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AY954948.1__AAX90632.1__X__00014

Bact-Vir

AY954948.1__AAX90632.1__X__00014

Identity

Accession:
AY954948 ↗
Kingdom:
phage

Quality

92.3 mean pLDDT

Taxonomy

TaxID: 320831

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 14-206
PDB
CATH (18)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3rrkA03 3.30.70.2750 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.70 29.0 4.59e-01 76.2% 100.0%
2atzA00 3.90.920.20 Alpha Beta › Alpha-Beta Complex › DNA primase, PRIM domain › HP0184-like 0.66 54.0 5.72e-01 90.7% 93.8%
3o1lB01 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.64 31.0 4.48e-01 70.5% 100.0%
2cg4A02 3.30.70.920 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Lrp/AsnC effector binding domain/regulation of amino acid metabolism (RAM) domain 0.63 29.0 4.22e-01 71.5% 98.8%
2dbbA02 3.30.70.920 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Lrp/AsnC effector binding domain/regulation of amino acid metabolism (RAM) domain 0.63 31.0 4.31e-01 73.6% 96.8%
2lqjA00 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.61 31.0 4.26e-01 72.0% 97.9%
2ab5B01 3.10.28.10 Alpha Beta › Roll › Endonuclease I-creI › Homing endonucleases 0.60 27.0 3.24e-01 78.2% 60.2%
1gh8A00 3.30.70.60 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S6/Translation elongation factor EF1B 0.60 29.0 4.08e-01 72.0% 96.6%
2lfvA00 3.30.70.1070 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Sporulation related repeat 0.59 31.0 4.00e-01 79.8% 90.6%
2qswA00 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.59 29.0 4.06e-01 76.7% 100.0%
1f08B00 3.40.1310.10 Alpha Beta › 3-Layer(aba) Sandwich › Replication Protein E1; Chain: A, › 0.58 38.0 4.36e-01 86.5% 88.3%
7csxA02 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.57 24.0 3.66e-01 79.3% 100.0%
2mkcA00 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.57 33.0 4.04e-01 87.0% 90.7%
1r9wA00 3.40.1310.10 Alpha Beta › 3-Layer(aba) Sandwich › Replication Protein E1; Chain: A, › 0.56 36.0 4.20e-01 87.6% 89.1%
4bbyA05 3.30.300.330 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › 0.55 32.0 4.12e-01 75.1% 100.0%
3bs9A00 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.55 25.0 3.59e-01 70.5% 100.0%
4qmfB01 3.30.1370.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › K Homology domain, type 1 0.54 25.0 3.61e-01 73.6% 100.0%
1pbuA00 3.30.70.1010 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Translation elongation factor EF1B, gamma chain, conserved domain 0.51 38.0 4.12e-01 81.3% 92.6%
ECOD (25)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4031372 862.1.1.12 a+b complex topology › Prim-pol domain › Prim-pol domain › Prim-pol domain › PF29905 0.86 84.0 8.33e-01 100.0% 98.0%
3587269 862.1.1.0 a+b complex topology › Prim-pol domain › Prim-pol domain › Prim-pol domain 0.76 70.0 7.02e-01 95.9% 97.9%
2721360 862.1.1.0 a+b complex topology › Prim-pol domain › Prim-pol domain › Prim-pol domain 0.71 60.0 6.12e-01 97.4% 91.4%
2038566 304.8.1.22 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › AHAS-like_ACT 0.66 29.0 4.34e-01 80.3% 96.4%
3388014 304.8.1.2 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ACT 0.65 29.0 4.31e-01 72.0% 98.8%
4483977 304.28.1.0 a+b two layers › Alpha-beta plaits › Ferredoxin domains in multidrug efflux transporter › Multidrug efflux transporter AcrB pore domain 0.65 34.0 4.64e-01 70.5% 98.0%
4060463 304.4.1.1 a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › AsnC_trans_reg 0.64 32.0 4.33e-01 72.5% 95.7%
4954911 304.8.1.2 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ACT 0.63 29.0 4.25e-01 70.5% 97.6%
5004030 304.8.1.0 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.63 33.0 4.48e-01 80.3% 100.0%
4519027 304.162.1.1 a+b two layers › Alpha-beta plaits › Competence or damage-inducible protein CinA middle domain › Competence or damage-inducible protein CinA middle domain › CinA_KH 0.62 29.0 4.17e-01 72.5% 98.8%
4565255 304.8.1.5 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › NIL 0.61 30.0 4.20e-01 79.8% 100.0%
4599086 304.8.1.0 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.60 29.0 4.10e-01 70.5% 96.6%
3598810 862.1.1.0 a+b complex topology › Prim-pol domain › Prim-pol domain › Prim-pol domain 0.59 45.0 4.70e-01 82.4% 84.4%
2791434 304.55.1.10 a+b two layers › Alpha-beta plaits › Origin of replication-binding domains › Origin of replication-binding domains › PPV_E1_DBD 0.58 40.0 4.40e-01 87.6% 86.8%
3421851 304.8.1.2 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ACT 0.57 35.0 4.29e-01 78.8% 95.2%
4656995 304.9.1.71 a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › SNU71_RBD 0.57 35.0 4.16e-01 87.0% 90.0%
3598586 304.9.1.1 a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RRM_1 0.56 28.0 3.30e-01 73.1% 66.2%
5112 304.55.1.10 a+b two layers › Alpha-beta plaits › Origin of replication-binding domains › Origin of replication-binding domains › PPV_E1_DBD 0.56 36.0 4.20e-01 87.6% 89.1%
4988829 304.110.1.1 a+b two layers › Alpha-beta plaits › Acylphosphatase-like › Acylphosphatase-like › Acylphosphatase 0.56 30.0 3.83e-01 81.3% 89.1%
4959045 304.8.1.81 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › REP_ORF2-G2P 0.55 38.0 4.28e-01 80.8% 89.3%
3596072 304.9.1.0 a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.55 33.0 3.83e-01 81.9% 83.7%
3930134 390.1.1.1 few secondary structure elements › Hairpin loop containing domain-like › Hairpin loop containing domain-like › Hairpin loop containing domain-like › PAN_1 0.55 26.0 3.58e-01 77.7% 89.5%
3596967 304.46.1.0 a+b two layers › Alpha-beta plaits › eEF1-gamma domain › eEF1-gamma domain 0.54 40.0 4.35e-01 81.9% 92.4%
5053714 304.8.1.0 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.50 34.0 3.95e-01 79.8% 97.0%
5032935 304.8.1.112 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › MazE_antitoxin 0.50 32.0 3.73e-01 72.5% 90.4%
D2 high residues 218-288
PDB
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF08708.17 best PriCT_1 45.3 7.50e-12 93.0% 89.5%
CATH (36)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4fcyA01 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.75 50.0 4.88e-01 78.9% 62.8%
3ztaA00 1.10.490.130 Mainly Alpha › Orthogonal Bundle › Globin-like › 0.70 54.0 4.36e-01 83.1% 46.8%
3rmqA02 6.10.140.1650 Special › Helix non-globular › Helix Hairpins › 0.70 41.0 4.62e-01 70.4% 75.0%
3h20A04 1.10.1240.50 Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › 0.70 61.0 5.66e-01 97.2% 79.8%
1a41A02 1.20.120.380 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Type 1-topoisomerase catalytic fragment, domain 2 0.69 52.0 4.82e-01 83.1% 67.0%
1wgwA00 1.20.120.140 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › SRP54, nucleotide-binding domain 0.68 48.0 4.27e-01 73.2% 57.6%
2a0uB01 1.20.120.420 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › translation initiation factor eif-2b, domain 1 0.67 58.0 4.55e-01 100.0% 71.9%
3ne5B04 6.10.140.730 Special › Helix non-globular › Helix Hairpins › 0.65 43.0 4.87e-01 78.9% 94.1%
7eptR01 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.64 48.0 3.24e-01 78.9% 42.5%
1u84A00 1.10.340.20 Mainly Alpha › Orthogonal Bundle › Endonuclease III; domain 1 › Apc36109-like domain 0.63 48.0 4.66e-01 83.1% 76.5%
2rdcA00 1.10.287.800 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › protein ne1242 0.62 42.0 3.47e-01 70.4% 81.2%
1o82A00 1.20.225.10 Mainly Alpha › Up-down Bundle › Bacteriocin As-48; Chain A › Bacteriocin AS-48 0.61 43.0 4.38e-01 80.3% 75.7%
3rssA02 3.40.1190.20 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Ribokinase 0.61 42.0 2.80e-01 71.8% 85.2%
4c9bB00 1.25.40.180 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.61 51.0 3.50e-01 98.6% 32.1%
4hhxA00 1.20.81.30 Mainly Alpha › Up-down Bundle › Receptor-associated Protein › Type II secretion system (T2SS), domain F 0.60 45.0 4.05e-01 81.7% 81.7%
2q0iA00 3.60.15.10 Alpha Beta › 4-Layer Sandwich › Metallo-beta-lactamase; Chain A › Ribonuclease Z/Hydroxyacylglutathione hydrolase-like 0.60 46.0 3.08e-01 84.5% 37.3%
3h0dB02 1.10.1200.150 Mainly Alpha › Orthogonal Bundle › Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A › Transcriptional repressor of class III stress genes, C-terminal domain 0.60 42.0 4.04e-01 73.2% 69.1%
6hftA01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.59 48.0 4.01e-01 100.0% 51.2%
3u4qB04 6.10.140.1030 Special › Helix non-globular › Helix Hairpins › 0.59 48.0 4.90e-01 100.0% 94.2%
3uumA00 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.58 42.0 3.54e-01 77.5% 77.9%
3rptA00 3.20.20.40 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › 1, 4-beta cellobiohydrolase 0.57 50.0 3.45e-01 98.6% 50.6%
2f2bA00 1.20.1080.10 Mainly Alpha › Up-down Bundle › Glycerol uptake facilitator protein › Glycerol uptake facilitator protein. 0.56 47.0 3.28e-01 93.0% 83.3%
1tfkB00 1.20.120.650 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Colicin D 0.56 43.0 4.07e-01 83.1% 90.7%
4y9jA01 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.55 38.0 3.08e-01 73.2% 98.0%
3pivA00 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.55 38.0 3.05e-01 73.2% 80.8%
1uurA01 1.20.58.240 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › STAT; domain 1 0.55 41.0 3.59e-01 80.3% 88.2%
3qnfA04 1.10.3480.20 Mainly Alpha › Orthogonal Bundle › TorD-like › 0.55 47.0 3.58e-01 98.6% 89.3%
3t6gB00 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.55 40.0 3.31e-01 78.9% 92.5%
4gf0A02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.54 45.0 3.91e-01 93.0% 76.1%
2ra1A03 1.20.58.770 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.54 41.0 4.37e-01 83.1% 96.8%
2wbiB03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.53 37.0 2.94e-01 74.6% 74.1%
2b67A00 3.40.109.10 Alpha Beta › 3-Layer(aba) Sandwich › NADH Oxidase › NADH Oxidase 0.52 43.0 3.14e-01 91.5% 73.0%
2xppA00 1.20.930.10 Mainly Alpha › Up-down Bundle › Transcription Elongation Factor S-II; Chain A › Conserved domain common to transcription factors TFIIS, elongin A, CRSP70 0.52 41.0 3.47e-01 93.0% 52.6%
6tkyA03 1.20.58.740 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › DOCK DHR2 domain, lobe C 0.51 43.0 3.72e-01 100.0% 82.8%
5cqgA03 1.10.10.2210 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › 0.51 38.0 3.76e-01 83.1% 87.3%
3emlA01 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.50 38.0 2.61e-01 84.5% 66.3%
ECOD (30)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4942022 182.1.3.3 alpha complex topology › Cryptochrome/photolyase FAD-binding domain-related › Cryptochrome/photolyase FAD-binding domain-related › PriX › DNA_primase_lrg 0.93 84.0 6.87e-01 100.0% 56.7%
5081313 182.1.3.0 alpha complex topology › Cryptochrome/photolyase FAD-binding domain-related › Cryptochrome/photolyase FAD-binding domain-related › PriX 0.93 84.0 7.62e-01 97.2% 75.6%
5064030 182.1.3.0 alpha complex topology › Cryptochrome/photolyase FAD-binding domain-related › Cryptochrome/photolyase FAD-binding domain-related › PriX 0.79 71.0 6.48e-01 100.0% 75.8%
3261605 198.1.1.2 alpha arrays › Saposin-like › Saposin-like › Saposin-like › SapB_2,SapB_1 0.75 58.0 5.61e-01 83.1% 81.2%
5022532 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.74 55.0 5.43e-01 91.5% 74.7%
3434511 101.1.1.0 alpha arrays › HTH › HTH › Three-helical HTH 0.72 50.0 5.27e-01 78.9% 80.0%
3468869 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.71 50.0 5.50e-01 78.9% 94.5%
3463735 101.1.8.0 alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes 0.71 49.0 5.49e-01 78.9% 94.5%
5055834 3009.2.1.0 alpha arrays › Insertion subdomain in DsbA-like › STAC domain › STAC domain 0.70 52.0 4.97e-01 77.5% 77.5%
185297 6035.1.1.2 alpha bundles › Primase helical domain › Primase helical domain › Primase helical domain › RepB_primase_C 0.70 61.0 5.66e-01 97.2% 79.8%
4932415 138.1.1.2 alpha arrays › DNA polymerase III clamp loader subunits, C-terminal domain › DNA polymerase III clamp loader subunits, C-terminal domain › DNA polymerase III clamp loader subunits, C-terminal domain › Rep_fac_C 0.70 48.0 4.37e-01 71.8% 100.0%
4029698 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.68 50.0 4.49e-01 78.9% 56.0%
3650614 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.67 56.0 4.71e-01 94.4% 64.8%
3723625 592.2.1.2 alpha arrays › PWI domain-like › YugE-like › YugE-like › WGG 0.66 52.0 4.28e-01 87.3% 51.1%
3337098 101.1.1.0 alpha arrays › HTH › HTH › Three-helical HTH 0.66 57.0 5.28e-01 100.0% 100.0%
3718745 310.2.1.0 a+b two layers › RRF/tRNA synthetase additional domain-like › Ribosome recycling factor, RRF › Ribosome recycling factor, RRF 0.66 50.0 4.11e-01 84.5% 91.4%
3503580 592.2.1.2 alpha arrays › PWI domain-like › YugE-like › YugE-like › WGG 0.66 51.0 4.42e-01 85.9% 65.2%
4971641 1134.1.1.0 alpha bundles › C-terminal helical domain of alanine-tRNA ligase › C-terminal helical domain of alanine-tRNA ligase › Eukaryotic C-Ala helical domain 0.66 55.0 5.03e-01 97.2% 81.0%
3258149 592.2.1.2 alpha arrays › PWI domain-like › YugE-like › YugE-like › WGG 0.65 50.0 4.31e-01 84.5% 53.9%
3819556 109.4.1.471 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › GCFC 0.62 51.0 4.21e-01 93.0% 68.1%
3702713 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.62 52.0 4.10e-01 94.4% 50.3%
3686477 509.1.1.0 alpha bundles › PAH2 domain › PAH2 domain › PAH2 domain 0.62 45.0 4.49e-01 77.5% 77.3%
4652008 181.2.1.1 alpha bundles › Domain of the SRP/SRP receptor G proteins-like › CtsR dimerization domain › CtsR dimerization domain › CtsR_C 0.59 42.0 4.10e-01 74.6% 70.5%
3941104 3930.1.1.0 alpha bundles › Helical bundle insertion in helicase domains › Helical bundle in Hef helicase › Helical bundle in Hef helicase 0.59 50.0 4.02e-01 95.8% 67.1%
3718740 109.46.1.0 alpha superhelices › Repetitive alpha hairpins › Helical domain in TOPLESS related protein 2 (TPR2) › Helical domain in TOPLESS related protein 2 (TPR2) 0.58 49.0 4.30e-01 100.0% 64.3%
3509630 109.4.1.11 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PI3Ka 0.57 48.0 3.65e-01 100.0% 57.9%
3287061 138.1.1.0 alpha arrays › DNA polymerase III clamp loader subunits, C-terminal domain › DNA polymerase III clamp loader subunits, C-terminal domain › DNA polymerase III clamp loader subunits, C-terminal domain 0.57 46.0 4.04e-01 97.2% 80.8%
3627266 109.4.1.1705 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PF26106 0.54 45.0 3.05e-01 98.6% 22.0%
4022047 109.4.1.109 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Sel1 0.53 46.0 3.31e-01 98.6% 32.7%
3502563 611.3.1.0 alpha bundles › N-cbl like › Conserved domain common to transcription factors TFIIS, elongin A, CRSP70 › Conserved domain common to transcription factors TFIIS, elongin A, CRSP70 0.52 42.0 3.83e-01 94.4% 84.8%