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MH834621.1__AYN58668.1__PBI_NANDITA_49__00047

Bact-Vir

MH834621.1__AYN58668.1__PBI_NANDITA_49__00047

Identity

Accession:
MH834621 ↗
Kingdom:
phage

Quality

91.6 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Nanditavirus› Arthrobacter_phage_Nandita

TaxID: 2419963

Cluster

View cluster (12 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 44-98
PDB
Domain cluster: rep: ON045087.1__UPU15914.1__X__00088__D84-142
CATH (36)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2dfuA01 2.30.30.370 Mainly Beta › Roll › SH3 type barrels. › FAH 0.74 51.0 5.53e-01 70.9% 100.0%
2p84A02 2.30.30.290 Mainly Beta › Roll › SH3 type barrels. › YopX-like domains 0.73 67.0 6.02e-01 100.0% 78.1%
1wzoA01 2.30.30.370 Mainly Beta › Roll › SH3 type barrels. › FAH 0.69 47.0 5.16e-01 70.9% 100.0%
1kq1H00 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.68 53.0 5.08e-01 87.3% 90.9%
4ggtB00 2.40.128.30 Mainly Beta › Beta Barrel › Lipocalin › Avidin-like 0.68 50.0 4.09e-01 80.0% 100.0%
2dwcB02 3.30.1490.20 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › ATP-grasp fold, A domain 0.66 53.0 5.22e-01 100.0% 84.7%
1u1sA00 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.65 52.0 4.95e-01 90.9% 93.9%
3zuaA01 3.90.70.10 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases 0.64 52.0 4.18e-01 100.0% 50.4%
1whjA00 2.30.30.190 Mainly Beta › Roll › SH3 type barrels. › CAP Gly-rich-like domain 0.64 52.0 4.26e-01 90.9% 79.4%
2bf6A02 2.40.220.10 Mainly Beta › Beta Barrel › Intramolecular trans-sialidase; domain 3 › Intramolecular Trans-sialidase; Domain 3 0.62 43.0 4.09e-01 74.5% 87.9%
2wssA01 2.40.30.20 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › 0.61 51.0 4.32e-01 94.5% 77.4%
3isxA02 2.40.30.40 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Peptidase M42, domain 2 0.61 51.0 4.42e-01 96.4% 100.0%
2jwpA00 2.60.120.430 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding lectin 0.61 50.0 3.63e-01 98.2% 96.6%
4ifsA01 2.30.29.150 Mainly Beta › Roll › PH-domain like › 0.60 44.0 3.36e-01 78.2% 63.6%
1nqnA00 2.40.128.30 Mainly Beta › Beta Barrel › Lipocalin › Avidin-like 0.59 43.0 3.46e-01 80.0% 99.2%
1hxnA00 2.110.10.10 Mainly Beta › 4 Propeller › Hemopexin › Hemopexin-like domain 0.59 43.0 2.92e-01 78.2% 46.7%
1wmdA02 2.60.120.380 Mainly Beta › Sandwich › Jelly Rolls › 0.58 50.0 3.98e-01 100.0% 69.2%
3glkA03 3.30.1490.20 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › ATP-grasp fold, A domain 0.58 48.0 4.79e-01 100.0% 96.6%
6oqrA01 2.40.30.20 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › 0.57 49.0 4.20e-01 98.2% 75.6%
2ey4D00 2.40.10.230 Mainly Beta › Beta Barrel › Thrombin, subunit H › Probable tRNA pseudouridine synthase domain 0.57 49.0 4.44e-01 98.2% 100.0%
1tbrR01 3.30.60.30 Alpha Beta › 2-Layer Sandwich › Wheat Germ Agglutinin (Isolectin 2); domain 1 › 0.57 37.0 3.83e-01 76.4% 72.5%
5h4eA02 3.30.920.50 Alpha Beta › 2-Layer Sandwich › Metal Transport, Frataxin; Chain A › Beta-1,3-glucanase, C-terminal domain 0.56 43.0 3.56e-01 90.9% 73.1%
2i45D00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.56 46.0 3.87e-01 100.0% 52.5%
1cr5A01 2.40.40.20 Mainly Beta › Beta Barrel › Barwin-like endoglucanases › 0.55 47.0 4.22e-01 96.4% 100.0%
1oruA00 2.40.33.20 Mainly Beta › Beta Barrel › M1 Pyruvate Kinase; Domain 3 › PK beta-barrel domain-like 0.54 45.0 3.26e-01 100.0% 97.2%
2d93A00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.53 45.0 3.49e-01 100.0% 44.8%
1wdiA02 2.40.10.240 Mainly Beta › Beta Barrel › Thrombin, subunit H › QueA-like 0.53 38.0 3.57e-01 80.0% 100.0%
3uc2A00 2.60.40.3340 Mainly Beta › Sandwich › Immunoglobulin-like › Domain of unknown function DUF4426 0.53 38.0 3.04e-01 80.0% 92.7%
1r5bA03 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.53 40.0 3.31e-01 87.3% 82.7%
2q30A01 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.53 45.0 3.93e-01 100.0% 80.7%
2v3mA00 2.40.10.230 Mainly Beta › Beta Barrel › Thrombin, subunit H › Probable tRNA pseudouridine synthase domain 0.52 42.0 3.68e-01 98.2% 81.9%
3thpA02 2.60.120.1520 Mainly Beta › Sandwich › Jelly Rolls › 0.51 43.0 3.25e-01 100.0% 59.2%
4b6wA00 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.51 42.0 3.75e-01 100.0% 88.4%
3jvvA01 3.30.450.90 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.51 37.0 3.07e-01 78.2% 83.0%
4aycA02 3.30.40.10 Alpha Beta › 2-Layer Sandwich › Herpes Virus-1 › Zinc/RING finger domain, C3HC4 (zinc finger) 0.51 36.0 3.20e-01 76.4% 54.2%
6jpaE00 1.20.140.150 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › 0.51 36.0 2.65e-01 78.2% 58.6%
ECOD (36)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4995678 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.79 59.0 5.92e-01 80.0% 98.2%
5036616 4.1.1.13 ↗ beta barrels › SH3 › SH3 › SH3 › MS_channel_2nd 0.74 63.0 5.81e-01 92.7% 92.9%
161650 11.9.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › FAH › FAH 0.74 53.0 3.42e-01 76.4% 64.5%
4967397 4.1.1.13 ↗ beta barrels › SH3 › SH3 › SH3 › MS_channel_2nd 0.73 60.0 5.66e-01 89.1% 95.4%
4994957 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.73 56.0 5.67e-01 83.6% 96.4%
5013892 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.72 58.0 5.83e-01 89.1% 100.0%
4193599 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.70 61.0 4.97e-01 100.0% 74.3%
4165723 4.1.1.297 ↗ beta barrels › SH3 › SH3 › SH3 › YajC 0.69 59.0 5.60e-01 96.4% 86.2%
4347999 4.1.1.297 ↗ beta barrels › SH3 › SH3 › SH3 › YajC 0.69 60.0 5.73e-01 98.2% 86.2%
4256943 219.1.1.18 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › Peptidase_C39 0.68 57.0 4.37e-01 100.0% 46.4%
4135259 4.1.1.57 ↗ beta barrels › SH3 › SH3 › SH3 › EFP_N 0.67 58.0 5.54e-01 98.2% 100.0%
4104219 4.1.1.57 ↗ beta barrels › SH3 › SH3 › SH3 › EFP_N 0.66 57.0 5.46e-01 98.2% 100.0%
4957144 4027.1.1.0 ↗ beta barrels › all-beta domain in DNA topoisomerase IV alpha subunit › all-beta domain in DNA topoisomerase IV alpha subunit › all-beta domain in DNA topoisomerase IV alpha subunit 0.65 44.0 4.98e-01 92.7% 97.5%
5075528 4312.1.1.0 ↗ a+b two layers › RelE-like › RelE-like › RelE-like 0.64 46.0 3.98e-01 78.2% 66.7%
3921251 2002.1.1.274 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Amidohydro_1, Amidohydro_3 0.62 45.0 2.81e-01 80.0% 74.7%
3625116 10.32.1.1 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › Laminin_B 0.62 53.0 3.70e-01 100.0% 51.3%
3254963 226.1.1.0 ↗ a+b two layers › POZ domain › POZ domain › POZ domain 0.61 47.0 3.35e-01 85.5% 63.4%
4128405 1.1.7.17 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.60 52.0 4.82e-01 98.2% 97.1%
4526316 1.1.7.17 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.60 51.0 4.34e-01 100.0% 74.7%
3778012 708.1.1.4 ↗ beta complex topology › ETN0001 domain-like › ETN0001 domain-like › NAC/WRKY/GCM/WOPR domain › FLYWCH 0.59 40.0 3.56e-01 72.7% 91.8%
5046975 1.1.7.21 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › RIBIOP_C 0.58 50.0 4.48e-01 98.2% 91.3%
3648952 1.1.7.21 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › RIBIOP_C 0.58 48.0 3.97e-01 94.5% 80.0%
5000358 1.1.7.19 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › GTP_EFTU_D2 0.57 49.0 3.87e-01 96.4% 69.6%
3471720 604.5.1.0 ↗ alpha bundles › Spectrin repeat-like › PhoU-like (Pfam 01895) › PhoU-like (Pfam 01895) 0.57 41.0 2.88e-01 78.2% 48.9%
3524786 633.23.1.0 ↗ alpha bundles › Bromodomain-like › Claudin › Claudin 0.57 41.0 2.87e-01 78.2% 70.3%
4294964 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.53 44.0 3.86e-01 94.5% 76.5%
4554621 101.1.2.70 ↗ alpha arrays › HTH › HTH › winged helix domain › PqqD 0.53 38.0 3.43e-01 83.6% 98.9%
3438163 4135.1.1.1 ↗ beta duplicates or obligate multimers › MAL13P1.257-like › MAL13P1.257-like › MAL13P1.257-like › CXXC_Zn-b_euk 0.53 37.0 2.78e-01 78.2% 92.7%
4932391 239.1.1.5 ↗ beta barrels › Ribosomal protein L25-like › Ribosomal protein L25-like › Ribosomal protein L25-like › tRNA-synt_1c_C 0.52 44.0 3.78e-01 94.5% 96.7%
3501824 537.1.1.0 ↗ alpha arrays › BRCA2 helical domain › BRCA2 helical domain › BRCA2 helical domain 0.52 39.0 2.76e-01 80.0% 54.3%
4203469 375.1.1.47 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › BshC 0.52 37.0 3.71e-01 78.2% 92.7%
4580145 1.1.8.21 ↗ beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain › Baseplate_J 0.52 41.0 3.72e-01 94.5% 76.5%
4192204 275.1.1.0 ↗ a+b two layers › MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase › MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase › MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase 0.52 43.0 4.22e-01 100.0% 90.0%
3479602 633.23.1.0 ↗ alpha bundles › Bromodomain-like › Claudin › Claudin 0.51 37.0 2.58e-01 80.0% 70.9%
3230548 633.23.1.5 ↗ alpha bundles › Bromodomain-like › Claudin › Claudin › Clc-like 0.51 36.0 2.52e-01 78.2% 67.0%
4278105 633.23.1.17 ↗ alpha bundles › Bromodomain-like › Claudin › Claudin › DuoxA 0.50 36.0 2.48e-01 78.2% 59.5%