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high_mobility_group_protein

Euk-Vir

Shrimp_hemocyte_iridescent_virus

high_mobility_group_protein__YP_010084903__Shrimp_hemocyte_iridescent_virus__2039780

Identity

Accession:
YP_010084903 ↗
Protein ID:
high_mobility_group_protein
Kingdom:
euk

Quality

76.3 mean pLDDT

Taxonomy

Bamfordvirae› Nucleocytoviricota› Megaviricetes› Pimascovirales› Iridoviridae› Decapodiridovirus› Shrimp_hemocyte_iridescent_virus

TaxID: 2039780

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 7-53_133-193
PDB
D2 medium residues 54-132
PDB
Domain cluster: representative
CATH (35)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3tmmA01 1.10.30.10 Mainly Alpha › Orthogonal Bundle › DNA Binding (I), subunit A › High mobility group box domain 0.78 63.0 5.63e-01 100.0% 63.3%
1gt0D00 1.10.30.10 Mainly Alpha › Orthogonal Bundle › DNA Binding (I), subunit A › High mobility group box domain 0.77 62.0 6.23e-01 100.0% 87.3%
2gf4A00 1.20.1270.110 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Uncharacterised protein family UPF0058 0.70 42.0 4.12e-01 100.0% 54.5%
2iiuA00 1.20.58.220 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphate transport system protein phou homolog 2; domain 2 0.70 44.0 3.16e-01 100.0% 24.0%
2d2sA01 1.20.58.1210 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Exo84p, N-terminal helical domain 0.68 42.0 3.62e-01 98.7% 42.2%
2ffjA01 1.10.8.380 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Uncharacterised protein PF01937, DUF89, domain 1 0.67 34.0 3.97e-01 88.6% 67.9%
1yxrA01 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.66 38.0 3.96e-01 97.5% 60.8%
2qffA00 1.20.1270.10 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.66 40.0 4.17e-01 97.5% 64.9%
2l3lA01 1.20.58.1250 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Tubulin Binding Cofactor C, N-terminal domain 0.65 40.0 3.67e-01 100.0% 46.2%
3l1nA02 1.20.1280.140 Mainly Alpha › Up-down Bundle › Monooxygenase › 0.65 38.0 3.71e-01 100.0% 52.9%
1v4aA01 1.10.4050.10 Mainly Alpha › Orthogonal Bundle › Nucleotidyltransferase substrate binding subunit/domain fold › Glutamine synthase adenylyltransferase GlnE 0.64 39.0 3.49e-01 100.0% 44.0%
1gvnA00 1.10.8.130 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.64 37.0 3.65e-01 100.0% 52.9%
3t46A00 1.20.1270.10 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.63 39.0 4.06e-01 100.0% 66.7%
2rdcA00 1.10.287.800 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › protein ne1242 0.63 39.0 3.31e-01 100.0% 37.6%
1wp7A00 1.10.287.770 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › YojJ-like 0.63 45.0 4.99e-01 100.0% 92.2%
3axjB02 1.20.58.200 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Translin; domain 2 0.62 39.0 3.84e-01 100.0% 58.8%
4u2vA02 1.10.437.10 Mainly Alpha › Orthogonal Bundle › Apoptosis Regulator Bcl-x › Blc2-like 0.62 35.0 3.56e-01 100.0% 56.2%
1r6bX03 1.10.8.60 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.61 42.0 4.08e-01 70.9% 65.9%
2zxqA06 1.20.1270.70 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Designed single chain three-helix bundle 0.61 35.0 3.85e-01 100.0% 68.2%
1v9vA01 1.20.1480.20 Mainly Alpha › Up-down Bundle › hypothetical protein mp506/mpn330, domain 1 › MAST3 pre-PK domain-like 0.60 39.0 3.66e-01 97.5% 54.7%
2ewfA02 1.20.1270.310 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.60 39.0 3.88e-01 100.0% 64.2%
1j1jA02 1.20.58.200 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Translin; domain 2 0.59 36.0 3.59e-01 97.5% 57.6%
2ra1A03 1.20.58.770 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.59 32.0 3.52e-01 89.9% 65.1%
3s64A00 1.10.225.10 Mainly Alpha › Orthogonal Bundle › NK-Lysin › Saposin-like 0.58 39.0 3.94e-01 98.7% 67.9%
2i7uA00 6.10.250.1010 Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.57 38.0 4.19e-01 100.0% 88.7%
2yqzA02 1.10.8.900 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.57 41.0 4.43e-01 89.9% 88.2%
4rg6A02 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.56 29.0 2.94e-01 89.9% 49.4%
2r4gA02 1.10.10.1970 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › TERT catalytic subunit-like 0.56 38.0 4.16e-01 84.8% 85.9%
2w02B01 1.10.150.640 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › AcsD, thumb domain, helical bundle 0.55 46.0 4.73e-01 91.1% 97.3%
3l8rA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.55 38.0 3.49e-01 98.7% 54.9%
4ywoA01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.54 43.0 3.15e-01 86.1% 56.1%
7z67A01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.52 39.0 2.96e-01 82.3% 55.5%
2nrlA00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.51 41.0 3.37e-01 87.3% 96.6%
3h36A00 1.10.10.400 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Polyribonucleotide nucleotidyltransferase, RNA-binding domain 0.51 37.0 3.73e-01 96.2% 76.9%
4aciA00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.50 37.0 2.87e-01 97.5% 35.2%
ECOD (44)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3506838 190.1.1.1 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box 0.87 72.0 6.69e-01 100.0% 72.6%
4030562 190.1.1.3 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box_2 0.87 76.0 7.77e-01 98.7% 98.7%
3738540 190.1.1.3 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box_2 0.85 72.0 6.86e-01 100.0% 78.9%
3800788 190.1.1.0 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box 0.80 66.0 6.66e-01 100.0% 88.7%
4558420 190.1.1.1 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box 0.77 66.0 6.80e-01 100.0% 98.7%
3757366 190.1.1.3 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box_2 0.76 62.0 6.20e-01 100.0% 87.5%
3177211 190.1.1.1 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box 0.76 65.0 6.39e-01 100.0% 87.1%
3496552 190.1.1.3 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box_2 0.75 61.0 5.85e-01 100.0% 78.9%
3174920 190.1.1.1 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box 0.74 63.0 6.16e-01 100.0% 87.1%
3738224 190.1.1.3 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box_2 0.74 64.0 6.43e-01 100.0% 93.8%
3191927 190.1.1.0 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box 0.70 57.0 5.06e-01 100.0% 61.7%
4954446 604.3.1.0 ↗ alpha bundles › Spectrin repeat-like › BAG domain › BAG domain 0.70 39.0 4.07e-01 100.0% 58.7%
5053994 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 0.68 41.0 4.21e-01 98.7% 64.0%
4886448 7586.1.1.1 ↗ a/b three-layered sandwiches › Rossmann-like domain in prismane-like proteins › Rossmann-like domain in prismane-like proteins › Rossmann-like domain in prismane-like proteins › Prismane 0.67 40.0 3.68e-01 100.0% 45.7%
5031855 632.15.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Staphylococcal complement inhibitor (SCIN) › Staphylococcal complement inhibitor (SCIN) 0.66 41.0 4.13e-01 100.0% 62.5%
3740089 1134.1.1.7 ↗ alpha bundles › C-terminal helical domain of alanine-tRNA ligase › C-terminal helical domain of alanine-tRNA ligase › Eukaryotic C-Ala helical domain › ALA1 0.65 39.0 4.31e-01 100.0% 73.8%
3420431 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 0.65 39.0 3.81e-01 100.0% 55.3%
3230439 190.1.1.1 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box 0.64 54.0 5.22e-01 100.0% 84.4%
5060252 632.23.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Helical linker domain in nicking endonuclease N.BspD6I › Helical linker domain in nicking endonuclease N.BspD6I 0.63 40.0 3.96e-01 100.0% 60.0%
4012164 1134.1.1.0 ↗ alpha bundles › C-terminal helical domain of alanine-tRNA ligase › C-terminal helical domain of alanine-tRNA ligase › Eukaryotic C-Ala helical domain 0.63 38.0 4.17e-01 100.0% 73.8%
4964442 2003.1.1.24 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › Shikimate_DH 0.63 49.0 3.47e-01 86.1% 65.0%
4985507 604.10.1.0 ↗ alpha bundles › Spectrin repeat-like › Enzyme IIa from lactose specific PTS, IIa-lac › Enzyme IIa from lactose specific PTS, IIa-lac 0.62 45.0 4.32e-01 100.0% 66.7%
4133287 1197.1.1.1 ↗ alpha bundles › Integral membrane glycerol 3-phosphate acyltransferase PlsY › Integral membrane glycerol 3-phosphate acyltransferase PlsY › Integral membrane glycerol 3-phosphate acyltransferase PlsY › G3P_acyltransf 0.61 51.0 3.79e-01 100.0% 36.8%
1933314 1134.1.1.0 ↗ alpha bundles › C-terminal helical domain of alanine-tRNA ligase › C-terminal helical domain of alanine-tRNA ligase › Eukaryotic C-Ala helical domain 0.61 36.0 3.75e-01 100.0% 61.8%
4029610 3755.4.1.57 ↗ alpha bundles › YscO-like › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain › MSP1_C 0.60 48.0 3.10e-01 100.0% 18.7%
4027949 604.3.1.11 ↗ alpha bundles › Spectrin repeat-like › BAG domain › BAG domain › DUF155 0.60 43.0 3.60e-01 100.0% 45.4%
3720192 190.1.1.3 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box_2 0.59 44.0 4.57e-01 93.7% 90.0%
3278774 142.1.1.3 ↗ alpha complex topology › Sigma2 domain-like › Sigma2 domain of RNA polymerase sigma factors › Sigma2 domain of RNA polymerase sigma factors › Sigma70_r2 0.59 44.0 4.05e-01 79.7% 67.6%
3695505 604.3.1.11 ↗ alpha bundles › Spectrin repeat-like › BAG domain › BAG domain › DUF155 0.59 42.0 3.70e-01 100.0% 51.3%
3816224 101.1.17.2 ↗ alpha arrays › HTH › HTH › FF domain › FF 0.58 35.0 3.78e-01 97.5% 70.0%
5005807 2003.1.1.24 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › Shikimate_DH 0.56 49.0 3.47e-01 98.7% 61.5%
3305529 6027.1.1.3 ↗ alpha arrays › Host-nuclease inhibitor protein Gam › Host-nuclease inhibitor protein Gam › Host-nuclease inhibitor protein Gam › Mito_carr 0.56 46.0 4.31e-01 94.9% 72.0%
3477521 3456.1.1.3 ↗ extended segments › NADH-quinone oxidoreductase subunit A › NADH-quinone oxidoreductase subunit A › NADH-quinone oxidoreductase subunit A › OPA1_C 0.56 49.0 4.12e-01 96.2% 58.5%
4240705 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 0.54 36.0 3.55e-01 97.5% 63.5%
3170915 604.1.1.225 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › PF29134 0.54 35.0 3.52e-01 100.0% 65.0%
4942208 603.1.1.0 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.53 32.0 3.39e-01 100.0% 67.1%
3867152 601.1.2.87 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › I/LWEQ domain (Pfam 01608) › TMEM126 0.53 47.0 3.86e-01 100.0% 64.7%
4149675 603.1.1.128 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins › MSP1_C 0.52 40.0 2.68e-01 84.8% 48.1%
3734131 130.1.1.1 ↗ alpha arrays › LEM/SAP HeH motif-like › LEM/SAP HeH motif › LEM/SAP HeH motif › SAP 0.52 37.0 4.01e-01 78.5% 92.3%
4939889 547.1.1.1 ↗ alpha duplicates or obligate multimers › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › GlutR_dimer 0.52 37.0 3.27e-01 75.9% 65.8%
None — 0.51 39.0 2.82e-01 84.8% 65.5%
5019837 2003.1.1.24 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › Shikimate_DH 0.51 39.0 2.82e-01 84.8% 65.5%
3770245 1147.1.1.1 ↗ alpha bundles › RNA polymerase II elongation factor ELL2 C-terminal domain › RNA polymerase II elongation factor ELL2 C-terminal domain › RNA polymerase II elongation factor ELL2 C-terminal domain › Occludin_ELL 0.51 41.0 3.58e-01 87.3% 60.5%
4972578 109.23.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › C-terminal domain in vacuolar protein sorting-associated protein 54 › C-terminal domain in vacuolar protein sorting-associated protein 54 0.50 32.0 3.03e-01 73.4% 50.5%