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NC_023548.1__YP_009004207.1__CF79_gp52__00052

Bact-Vir

NC_023548.1__YP_009004207.1__CF79_gp52__00052

Identity

Accession:
NC_023548 ↗
Kingdom:
phage

Quality

63.5 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Autographivirales› Autotranscriptaviridae› Caroctavirus› Citrobacter_phage_CR8

TaxID: 1455076

Cluster

Singleton — not in a non-trivial cluster

3D Structure

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Domains

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

D1 medium residues 59-90_109-147
PDB
Domain cluster: representative
CATH (45)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
6xxvC00 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.87 55.0 4.65e-01 100.0% 41.4%
1cqxA01 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.83 64.0 4.90e-01 97.2% 38.7%
2kseA00 1.20.5.1040 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Sensor protein qsec. 0.76 57.0 5.54e-01 100.0% 72.7%
3terA00 1.10.287.3550 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.74 56.0 4.67e-01 83.1% 47.9%
3qo8A01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.70 54.0 4.64e-01 80.3% 54.7%
3favD00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.70 58.0 5.64e-01 97.2% 80.8%
3udcA01 1.10.287.1260 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.70 58.0 4.87e-01 94.4% 54.8%
4am6A03 3.30.420.580 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › 0.70 55.0 3.78e-01 95.8% 24.0%
1knzA01 6.10.280.20 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Rotavirus non-structural protein NSP3, N-terminal domain 0.69 50.0 4.41e-01 90.1% 52.9%
4nsmA00 6.10.250.2770 Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.69 51.0 5.16e-01 95.8% 77.5%
2wdqC00 1.20.1300.10 Mainly Alpha › Up-down Bundle › 3 helical TM bundles of succinate and fumarate reductases › Fumarate reductase/succinate dehydrogenase, transmembrane subunit 0.68 51.0 4.27e-01 80.3% 50.4%
6lo8F01 1.10.287.810 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Mitochondrial import inner membrane translocase subunit tim13 like domains 0.68 50.0 5.11e-01 94.4% 81.2%
3ic9A02 1.10.287.990 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Fe,Mn superoxide dismutase (SOD) domain 0.66 52.0 5.25e-01 100.0% 87.1%
1jadA00 1.20.1230.10 Mainly Alpha › Up-down Bundle › Phospholipase C Beta; Chain: A › Phospholipase C beta, distal C-terminal domain 0.65 59.0 4.05e-01 100.0% 31.0%
7dluA01 1.10.287.1260 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.65 49.0 4.33e-01 93.0% 55.2%
1wcrA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.64 48.0 4.22e-01 91.5% 54.4%
1yg2A02 6.10.140.190 Special › Helix non-globular › Helix Hairpins › 0.64 52.0 4.77e-01 98.6% 67.8%
3keyA01 1.10.10.1080 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Stn1, N-terminal wHTH domain 0.64 45.0 4.22e-01 74.6% 77.0%
6dlzA01 1.20.140.150 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › 0.63 49.0 3.60e-01 90.1% 32.6%
6g94A00 1.20.950.20 Mainly Alpha › Up-down Bundle › Fumarate Reductase Cytochrome B subunit › Transmembrane di-heme cytochromes, Chain C 0.63 55.0 4.12e-01 97.2% 90.1%
4iggA01 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.63 49.0 5.12e-01 94.4% 88.1%
4r3aA01 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.63 44.0 3.33e-01 87.3% 30.1%
3whjA00 6.10.140.1710 Special › Helix non-globular › Helix Hairpins › 0.62 52.0 4.44e-01 98.6% 57.7%
2kp8A00 1.20.5.170 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.61 54.0 5.40e-01 94.4% 95.8%
2bdeA03 1.20.58.1160 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.60 44.0 4.27e-01 97.2% 70.1%
1omsA00 3.30.70.1050 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Trigger factor ribosome-binding domain 0.60 51.0 4.38e-01 94.4% 72.8%
4dylA02 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.60 49.0 4.45e-01 97.2% 66.0%
2dt5B01 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 0.60 36.0 3.64e-01 74.6% 58.9%
4jbeB01 3.40.605.10 Alpha Beta › 3-Layer(aba) Sandwich › Aldehyde Dehydrogenase; Chain A, domain 1 › Aldehyde Dehydrogenase; Chain A, domain 1 0.59 48.0 3.26e-01 90.1% 51.1%
3r84B00 6.10.280.160 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Mediator of RNA polymerase II transcription subunit 22 0.59 53.0 5.11e-01 98.6% 86.3%
2y44A00 1.20.1260.80 Mainly Alpha › Up-down Bundle › Ferritin › 0.57 52.0 3.81e-01 100.0% 89.1%
2i2xB01 1.10.1240.10 Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › Methionine synthase domain 0.57 37.0 3.38e-01 84.5% 48.0%
3lnnB03 1.10.287.470 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.57 45.0 4.69e-01 98.6% 88.1%
3fr3B02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.55 38.0 3.27e-01 71.8% 44.3%
7dklA01 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 41.0 3.50e-01 78.9% 99.1%
1zhhB01 3.30.450.220 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › LuxQ periplasmic domain, N-terminal subdomain 0.55 47.0 3.64e-01 95.8% 93.6%
1vdhA01 3.30.70.1030 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Apc35880; domain 1 0.55 39.0 3.32e-01 76.1% 56.2%
2js5A00 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.54 42.0 4.27e-01 94.4% 83.1%
3cx3B01 3.40.50.1980 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Nitrogenase molybdenum iron protein domain 0.53 47.0 3.59e-01 95.8% 93.5%
1jkvA01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.53 48.0 3.42e-01 98.6% 42.6%
4hr1A00 1.20.1270.410 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.52 47.0 3.88e-01 95.8% 79.7%
2b3yA01 3.30.499.10 Alpha Beta › 2-Layer Sandwich › Aconitase; domain 3 › Aconitase, domain 3 0.52 43.0 2.97e-01 90.1% 54.0%
4l80D00 3.20.20.60 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Phosphoenolpyruvate-binding domains 0.51 43.0 2.79e-01 95.8% 20.6%
4p63D00 3.40.910.10 Alpha Beta › 3-Layer(aba) Sandwich › Deoxyhypusine Synthase › Deoxyhypusine synthase 0.51 40.0 2.68e-01 87.3% 80.4%
1br0A00 1.20.58.70 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.50 45.0 3.77e-01 100.0% 58.3%
ECOD (50)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3763195 1072.1.1.1 ↗ alpha bundles › Hsp90 co-chaperone Cdc37 N-terminal domain › Hsp90 co-chaperone Cdc37 N-terminal domain › Hsp90 co-chaperone Cdc37 N-terminal domain › CDC37_N 0.85 57.0 4.47e-01 81.7% 36.3%
3619575 192.5.1.1 ↗ alpha bundles › Long alpha-hairpin › HR1 repeat › HR1 repeat › HR1 0.78 50.0 4.81e-01 85.9% 58.7%
3981585 5086.1.1.84 ↗ alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › HH_MFP_RND 0.76 51.0 5.02e-01 81.7% 65.3%
3973636 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 0.75 51.0 5.05e-01 81.7% 66.7%
3712129 633.23.1.11 ↗ alpha bundles › Bromodomain-like › Claudin › Claudin › PqiA 0.74 66.0 4.15e-01 100.0% 24.7%
4408647 192.7.1.2 ↗ alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.73 53.0 4.60e-01 83.1% 51.4%
3991853 5058.1.1.0 ↗ alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region 0.72 59.0 5.20e-01 100.0% 61.0%
5042297 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 0.72 63.0 4.66e-01 100.0% 37.8%
4037084 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.71 51.0 4.46e-01 76.1% 53.3%
1252012 5058.1.1.2 ↗ alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › MS_channel_1st 0.70 58.0 5.14e-01 94.4% 63.6%
3944446 5069.1.3.1 ↗ alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Fumarate reductase respiratory complex transmembrane subunits › Sdh_cyt 0.70 52.0 4.92e-01 85.9% 67.1%
3813902 142.1.1.0 ↗ alpha complex topology › Sigma2 domain-like › Sigma2 domain of RNA polymerase sigma factors › Sigma2 domain of RNA polymerase sigma factors 0.69 54.0 5.04e-01 87.3% 67.8%
3269213 3755.3.1.426 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › Nnf1 0.69 58.0 5.17e-01 100.0% 64.8%
5012522 5058.1.1.2 ↗ alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › MS_channel_1st 0.68 49.0 4.53e-01 97.2% 58.9%
3960905 604.10.1.4 ↗ alpha bundles › Spectrin repeat-like › Enzyme IIa from lactose specific PTS, IIa-lac › Enzyme IIa from lactose specific PTS, IIa-lac › CstA 0.68 56.0 4.49e-01 87.3% 53.8%
3611289 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 0.68 55.0 4.30e-01 94.4% 42.8%
3270180 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 0.67 55.0 5.17e-01 97.2% 72.2%
4947641 5042.1.1.0 ↗ extended segments › Magnesium transport protein CorA, transmembrane region › Magnesium transport protein CorA, transmembrane region › Magnesium transport protein CorA, transmembrane region 0.66 51.0 5.34e-01 87.3% 89.2%
3398953 1075.1.1.4 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › ABCG5/ABCG8 transmembrane domain › ABC2_membrane_3 0.66 58.0 3.87e-01 100.0% 49.7%
4958384 5058.1.1.0 ↗ alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region 0.65 48.0 4.50e-01 100.0% 62.2%
3309541 5063.1.1.17 ↗ alpha bundles › Photosystem I reaction center subunit X, PsaK › Photosystem I reaction center subunit X, PsaK › Photosystem I reaction center subunit X, PsaK › Gly-zipper_YMGG 0.65 51.0 5.46e-01 84.5% 100.0%
3797019 219.1.1.0 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases 0.65 57.0 3.70e-01 97.2% 22.7%
3962381 150.5.1.50 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like › EspA_EspE 0.64 54.0 5.22e-01 97.2% 80.0%
3252540 5001.1.1.48 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Pex16 0.64 58.0 3.86e-01 97.2% 27.5%
3402492 4177.1.1.2 ↗ alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like › BAR 0.64 59.0 4.10e-01 100.0% 77.7%
3630583 192.8.1.0 ↗ alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain 0.64 49.0 4.25e-01 83.1% 55.5%
3914846 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 0.64 54.0 4.23e-01 98.6% 45.7%
3893371 604.1.1.7 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › SR_plectin_7 0.63 51.0 4.29e-01 85.9% 53.9%
4182553 5042.1.1.1 ↗ extended segments › Magnesium transport protein CorA, transmembrane region › Magnesium transport protein CorA, transmembrane region › Magnesium transport protein CorA, transmembrane region › CorA 0.62 45.0 4.56e-01 88.7% 80.0%
3179505 633.23.1.22 ↗ alpha bundles › Bromodomain-like › Claudin › Claudin › MARVEL 0.62 56.0 4.30e-01 100.0% 89.7%
4248927 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 0.61 51.0 4.31e-01 94.4% 67.2%
3928106 632.7.1.25 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain › PF27508 0.61 53.0 4.38e-01 93.0% 75.0%
4036645 5086.1.1.92 ↗ alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › HH_AprE 0.60 55.0 3.89e-01 97.2% 41.5%
4008954 632.2.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Bacterial immunoglobulin/albumin-binding domains › Bacterial immunoglobulin/albumin-binding domains 0.60 47.0 4.19e-01 85.9% 60.0%
3740053 4177.1.1.27 ↗ alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like › BAR_4 0.60 56.0 3.65e-01 100.0% 71.1%
3981640 5058.1.1.2 ↗ alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › MS_channel_1st 0.59 49.0 4.50e-01 88.7% 71.1%
3411308 101.1.15.2 ↗ alpha arrays › HTH › HTH › HAT1, C-terminal domain › HAT1_C 0.59 51.0 4.25e-01 100.0% 54.6%
3641422 3567.1.1.0 ↗ a+b duplicates or obligate multimers › MPER trimer › MPER trimer › MPER trimer 0.59 54.0 4.59e-01 98.6% 70.9%
3911275 2004.1.1.87 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SMC_N 0.58 53.0 3.18e-01 97.2% 16.6%
3282873 5042.1.1.1 ↗ extended segments › Magnesium transport protein CorA, transmembrane region › Magnesium transport protein CorA, transmembrane region › Magnesium transport protein CorA, transmembrane region › CorA 0.58 44.0 4.61e-01 85.9% 96.8%
3943069 3291.1.1.136 ↗ alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › PF27688 0.58 52.0 4.15e-01 97.2% 54.1%
4986986 3633.1.1.0 ↗ alpha duplicates or obligate multimers › Haptoglobin-hemoglobin receptor › Haptoglobin-hemoglobin receptor › Haptoglobin-hemoglobin receptor 0.58 52.0 3.68e-01 97.2% 71.7%
3214018 632.7.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain 0.57 43.0 3.92e-01 80.3% 69.5%
3672887 109.2.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › alpha/alpha toroid › alpha/alpha toroid 0.57 49.0 2.99e-01 100.0% 14.9%
4399355 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 0.57 47.0 3.92e-01 93.0% 52.8%
3916642 192.2.1.56 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › KIF9 0.56 50.0 3.87e-01 97.2% 67.3%
3911413 148.1.3.13 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › AAA_9 0.55 45.0 2.98e-01 91.5% 41.6%
3744587 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 0.55 46.0 4.00e-01 95.8% 62.6%
3736652 192.29.1.102 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) › Fung_rhodopsin 0.54 44.0 4.33e-01 100.0% 83.7%
3287687 633.23.1.7 ↗ alpha bundles › Bromodomain-like › Claudin › Claudin › DUF5336 0.50 46.0 3.79e-01 100.0% 97.6%