%
3vygD00 2.30.30.50 Mainly Beta › Roll › SH3 type barrels. › 0.62 52.0 4.70e-01 90.8% 72.3%
1v29B02 2.30.30.50 Mainly Beta › Roll › SH3 type barrels. › 0.61 52.0 5.04e-01 93.1% 86.6%
1mv3A01 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.60 45.0 4.87e-01 92.0% 95.9%
1ixdA00 2.30.30.190 Mainly Beta › Roll › SH3 type barrels. › CAP Gly-rich-like domain 0.59 48.0 4.57e-01 100.0% 74.0%
1whmA01 2.30.30.190 Mainly Beta › Roll › SH3 type barrels. › CAP Gly-rich-like domain 0.57 44.0 4.81e-01 90.8% 100.0%
1pnjA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.54 43.0 4.37e-01 95.4% 87.2%
3o2zP00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.54 40.0 3.66e-01 79.3% 80.2%
4ld6A00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.53 49.0 4.40e-01 100.0% 81.2%
2iw3A05 2.40.50.990 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.53 39.0 3.68e-01 89.7% 63.3%
2gu3A01 3.10.450.40 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.53 33.0 3.65e-01 86.2% 83.1%
1vwxZ00 2.30.30.770 Mainly Beta › Roll › SH3 type barrels. › 0.53 48.0 4.13e-01 100.0% 88.9%
1m4zA01 2.30.30.490 Mainly Beta › Roll › SH3 type barrels. › Bromo adjacent homology (BAH) domain 0.51 46.0 3.56e-01 100.0% 53.1%
1iz6A01 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.51 32.0 3.48e-01 93.1% 79.7%
2kdsA01 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.51 42.0 4.30e-01 98.9% 90.7%
ECOD (55)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3926175 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.74 48.0 4.92e-01 100.0% 68.2%
3176049 4.1.1.51 ↗ beta barrels › SH3 › SH3 › SH3 › SGF29_Tudor 0.72 48.0 5.32e-01 100.0% 87.0%
3738641 4.1.1.102 ↗ beta barrels › SH3 › SH3 › SH3 › Tudor_3 0.71 49.0 5.28e-01 100.0% 82.7%
3900733 4.1.1.54 ↗ beta barrels › SH3 › SH3 › SH3 › SH3_2 0.71 47.0 5.13e-01 92.0% 82.9%
3794445 4.1.1.54 ↗ beta barrels › SH3 › SH3 › SH3 › SH3_2 0.70 52.0 5.37e-01 100.0% 85.0%
4028731 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.69 45.0 5.15e-01 92.0% 89.2%
3473924 4.1.1.1 ↗ beta barrels › SH3 › SH3 › SH3 › SH3_1 0.69 48.0 5.46e-01 92.0% 96.9%
4012002 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.69 48.0 5.25e-01 96.6% 90.0%
4218488 4.1.1.54 ↗ beta barrels › SH3 › SH3 › SH3 › SH3_2 0.68 48.0 4.96e-01 96.6% 78.8%
3773481 4.1.1.92 ↗ beta barrels › SH3 › SH3 › SH3 › SH3_9 0.67 48.0 4.99e-01 94.3% 80.0%
3869065 4.1.1.54 ↗ beta barrels › SH3 › SH3 › SH3 › SH3_2 0.67 52.0 5.02e-01 100.0% 73.0%
4335022 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.67 52.0 5.11e-01 100.0% 76.8%
3797477 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.66 45.0 5.08e-01 89.7% 93.8%
3519380 4.1.1.92 ↗ beta barrels › SH3 › SH3 › SH3 › SH3_9 0.65 48.0 5.02e-01 93.1% 85.0%
3546727 4.1.1.54 ↗ beta barrels › SH3 › SH3 › SH3 › SH3_2 0.64 49.0 4.58e-01 95.4% 64.8%
509 4.1.1.92 ↗ beta barrels › SH3 › SH3 › SH3 › SH3_9 0.63 49.0 5.03e-01 94.3% 85.5%
3757490 4.1.1.248 ↗ beta barrels › SH3 › SH3 › SH3 › CABIT 0.62 49.0 4.80e-01 100.0% 77.9%
4026785 4.1.1.279 ↗ beta barrels › SH3 › SH3 › SH3 › IQ 0.62 49.0 4.55e-01 93.1% 66.4%
4060846 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.62 51.0 5.00e-01 90.8% 81.1%
3705995 4.1.1.1 ↗ beta barrels › SH3 › SH3 › SH3 › SH3_1 0.62 51.0 5.33e-01 89.7% 97.5%
3297966 4.25.1.2 ↗ beta barrels › SH3 › Auxin response factor dimerization domain and ancillary domain › Auxin response factor dimerization domain and ancillary domain › BRWD_AD 0.60 51.0 4.57e-01 93.1% 78.3%
3495649 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.58 51.0 5.15e-01 95.4% 96.5%
3213653 4.1.1.54 ↗ beta barrels › SH3 › SH3 › SH3 › SH3_2 0.58 46.0 4.80e-01 89.7% 92.5%
4501781 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.58 48.0 4.67e-01 95.4% 82.0%
3895017 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.57 44.0 4.54e-01 92.0% 88.7%
3204891 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.57 45.0 4.80e-01 90.8% 97.3%
574 4.1.1.18 ↗ beta barrels › SH3 › SH3 › SH3 › CAP_GLY 0.57 45.0 4.46e-01 92.0% 79.3%
3600929 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.57 42.0 4.29e-01 100.0% 80.0%
3423907 4.25.1.0 ↗ beta barrels › SH3 › Auxin response factor dimerization domain and ancillary domain › Auxin response factor dimerization domain and ancillary domain 0.57 48.0 3.92e-01 93.1% 81.8%
3798523 4.1.1.1 ↗ beta barrels › SH3 › SH3 › SH3 › SH3_1 0.57 46.0 4.85e-01 95.4% 96.2%
3907178 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.56 49.0 4.67e-01 100.0% 82.9%
4931072 4.1.1.139 ↗ beta barrels › SH3 › SH3 › SH3 › IF5A-like_N 0.55 35.0 3.84e-01 94.3% 80.0%
4529160 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.55 48.0 4.56e-01 100.0% 82.9%
3503000 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.55 45.0 4.63e-01 100.0% 91.8%
3483566 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.54 49.0 4.66e-01 100.0% 97.1%
3484446 219.1.1.4 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › Peptidase_C2 0.54 46.0 3.17e-01 95.4% 31.7%
3576622 219.1.1.4 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › Peptidase_C2 0.54 45.0 3.05e-01 93.1% 29.3%
3830813 4.1.1.20 ↗ beta barrels › SH3 › SH3 › SH3 › BAH 0.53 48.0 3.75e-01 100.0% 74.1%
3714873 4.1.1.4 ↗ beta barrels › SH3 › SH3 › SH3 › KOW,Ribosomal_L27e 0.53 48.0 3.98e-01 98.9% 80.0%
3797511 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.53 37.0 3.63e-01 97.7% 67.4%
3181439 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.52 46.0 4.27e-01 95.4% 81.5%
3643549 4.1.1.139 ↗ beta barrels › SH3 › SH3 › SH3 › IF5A-like_N 0.52 33.0 3.43e-01 90.8% 68.8%
3928323 4.27.1.1 ↗ beta barrels › SH3 › Mitoribosomal protein mS34 › Mitoribosomal protein mS34 › MRP-S34 0.52 41.0 3.24e-01 100.0% 39.5%
3371134 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.52 48.0 4.26e-01 100.0% 86.7%
4991994 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.52 30.0 3.59e-01 83.9% 90.9%
3926950 4.1.1.214 ↗ beta barrels › SH3 › SH3 › SH3 › GCN5L1 0.52 38.0 3.44e-01 86.2% 56.7%
3192494 219.1.1.4 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › Peptidase_C2 0.52 44.0 2.89e-01 94.3% 28.1%
3796739 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 35.0 3.68e-01 71.3% 91.3%
3879415 219.1.1.4 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › Peptidase_C2 0.52 44.0 3.00e-01 94.3% 31.4%
3650798 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.51 46.0 4.18e-01 97.7% 87.0%
3990413 2.1.1.141 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › WCOB 0.51 36.0 3.86e-01 80.5% 91.4%
3990732 4.1.1.309 ↗ beta barrels › SH3 › SH3 › SH3 › MRP-S34 0.50 39.0 3.88e-01 100.0% 78.9%
4017190 4.1.1.305 ↗ beta barrels › SH3 › SH3 › SH3 › PF26744 0.50 41.0 3.71e-01 88.5% 89.2%
3976970 3880.1.1.2 ↗ beta barrels › Glycoside hydrolase family 127 C-terminal domain › Glycoside hydrolase family 127 C-terminal domain › Glycoside hydrolase family 127 C-terminal domain › Glyco_hydro127C 0.50 39.0 3.60e-01 87.4% 95.0%
3724767 219.1.1.4 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › Peptidase_C2 0.50 42.0 2.85e-01 94.3% 27.3%
D2 medium residues 200-315
PDB
Domain cluster: representative
CATH (11)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1vctA01 1.20.58.220 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphate transport system protein phou homolog 2; domain 2 0.58 32.0 3.35e-01 78.4% 56.9%
1lvfB00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.56 34.0 3.61e-01 96.6% 66.3%
2rldA00 1.20.1440.60 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 23S rRNA-intervening sequence 0.53 32.0 3.31e-01 81.0% 60.5%
1j1jA01 1.20.58.190 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Translin; domain 1 0.53 34.0 3.25e-01 83.6% 55.3%
4mh6A00 1.10.287.1700 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.53 35.0 3.17e-01 77.6% 49.7%
1y4cA03 1.20.120.660 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › IL-4 antagonist (De novo design) like domain 0.53 38.0 3.91e-01 75.9% 98.2%
2wauA02 1.20.58.830 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.52 40.0 3.96e-01 97.4% 77.0%
3ckyA02 1.10.1040.10 Mainly Alpha › Orthogonal Bundle › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 0.52 41.0 3.97e-01 85.3% 88.1%
3a7mA01 1.20.58.380 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Flagellar protein flit. 0.52 32.0 3.32e-01 78.4% 65.5%
1zvzA02 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.51 31.0 3.10e-01 96.6% 54.8%
2b0hA01 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.50 36.0 3.56e-01 75.9% 95.3%
ECOD (6)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4332275 101.1.1.310 ↗ alpha arrays › HTH › HTH › Three-helical HTH › UPF0137 0.74 57.0 5.92e-01 87.1% 86.4%
5083194 3317.1.1.0 ↗ alpha arrays › KorB C-terminal domain-like › KorB C-terminal domain › KorB C-terminal domain 0.73 60.0 6.05e-01 87.1% 92.2%
3713381 3291.1.1.0 ↗ alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related 0.62 38.0 4.15e-01 74.1% 74.7%
4876629 5001.1.1.1 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_1 0.56 36.0 3.16e-01 100.0% 42.3%
3390681 133.1.1.1 ↗ alpha bundles › DH domain-like › DBL homology domain (DH-domain) › DBL homology domain (DH-domain) › RhoGEF 0.50 37.0 3.13e-01 81.0% 44.4%
4975039 1174.1.1.1 ↗ alpha complex topology › Potassium channel TMEM175 › Potassium channel TMEM175 › Potassium channel TMEM175 › TMEM175 0.50 38.0 3.26e-01 82.8% 78.5%