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GU580943.1__ADD81116.1__ReqiPine5gene11__00011

Bact-Vir

GU580943.1__ADD81116.1__ReqiPine5gene11__00011

Identity

Accession:
GU580943 ↗
Kingdom:
phage

Quality

75.3 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Reqipinevirus› Rhodococcus_phage_ReqiPine5

TaxID: 691963

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 569-673
PDB
Domain cluster: rep: MT771343.1__QOC56015.1__SEA_CLOWN_17__00017__D5-109
CATH (5)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4s3mB02 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 0.67 44.0 4.39e-01 83.8% 65.1%
2i10B02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.55 49.0 4.64e-01 99.0% 88.0%
3u1nB01 1.10.3210.10 Mainly Alpha › Orthogonal Bundle › Hypothetical protein af1432 › Hypothetical protein af1432 0.53 43.0 3.11e-01 88.6% 54.3%
1vzoA02 1.10.510.10 Mainly Alpha › Orthogonal Bundle › Transferase(Phosphotransferase); domain 1 › Transferase(Phosphotransferase) domain 1 0.53 40.0 3.25e-01 81.9% 76.0%
2yskA00 1.10.490.110 Mainly Alpha › Orthogonal Bundle › Globin-like › Uncharacterized conserved protein DUF2267 0.50 41.0 3.73e-01 90.5% 65.3%
ECOD (12)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3255303 1075.1.1.1 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › ABCG5/ABCG8 transmembrane domain › ABC2_membrane 0.59 52.0 3.95e-01 100.0% 60.0%
3542784 5079.1.1.1 ↗ alpha duplicates or obligate multimers › Magnesium transporter MgtE membrane domain › Magnesium transporter MgtE membrane domain › Magnesium transporter MgtE membrane domain › MgtE 0.59 53.0 4.13e-01 100.0% 69.8%
4979261 5079.1.1.1 ↗ alpha duplicates or obligate multimers › Magnesium transporter MgtE membrane domain › Magnesium transporter MgtE membrane domain › Magnesium transporter MgtE membrane domain › MgtE 0.58 52.0 4.36e-01 100.0% 86.3%
3286008 5050.1.1.52 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › CNNM 0.57 47.0 4.09e-01 90.5% 77.6%
3259377 621.1.1.0 ↗ alpha bundles › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain 0.56 42.0 4.41e-01 88.6% 89.5%
4493711 603.1.1.62 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins › CNNM 0.56 46.0 4.01e-01 90.5% 77.6%
3984147 1075.1.2.13 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › MacB transmembrane domain › CNNM 0.54 45.0 4.10e-01 91.4% 78.6%
4996675 1075.1.2.1 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › MacB transmembrane domain › FtsX 0.53 43.0 3.57e-01 88.6% 58.5%
4994397 3651.1.1.1 ↗ alpha bundles › Translation initiation factor eIF-2B delta subunit N-terminal helical domain › Translation initiation factor eIF-2B delta subunit N-terminal helical domain › Translation initiation factor eIF-2B delta subunit N-terminal helical domain › IF-2B 0.52 41.0 4.00e-01 95.2% 75.0%
5063326 131.1.1.15 ↗ alpha complex topology › PDEase-like › HD-domain/PDEase-like › HD-domain/PDEase-like › Ppx-GppA_III 0.52 40.0 3.35e-01 84.8% 85.2%
4655609 5060.1.1.1 ↗ alpha bundles › V-type ATP synthase subunit C › V-type ATP synthase subunit C › V-type ATP synthase subunit C › vATP-synt_AC39 0.52 38.0 3.41e-01 79.0% 76.8%
4076972 5069.1.1.28 ↗ alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Transmembrane di-heme cytochromes › DmsC 0.51 41.0 3.49e-01 89.5% 95.1%
D2 medium residues 1-24_139-195
PDB
Domain cluster: representative
CATH (9)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2re3A02 2.30.270.10 Mainly Beta › Roll › duf1285 protein fold › duf1285 protein 0.54 38.0 4.06e-01 85.2% 84.3%
7oiyA01 3.90.70.130 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › 0.53 46.0 3.37e-01 100.0% 63.0%
2jraA01 2.10.70.10 Mainly Beta › Ribbon › Complement Module; domain 1 › Complement Module, domain 1 0.53 27.0 3.53e-01 79.0% 92.9%
2k57A00 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.53 32.0 3.69e-01 84.0% 87.3%
2ldmA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.52 33.0 3.82e-01 84.0% 98.1%
2d9uA00 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.51 34.0 3.57e-01 70.4% 85.1%
4ok4A02 2.70.98.70 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › 0.51 38.0 2.55e-01 82.7% 82.5%
1fx7B03 2.30.30.90 Mainly Beta › Roll › SH3 type barrels. › Ferrous iron transport protein A (FeoA) 0.50 39.0 3.99e-01 86.4% 100.0%
3mcaB01 2.30.30.870 Mainly Beta › Roll › SH3 type barrels. › Pelota, domain A 0.50 42.0 4.08e-01 100.0% 87.5%
ECOD (15)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
None — 0.59 51.0 3.63e-01 100.0% 83.3%
4185536 101.8.1.4 ↗ alpha arrays › HTH › An anticodon-binding domain of class I aminoacyl-tRNA synthetases › An anticodon-binding domain of class I aminoacyl-tRNA synthetases › tRNA-synt_1f 0.59 51.0 3.18e-01 100.0% 44.1%
3263031 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.58 43.0 4.71e-01 85.2% 100.0%
3918252 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.56 31.0 3.89e-01 70.4% 100.0%
4120629 4.1.1.97 ↗ beta barrels › SH3 › SH3 › SH3 › DUF150_C 0.56 44.0 4.52e-01 87.7% 96.0%
3486271 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.55 39.0 3.83e-01 86.4% 67.8%
4049910 375.14.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-like domain in leucyl-tRNA synthetase (LS1) › Rubredoxin-like domain in leucyl-tRNA synthetase (LS1) 0.53 31.0 3.73e-01 76.5% 100.0%
1556157 6029.1.1.1 ↗ beta meanders › Hemin uptake protein hemP › Hemin uptake protein hemP › Hemin uptake protein hemP › hemP 0.53 27.0 3.44e-01 79.0% 88.1%
4091771 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.52 37.0 4.17e-01 81.5% 98.3%
3408556 4.1.1.9 ↗ beta barrels › SH3 › SH3 › SH3 › TUDOR 0.52 36.0 3.37e-01 86.4% 54.5%
3974596 243.3.1.0 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.52 33.0 3.83e-01 74.1% 94.5%
3917372 4.1.1.101 ↗ beta barrels › SH3 › SH3 › SH3 › Tudor_2 0.52 38.0 3.94e-01 85.2% 84.0%
3470536 239.3.1.0 ↗ beta barrels › Ribosomal protein L25-like › FAS1 domain › FAS1 domain 0.51 39.0 3.37e-01 84.0% 76.3%
4204975 12.3.1.14 ↗ beta sandwiches › Glycosyl hydrolase domain-like › supersandwich › supersandwich › Hepar_II_III 0.51 37.0 2.49e-01 79.0% 76.3%
184803 6029.1.1.1 ↗ beta meanders › Hemin uptake protein hemP › Hemin uptake protein hemP › Hemin uptake protein hemP › hemP 0.51 28.0 3.12e-01 70.4% 68.3%
D3 medium residues 25-116_196-215_328-406
PDB
Domain cluster: rep: JQ312117.1__AFH19810.1__7-7-1_000113__00112__D28-125_313-371
CATH (2)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
7neaA01 3.30.470.10 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › Aminotransferase class 4, branched-chain amino acid transferase, N-terminal domain 0.52 25.0 3.01e-01 85.9% 66.1%
1lkxC03 1.20.120.720 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Myosin VI head, motor domain, U50 subdomain 0.51 23.0 2.87e-01 79.6% 65.4%
ECOD (7)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5039294 4038.1.1.1 ↗ alpha bundles › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Phage_portal 0.72 66.0 5.72e-01 96.9% 87.9%
4676609 4038.1.1.10 ↗ alpha bundles › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Portal_Mu 0.71 67.0 5.62e-01 100.0% 82.0%
3964357 4038.1.1.1 ↗ alpha bundles › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Phage_portal 0.70 66.0 5.64e-01 100.0% 86.9%
3943006 4038.1.1.1 ↗ alpha bundles › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Phage_portal 0.69 66.0 5.61e-01 100.0% 90.0%
4410228 4038.1.1.1 ↗ alpha bundles › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Phage_portal 0.69 65.0 5.67e-01 100.0% 90.2%
5082483 4038.1.1.1 ↗ alpha bundles › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Phage_portal 0.64 59.0 5.94e-01 96.3% 100.0%
3296120 3922.1.1.126 ↗ alpha bundles › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 › XH 0.50 24.0 3.11e-01 83.2% 81.0%
D4 medium residues 216-238_260-327
PDB
Domain cluster: representative
CATH (3)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
7um4A01 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.56 44.0 3.26e-01 85.7% 80.1%
1mwwB00 3.30.429.10 Alpha Beta › 2-Layer Sandwich › Macrophage Migration Inhibitory Factor › Macrophage Migration Inhibitory Factor 0.56 35.0 3.24e-01 72.5% 49.2%
1h65B00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.51 41.0 2.99e-01 87.9% 38.7%
ECOD (2)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3947685 4038.1.1.1 ↗ alpha bundles › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Phage_portal 0.53 44.0 3.41e-01 100.0% 38.2%
5011606 2484.1.1.124 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › OrfB_IS605 0.50 37.0 3.00e-01 100.0% 39.3%
D5 medium residues 407-466
PDB
Domain cluster: representative
CATH (8)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4ezeB00 3.40.50.1000 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HAD superfamily/HAD-like 0.64 52.0 3.37e-01 90.0% 56.1%
5vyoD00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.59 45.0 3.18e-01 83.3% 27.7%
4m7oA01 3.40.50.1980 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Nitrogenase molybdenum iron protein domain 0.56 43.0 3.58e-01 90.0% 95.2%
4ci1B03 1.20.58.1480 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.53 37.0 3.66e-01 76.7% 68.1%
7toiA01 3.40.50.1110 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › SGNH hydrolase 0.53 42.0 2.95e-01 90.0% 78.6%
3fnbA01 1.20.1440.110 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › acylaminoacyl peptidase 0.51 40.0 3.22e-01 85.0% 52.6%
3n2oA03 1.20.58.930 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.51 37.0 3.20e-01 78.3% 89.6%
1b8aA02 3.30.930.10 Alpha Beta › 2-Layer Sandwich › BirA Bifunctional Protein; domain 2 › Bira Bifunctional Protein; Domain 2 0.50 38.0 2.39e-01 81.7% 40.8%
ECOD (2)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4944936 101.35.1.0 ↗ alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX 0.67 42.0 4.03e-01 80.0% 55.7%
3499792 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.56 49.0 3.26e-01 100.0% 34.0%