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NC_070852.1__YP_010657938.1__PP745_gp029__00029

Bact-Vir

NC_070852.1__YP_010657938.1__PP745_gp029__00029

Identity

Accession:
NC_070852 ↗
Kingdom:
phage

Quality

91.6 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Schitoviridae› Cyamitesvirus› Rhizobium_phage_RHph_I1_6

TaxID: 2509728

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 9-74
PDB
Domain cluster: representative
CATH (51)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3c12A01 2.30.30.910 Mainly Beta › Roll › SH3 type barrels. › 0.81 49.0 5.44e-01 77.3% 78.4%
5ygbA02 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.76 58.0 5.42e-01 80.3% 71.2%
6my0A02 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.76 55.0 5.62e-01 80.3% 78.5%
3askA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.75 56.0 5.77e-01 78.8% 90.3%
4b9wA02 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.74 57.0 6.17e-01 84.8% 96.4%
2f5kA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.74 52.0 5.92e-01 74.2% 100.0%
1m9sA04 2.30.30.170 Mainly Beta › Roll › SH3 type barrels. › 0.71 52.0 4.77e-01 77.3% 83.7%
5kcoA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.71 48.0 5.09e-01 72.7% 79.7%
4qqgG00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.70 52.0 5.09e-01 78.8% 81.9%
2ckkA02 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.70 51.0 5.43e-01 77.3% 93.0%
2lccA00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.69 55.0 5.23e-01 84.8% 85.5%
7xpkA01 2.30.30.490 Mainly Beta › Roll › SH3 type barrels. › Bromo adjacent homology (BAH) domain 0.69 54.0 4.18e-01 84.8% 69.7%
3p8bB02 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.68 49.0 5.11e-01 77.3% 82.3%
2gfaB01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.67 53.0 5.44e-01 83.3% 88.7%
2diqA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.67 51.0 4.50e-01 86.4% 55.0%
2vb6A01 2.30.30.360 Mainly Beta › Roll › SH3 type barrels. › Myosin S1 fragment, N-terminal 0.67 51.0 5.50e-01 86.4% 98.1%
3a54A01 2.40.50.340 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.67 47.0 4.21e-01 72.7% 86.7%
2efiA00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.66 58.0 5.06e-01 98.5% 64.0%
4a4kA02 2.30.30.1160 Mainly Beta › Roll › SH3 type barrels. › 0.65 53.0 4.16e-01 87.9% 85.7%
2eqmA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.65 46.0 5.06e-01 75.8% 98.1%
2l3rA02 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.64 47.0 4.63e-01 80.3% 84.9%
3pfsB00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.64 55.0 4.50e-01 100.0% 71.5%
1wgsA00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.64 52.0 4.14e-01 100.0% 44.4%
2eqjA00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.63 43.0 4.39e-01 78.8% 74.2%
1m4zA01 2.30.30.490 Mainly Beta › Roll › SH3 type barrels. › Bromo adjacent homology (BAH) domain 0.62 48.0 3.52e-01 86.4% 60.7%
1xqbA01 2.40.30.70 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › YaeB-like 0.59 46.0 3.99e-01 87.9% 67.0%
2pstX00 3.90.820.10 Alpha Beta › Alpha-Beta Complex › Rubredoxin-like › Structural Genomics, Unknown Function 30-nov-00 1gh9 Mol_id 0.58 38.0 3.97e-01 100.0% 73.8%
6f2mA02 2.40.30.290 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › 0.58 39.0 3.62e-01 81.8% 54.0%
2qggA01 2.40.30.60 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › RimM 0.58 42.0 3.77e-01 78.8% 54.8%
1sg5A01 2.30.30.400 Mainly Beta › Roll › SH3 type barrels. › Rof-like 0.57 41.0 3.96e-01 78.8% 68.8%
6o5cA02 2.30.30.90 Mainly Beta › Roll › SH3 type barrels. › Ferrous iron transport protein A (FeoA) 0.56 40.0 3.88e-01 77.3% 82.9%
3askA02 2.30.30.1150 Mainly Beta › Roll › SH3 type barrels. › 0.56 48.0 3.78e-01 100.0% 50.3%
1o7iB00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.56 39.0 3.35e-01 75.8% 78.1%
3pnnA00 3.90.550.10 Alpha Beta › Alpha-Beta Complex › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A 0.55 45.0 3.06e-01 100.0% 33.2%
2hqvA00 3.40.1570.10 Alpha Beta › 3-Layer(aba) Sandwich › Heme iron utilization protein-like fold › HemS/ChuS/ChuX like domains 0.54 41.0 3.17e-01 86.4% 51.7%
2f1lA01 2.40.30.60 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › RimM 0.54 39.0 3.62e-01 78.8% 58.4%
8ajjA01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.54 38.0 3.26e-01 75.8% 77.2%
7yj5A02 3.40.47.10 Alpha Beta › 3-Layer(aba) Sandwich › Peroxisomal Thiolase; Chain A, domain 1 › Thiolase/Chalcone synthase 0.54 38.0 2.99e-01 90.9% 32.9%
1kmdA00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.54 39.0 3.35e-01 80.3% 87.2%
3lovA01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.53 37.0 2.93e-01 75.8% 45.4%
2re3A02 2.30.270.10 Mainly Beta › Roll › duf1285 protein fold › duf1285 protein 0.52 36.0 3.60e-01 74.2% 77.1%
2qggA02 2.30.30.240 Mainly Beta › Roll › SH3 type barrels. › PRC-barrel domain 0.52 41.0 3.95e-01 93.9% 80.7%
2zzeA03 2.40.30.130 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › 0.52 33.0 3.00e-01 75.8% 43.9%
3d1cA01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.52 36.0 2.58e-01 75.8% 54.7%
4bjzA01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.51 36.0 2.81e-01 75.8% 41.7%
1xdiA02 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.51 36.0 3.08e-01 75.8% 98.3%
4ci2B02 2.30.130.40 Mainly Beta › Roll › Archaeosine Trna-guanine Transglycosylase; Chain: A, domain 4 › LON domain-like 0.51 38.0 3.05e-01 83.3% 41.6%
2oq5A02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.51 36.0 3.19e-01 100.0% 48.1%
3d1cA02 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.51 36.0 3.10e-01 75.8% 97.4%
1iv8A02 3.30.1590.10 Alpha Beta › 2-Layer Sandwich › Maltooligosyl trehalose synthase, domain 2 › Maltooligosyl trehalose synthase, domain 2 0.50 41.0 3.47e-01 93.9% 93.2%
3ml4C01 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.50 36.0 3.19e-01 80.3% 96.3%
ECOD (79)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3837995 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.81 55.0 6.05e-01 78.8% 85.5%
3901117 4.8.1.6 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like › Tudor-knot 0.76 56.0 4.05e-01 78.8% 32.2%
3394215 4.1.1.9 ↗ beta barrels › SH3 › SH3 › SH3 › TUDOR 0.76 61.0 5.26e-01 86.4% 61.0%
2727964 4.1.1.105 ↗ beta barrels › SH3 › SH3 › SH3 › DUF5604 0.75 53.0 5.61e-01 75.8% 83.1%
4161673 4.1.1.105 ↗ beta barrels › SH3 › SH3 › SH3 › DUF5604 0.74 53.0 4.89e-01 77.3% 58.8%
3855038 4.1.1.105 ↗ beta barrels › SH3 › SH3 › SH3 › DUF5604 0.74 52.0 3.90e-01 75.8% 30.6%
3878271 101.1.2.284 ↗ alpha arrays › HTH › HTH › winged helix domain › WAC_Acf1_DNA_bd 0.74 53.0 3.97e-01 77.3% 32.3%
4002985 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.74 54.0 5.67e-01 77.3% 90.0%
4069543 4.8.1.6 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like › Tudor-knot 0.73 55.0 5.25e-01 78.8% 72.0%
3570368 4.1.1.9 ↗ beta barrels › SH3 › SH3 › SH3 › TUDOR 0.73 59.0 5.09e-01 86.4% 58.0%
3940730 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.73 59.0 5.20e-01 87.9% 64.2%
4883261 4.1.1.76 ↗ beta barrels › SH3 › SH3 › SH3 › NdhO 0.73 57.0 5.04e-01 84.8% 81.1%
3482360 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.72 56.0 4.99e-01 81.8% 83.3%
536 4.1.1.86 ↗ beta barrels › SH3 › SH3 › SH3 › GW 0.71 52.0 4.77e-01 77.3% 83.7%
3905549 4.1.1.9 ↗ beta barrels › SH3 › SH3 › SH3 › TUDOR 0.71 57.0 4.87e-01 86.4% 55.2%
4960540 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.71 52.0 5.29e-01 77.3% 90.8%
3575865 4.1.1.169 ↗ beta barrels › SH3 › SH3 › SH3 › DUF4819 0.71 52.0 5.10e-01 77.3% 74.3%
4054649 4.1.1.86 ↗ beta barrels › SH3 › SH3 › SH3 › GW 0.71 52.0 4.97e-01 77.3% 96.0%
3344303 4.1.1.85 ↗ beta barrels › SH3 › SH3 › SH3 › MTR4_beta-barrel 0.70 56.0 4.88e-01 86.4% 95.0%
5038570 4.11.1.2 ↗ beta barrels › SH3 › LexA/Signal peptidase › LexA/Signal peptidase › Peptidase_S26 0.70 56.0 4.58e-01 86.4% 50.8%
3174977 4.8.1.0 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.70 56.0 4.88e-01 84.8% 58.9%
3550644 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.70 51.0 5.55e-01 81.8% 92.7%
3740208 4.8.1.6 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like › Tudor-knot 0.70 52.0 5.26e-01 78.8% 83.1%
3656401 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.70 53.0 5.12e-01 81.8% 72.0%
3511337 4.1.1.9 ↗ beta barrels › SH3 › SH3 › SH3 › TUDOR 0.70 55.0 4.94e-01 86.4% 62.2%
5071741 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.70 55.0 5.75e-01 84.8% 95.0%
5026824 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.70 59.0 5.79e-01 92.4% 91.4%
5032809 4.11.1.0 ↗ beta barrels › SH3 › LexA/Signal peptidase › LexA/Signal peptidase 0.69 54.0 4.34e-01 84.8% 43.8%
3793656 4.1.1.169 ↗ beta barrels › SH3 › SH3 › SH3 › DUF4819 0.69 51.0 3.95e-01 78.8% 36.6%
4241924 4.1.1.93 ↗ beta barrels › SH3 › SH3 › SH3 › 40S_S4_C 0.69 60.0 5.35e-01 93.9% 72.2%
3622139 4.1.1.9 ↗ beta barrels › SH3 › SH3 › SH3 › TUDOR 0.69 55.0 4.94e-01 86.4% 64.4%
4956630 4.11.1.2 ↗ beta barrels › SH3 › LexA/Signal peptidase › LexA/Signal peptidase › Peptidase_S26 0.69 58.0 4.40e-01 92.4% 47.7%
3926175 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.69 55.0 5.04e-01 86.4% 69.4%
3617355 4.1.1.348 ↗ beta barrels › SH3 › SH3 › SH3 › SMN_Tudor, SMN_YG-box 0.69 53.0 4.64e-01 84.8% 56.8%
3595283 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.68 58.0 4.83e-01 100.0% 54.8%
3932647 4.8.1.0 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.68 50.0 4.61e-01 78.8% 68.2%
3792195 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.67 53.0 4.59e-01 84.8% 59.0%
4268386 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.67 51.0 5.09e-01 84.8% 78.6%
3251940 4.1.1.51 ↗ beta barrels › SH3 › SH3 › SH3 › SGF29_Tudor 0.67 50.0 4.82e-01 80.3% 72.0%
4024737 4.8.1.0 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.67 42.0 4.75e-01 71.2% 86.0%
3793311 4.1.1.1 ↗ beta barrels › SH3 › SH3 › SH3 › SH3_1 0.66 47.0 4.90e-01 74.2% 96.7%
3917372 4.1.1.101 ↗ beta barrels › SH3 › SH3 › SH3 › Tudor_2 0.66 55.0 5.30e-01 100.0% 78.7%
3591824 4.1.1.92 ↗ beta barrels › SH3 › SH3 › SH3 › SH3_9 0.66 53.0 5.26e-01 89.4% 98.6%
3702154 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.66 52.0 5.02e-01 86.4% 80.0%
3698582 4.1.1.54 ↗ beta barrels › SH3 › SH3 › SH3 › SH3_2 0.66 54.0 5.31e-01 90.9% 98.6%
3867207 4.8.1.10 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like › MSL3_chromo-like 0.66 58.0 5.16e-01 98.5% 76.8%
3344796 4.1.1.42 ↗ beta barrels › SH3 › SH3 › SH3 › Agenet 0.66 57.0 5.26e-01 95.5% 91.6%
3368254 4.1.1.141 ↗ beta barrels › SH3 › SH3 › SH3 › PTM_DIR17_Tudor 0.66 47.0 5.05e-01 75.8% 90.9%
4022025 4.1.1.51 ↗ beta barrels › SH3 › SH3 › SH3 › SGF29_Tudor 0.65 58.0 4.50e-01 100.0% 87.6%
4966163 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.65 53.0 5.09e-01 98.5% 78.7%
4284709 4.1.1.111 ↗ beta barrels › SH3 › SH3 › SH3 › Tudor_RapA 0.65 45.0 4.90e-01 78.8% 89.1%
3706223 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.64 54.0 4.73e-01 98.5% 61.9%
5034906 205.1.1.16 ↗ a+b two layers › 4Fe-4S ferredoxin › 4Fe-4S ferredoxin › 4Fe-4S ferredoxin › Fer4_7 0.64 44.0 3.32e-01 74.2% 30.7%
3828749 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.63 46.0 4.44e-01 78.8% 81.3%
3782038 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.63 44.0 3.86e-01 77.3% 49.0%
4452870 1.1.7.11 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › RimM 0.62 46.0 4.13e-01 77.3% 58.9%
4120629 4.1.1.97 ↗ beta barrels › SH3 › SH3 › SH3 › DUF150_C 0.62 48.0 4.64e-01 84.8% 76.0%
4183853 4.1.1.435 ↗ beta barrels › SH3 › SH3 › SH3 › PF29216 0.62 44.0 4.40e-01 77.3% 85.7%
3619619 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.61 51.0 5.03e-01 97.0% 84.3%
4060133 1.1.7.11 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › RimM 0.61 45.0 4.09e-01 78.8% 60.0%
4063137 1.1.7.11 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › RimM 0.61 45.0 4.05e-01 77.3% 58.9%
3602511 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.61 44.0 4.37e-01 78.8% 77.1%
4203993 1.1.7.11 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › RimM 0.61 44.0 3.91e-01 77.3% 55.8%
3940729 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.60 44.0 4.06e-01 77.3% 62.4%
3423337 4.1.1.141 ↗ beta barrels › SH3 › SH3 › SH3 › PTM_DIR17_Tudor 0.60 44.0 4.17e-01 78.8% 65.0%
4087903 1.1.7.11 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › RimM 0.60 43.0 3.96e-01 77.3% 58.9%
4194151 1.1.7.11 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › RimM 0.60 43.0 3.98e-01 78.8% 60.0%
3834303 109.4.1.257 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PDS5 0.60 41.0 2.54e-01 77.3% 10.8%
4401809 1.1.7.11 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › RimM 0.59 44.0 3.96e-01 78.8% 58.9%
4425722 1.1.7.11 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › RimM 0.59 42.0 3.83e-01 75.8% 58.9%
3687350 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.59 42.0 4.55e-01 77.3% 92.7%
4042679 1.1.7.11 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › RimM 0.58 43.0 3.97e-01 78.8% 62.4%
4505316 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.58 43.0 4.46e-01 83.3% 95.0%
3410884 708.1.1.4 ↗ beta complex topology › ETN0001 domain-like › ETN0001 domain-like › NAC/WRKY/GCM/WOPR domain › FLYWCH 0.57 39.0 4.01e-01 71.2% 73.4%
5036802 205.1.1.1 ↗ a+b two layers › 4Fe-4S ferredoxin › 4Fe-4S ferredoxin › 4Fe-4S ferredoxin › Fer4 0.56 37.0 3.00e-01 74.2% 32.9%
5011086 101.1.2.70 ↗ alpha arrays › HTH › HTH › winged helix domain › PqqD 0.55 40.0 3.68e-01 83.3% 57.8%
154143 11.9.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › FAH › FAH 0.54 41.0 2.83e-01 86.4% 85.8%
3604617 3613.1.1.0 ↗ beta barrels › Protein CLP1 C-terminal domain › Protein CLP1 C-terminal domain › Protein CLP1 C-terminal domain 0.54 39.0 3.15e-01 83.3% 38.5%
4939469 1.1.7.9 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › tRNA-synt_2c 0.50 36.0 3.21e-01 77.3% 52.6%