Back to structures

ON014753.1__UQS94849.1__Pam1_29__00029

Bact-Vir

ON014753.1__UQS94849.1__Pam1_29__00029

Identity

Accession:
ON014753 ↗
Kingdom:
phage

Quality

79.7 mean pLDDT

Cluster

Singleton — not in a non-trivial cluster

3D Structure

Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 4-64
PDB
Domain cluster: representative
CATH (19)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2qvwA04 1.10.1520.10 Mainly Alpha › Orthogonal Bundle › Ribonuclease iii, N-terminal Endonuclease Domain; Chain A › Ribonuclease III domain 0.76 60.0 4.50e-01 85.2% 58.6%
3rv0C02 1.10.1520.10 Mainly Alpha › Orthogonal Bundle › Ribonuclease iii, N-terminal Endonuclease Domain; Chain A › Ribonuclease III domain 0.70 57.0 4.34e-01 90.2% 65.3%
3hruB01 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 0.69 56.0 4.48e-01 91.8% 59.2%
1ihuA01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.68 51.0 3.48e-01 83.6% 24.9%
2iw3A02 1.20.1390.20 Mainly Alpha › Up-down Bundle › PWI domain › 0.65 48.0 4.24e-01 78.7% 95.6%
4nlbA02 1.10.150.80 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › HRDC domain 0.65 52.0 4.50e-01 86.9% 85.1%
4zqeA03 1.10.1740.10 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif 0.65 51.0 4.38e-01 85.2% 66.7%
3safA02 1.10.150.80 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › HRDC domain 0.64 51.0 4.35e-01 86.9% 79.0%
6opmD01 1.20.120.920 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › CRISPR-associated endonuclease Cas1, C-terminal domain 0.64 53.0 3.55e-01 91.8% 39.1%
2q0yA01 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.63 49.0 3.79e-01 85.2% 40.6%
1okcA00 1.50.40.10 Mainly Alpha › Alpha/alpha barrel › Mitochondrial carrier fold › Mitochondrial carrier domain 0.62 51.0 3.41e-01 100.0% 21.9%
3teqB00 1.10.287.3550 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.61 41.0 3.57e-01 70.5% 43.6%
5u4nA00 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.61 43.0 2.73e-01 77.0% 85.1%
1gvfB00 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.60 42.0 2.81e-01 77.0% 89.1%
1p32B00 3.10.280.10 Alpha Beta › Roll › Mitochondrial Matrix Protein; Chain A › Mitochondrial glycoprotein 0.58 44.0 3.23e-01 82.0% 71.9%
1ailA00 1.10.287.10 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › S15/NS1, RNA-binding 0.57 44.0 4.26e-01 83.6% 91.4%
2vk9A04 1.10.274.80 Mainly Alpha › Orthogonal Bundle › Enzyme I; Chain A, domain 2 › 0.54 43.0 3.63e-01 86.9% 94.2%
4huqS00 1.10.1760.20 Mainly Alpha › Orthogonal Bundle › Arp2/3 complex 21 kDa subunit ARPC3 › 0.53 45.0 3.40e-01 100.0% 40.2%
2gslF00 1.10.1520.10 Mainly Alpha › Orthogonal Bundle › Ribonuclease iii, N-terminal Endonuclease Domain; Chain A › Ribonuclease III domain 0.51 41.0 3.42e-01 98.4% 67.7%
ECOD (20)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3487879 5063.1.1.0 alpha bundles › Photosystem I reaction center subunit X, PsaK › Photosystem I reaction center subunit X, PsaK › Photosystem I reaction center subunit X, PsaK 0.79 54.0 4.84e-01 72.1% 58.8%
3347379 3470.1.1.26 extended segments › Glycophorin-A transmembrane domain › Glycophorin-A transmembrane domain › Glycophorin-A transmembrane domain › DUF543 0.76 53.0 5.19e-01 72.1% 70.8%
3209368 148.1.3.0 alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.75 51.0 3.10e-01 70.5% 51.2%
3285244 5063.1.1.19 alpha bundles › Photosystem I reaction center subunit X, PsaK › Photosystem I reaction center subunit X, PsaK › Photosystem I reaction center subunit X, PsaK › DUF2277 0.73 50.0 5.66e-01 70.5% 100.0%
4947351 601.33.1.0 alpha bundles › Four-helical up-and-down bundle › CHAD domain › CHAD domain 0.72 51.0 3.67e-01 75.4% 28.0%
4648753 605.1.1.278 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › Attractin 0.70 48.0 4.92e-01 72.1% 73.3%
3379763 190.1.1.1 alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box 0.69 54.0 5.08e-01 90.2% 75.0%
4504853 547.1.1.0 alpha duplicates or obligate multimers › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain 0.68 52.0 4.43e-01 83.6% 72.0%
3392767 190.1.1.0 alpha arrays › HMG-box-like › HMG-box › HMG-box 0.65 46.0 4.97e-01 80.3% 97.9%
4431704 152.1.2.1 alpha arrays › RPB6/omega subunit-like › RPB6/omega subunit-like › RNA polymerase omega subunit › RNA_pol_Rpb6 0.64 47.0 4.55e-01 78.7% 75.7%
3597291 103.9.1.0 alpha arrays › RuvA-C › RanGAP2 N-terminal domain › RanGAP2 N-terminal domain 0.63 51.0 4.64e-01 93.4% 87.1%
3724273 148.1.3.0 alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.63 43.0 3.89e-01 72.1% 55.3%
3242033 198.1.1.0 alpha arrays › Saposin-like › Saposin-like › Saposin-like 0.62 46.0 3.97e-01 82.0% 57.0%
4239731 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 0.61 46.0 3.71e-01 82.0% 70.8%
3320952 2006.1.4.33 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › Tim17 0.58 52.0 3.98e-01 100.0% 83.0%
3613914 3922.1.1.0 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 0.56 39.0 3.63e-01 72.1% 90.7%
3673248 5086.1.1.0 alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins 0.56 45.0 4.14e-01 100.0% 68.8%
5036323 5059.1.1.1 alpha bundles › Drug/Metabolite transporter › Drug/Metabolite transporter › Drug/Metabolite transporter › EamA 0.55 49.0 4.10e-01 100.0% 99.0%
4519029 2498.1.1.10 mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › Peptidase_M48 0.54 47.0 3.08e-01 100.0% 21.4%
3597496 192.4.1.0 alpha bundles › Long alpha-hairpin › Ribosomal protein L29 (L29p) › Ribosomal protein L29 (L29p) 0.51 41.0 3.03e-01 95.1% 74.1%
D2 high residues 68-134
PDB
Domain cluster: representative
CATH (29)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3lomA00 1.10.600.10 Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase 0.73 50.0 3.20e-01 100.0% 16.3%
3vm9A02 6.10.140.2110 Special › Helix non-globular › Helix Hairpins › 0.71 49.0 5.21e-01 100.0% 84.2%
2vixA03 1.20.1280.240 Mainly Alpha › Up-down Bundle › Monooxygenase › 0.70 46.0 3.82e-01 98.5% 39.8%
2wg7A00 1.20.90.10 Mainly Alpha › Up-down Bundle › Phospholipase A2 › Phospholipase A2 domain 0.67 47.0 3.90e-01 98.5% 41.3%
3rgoA00 3.90.190.10 Alpha Beta › Alpha-Beta Complex › Protein-Tyrosine Phosphatase; Chain A › Protein tyrosine phosphatase superfamily 0.65 40.0 3.00e-01 98.5% 26.8%
7xrxB01 1.20.1420.20 Mainly Alpha › Up-down Bundle › A middle domain of Talin 1 › M75 peptidase, HXXE motif 0.64 55.0 3.45e-01 98.5% 37.8%
2dodA00 1.10.10.440 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › FF domain 0.64 44.0 4.12e-01 98.5% 58.5%
2kiwA01 1.10.150.130 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Tyrosine recombinase, N-terminal domain 0.63 40.0 3.69e-01 95.5% 50.0%
1br2A03 1.20.120.720 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Myosin VI head, motor domain, U50 subdomain 0.61 55.0 4.87e-01 100.0% 87.4%
2jqqA00 1.20.58.1240 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.60 42.0 3.22e-01 73.1% 32.5%
3p5pA03 1.10.600.10 Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase 0.60 51.0 3.25e-01 100.0% 20.3%
1inpA02 3.30.540.10 Alpha Beta › 2-Layer Sandwich › Fructose-1,6-Bisphosphatase; Chain A, domain 1 › Fructose-1,6-Bisphosphatase, subunit A, domain 1 0.58 48.0 3.51e-01 94.0% 33.2%
7fbhB01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.58 37.0 2.58e-01 82.1% 18.5%
1t11A02 1.10.3120.10 Mainly Alpha › Orthogonal Bundle › Trigger factor, domain 2 › Trigger factor, C-terminal domain 0.57 48.0 3.65e-01 95.5% 54.8%
7xhlD02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.57 46.0 3.12e-01 95.5% 77.9%
4cbeA00 1.20.120.1640 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.57 50.0 3.55e-01 100.0% 57.9%
3e9lA02 1.20.80.40 Mainly Alpha › Up-down Bundle › Acyl-CoA Binding Protein › Prp8 RNase H domain, fingers region 0.56 41.0 3.74e-01 79.1% 60.0%
3ikmA02 3.30.420.390 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › 0.56 46.0 3.23e-01 97.0% 86.6%
4xviA01 1.10.150.20 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › 5' to 3' exonuclease, C-terminal subdomain 0.55 37.0 2.83e-01 100.0% 31.9%
1yhlA00 1.10.600.10 Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase 0.55 46.0 2.99e-01 100.0% 63.5%
3rcyB01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.54 35.0 2.81e-01 70.1% 31.2%
5tcdA01 3.40.720.10 Alpha Beta › 3-Layer(aba) Sandwich › Alkaline Phosphatase, subunit A › Alkaline Phosphatase, subunit A 0.54 44.0 2.98e-01 92.5% 72.2%
1aukA01 3.40.720.10 Alpha Beta › 3-Layer(aba) Sandwich › Alkaline Phosphatase, subunit A › Alkaline Phosphatase, subunit A 0.54 45.0 2.82e-01 92.5% 51.3%
1x3aA00 1.10.3970.10 Mainly Alpha › Orthogonal Bundle › BSD domain-like fold › BSD domain 0.53 44.0 3.97e-01 95.5% 89.0%
3veaA01 1.20.1270.380 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › MatP, N-terminal domain 0.53 45.0 4.18e-01 100.0% 89.9%
1rsgA01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.52 45.0 3.15e-01 100.0% 98.8%
5lewA03 1.10.10.1600 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Bacterial DNA polymerase III alpha subunit, thumb domain 0.52 35.0 3.41e-01 95.5% 64.4%
4mndA02 1.20.120.1760 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › CDP-alcohol phosphotransferase transmembrane (TM) domain 0.51 44.0 3.26e-01 100.0% 38.2%
6ruiB04 3.90.1110.10 Alpha Beta › Alpha-Beta Complex › Dna-directed Rna Polymerase Ii 140kd Polypeptide; Chain: B; domain 3 › RNA polymerase Rpb2, domain 2 0.50 45.0 3.28e-01 98.5% 72.5%
ECOD (29)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4597217 1050.1.1.0 alpha arrays › BID domain of Bartonella effector protein (Bep) › BID domain of Bartonella effector protein (Bep) › BID domain of Bartonella effector protein (Bep) 0.74 62.0 5.00e-01 100.0% 48.8%
5039732 604.12.1.0 alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.68 47.0 3.95e-01 73.1% 46.0%
3285443 5051.1.1.9 alpha complex topology › Sodium:neurotransmitter symporter family (SNF)-like › Sodium:neurotransmitter symporter family (SNF)-like › Sodium:neurotransmitter symporter family (SNF)-like › Transp_cyt_pur 0.64 53.0 3.22e-01 98.5% 13.5%
3192264 7076.1.1.0 0.63 52.0 4.49e-01 89.6% 93.0%
3901573 604.12.1.97 alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › PMP22_Claudin 0.61 46.0 3.85e-01 92.5% 48.2%
4958930 5041.1.1.0 extended segments › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C 0.61 55.0 4.40e-01 100.0% 53.1%
3584903 633.21.1.0 alpha bundles › Bromodomain-like › Uncharacterized protein PA2107 › Uncharacterized protein PA2107 0.60 47.0 3.60e-01 85.1% 39.4%
4983940 5059.1.1.1 alpha bundles › Drug/Metabolite transporter › Drug/Metabolite transporter › Drug/Metabolite transporter › EamA 0.59 38.0 3.04e-01 85.1% 32.6%
3182290 174.1.1.4 few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › DUF4267 0.59 52.0 4.17e-01 98.5% 50.0%
3799135 633.15.1.0 alpha bundles › Bromodomain-like › alpha-ketoacid dehydrogenase kinase-N › alpha-ketoacid dehydrogenase kinase-N 0.59 45.0 3.52e-01 83.6% 42.7%
3600118 4044.1.1.0 alpha bundles › Helical bundle domain in prismane-like proteins › Helical bundle domain in prismane-like proteins › Helical bundle domain in prismane-like proteins 0.59 48.0 4.26e-01 88.1% 77.9%
3487911 3954.1.1.0 alpha arrays › Phosphodiesterase 4 upstream conserved regions (UCR) › Phosphodiesterase 4 upstream conserved regions (UCR) › Phosphodiesterase 4 upstream conserved regions (UCR) 0.59 44.0 2.82e-01 100.0% 16.6%
3756635 109.4.1.839 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Maestro_HEAT 0.59 40.0 2.67e-01 82.1% 17.7%
3612038 5081.1.1.0 alpha bundles › Rhomboid-like › Rhomboid-like › Rhomboid-like 0.58 51.0 3.59e-01 100.0% 38.2%
3622037 3919.1.1.0 alpha duplicates or obligate multimers › N-terminal domain of COMMD9 › N-terminal domain of COMMD9 › N-terminal domain of COMMD9 0.58 42.0 3.52e-01 100.0% 44.3%
4068379 306.7.1.1 a+b two layers › Glucose permease domain IIB-like › Trigger factor ribosome-binding domain › Trigger factor ribosome-binding domain › Trigger_N 0.58 51.0 4.20e-01 100.0% 66.4%
2860175 1200.1.1.1 alpha bundles › Type IX secretion system component GldM helical domain › Type IX secretion system component GldM helical domain › Type IX secretion system component GldM helical domain › GldM_1st 0.58 50.0 3.64e-01 97.0% 72.9%
3288902 232.1.1.3 a+b duplicates or obligate multimers › Pentein › Pentein › Pentein › PAD 0.57 47.0 2.92e-01 89.6% 18.1%
4068922 622.4.1.0 alpha bundles › YvfG-like › Mite allergen Der p 5-related › Mite allergen Der p 5-related 0.57 47.0 4.08e-01 92.5% 61.9%
3630811 109.4.1.403 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Foie-gras_1 0.56 50.0 3.33e-01 98.5% 34.9%
4961944 192.15.1.225 alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains › DUF4212 0.56 49.0 4.39e-01 100.0% 73.7%
3692248 109.4.1.120 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Kinetochor_Ybp2 0.55 42.0 2.66e-01 79.1% 25.0%
3442938 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.54 43.0 2.76e-01 95.5% 17.1%
5038938 218.2.1.1 a+b two layers › Enolase-N/ribosomal protein › Ribosomal protein L22 › Ribosomal protein L22 › Ribosomal_L22 0.54 46.0 3.54e-01 92.5% 44.1%
5055654 218.2.1.1 a+b two layers › Enolase-N/ribosomal protein › Ribosomal protein L22 › Ribosomal protein L22 › Ribosomal_L22 0.53 45.0 3.52e-01 94.0% 44.1%
56808 620.1.1.0 alpha bundles › YfiT-like putative metal-dependent hydrolases › YfiT-like putative metal-dependent hydrolases › YfiT-like putative metal-dependent hydrolases 0.52 45.0 3.38e-01 97.0% 96.6%
3646978 261.1.1.1 a+b complex topology › Hect, E3 ligase catalytic domain › Hect, E3 ligase catalytic domain › Hect, E3 ligase catalytic domain › HECT 0.51 41.0 2.35e-01 98.5% 10.5%
3486085 604.1.1.0 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.51 46.0 3.78e-01 100.0% 57.5%
5009772 2484.1.1.302 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Cas12f1-like_TNB 0.50 44.0 3.11e-01 100.0% 34.5%