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MK449010.1__QBX31999.1__Javan90_0005__00050

Bact-Vir

MK449010.1__QBX31999.1__Javan90_0005__00050

Identity

Accession:
MK449010 ↗
Kingdom:
phage

Quality

93.4 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Streptococcus_phage_Javan90

TaxID: 2548313

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 high residues 2-138
PDB
Domain cluster: rep: JGI24723J26617_10000007_prodigal-single.1__X__X__00027__D13-146
CATH (2)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1wfxA02 3.20.170.30 Alpha Beta › Alpha-Beta Barrel › ADP-ribosylation fold › 0.78 50.0 6.26e-01 89.8% 100.0%
2o0pA00 3.20.170.20 Alpha Beta › Alpha-Beta Barrel › ADP-ribosylation fold › Protein of unknown function DUF952 0.68 53.0 5.74e-01 100.0% 96.5%
ECOD (2)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3059044 237.1.1.4 ↗ a+b complex topology › ADP-ribosylation › ADP-ribosylation › ADP-ribosylation › PTS_2-RNA 0.76 58.0 6.20e-01 90.5% 89.2%
3285138 237.1.1.28 ↗ a+b complex topology › ADP-ribosylation › ADP-ribosylation › ADP-ribosylation › DarT 0.73 68.0 5.68e-01 100.0% 88.3%
D2 high residues 152-209
PDB
Domain cluster: rep: aot2015-SM42_SRR1761719_Peru_trim_clean_trim_clean_scaffold_4_curated_closed_complete_prodigal-single.1__X__X__00270__D3-54
CATH (29)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1uebA01 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.63 45.0 4.42e-01 98.3% 69.8%
6s8zA01 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.60 43.0 4.32e-01 96.6% 75.8%
2bzlA00 3.90.190.10 Alpha Beta › Alpha-Beta Complex › Protein-Tyrosine Phosphatase; Chain A › Protein tyrosine phosphatase superfamily 0.60 43.0 2.81e-01 98.3% 16.2%
1whlA00 2.30.30.190 Mainly Beta › Roll › SH3 type barrels. › CAP Gly-rich-like domain 0.59 49.0 4.30e-01 98.3% 76.8%
2x45A00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.59 43.0 3.21e-01 100.0% 31.2%
2l89A00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.59 47.0 3.95e-01 98.3% 50.0%
1iz6A01 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.58 44.0 4.24e-01 98.3% 72.5%
3kxtA00 2.30.30.610 Mainly Beta › Roll › SH3 type barrels. › Chromatin protein Cren7 0.58 45.0 4.58e-01 96.6% 91.1%
4ge6A00 3.90.190.10 Alpha Beta › Alpha-Beta Complex › Protein-Tyrosine Phosphatase; Chain A › Protein tyrosine phosphatase superfamily 0.58 41.0 2.69e-01 77.6% 79.9%
3htyA00 2.40.128.280 Mainly Beta › Beta Barrel › Lipocalin › 0.56 37.0 3.28e-01 100.0% 42.6%
3fhwA00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.56 41.0 3.57e-01 82.8% 55.6%
4oddA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.56 45.0 3.39e-01 89.7% 68.5%
4gzvA00 2.40.128.490 Mainly Beta › Beta Barrel › Lipocalin › Uncharacterised protein PF14869 family, DUF4488 0.56 43.0 3.38e-01 100.0% 36.7%
2qiyA00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.56 46.0 3.63e-01 96.6% 82.1%
2j0wA03 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.54 36.0 3.27e-01 70.7% 72.8%
2v1oB00 3.10.129.10 Alpha Beta › Roll › Thiol Ester Dehydrase; Chain A › Hotdog Thioesterase 0.53 48.0 3.54e-01 100.0% 71.6%
7kx7A03 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.53 35.0 2.39e-01 70.7% 18.1%
1iy9A02 2.30.140.10 Mainly Beta › Roll › Spermidine Synthase; Chain: A, domain 2 › Spermidine synthase, tetramerisation domain 0.52 39.0 4.05e-01 100.0% 94.2%
3h3hB00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.52 45.0 3.56e-01 98.3% 71.7%
1w96C04 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.52 41.0 2.76e-01 91.4% 49.6%
3u4vA00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.52 45.0 3.62e-01 98.3% 50.9%
2o1qA01 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.51 43.0 3.44e-01 98.3% 88.2%
2imjD01 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.51 41.0 3.27e-01 98.3% 59.2%
2qkdA03 2.20.25.420 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › ZPR1, zinc finger domain 0.51 34.0 3.59e-01 72.4% 80.4%
3khpD01 3.10.129.10 Alpha Beta › Roll › Thiol Ester Dehydrase; Chain A › Hotdog Thioesterase 0.51 43.0 3.32e-01 96.6% 86.0%
1qwdB00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.50 41.0 2.95e-01 89.7% 59.0%
3e29B00 3.10.129.10 Alpha Beta › Roll › Thiol Ester Dehydrase; Chain A › Hotdog Thioesterase 0.50 42.0 3.34e-01 100.0% 82.1%
4ii2A06 3.10.290.60 Alpha Beta › Roll › Structural Genomics Hypothetical 15.5 Kd Protein In mrcA-pckA Intergenic Region; Chain A › Ubiquitin-activating enzyme E1, UFD domain 0.50 37.0 3.33e-01 86.2% 98.9%
3icyA00 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.50 38.0 3.08e-01 84.5% 82.2%
ECOD (40)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3948467 4.1.1.57 ↗ beta barrels › SH3 › SH3 › SH3 › EFP_N 0.66 49.0 4.71e-01 98.3% 70.8%
3505947 4.25.1.2 ↗ beta barrels › SH3 › Auxin response factor dimerization domain and ancillary domain › Auxin response factor dimerization domain and ancillary domain › BRWD_AD 0.65 54.0 4.40e-01 98.3% 69.2%
3846130 4.1.1.311 ↗ beta barrels › SH3 › SH3 › SH3 › BRWD_AD 0.65 54.0 3.79e-01 98.3% 40.5%
5029166 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.65 56.0 5.21e-01 98.3% 82.4%
4077367 4.1.1.57 ↗ beta barrels › SH3 › SH3 › SH3 › EFP_N 0.64 48.0 4.73e-01 98.3% 75.4%
3853596 4.25.1.2 ↗ beta barrels › SH3 › Auxin response factor dimerization domain and ancillary domain › Auxin response factor dimerization domain and ancillary domain › BRWD_AD 0.63 51.0 4.12e-01 98.3% 63.8%
3616330 77.3.1.4 ↗ beta meanders › open-sided beta-meander › CPAP G-box domain › CPAP G-box domain › PF28998 0.62 36.0 2.80e-01 96.6% 23.7%
4296288 2.1.1.6 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.62 47.0 3.91e-01 82.8% 50.5%
167841 4.26.1.1 ↗ beta barrels › SH3 › Chromatin protein Cren7 › Chromatin protein Cren7 › Cren7 0.59 46.0 4.62e-01 96.6% 85.0%
3488611 383.1.2.0 ↗ few secondary structure elements › Defensin-like › Defensin-related › Laterosporulin 0.58 36.0 4.14e-01 70.7% 92.5%
3938484 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.58 49.0 3.99e-01 100.0% 81.7%
3736329 4.1.1.225 ↗ beta barrels › SH3 › SH3 › SH3 › DUF7025 0.58 49.0 3.54e-01 98.3% 32.8%
3217507 243.1.1.98 ↗ a+b two layers › Cystatin-like › NTF2-like › NTF2-like › DUF5382_C 0.58 46.0 3.88e-01 96.6% 82.5%
3687369 4.1.1.225 ↗ beta barrels › SH3 › SH3 › SH3 › DUF7025 0.57 48.0 4.12e-01 98.3% 59.0%
4012953 4.8.1.0 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.57 48.0 3.63e-01 98.3% 39.3%
5009939 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.56 48.0 4.02e-01 100.0% 81.9%
4018672 4.1.1.225 ↗ beta barrels › SH3 › SH3 › SH3 › DUF7025 0.56 47.0 3.83e-01 98.3% 48.7%
4250029 243.3.1.10 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin › YPEB_PepSY1-2 0.56 43.0 3.95e-01 93.1% 63.7%
4873081 3820.1.1.0 ↗ a+b complex topology › CRISPR-associated endonuclease Cas9 C-terminal domain › CRISPR-associated endonuclease Cas9 C-terminal domain › CRISPR-associated endonuclease Cas9 C-terminal domain 0.56 43.0 4.01e-01 96.6% 65.8%
3540139 220.1.1.79 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › TBC1D23_C 0.54 47.0 3.77e-01 100.0% 53.3%
3833642 708.1.1.1 ↗ beta complex topology › ETN0001 domain-like › ETN0001 domain-like › NAC/WRKY/GCM/WOPR domain › NAM 0.54 41.0 3.39e-01 84.5% 63.2%
3723171 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.54 46.0 3.49e-01 100.0% 80.0%
2420861 3435.1.1.2 ↗ a+b two layers › Recombination-associated protein rdgC › Recombination-associated protein rdgC › Recombination-associated protein rdgC › CENP-N 0.54 41.0 3.24e-01 84.5% 55.1%
3242022 220.1.1.68 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_Tiam1 0.54 45.0 3.49e-01 100.0% 70.3%
3796020 220.1.1.26 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › Vps36_ESCRT-II 0.53 43.0 3.40e-01 94.8% 80.0%
5014254 243.3.1.0 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.53 39.0 3.95e-01 96.6% 80.0%
4020096 4.8.1.0 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.53 43.0 3.40e-01 98.3% 41.4%
4241432 220.1.1.8 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › GRAM 0.53 45.0 3.58e-01 100.0% 68.0%
3472467 284.1.3.0 ↗ a+b two layers › FKBP-like › FKBP-like › WNK1 autoinhibitory domain 0.52 33.0 3.11e-01 72.4% 50.7%
3914857 3435.1.1.2 ↗ a+b two layers › Recombination-associated protein rdgC › Recombination-associated protein rdgC › Recombination-associated protein rdgC › CENP-N 0.51 39.0 3.10e-01 84.5% 58.4%
1678534 243.3.1.10 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin › YPEB_PepSY1-2 0.51 40.0 3.64e-01 93.1% 64.0%
4629131 9.29.1.1 ↗ beta barrels › Lipocalins/Streptavidin › VirK › VirK › VirK 0.51 41.0 3.35e-01 94.8% 71.5%
3269121 220.1.1.20 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_TFIIH 0.51 42.0 3.56e-01 100.0% 80.0%
3745926 220.1.1.23 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › ICAP-1_inte_bdg 0.51 43.0 3.25e-01 100.0% 39.4%
5018023 223.1.1.14 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains › PAS_4 0.51 40.0 3.17e-01 91.4% 75.6%
4859328 271.1.1.1 ↗ beta barrels › GFP-like › GFP-like › GFP-like › GFP 0.51 34.0 2.69e-01 70.7% 75.0%
5074243 243.3.1.0 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.51 39.0 3.48e-01 91.4% 55.8%
3220074 244.2.1.0 ↗ a+b two layers › FAD-linked reductases, C-terminal domain-like › FAD/NAD-linked reduatases, dimerisation (C-terminal) domain › FAD/NAD-linked reduatases, dimerisation (C-terminal) domain 0.50 39.0 3.41e-01 91.4% 58.0%
4022153 4.1.1.225 ↗ beta barrels › SH3 › SH3 › SH3 › DUF7025 0.50 42.0 3.23e-01 98.3% 39.3%
137752 223.1.1.13 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains › PAS_3 0.50 38.0 3.08e-01 84.5% 82.2%
D3 high residues 215-280
PDB
Domain cluster: representative
CATH (6)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4nqwA01 1.10.1740.10 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif 0.64 54.0 5.09e-01 97.0% 79.8%
3deeA01 1.10.150.690 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › DUF2063 0.63 51.0 4.79e-01 100.0% 72.1%
1hr6B02 3.30.830.10 Alpha Beta › 2-Layer Sandwich › Cytochrome Bc1 Complex; Chain A, domain 1 › Metalloenzyme, LuxS/M16 peptidase-like 0.58 41.0 2.92e-01 75.8% 48.6%
3m03B00 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.55 42.0 3.88e-01 89.4% 95.8%
4h33A00 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.51 35.0 3.27e-01 74.2% 72.5%
3natA01 3.40.50.11250 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Protein of unknown function DUF3013 0.50 41.0 3.33e-01 100.0% 81.0%
ECOD (6)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3206573 206.1.1.11 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › APH 0.59 47.0 3.13e-01 100.0% 19.1%
3818656 108.1.1.20 ↗ alpha arrays › EF-hand › EF-hand-related › EF-hand › EF-hand_like 0.57 43.0 4.00e-01 86.4% 70.0%
3338466 108.1.1.129 ↗ alpha arrays › EF-hand › EF-hand-related › EF-hand › DUF7874 0.56 45.0 4.28e-01 90.9% 80.0%
4187779 2004.1.1.59 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › CoaE 0.55 44.0 3.26e-01 93.9% 95.9%
3267780 5076.1.1.1 ↗ alpha complex topology › Mitochondrial ADP/ATP carrier-like › Mitochondrial ADP/ATP carrier › Mitochondrial ADP/ATP carrier › Mito_carr 0.52 42.0 2.96e-01 100.0% 47.5%
4936403 5065.1.1.2 ↗ alpha bundles › Type II ABC importer transmembrane domain fold › Type II ABC importer transmembrane domain fold › Type II ABC importer transmembrane domain fold › FecCD 0.51 40.0 2.70e-01 92.4% 26.9%