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MT498043.1__QKY78954.1__Jinkies_6__00006

Bact-Vir

MT498043.1__QKY78954.1__Jinkies_6__00006

Identity

Accession:
MT498043 ↗
Kingdom:
phage

Quality

95.6 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Berryhillviridae› Jinkiesvirus› Arthrobacter_phage_Jinkies

TaxID: 2743903

Cluster

View cluster (4 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 50-226
PDB
Domain cluster: representative
CATH (23)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4f4cA01 1.20.1560.10 Mainly Alpha › Up-down Bundle › ABC transporter transmembrane region fold › ABC transporter type 1, transmembrane domain 0.68 59.0 3.93e-01 94.9% 92.2%
3b81A00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.66 39.0 3.90e-01 92.1% 55.7%
3tp3A02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.65 44.0 4.74e-01 93.2% 80.4%
1uurA03 1.10.238.10 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › EF-hand 0.57 30.0 4.09e-01 81.4% 100.0%
2vk9A04 1.10.274.80 Mainly Alpha › Orthogonal Bundle › Enzyme I; Chain A, domain 2 › 0.57 32.0 4.07e-01 88.1% 93.3%
2w0gA00 1.20.58.610 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Cdc37, Hsp90 binding domain 0.57 32.0 3.66e-01 71.2% 73.6%
2f07B00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.56 37.0 3.61e-01 95.5% 58.7%
3kraC00 1.10.600.10 Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase 0.54 42.0 3.69e-01 97.2% 53.5%
4fp4A00 1.10.600.10 Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase 0.54 38.0 3.39e-01 96.0% 51.0%
2zcxA00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.54 39.0 3.70e-01 96.0% 62.4%
4k5yA01 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.54 36.0 3.27e-01 88.1% 48.4%
1jadA00 1.20.1230.10 Mainly Alpha › Up-down Bundle › Phospholipase C Beta; Chain: A › Phospholipase C beta, distal C-terminal domain 0.53 44.0 3.94e-01 86.4% 94.6%
1y4cA03 1.20.120.660 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › IL-4 antagonist (De novo design) like domain 0.53 34.0 4.10e-01 98.3% 99.1%
5h5mA02 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.52 36.0 4.14e-01 96.6% 95.4%
2z4vA00 1.10.600.10 Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase 0.52 40.0 3.31e-01 95.5% 44.9%
2hfiA00 1.20.120.440 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › YppE-like 0.52 32.0 3.72e-01 91.5% 86.2%
4mc3A00 1.10.600.10 Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase 0.52 36.0 3.05e-01 79.1% 42.9%
3rfyA02 1.20.120.290 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Oxygen-evolving enhancer protein 3 (PsbQ), four-helix up-down bundle 0.52 31.0 3.83e-01 96.6% 97.2%
1rktA02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.52 35.0 3.78e-01 92.1% 80.1%
7f16R01 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.52 36.0 3.13e-01 88.1% 44.8%
3frrA00 1.20.1260.60 Mainly Alpha › Up-down Bundle › Ferritin › Vacuolar protein sorting-associated protein Ist1 0.51 37.0 3.73e-01 74.6% 87.1%
3t8vA05 1.25.50.10 Mainly Alpha › Alpha Horseshoe › Zincin-like fold › Peptidase M1, alanyl aminopeptidase, C-terminal domain 0.50 30.0 2.39e-01 98.3% 29.8%
4xt1A00 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.50 34.0 2.90e-01 88.1% 41.6%
ECOD (35)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3946757 601.19.1.3 ↗ alpha bundles › Four-helical up-and-down bundle › Apolipoprotein › Apolipoprotein › Phage_Mu_F 0.68 55.0 5.04e-01 84.2% 69.8%
3929690 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 0.66 53.0 4.96e-01 97.2% 69.1%
3400767 4177.1.1.0 ↗ alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like 0.61 47.0 3.82e-01 79.1% 77.8%
3408643 3355.1.1.1 ↗ alpha complex topology › dicarboxylate/sodium symporter › dicarboxylate/sodium symporter › dicarboxylate/sodium symporter › Na_sulph_symp 0.61 43.0 3.08e-01 72.3% 77.5%
3624018 5067.1.1.0 ↗ alpha bundles › Multidrug efflux transporter AcrB transmembrane domain › Multidrug efflux transporter AcrB transmembrane domain › Multidrug efflux transporter AcrB transmembrane domain 0.59 41.0 3.74e-01 82.5% 53.0%
3702732 5076.1.1.1 ↗ alpha complex topology › Mitochondrial ADP/ATP carrier-like › Mitochondrial ADP/ATP carrier › Mitochondrial ADP/ATP carrier › Mito_carr 0.58 44.0 3.74e-01 79.1% 51.5%
3394997 376.1.2.0 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › Cysteine-rich domain 0.57 34.0 3.53e-01 92.7% 60.6%
3277893 5069.1.3.101 ↗ alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Fumarate reductase respiratory complex transmembrane subunits › GtrA_DPMS_TM 0.57 41.0 4.63e-01 85.3% 98.5%
5070677 1075.1.2.1 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › MacB transmembrane domain › FtsX 0.57 42.0 4.54e-01 84.2% 90.0%
4362758 3350.1.1.1 ↗ alpha bundles › Peroxisomal biogenesis factor 3 › Peroxisomal biogenesis factor 3 › Peroxisomal biogenesis factor 3 › Peroxin-3 0.57 52.0 4.15e-01 100.0% 90.4%
3178349 310.2.1.35 ↗ a+b two layers › RRF/tRNA synthetase additional domain-like › Ribosome recycling factor, RRF › Ribosome recycling factor, RRF › PF28954 0.56 40.0 4.68e-01 85.3% 100.0%
4319342 1075.1.2.1 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › MacB transmembrane domain › FtsX 0.56 42.0 4.16e-01 84.7% 74.1%
3278565 601.19.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › Apolipoprotein › Apolipoprotein 0.55 39.0 3.47e-01 73.4% 49.4%
4368317 5067.1.1.1 ↗ alpha bundles › Multidrug efflux transporter AcrB transmembrane domain › Multidrug efflux transporter AcrB transmembrane domain › Multidrug efflux transporter AcrB transmembrane domain › ACR_tran 0.55 44.0 4.12e-01 85.9% 83.6%
3524385 3881.1.1.2 ↗ alpha bundles › CNOT9 binding domain CN9BD (DUF3819) › CNOT9 binding domain CN9BD (DUF3819) › CNOT9 binding domain CN9BD (DUF3819) › Codanin-1_C 0.54 43.0 4.48e-01 82.5% 92.5%
3621441 5045.1.1.0 ↗ alpha bundles › F1F0 ATP synthase subunit A › F1F0 ATP synthase subunit A › F1F0 ATP synthase subunit A 0.54 42.0 3.98e-01 97.7% 67.6%
5060331 1075.1.2.1 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › MacB transmembrane domain › FtsX 0.54 41.0 4.03e-01 84.2% 73.7%
3468616 5076.1.1.1 ↗ alpha complex topology › Mitochondrial ADP/ATP carrier-like › Mitochondrial ADP/ATP carrier › Mitochondrial ADP/ATP carrier › Mito_carr 0.54 48.0 4.08e-01 100.0% 67.5%
5079707 1075.5.1.0 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Multidrug and toxic compound extrusion (MATE) transporter › Multidrug and toxic compound extrusion (MATE) transporter 0.53 44.0 3.82e-01 97.7% 57.8%
3583937 3861.1.1.1 ↗ alpha bundles › Mitochondrial translocator protein (TSPO) › Mitochondrial translocator protein (TSPO) › Mitochondrial translocator protein (TSPO) › TspO_MBR 0.53 32.0 3.92e-01 79.7% 99.0%
4039136 604.12.1.4 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › ATG1-like_MIT1 0.53 37.0 3.82e-01 70.6% 83.6%
4011767 3711.1.1.14 ↗ alpha bundles › LTXXQ motif family protein › LTXXQ motif family protein › LTXXQ motif family protein › Tim17 0.53 34.0 3.54e-01 79.7% 67.6%
3237547 150.1.1.31 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin › Tweety 0.52 41.0 3.67e-01 93.8% 58.4%
3589276 1075.3.1.1 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Type I ABC importer transmembrane domain fold › Type I ABC importer transmembrane domain fold › BPD_transp_1 0.52 45.0 4.11e-01 100.0% 69.8%
3989634 1075.1.1.1 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › ABCG5/ABCG8 transmembrane domain › ABC2_membrane 0.52 46.0 4.11e-01 98.9% 67.6%
5046308 1075.5.1.0 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Multidrug and toxic compound extrusion (MATE) transporter › Multidrug and toxic compound extrusion (MATE) transporter 0.52 40.0 3.60e-01 97.2% 56.9%
4999593 5050.1.1.9 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › MFS_1 0.51 37.0 3.04e-01 75.1% 81.8%
4017091 5076.1.1.1 ↗ alpha complex topology › Mitochondrial ADP/ATP carrier-like › Mitochondrial ADP/ATP carrier › Mitochondrial ADP/ATP carrier › Mito_carr 0.51 45.0 3.90e-01 100.0% 70.2%
4061482 1079.1.1.0 ↗ alpha complex topology › Transmembrane reductase CcdA › Transmembrane reductase CcdA › Transmembrane reductase CcdA 0.51 41.0 3.81e-01 84.7% 90.0%
3973566 5067.1.1.0 ↗ alpha bundles › Multidrug efflux transporter AcrB transmembrane domain › Multidrug efflux transporter AcrB transmembrane domain › Multidrug efflux transporter AcrB transmembrane domain 0.51 40.0 3.73e-01 83.1% 78.7%
3718430 1065.1.1.0 ↗ alpha bundles › SPX domain › SPX domain › SPX domain 0.50 42.0 4.38e-01 94.4% 95.2%
4990026 1075.5.1.4 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Multidrug and toxic compound extrusion (MATE) transporter › Multidrug and toxic compound extrusion (MATE) transporter › Polysacc_synt 0.50 40.0 3.87e-01 98.3% 74.5%
3702535 5076.1.1.1 ↗ alpha complex topology › Mitochondrial ADP/ATP carrier-like › Mitochondrial ADP/ATP carrier › Mitochondrial ADP/ATP carrier › Mito_carr 0.50 44.0 3.88e-01 99.4% 62.5%
3596809 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.50 43.0 4.34e-01 96.0% 89.1%
4438752 3563.1.1.1 ↗ alpha bundles › Twin arginine protein translocation system component TatC › Twin arginine protein translocation system component TatC › Twin arginine protein translocation system component TatC › TatC 0.50 44.0 4.03e-01 98.3% 73.5%
D2 high residues 236-295
PDB
Domain cluster: representative
CATH (11)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
7q4lA01 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.59 47.0 3.86e-01 90.0% 67.8%
3v4mB00 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.56 47.0 4.05e-01 98.3% 90.4%
1xv2D02 3.30.1330.80 Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › Hypothetical protein, similar to alpha- acetolactate decarboxylase; domain 2 0.54 35.0 2.85e-01 80.0% 31.7%
1s4dE02 3.30.950.10 Alpha Beta › 2-Layer Sandwich › Methyltransferase, Cobalt-precorrin-4 Transmethylase; Domain 2 › Tetrapyrrole methylase, C-terminal domain 0.54 39.0 3.19e-01 100.0% 36.0%
1hx6A02 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.54 44.0 3.54e-01 100.0% 70.2%
4fsdA02 3.40.5.100 Alpha Beta › 3-Layer(aba) Sandwich › Ribosomal Protein L9; domain 1 › 0.54 43.0 3.90e-01 95.0% 64.0%
2ws9201 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.53 43.0 3.18e-01 100.0% 67.2%
1ou8A00 2.30.30.220 Mainly Beta › Roll › SH3 type barrels. › SspB-like 0.52 42.0 3.66e-01 100.0% 72.6%
6grqA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 38.0 3.46e-01 100.0% 58.0%
3hn5A02 2.60.40.2060 Mainly Beta › Sandwich › Immunoglobulin-like › 0.51 42.0 3.54e-01 100.0% 66.1%
5eokA01 3.50.4.10 Alpha Beta › 3-Layer(bba) Sandwich › Hepatocyte Growth Factor › Hepatocyte Growth Factor 0.50 43.0 3.82e-01 98.3% 89.9%
ECOD (6)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4032640 601.19.1.3 ↗ alpha bundles › Four-helical up-and-down bundle › Apolipoprotein › Apolipoprotein › Phage_Mu_F 0.75 62.0 3.90e-01 100.0% 17.7%
3964369 6108.1.1.8 ↗ alpha bundles › Middle and GTPase effector domains in dynamin-related proteins › Middle and GTPase effector domains in dynamin-related proteins › Middle and GTPase effector domains in dynamin-related proteins › Phage_Mu_F 0.67 56.0 3.73e-01 100.0% 22.8%
3316959 206.1.3.57 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › FAM91_C 0.60 47.0 3.23e-01 100.0% 23.5%
3261320 317.1.1.1 ↗ a+b two layers › Translation initiation factor eIF4e and phosphothreonine lyase › Translation initiation factor eIF4e and phosphothreonine lyase › Translation initiation factor eIF4e and phosphothreonine lyase › IF4E 0.51 42.0 3.21e-01 100.0% 42.9%
4942451 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.51 42.0 3.55e-01 100.0% 53.6%
3179274 210.2.1.3 ↗ a+b four layers › Ntn/PP2C › Protein serine/threonine phosphatase 2C, catalytic domain › Protein serine/threonine phosphatase 2C, catalytic domain › PP2C_2 0.50 38.0 2.49e-01 91.7% 29.2%