←Back to structures

AB366653.2__BAG41619.2__X__00171

Bact-Vir

AB366653.2__BAG41619.2__X__00171

Identity

Accession:
AB366653 ↗
Kingdom:
phage

Quality

64.5 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Mieseafarmvirus› Ralstonia_phage_phiRSL1

TaxID: 1980924

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 2-139
PDB
Domain cluster: rep: ON615601.1__UTS51982.1__X__00034__D5-121
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF12571.14 best Phage_tail_fib 30.0 6.80e-07 92.8% 82.7%
D2 high residues 152-272
PDB
Domain cluster: representative
CATH (20)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
6f2mA02 2.40.30.290 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › 0.75 52.0 6.02e-01 71.9% 98.9%
1vwxf00 2.40.10.190 Mainly Beta › Beta Barrel › Thrombin, subunit H › translation elongation factor selb, chain A, domain 4 0.66 45.0 4.77e-01 70.2% 96.3%
2f1lA01 2.40.30.60 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › RimM 0.65 45.0 5.12e-01 70.2% 97.8%
4tkoB01 2.40.30.170 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Efflux pump adaptor protein, beta barrel domain 0.65 44.0 4.95e-01 70.2% 97.8%
3wdhA04 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.62 30.0 3.52e-01 71.9% 64.3%
5tr9A01 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.61 42.0 4.67e-01 71.1% 99.0%
1a8pA01 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.61 42.0 4.67e-01 71.1% 100.0%
3zpeA00 2.60.90.50 Mainly Beta › Sandwich › Adenovirus Type 5 Fiber Protein (Receptor Binding Domain) › 0.61 43.0 4.11e-01 73.6% 63.8%
2piaA01 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.59 45.0 4.77e-01 78.5% 99.0%
5eanA01 2.40.30.270 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › 0.59 46.0 4.86e-01 84.3% 100.0%
1vq8T00 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.55 34.0 3.47e-01 75.2% 62.2%
4gaaA01 2.60.40.1730 Mainly Beta › Sandwich › Immunoglobulin-like › tricorn interacting facor f3 domain 0.55 34.0 2.91e-01 70.2% 38.3%
2oezA01 2.60.440.10 Mainly Beta › Sandwich › YacF-like › YacF-like domains 0.54 35.0 4.07e-01 78.5% 100.0%
4mtmA01 2.60.40.3940 Mainly Beta › Sandwich › Immunoglobulin-like › 0.53 35.0 3.85e-01 71.1% 84.4%
2d40B00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.53 43.0 3.32e-01 89.3% 95.4%
4odbA00 2.60.90.20 Mainly Beta › Sandwich › Adenovirus Type 5 Fiber Protein (Receptor Binding Domain) › Virus attachment protein , globular domain 0.51 36.0 3.30e-01 71.1% 64.8%
1n26A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 37.0 3.88e-01 77.7% 85.0%
4l82A00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.51 36.0 3.34e-01 71.9% 83.3%
5h4cB00 2.60.120.40 Mainly Beta › Sandwich › Jelly Rolls › 0.51 35.0 3.42e-01 70.2% 94.1%
2vtfA02 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.50 34.0 3.04e-01 86.8% 46.9%
ECOD (41)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5025767 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.78 50.0 5.75e-01 70.2% 86.7%
4074297 1.1.7.9 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › tRNA-synt_2c 0.77 50.0 5.17e-01 70.2% 69.6%
3964292 1.1.13.38 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › Phage_BR0599 0.76 56.0 5.94e-01 88.4% 83.6%
4946634 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.74 49.0 5.67e-01 70.2% 91.1%
3387360 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.72 45.0 5.26e-01 71.1% 90.6%
2556060 1.1.7.17 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.71 46.0 5.48e-01 70.2% 100.0%
1790393 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.71 46.0 5.43e-01 70.2% 96.3%
4959432 1.1.7.9 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › tRNA-synt_2c 0.70 43.0 5.16e-01 70.2% 93.8%
4267752 1.1.7.11 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › RimM 0.70 48.0 5.30e-01 70.2% 94.7%
5079595 1.1.7.9 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › tRNA-synt_2c 0.69 47.0 5.24e-01 70.2% 87.4%
3596642 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.69 47.0 5.48e-01 72.7% 98.8%
4423739 1.1.7.11 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › RimM 0.69 50.0 5.58e-01 81.0% 95.8%
4619658 1.1.7.11 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › RimM 0.69 48.0 5.36e-01 71.9% 94.7%
4452870 1.1.7.11 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › RimM 0.69 47.0 5.36e-01 70.2% 97.8%
3516562 1.1.7.9 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › tRNA-synt_2c 0.68 48.0 4.53e-01 71.1% 69.3%
4319764 1.1.7.17 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.68 44.0 4.58e-01 70.2% 70.9%
4010630 2004.1.1.10 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ATP-synt_ab 0.68 45.0 3.08e-01 73.6% 19.1%
3800913 1.1.7.9 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › tRNA-synt_2c 0.67 47.0 4.52e-01 71.1% 71.9%
4262187 1.1.7.11 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › RimM 0.66 48.0 5.35e-01 76.9% 95.8%
4203993 1.1.7.11 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › RimM 0.66 49.0 5.46e-01 78.5% 98.9%
4399542 1.1.7.11 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › RimM 0.66 47.0 5.34e-01 76.9% 98.9%
3966626 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.65 46.0 5.22e-01 77.7% 97.8%
5012011 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.64 48.0 4.76e-01 77.7% 86.4%
3693412 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.64 47.0 4.79e-01 76.9% 97.5%
4230122 1.1.7.17 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.64 47.0 5.13e-01 95.9% 93.0%
4395520 1.1.7.11 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › RimM 0.64 46.0 5.08e-01 81.8% 94.7%
4020238 1.1.7.4 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › FAD_binding_1 0.64 47.0 4.37e-01 76.9% 92.7%
4061526 1.1.7.7 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › FAD_binding_6 0.62 43.0 4.68e-01 71.1% 98.0%
4944696 1.1.7.138 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › NAD_binding_1 0.62 44.0 4.75e-01 71.9% 97.0%
1281033 1.1.7.33 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › DUF4438 0.62 52.0 4.71e-01 88.4% 85.0%
3267872 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.61 53.0 5.17e-01 92.6% 90.8%
3945286 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.61 45.0 4.86e-01 77.7% 96.2%
4964649 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.61 42.0 4.85e-01 71.1% 100.0%
1146571 5092.1.1.8 ↗ beta sandwiches › Domain in virus attachment proteins › Domain in virus attachment proteins › Domain in virus attachment proteins › TAdV_Fibre-like_head 0.61 43.0 4.11e-01 73.6% 63.8%
5058103 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.58 30.0 3.82e-01 70.2% 86.8%
3575535 1.1.7.113 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › AAA_11, AAA_12 0.57 48.0 3.28e-01 94.2% 26.2%
3392702 4081.1.1.5 ↗ beta sandwiches › Baculovirus p35 protein-related › Baculovirus p35 protein-related › Baculovirus p35 protein-related › Peptidase_M1_N 0.57 37.0 3.10e-01 71.1% 36.3%
3267385 12.5.1.0 ↗ beta sandwiches › Glycosyl hydrolase domain-like › ZU5/Nup98-C/GAIN-B autoproteolytic domain-related › ZU5/Nup98-C/GAIN-B autoproteolytic domain-related 0.52 38.0 3.66e-01 82.6% 64.1%
2491354 4182.1.1.3 ↗ beta sandwiches › Agglutinin HPA-like › Agglutinin HPA-like › Agglutinin HPA-like › Gp53-like_C 0.52 33.0 3.60e-01 70.2% 79.2%
1558582 5092.1.1.6 ↗ beta sandwiches › Domain in virus attachment proteins › Domain in virus attachment proteins › Domain in virus attachment proteins › Fiber_head_BAdV-4 0.51 35.0 3.57e-01 71.1% 73.0%
4393967 12.1.1.21 ↗ beta sandwiches › Glycosyl hydrolase domain-like › Glycosyl hydrolase domain › Glycosyl hydrolase domain › Glyco_hydro_66 0.50 35.0 3.31e-01 70.2% 73.1%
D3 high residues 425-507
PDB
Domain cluster: rep: OQ632216.1__WGL32639.1__Arash_gp188__00188__D185-268
D4 high residues 847-942
PDB
D5 high residues 1130-1223
PDB
Domain cluster: rep: MW073017.1__QPB08539.1__X__00060__D1038-1127
CATH (14)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2xmjA00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.68 18.0 2.28e-01 84.0% 31.7%
2zdiB00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.63 50.0 4.83e-01 94.7% 74.5%
1fxkC00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.60 53.0 4.69e-01 95.7% 78.2%
2zdiC00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.59 52.0 4.49e-01 97.9% 77.0%
4mtnA01 3.30.1480.10 Alpha Beta › 2-Layer Sandwich › N Utilization Substance Protein A; Chain:P; domain 4 › NusA, N-terminal domain 0.58 27.0 2.77e-01 72.3% 44.2%
1qoyA00 1.20.1170.10 Mainly Alpha › Up-down Bundle › Hemolysin E; Chain: A; › 0.57 50.0 3.47e-01 95.7% 66.3%
4ejoA00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.55 44.0 4.17e-01 86.2% 84.8%
2e55A00 3.40.50.2020 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.54 27.0 2.11e-01 84.0% 19.2%
3l7wA00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.53 42.0 4.12e-01 87.2% 91.4%
2ek5B00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.53 39.0 3.80e-01 80.9% 83.5%
1fxkB00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.52 45.0 4.30e-01 97.9% 81.7%
4djhA01 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.51 44.0 3.12e-01 95.7% 40.4%
2z3tA00 1.10.630.10 Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450 0.50 42.0 2.82e-01 92.6% 68.8%
4y97D00 1.10.3200.20 Mainly Alpha › Orthogonal Bundle › Hypothetical protein af0941 › DNA Polymerase alpha, zinc finger 0.50 42.0 3.42e-01 91.5% 56.2%
ECOD (23)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3944436 3240.1.1.1 ↗ alpha arrays › Intramolecular chaperone domain in virus tail spike protein › Intramolecular chaperone domain in virus tail spike protein › Intramolecular chaperone domain in virus tail spike protein › Peptidase_S74 0.82 75.0 7.08e-01 97.9% 89.1%
3558274 4096.1.1.1 ↗ a+b two layers › NAP-like › NAP-like › NAP-like › NAP 0.78 40.0 2.76e-01 87.2% 16.0%
3684015 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.70 41.0 4.10e-01 97.9% 55.0%
3277618 605.1.1.0 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase 0.67 35.0 3.87e-01 94.7% 62.7%
3593736 192.7.1.0 ↗ alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm 0.64 40.0 3.99e-01 90.4% 60.0%
5070087 605.1.1.0 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase 0.63 41.0 4.35e-01 87.2% 74.1%
1511065 101.1.2.6 ↗ alpha arrays › HTH › HTH › winged helix domain › GntR 0.57 44.0 4.26e-01 84.0% 85.2%
3538512 3892.1.1.0 ↗ alpha bundles › Transhydrogeanse domain II › Transhydrogeanse domain II › Transhydrogeanse domain II 0.56 40.0 3.36e-01 74.5% 61.9%
3271984 7015.1.1.0 ↗ alpha bundles › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain 0.56 38.0 3.26e-01 88.3% 44.8%
3614292 7015.1.1.0 ↗ alpha bundles › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain 0.56 43.0 3.54e-01 81.9% 63.5%
3925968 109.4.1.162 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Nup192 0.56 52.0 2.86e-01 100.0% 7.2%
3976270 601.27.1.2 ↗ alpha bundles › Four-helical up-and-down bundle › MW0975(SA0943)-like › MW0975(SA0943)-like › DUF3053 0.55 49.0 4.00e-01 94.7% 92.7%
3380612 263.1.1.1 ↗ a+b three layers › SRF-like › SRF-like › SRF-like › SRF-TF 0.55 46.0 3.98e-01 88.3% 59.3%
3431346 2003.1.1.51 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › DFP 0.54 38.0 2.71e-01 74.5% 86.3%
4996949 101.1.2.26 ↗ alpha arrays › HTH › HTH › winged helix domain › HxlR 0.53 40.0 4.34e-01 85.1% 92.5%
4251053 4106.1.1.1 ↗ few secondary structure elements › Zinc hairpin stack › Zinc hairpin stack › Zinc hairpin stack › DHHC 0.53 48.0 3.48e-01 100.0% 45.1%
3775826 4016.1.1.0 ↗ alpha bundles › alpha-helical domain in type II DNA topoisomerase › alpha-helical domain in type II DNA topoisomerase › alpha-helical domain in type II DNA topoisomerase 0.53 44.0 3.78e-01 90.4% 89.0%
4954786 605.1.1.0 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase 0.52 38.0 4.03e-01 92.6% 85.9%
3498627 7015.1.1.1 ↗ alpha bundles › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain › DHHC 0.52 47.0 3.42e-01 100.0% 42.4%
3717247 4106.1.1.1 ↗ few secondary structure elements › Zinc hairpin stack › Zinc hairpin stack › Zinc hairpin stack › DHHC 0.52 47.0 3.56e-01 100.0% 46.8%
3684974 304.48.1.0 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like 0.51 42.0 2.58e-01 92.6% 40.2%
4929718 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.51 40.0 3.92e-01 87.2% 83.8%
4120498 4015.1.1.1 ↗ alpha complex topology › alpha-helical domain in sec1/munc18-like (SM) proteins › alpha-helical domain in sec1/munc18-like (SM) proteins › alpha-helical domain in sec1/munc18-like (SM) proteins › Sec1 0.50 41.0 3.12e-01 97.9% 38.1%
D6 medium residues 638-730
PDB
D7 medium residues 1063-1113
PDB