←Back to structures

NC_070889.1__YP_010662752.1__PP940_gp074__00074

Bact-Vir

NC_070889.1__YP_010662752.1__PP940_gp074__00074

Identity

Accession:
NC_070889 ↗
Kingdom:
phage

Quality

95.5 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pootjesviridae› Innesvirus› Rhizobium_phage_RL2RES

TaxID: 103371

Cluster

View cluster (6 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 14-101
PDB
Domain cluster: rep: MG189906.1__ATS92310.1__DLP05_150__00149__D9-104
CATH (45)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2efiA00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.84 53.0 5.11e-01 77.3% 57.0%
6my0A02 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.83 50.0 5.85e-01 73.9% 83.1%
5kcoA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.81 49.0 5.89e-01 75.0% 91.5%
2lccA00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.79 52.0 5.58e-01 75.0% 77.6%
6bogA02 2.30.30.930 Mainly Beta › Roll › SH3 type barrels. › 0.79 47.0 5.58e-01 75.0% 88.3%
4qqgG00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.76 57.0 6.21e-01 85.2% 95.8%
3m9qA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.76 57.0 6.26e-01 81.8% 95.8%
3p8bB02 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.75 49.0 5.75e-01 80.7% 95.2%
2fhdA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.73 47.0 5.47e-01 71.6% 91.9%
5zwzA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.73 55.0 6.14e-01 97.7% 100.0%
4h75A00 2.80.10.70 Mainly Beta › Trefoil › Trefoil (Acidic Fibroblast Growth Factor, subunit A) › Spindlin/Ssty 0.73 52.0 3.95e-01 83.0% 33.2%
7xpkA01 2.30.30.490 Mainly Beta › Roll › SH3 type barrels. › Bromo adjacent homology (BAH) domain 0.72 58.0 4.80e-01 84.1% 58.6%
4lduA03 2.30.30.1040 Mainly Beta › Roll › SH3 type barrels. › 0.71 52.0 5.87e-01 78.4% 100.0%
2l3rA02 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.69 50.0 5.48e-01 78.4% 91.8%
2db9A01 3.90.70.200 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Plus-3 domain 0.69 55.0 4.77e-01 85.2% 60.9%
3askA02 2.30.30.1150 Mainly Beta › Roll › SH3 type barrels. › 0.69 52.0 4.34e-01 85.2% 47.0%
3cpfA01 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.67 46.0 5.10e-01 86.4% 95.4%
1sp4B00 3.90.70.10 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases 0.65 52.0 3.93e-01 85.2% 45.4%
3pieC09 2.30.30.750 Mainly Beta › Roll › SH3 type barrels. › 0.64 55.0 5.34e-01 100.0% 82.8%
3otpA01 2.40.10.120 Mainly Beta › Beta Barrel › Thrombin, subunit H › 0.64 55.0 4.21e-01 94.3% 83.7%
1ixdA00 2.30.30.190 Mainly Beta › Roll › SH3 type barrels. › CAP Gly-rich-like domain 0.64 51.0 4.82e-01 84.1% 77.9%
3k6yA02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.64 49.0 4.55e-01 79.5% 89.7%
1ylnA01 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.64 48.0 4.39e-01 79.5% 92.1%
2vgmA01 2.30.30.870 Mainly Beta › Roll › SH3 type barrels. › Pelota, domain A 0.64 57.0 5.10e-01 98.9% 81.1%
2rceA02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.63 48.0 4.49e-01 79.5% 86.8%
4epcA02 2.30.30.170 Mainly Beta › Roll › SH3 type barrels. › 0.63 44.0 4.90e-01 73.9% 97.2%
1zq1A01 2.30.30.520 Mainly Beta › Roll › SH3 type barrels. › 0.62 43.0 4.51e-01 83.0% 81.8%
4ic5A02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.61 46.0 4.41e-01 80.7% 84.6%
4z48A00 2.50.20.10 Mainly Beta › Clam › outer membrane lipoprotein receptor (LolB), chain A › Lipoprotein localisation LolA/LolB/LppX 0.60 41.0 3.01e-01 70.5% 71.7%
5jv4A00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.60 45.0 3.87e-01 80.7% 97.2%
2qi2A01 2.30.30.870 Mainly Beta › Roll › SH3 type barrels. › Pelota, domain A 0.59 52.0 4.96e-01 98.9% 84.6%
2qiyA00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.58 42.0 3.67e-01 76.1% 92.5%
3cm1A00 2.30.31.20 Mainly Beta › Roll › Transcriptional Co-activator pc4; Chain A › Sporulation-specific cell division protein SsgB 0.57 40.0 3.50e-01 73.9% 73.5%
2i51B00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.56 42.0 3.27e-01 78.4% 81.7%
2gu3A02 3.10.450.40 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.56 36.0 4.12e-01 73.9% 92.1%
2htiA00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.55 41.0 3.69e-01 79.5% 95.2%
1nh2C00 2.30.18.10 Mainly Beta › Roll › TATA box binding Protein, subunit D; domain 2 › Transcription factor IIA (TFIIA), beta-barrel domain 0.55 32.0 3.89e-01 88.6% 100.0%
3ff2A00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.55 40.0 3.66e-01 77.3% 96.6%
2gtlN02 2.40.128.620 Mainly Beta › Beta Barrel › Lipocalin › 0.55 40.0 3.36e-01 80.7% 74.7%
5hmaA02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.54 45.0 4.28e-01 89.8% 89.4%
2xzlA02 2.40.30.230 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › 0.54 45.0 4.71e-01 100.0% 100.0%
3fzxA00 2.40.360.20 Mainly Beta › Beta Barrel › YmcC-like fold › 0.54 41.0 3.12e-01 81.8% 98.6%
4mxtA00 2.50.20.10 Mainly Beta › Clam › outer membrane lipoprotein receptor (LolB), chain A › Lipoprotein localisation LolA/LolB/LppX 0.53 40.0 3.16e-01 81.8% 81.3%
5itqA01 3.20.190.10 Alpha Beta › Alpha-Beta Barrel › N-terminal domain of MutM-like DNA repair proteins › MutM-like, N-terminal 0.52 38.0 3.42e-01 80.7% 71.2%
4ge6A00 3.90.190.10 Alpha Beta › Alpha-Beta Complex › Protein-Tyrosine Phosphatase; Chain A › Protein tyrosine phosphatase superfamily 0.51 41.0 2.88e-01 88.6% 59.4%
ECOD (84)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3272197 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.91 86.0 8.02e-01 100.0% 85.7%
3713334 4.8.1.0 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.90 60.0 7.23e-01 79.5% 100.0%
4026958 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.87 54.0 6.74e-01 76.1% 100.0%
3704395 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.87 61.0 7.14e-01 83.0% 100.0%
3901117 4.8.1.6 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like › Tudor-knot 0.84 55.0 4.23e-01 75.0% 32.8%
3876680 4.8.1.6 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like › Tudor-knot 0.82 56.0 5.39e-01 80.7% 62.0%
147797 4.8.1.6 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like › Tudor-knot 0.80 52.0 5.88e-01 75.0% 86.8%
165654 4.8.1.6 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like › Tudor-knot 0.79 56.0 6.02e-01 79.5% 86.5%
3246086 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.79 58.0 5.65e-01 88.6% 70.5%
3730229 4.1.1.102 ↗ beta barrels › SH3 › SH3 › SH3 › Tudor_3 0.79 53.0 5.77e-01 85.2% 81.3%
3739064 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.79 55.0 6.29e-01 80.7% 96.9%
3812766 4.1.1.42 ↗ beta barrels › SH3 › SH3 › SH3 › Agenet 0.78 57.0 6.35e-01 80.7% 95.7%
3932647 4.8.1.0 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.77 57.0 5.84e-01 87.5% 80.0%
3484700 4.8.1.10 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like › MSL3_chromo-like 0.77 54.0 5.18e-01 77.3% 64.0%
3848399 4.8.1.24 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like › Chromo_MORC2_6th 0.76 52.0 5.80e-01 76.1% 88.6%
3918299 4.1.1.376 ↗ beta barrels › SH3 › SH3 › SH3 › Chromo_MORC2_6th 0.76 50.0 5.57e-01 76.1% 85.7%
3322460 4.1.1.94 ↗ beta barrels › SH3 › SH3 › SH3 › SAWADEE 0.75 61.0 5.55e-01 86.4% 69.6%
3650296 4.1.1.94 ↗ beta barrels › SH3 › SH3 › SH3 › SAWADEE 0.75 60.0 5.86e-01 85.2% 83.2%
3830352 4.1.1.94 ↗ beta barrels › SH3 › SH3 › SH3 › SAWADEE 0.74 60.0 6.17e-01 86.4% 95.3%
3829476 4.1.1.42 ↗ beta barrels › SH3 › SH3 › SH3 › Agenet 0.74 55.0 4.30e-01 77.3% 41.7%
3707346 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.74 59.0 6.14e-01 84.1% 90.4%
4936914 4.11.1.0 ↗ beta barrels › SH3 › LexA/Signal peptidase › LexA/Signal peptidase 0.73 54.0 5.05e-01 86.4% 64.8%
3185321 4.1.1.51 ↗ beta barrels › SH3 › SH3 › SH3 › SGF29_Tudor 0.73 55.0 5.93e-01 81.8% 93.3%
3601070 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.72 51.0 5.89e-01 79.5% 100.0%
3924619 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.72 59.0 5.27e-01 88.6% 64.2%
3642926 4.1.1.42 ↗ beta barrels › SH3 › SH3 › SH3 › Agenet 0.71 54.0 4.17e-01 79.5% 42.2%
3591144 4.8.1.0 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.71 65.0 5.34e-01 97.7% 97.3%
3188712 4.1.1.225 ↗ beta barrels › SH3 › SH3 › SH3 › DUF7025 0.71 58.0 5.52e-01 86.4% 89.0%
2978978 4.1.1.42 ↗ beta barrels › SH3 › SH3 › SH3 › Agenet 0.71 52.0 5.55e-01 80.7% 89.3%
3585492 4.1.1.103 ↗ beta barrels › SH3 › SH3 › SH3 › SH3_12 0.71 56.0 5.20e-01 85.2% 67.3%
3286662 4.31.1.1 ↗ beta barrels › SH3 › Central WYL domain of RspWYL1 › Central WYL domain of RspWYL1 › WYL 0.69 49.0 4.76e-01 83.0% 66.0%
4031510 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.69 51.0 5.13e-01 83.0% 76.7%
4002655 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.69 53.0 4.48e-01 80.7% 65.0%
3281618 4.31.1.1 ↗ beta barrels › SH3 › Central WYL domain of RspWYL1 › Central WYL domain of RspWYL1 › WYL 0.69 53.0 5.14e-01 83.0% 79.0%
4118552 4.1.1.97 ↗ beta barrels › SH3 › SH3 › SH3 › DUF150_C 0.69 49.0 5.30e-01 85.2% 88.0%
3608562 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.68 63.0 5.08e-01 98.9% 73.0%
3339162 4.1.1.330 ↗ beta barrels › SH3 › SH3 › SH3 › SH3-B_UBE2O, SH3-C_UBE2O 0.68 53.0 4.62e-01 81.8% 55.4%
3519122 4.31.1.1 ↗ beta barrels › SH3 › Central WYL domain of RspWYL1 › Central WYL domain of RspWYL1 › WYL 0.68 52.0 5.19e-01 83.0% 78.9%
3978997 4.31.1.1 ↗ beta barrels › SH3 › Central WYL domain of RspWYL1 › Central WYL domain of RspWYL1 › WYL 0.68 52.0 5.11e-01 83.0% 74.7%
4545520 4.7.1.7 ↗ beta barrels › SH3 › RNase P subunit p29 › RNase P subunit p29 › WYL 0.68 50.0 5.09e-01 84.1% 80.0%
3942912 4.1.1.323 ↗ beta barrels › SH3 › SH3 › SH3 › WYL 0.68 50.0 5.13e-01 83.0% 81.2%
3799904 4.1.1.315 ↗ beta barrels › SH3 › SH3 › SH3 › SH3_12, XRN1_D1 0.67 61.0 3.93e-01 98.9% 57.7%
3953109 4.31.1.1 ↗ beta barrels › SH3 › Central WYL domain of RspWYL1 › Central WYL domain of RspWYL1 › WYL 0.67 50.0 4.95e-01 84.1% 73.7%
3280641 4.31.1.1 ↗ beta barrels › SH3 › Central WYL domain of RspWYL1 › Central WYL domain of RspWYL1 › WYL 0.67 50.0 4.86e-01 98.9% 70.0%
5032454 4.11.1.0 ↗ beta barrels › SH3 › LexA/Signal peptidase › LexA/Signal peptidase 0.67 56.0 4.89e-01 89.8% 81.5%
3289944 4.1.1.323 ↗ beta barrels › SH3 › SH3 › SH3 › WYL 0.67 49.0 4.89e-01 81.8% 74.4%
4250193 4.1.1.78 ↗ beta barrels › SH3 › SH3 › SH3 › TTD 0.67 54.0 5.36e-01 87.5% 83.3%
3281271 4.31.1.1 ↗ beta barrels › SH3 › Central WYL domain of RspWYL1 › Central WYL domain of RspWYL1 › WYL 0.67 50.0 4.96e-01 98.9% 76.7%
4024274 4.1.1.17 ↗ beta barrels › SH3 › SH3 › SH3 › Ribosomal_L19 0.66 53.0 5.03e-01 98.9% 72.4%
4021079 4.1.1.103 ↗ beta barrels › SH3 › SH3 › SH3 › SH3_12 0.66 57.0 4.35e-01 93.2% 92.8%
1117666 4.1.1.103 ↗ beta barrels › SH3 › SH3 › SH3 › SH3_12 0.65 54.0 5.55e-01 98.9% 91.8%
3740221 4.11.1.0 ↗ beta barrels › SH3 › LexA/Signal peptidase › LexA/Signal peptidase 0.65 54.0 4.43e-01 89.8% 76.9%
3972550 4.31.1.1 ↗ beta barrels › SH3 › Central WYL domain of RspWYL1 › Central WYL domain of RspWYL1 › WYL 0.65 51.0 4.88e-01 98.9% 73.0%
3802808 4.23.1.2 ↗ beta barrels › SH3 › Dom34/Pelota N-terminal domain-like › Dom34/Pelota N-terminal domain-like › PF26356 0.65 52.0 4.45e-01 87.5% 86.9%
3661142 4.1.1.20 ↗ beta barrels › SH3 › SH3 › SH3 › BAH 0.65 59.0 4.70e-01 98.9% 65.3%
4470603 4.1.1.217 ↗ beta barrels › SH3 › SH3 › SH3 › zf-CCCH_4 0.65 56.0 4.48e-01 93.2% 87.9%
3394789 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.64 50.0 4.68e-01 86.4% 67.3%
3283097 4.31.1.1 ↗ beta barrels › SH3 › Central WYL domain of RspWYL1 › Central WYL domain of RspWYL1 › WYL 0.64 50.0 4.65e-01 83.0% 66.4%
5063379 1.1.17.3 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 2 › Trypsin_2 0.64 55.0 4.33e-01 94.3% 89.4%
3639466 4.23.1.2 ↗ beta barrels › SH3 › Dom34/Pelota N-terminal domain-like › Dom34/Pelota N-terminal domain-like › PF26356 0.64 58.0 4.86e-01 98.9% 77.2%
4071824 4.17.1.1 ↗ beta barrels › SH3 › GatD N-terminal domain-like › GatD N-terminal domain-like › GatD_N 0.64 44.0 4.67e-01 84.1% 84.0%
3238915 219.1.1.4 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › Peptidase_C2 0.63 51.0 3.45e-01 86.4% 34.6%
3785900 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.63 57.0 3.61e-01 98.9% 52.8%
3594413 4.8.1.0 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.63 50.0 5.21e-01 86.4% 97.5%
4387099 4.1.1.97 ↗ beta barrels › SH3 › SH3 › SH3 › DUF150_C 0.63 49.0 5.11e-01 84.1% 95.0%
3700518 4.23.1.2 ↗ beta barrels › SH3 › Dom34/Pelota N-terminal domain-like › Dom34/Pelota N-terminal domain-like › PF26356 0.62 56.0 4.92e-01 98.9% 86.2%
3597361 4.23.1.0 ↗ beta barrels › SH3 › Dom34/Pelota N-terminal domain-like › Dom34/Pelota N-terminal domain-like 0.62 56.0 4.93e-01 98.9% 86.2%
3974490 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.62 41.0 4.25e-01 71.6% 73.8%
2099294 1.1.5.8 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Putative_PNPOx 0.60 45.0 3.87e-01 80.7% 97.2%
5072772 4237.1.1.1 ↗ beta barrels › FomD-like › FomD-like › FomD-like › DUF402 0.59 52.0 4.01e-01 97.7% 71.0%
4013811 4.8.1.22 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like › DUF7025 0.59 45.0 4.55e-01 83.0% 92.2%
3631313 4.1.1.225 ↗ beta barrels › SH3 › SH3 › SH3 › DUF7025 0.59 45.0 3.58e-01 84.1% 45.8%
3205559 4.8.1.22 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like › DUF7025 0.58 45.0 3.85e-01 84.1% 59.3%
4034488 295.1.1.0 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain 0.58 41.0 3.51e-01 73.9% 97.8%
3188394 4.8.1.22 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like › DUF7025 0.57 45.0 4.07e-01 86.4% 78.3%
3700517 5.1.2.33 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 5-bladed › BNR_3 0.56 49.0 3.36e-01 96.6% 45.9%
5051220 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.56 46.0 4.61e-01 89.8% 96.7%
3967111 3338.2.1.2 ↗ a+b two layers › Fragilysin-3 prodomain-like › Type II secretion chaperone CpaB › Type II secretion chaperone CpaB › BamI_lipocalin 0.56 49.0 4.37e-01 97.7% 80.0%
4019128 1.1.5.8 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Putative_PNPOx 0.54 45.0 3.52e-01 90.9% 91.6%
4864011 1.1.7.41 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › UPF1_1B_dom 0.53 48.0 4.57e-01 100.0% 87.6%
3399368 9.14.1.3 ↗ beta barrels › Lipocalins/Streptavidin › Uncharacterized protein YLR301W › Uncharacterized protein YLR301W › DUF7042 0.53 46.0 4.03e-01 97.7% 91.1%
3511505 9.23.1.6 ↗ beta barrels › Lipocalins/Streptavidin › Hypothetical protein BT_0869 › Hypothetical protein BT_0869 › DUF7042 0.52 46.0 4.19e-01 98.9% 94.2%
4029832 213.1.1.0 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) 0.52 43.0 3.43e-01 97.7% 78.0%
4955607 3435.1.1.0 ↗ a+b two layers › Recombination-associated protein rdgC › Recombination-associated protein rdgC › Recombination-associated protein rdgC 0.50 39.0 2.93e-01 83.0% 47.4%