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KC661275.1__AGK87492.1__PBI_HINDER_13__00013

Bact-Vir

KC661275.1__AGK87492.1__PBI_HINDER_13__00013

Identity

Accession:
KC661275 ↗
Kingdom:
phage

Quality

77.3 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Timshelvirus› Mycobacterium_phage_HINdeR

TaxID: 1327770

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 3-136
PDB
Domain cluster: rep: MN234170.1__QFG08859.1__PBI_MALAGASYROSE_9__00007__D1-131
CATH (34)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3snhA02 1.20.120.1240 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Dynamin, middle domain 0.68 62.0 5.27e-01 100.0% 79.2%
6xxvC00 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.61 46.0 5.05e-01 78.4% 97.3%
5wp3B00 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.59 42.0 4.77e-01 75.4% 95.1%
3gi7A00 1.20.1270.180 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.59 39.0 4.41e-01 91.8% 88.3%
2wauA02 1.20.58.830 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.59 42.0 4.44e-01 74.6% 95.1%
4p79A00 1.20.140.150 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › 0.57 40.0 3.61e-01 71.6% 81.2%
7sf7A01 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.56 43.0 3.45e-01 80.6% 65.3%
3nbxX03 1.20.58.1510 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.56 37.0 4.18e-01 87.3% 88.1%
3ukmA01 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.56 48.0 3.89e-01 93.3% 94.4%
3c7jA02 1.20.120.530 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › GntR ligand-binding domain-like 0.55 50.0 4.86e-01 98.5% 100.0%
2zy9A03 1.10.357.20 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › SLC41 divalent cation transporters, integral membrane domain 0.55 49.0 4.57e-01 100.0% 77.6%
7wujE01 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.54 43.0 3.46e-01 83.6% 67.9%
1s1fA00 1.10.630.10 Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450 0.54 45.0 3.25e-01 89.6% 64.0%
2d4xA00 1.20.1330.10 Mainly Alpha › Up-down Bundle › f41 fragment of flagellin, N-terminal domain › f41 fragment of flagellin, N-terminal domain 0.54 45.0 3.89e-01 90.3% 83.6%
7ae2A01 1.20.120.580 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › bsu32300-like 0.53 46.0 4.64e-01 93.3% 90.5%
2y44A00 1.20.1260.80 Mainly Alpha › Up-down Bundle › Ferritin › 0.53 39.0 3.58e-01 77.6% 94.6%
4qndA00 1.20.1280.290 Mainly Alpha › Up-down Bundle › Monooxygenase › 0.53 29.0 3.34e-01 96.3% 72.2%
1fftC00 1.20.120.80 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Cytochrome c oxidase, subunit III, four-helix bundle 0.53 43.0 3.89e-01 87.3% 71.9%
1m62A00 1.20.58.120 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › BAG domain 0.53 32.0 3.81e-01 72.4% 92.0%
1fntc01 1.20.120.180 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Proteasome activator pa28, C-terminal domain 0.53 45.0 4.03e-01 92.5% 81.4%
1br0A00 1.20.58.70 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.52 37.0 3.88e-01 71.6% 93.3%
1wcrA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.52 37.0 4.15e-01 74.6% 95.1%
3vr4B04 1.10.1140.10 Mainly Alpha › Orthogonal Bundle › Bovine Mitochondrial F1-ATPase, ATP Synthase Beta Chain; Chain D, domain3 › Bovine Mitochondrial F1-atpase; Atp Synthase Beta Chain; Chain D, domain 3 0.52 36.0 3.49e-01 87.3% 62.3%
1jogA00 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.52 44.0 4.42e-01 91.8% 96.3%
3kkbA00 1.20.120.880 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Histidine kinase (KinB), sensor domain 0.52 38.0 3.96e-01 85.1% 81.7%
7p3rA01 1.20.1170.10 Mainly Alpha › Up-down Bundle › Hemolysin E; Chain: A; › 0.52 44.0 3.33e-01 92.5% 82.2%
2bnlC00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.51 36.0 3.66e-01 71.6% 91.0%
7xk2R01 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.51 44.0 3.52e-01 93.3% 86.8%
5h5mA02 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.51 43.0 4.35e-01 95.5% 94.6%
3pwxA01 1.20.1330.10 Mainly Alpha › Up-down Bundle › f41 fragment of flagellin, N-terminal domain › f41 fragment of flagellin, N-terminal domain 0.51 40.0 3.63e-01 87.3% 60.9%
3c18A02 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.51 39.0 4.10e-01 92.5% 90.7%
6xkyA01 1.20.1330.10 Mainly Alpha › Up-down Bundle › f41 fragment of flagellin, N-terminal domain › f41 fragment of flagellin, N-terminal domain 0.51 42.0 3.76e-01 88.1% 65.8%
4w8pA02 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.51 40.0 4.14e-01 91.8% 87.7%
3nivC02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.50 39.0 4.12e-01 97.0% 88.7%
ECOD (46)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4428399 632.11.1.10 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like › EzrA 0.67 39.0 4.33e-01 100.0% 70.9%
4653531 632.1.1.14 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase middle domain › Families 57/38 glycoside transferase middle domain › EzrA 0.66 40.0 4.35e-01 100.0% 72.7%
4367207 632.22.1.1 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats › EzrA 0.65 38.0 4.28e-01 100.0% 73.3%
3926240 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.60 46.0 3.65e-01 80.6% 75.6%
3184787 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 0.59 54.0 4.26e-01 100.0% 89.8%
3729299 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.58 49.0 4.71e-01 90.3% 83.2%
3641237 601.7.1.36 ↗ alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain › UFL1 0.58 51.0 5.02e-01 93.3% 90.0%
3360724 3291.1.1.178 ↗ alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › NET2A_C 0.58 42.0 3.80e-01 74.6% 87.2%
4028110 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.57 41.0 3.61e-01 76.9% 50.8%
4154170 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.57 44.0 4.52e-01 89.6% 83.8%
3610578 5069.1.1.0 ↗ alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Transmembrane di-heme cytochromes 0.56 51.0 4.99e-01 100.0% 94.5%
3700262 5069.1.1.0 ↗ alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Transmembrane di-heme cytochromes 0.56 51.0 4.97e-01 100.0% 94.5%
5019942 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 0.56 49.0 4.44e-01 98.5% 70.0%
3700727 601.29.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › TM1646-like › TM1646-like 0.56 50.0 5.03e-01 98.5% 100.0%
3239452 601.1.1.1 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin › Vinculin 0.56 49.0 4.66e-01 94.8% 85.8%
3499463 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.55 38.0 2.36e-01 70.1% 13.4%
3544039 11.2.1.19 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › DUF3657 0.55 49.0 3.64e-01 96.3% 85.1%
3597523 5076.1.1.0 ↗ alpha complex topology › Mitochondrial ADP/ATP carrier-like › Mitochondrial ADP/ATP carrier › Mitochondrial ADP/ATP carrier 0.55 48.0 3.82e-01 100.0% 68.5%
3709604 601.1.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin 0.55 49.0 4.93e-01 100.0% 99.3%
3719894 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 0.55 48.0 4.45e-01 100.0% 75.6%
3875112 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 0.55 39.0 2.88e-01 73.1% 61.2%
3841137 109.4.1.662 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › MEKK4_N 0.54 50.0 4.21e-01 100.0% 85.0%
3286912 632.18.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › hypothetical protein PA2901 › hypothetical protein PA2901 0.54 34.0 3.89e-01 87.3% 86.3%
3694450 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 0.54 48.0 3.97e-01 100.0% 94.5%
3276653 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 0.54 48.0 3.87e-01 100.0% 93.8%
5035743 2004.1.1.30 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Helicase_C 0.54 43.0 2.83e-01 85.8% 52.5%
4019401 5050.1.1.0 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter 0.54 41.0 3.92e-01 81.3% 69.0%
3231223 5054.1.1.0 ↗ alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels 0.53 40.0 3.64e-01 77.6% 79.4%
3617829 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.53 37.0 3.86e-01 71.6% 96.0%
3673192 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.53 45.0 4.13e-01 91.8% 71.8%
5062284 601.7.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain 0.53 40.0 4.32e-01 98.5% 93.9%
4012748 4121.1.1.0 ↗ a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like 0.52 39.0 2.98e-01 76.1% 42.3%
3792888 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.52 37.0 3.72e-01 73.9% 87.1%
4672624 601.25.1.1 ↗ alpha bundles › Four-helical up-and-down bundle › TrmE connector domain › TrmE connector domain › MnmE_helical 0.52 43.0 4.03e-01 90.3% 84.4%
4960326 601.1.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin 0.52 43.0 4.44e-01 92.5% 97.7%
2698911 601.7.1.1 ↗ alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain › HepT-like 0.52 45.0 4.31e-01 93.3% 86.8%
4098798 601.25.1.1 ↗ alpha bundles › Four-helical up-and-down bundle › TrmE connector domain › TrmE connector domain › MnmE_helical 0.52 44.0 4.05e-01 90.3% 82.9%
3881316 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 0.52 36.0 3.16e-01 70.1% 77.9%
4971764 3567.1.1.0 ↗ a+b duplicates or obligate multimers › MPER trimer › MPER trimer › MPER trimer 0.52 41.0 3.61e-01 99.3% 56.1%
3337031 3755.3.1.0 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.51 36.0 3.27e-01 71.6% 68.3%
3424723 141.1.1.3 ↗ alpha bundles › Terpenoid synthases › Terpenoid synthases › Terpenoid synthases › UbiA 0.51 46.0 3.55e-01 100.0% 82.2%
3921396 604.1.1.92 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › SR_desmoplakin_3 0.51 41.0 3.30e-01 85.1% 75.1%
3267624 192.29.1.19 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) › Cornichon 0.51 42.0 4.23e-01 88.8% 87.4%
3639848 131.1.1.1 ↗ alpha complex topology › PDEase-like › HD-domain/PDEase-like › HD-domain/PDEase-like › PDEase_I 0.51 41.0 2.97e-01 86.6% 94.9%
3690804 4121.1.1.0 ↗ a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like 0.51 37.0 2.78e-01 75.4% 40.0%
3171827 192.29.1.4 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) › Opi1 0.50 41.0 4.16e-01 95.5% 85.9%
D2 high residues 189-335
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF25310.2 best VG15 66.2 7.10e-18 72.8% 34.0%
CATH (3)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1eteA00 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.61 45.0 4.73e-01 89.1% 85.8%
1bh9B00 1.10.20.10 Mainly Alpha › Orthogonal Bundle › Histone, subunit A › Histone, subunit A 0.59 33.0 4.13e-01 98.0% 89.9%
3if8B02 1.20.58.730 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.54 33.0 3.94e-01 94.6% 91.0%
ECOD (3)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4994506 8001.1.1.3 ↗ alpha arrays › N-terminal domain of large tumor antigen › N-terminal domain of large tumor antigen › N-terminal domain of large tumor antigen › PF27234 0.55 35.0 4.30e-01 78.2% 98.9%
3498294 148.1.3.40 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › ORC5_lid 0.55 33.0 3.77e-01 89.1% 80.0%
4642256 3355.1.1.6 ↗ alpha complex topology › dicarboxylate/sodium symporter › dicarboxylate/sodium symporter › dicarboxylate/sodium symporter › ArsB 0.51 39.0 2.85e-01 81.0% 49.8%