←Back to structures

major_DNA_binding_protein

Euk-Vir

Human_betaherpesvirus_6B

major_DNA_binding_protein__NP_050222__Human_betaherpesvirus_6B__32604

Identity

Accession:
NP_050222 ↗
Protein ID:
major_DNA_binding_protein
Kingdom:
euk

Quality

81.2 mean pLDDT

Taxonomy

Heunggongvirae› Peploviricota› Herviviricetes› Herpesvirales› Orthoherpesviridae› Roseolovirus› Human_betaherpesvirus_6B

TaxID: 32604

Cluster

View cluster (33 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 1005-1084
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF00747.23 best Viral_DNA_bp 73.6 8.30e-21 100.0% 7.3%
CATH (28)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3dp7B01 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.67 47.0 4.48e-01 73.8% 71.0%
1zarA01 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.64 44.0 4.28e-01 71.2% 85.4%
1z1vA00 1.10.150.50 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Transcription Factor, Ets-1 0.64 43.0 4.64e-01 70.0% 88.6%
1r71A01 1.10.10.730 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › KorB DNA-binding domain 0.62 42.0 4.71e-01 80.0% 100.0%
4olsA00 3.40.80.10 Alpha Beta › 3-Layer(aba) Sandwich › Lysozyme-like › Peptidoglycan recognition protein-like 0.61 47.0 3.69e-01 86.3% 63.2%
7ar7E01 1.10.10.1590 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › NADH-quinone oxidoreductase subunit E 0.60 44.0 4.78e-01 77.5% 100.0%
4rgxB00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.60 47.0 4.04e-01 86.3% 60.4%
4q1tB01 3.40.1160.10 Alpha Beta › 3-Layer(aba) Sandwich › Carbamate kinase › Acetylglutamate kinase-like 0.60 52.0 3.74e-01 100.0% 54.4%
5jbrA01 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.59 49.0 4.88e-01 95.0% 98.8%
1ku9B01 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.59 47.0 4.61e-01 88.7% 97.7%
1izmA00 1.20.120.740 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › YgfB uncharacterised protein family PF03695 0.58 44.0 3.52e-01 82.5% 66.5%
2bnlC00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.58 45.0 3.92e-01 88.7% 70.9%
3l9tA01 1.10.1240.70 Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › 0.56 40.0 3.97e-01 82.5% 73.5%
2k19A00 1.20.1440.140 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 0.56 41.0 3.87e-01 87.5% 64.3%
1wkbA01 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.55 47.0 3.02e-01 100.0% 69.5%
4ui9Y03 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.55 38.0 3.88e-01 85.0% 72.5%
1mhyG02 1.20.1280.30 Mainly Alpha › Up-down Bundle › Monooxygenase › Methane monooxygenase, gamma chain, domain 2 0.55 36.0 3.80e-01 71.2% 75.3%
4ri6A02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.53 41.0 3.72e-01 87.5% 81.5%
2vxgA02 1.10.220.100 Mainly Alpha › Orthogonal Bundle › Annexin V; domain 1 › conserved c-terminal region of ge- 1 0.53 39.0 3.86e-01 77.5% 94.1%
1sumB01 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 0.53 37.0 3.37e-01 71.2% 80.4%
7dkaA01 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.53 44.0 3.31e-01 91.3% 80.0%
2pmiB00 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.52 44.0 3.28e-01 95.0% 43.2%
1ornA01 1.10.340.30 Mainly Alpha › Orthogonal Bundle › Endonuclease III; domain 1 › Hypothetical protein; domain 2 0.52 42.0 3.81e-01 90.0% 65.2%
2zgyA02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.52 39.0 3.33e-01 82.5% 85.0%
1oxjA02 1.25.40.170 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Smaug, PHAT domain 0.52 38.0 3.53e-01 81.2% 75.2%
5nl6B01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.51 38.0 3.32e-01 78.8% 84.3%
1c9bA02 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.51 43.0 3.91e-01 91.3% 78.3%
4jz8B00 3.40.1160.10 Alpha Beta › 3-Layer(aba) Sandwich › Carbamate kinase › Acetylglutamate kinase-like 0.50 42.0 2.97e-01 100.0% 90.7%
ECOD (42)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3424337 101.1.2.31 ↗ alpha arrays › HTH › HTH › winged helix domain › TFIIE_alpha 0.65 42.0 4.21e-01 70.0% 63.7%
5040755 101.1.1.251 ↗ alpha arrays › HTH › HTH › Three-helical HTH › HTH_ParB 0.65 50.0 4.65e-01 100.0% 64.8%
5032049 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.65 42.0 4.65e-01 76.2% 88.3%
3944370 101.1.1.318 ↗ alpha arrays › HTH › HTH › Three-helical HTH › PF30335 0.62 45.0 4.79e-01 82.5% 90.0%
4014826 101.1.10.0 ↗ alpha arrays › HTH › HTH › Cyclin-like 0.61 42.0 3.22e-01 72.5% 57.9%
1822527 101.1.2.135 ↗ alpha arrays › HTH › HTH › winged helix domain › MarR_2 0.61 52.0 4.36e-01 100.0% 61.7%
4965036 101.1.2.30 ↗ alpha arrays › HTH › HTH › winged helix domain › TrmB 0.59 43.0 3.91e-01 78.8% 76.5%
3708827 101.1.10.0 ↗ alpha arrays › HTH › HTH › Cyclin-like 0.59 43.0 3.40e-01 77.5% 64.1%
3167535 102.1.1.18 ↗ alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › SAM domain-like › SAM_Ste50p 0.58 45.0 4.55e-01 81.2% 85.0%
4990528 101.1.10.0 ↗ alpha arrays › HTH › HTH › Cyclin-like 0.58 47.0 4.59e-01 85.0% 87.1%
3484242 101.1.10.0 ↗ alpha arrays › HTH › HTH › Cyclin-like 0.58 44.0 3.26e-01 85.0% 77.6%
4979047 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.57 48.0 3.90e-01 96.2% 54.5%
3640213 101.1.10.9 ↗ alpha arrays › HTH › HTH › Cyclin-like › Cyclin 0.57 46.0 3.55e-01 88.7% 82.7%
4665962 7531.1.1.0 ↗ a/b three-layered sandwiches › Carbamate kinase-like › Carbamate kinase-like › Carbamate kinase-like 0.57 49.0 3.48e-01 100.0% 51.9%
3740048 101.1.10.9 ↗ alpha arrays › HTH › HTH › Cyclin-like › Cyclin 0.57 46.0 3.54e-01 88.7% 81.6%
5013384 101.1.2.135 ↗ alpha arrays › HTH › HTH › winged helix domain › MarR_2 0.56 49.0 4.05e-01 100.0% 61.3%
4068557 101.1.10.1 ↗ alpha arrays › HTH › HTH › Cyclin-like › Cyclin_N 0.55 44.0 3.34e-01 87.5% 45.1%
3798156 101.1.10.0 ↗ alpha arrays › HTH › HTH › Cyclin-like 0.55 43.0 3.28e-01 86.3% 45.0%
3500366 101.1.10.9 ↗ alpha arrays › HTH › HTH › Cyclin-like › Cyclin 0.55 44.0 3.39e-01 87.5% 47.6%
3593798 101.1.10.0 ↗ alpha arrays › HTH › HTH › Cyclin-like 0.55 43.0 3.42e-01 83.7% 54.5%
3701576 101.1.10.9 ↗ alpha arrays › HTH › HTH › Cyclin-like › Cyclin 0.55 43.0 3.44e-01 85.0% 80.0%
3328518 101.1.10.9 ↗ alpha arrays › HTH › HTH › Cyclin-like › Cyclin 0.55 43.0 3.30e-01 83.7% 48.1%
3173665 101.1.10.9 ↗ alpha arrays › HTH › HTH › Cyclin-like › Cyclin 0.55 45.0 3.60e-01 88.7% 59.1%
3718570 101.1.10.9 ↗ alpha arrays › HTH › HTH › Cyclin-like › Cyclin 0.54 43.0 3.75e-01 87.5% 67.2%
3191120 101.1.10.9 ↗ alpha arrays › HTH › HTH › Cyclin-like › Cyclin 0.54 43.0 3.29e-01 88.7% 80.5%
3302992 101.1.10.9 ↗ alpha arrays › HTH › HTH › Cyclin-like › Cyclin 0.54 43.0 3.34e-01 88.7% 80.0%
3512795 101.1.10.9 ↗ alpha arrays › HTH › HTH › Cyclin-like › Cyclin 0.54 42.0 3.37e-01 85.0% 56.2%
3701878 101.1.10.9 ↗ alpha arrays › HTH › HTH › Cyclin-like › Cyclin 0.53 43.0 3.36e-01 88.7% 84.0%
3172088 101.1.10.1 ↗ alpha arrays › HTH › HTH › Cyclin-like › Cyclin_N 0.53 41.0 3.37e-01 85.0% 59.4%
3600385 101.1.10.0 ↗ alpha arrays › HTH › HTH › Cyclin-like 0.53 42.0 3.14e-01 88.7% 65.9%
332713 101.1.10.9 ↗ alpha arrays › HTH › HTH › Cyclin-like › Cyclin 0.53 44.0 3.26e-01 93.8% 42.9%
3716640 101.1.10.9 ↗ alpha arrays › HTH › HTH › Cyclin-like › Cyclin 0.52 42.0 3.26e-01 90.0% 81.6%
3253586 101.1.10.9 ↗ alpha arrays › HTH › HTH › Cyclin-like › Cyclin 0.52 41.0 3.46e-01 87.5% 60.7%
5042406 101.1.10.3 ↗ alpha arrays › HTH › HTH › Cyclin-like › TFIIB 0.52 40.0 3.85e-01 83.7% 90.5%
3263450 109.24.1.2 ↗ alpha superhelices › Repetitive alpha hairpins › Helical domain in dedicator of cytokinesis protein 9 › Helical domain in dedicator of cytokinesis protein 9 › DHR-2_Lobe_C 0.52 42.0 3.68e-01 88.7% 84.2%
3731997 3831.1.1.0 ↗ alpha bundles › Secreted protein of unknown function DUF1311 › Secreted protein of unknown function DUF1311 › Secreted protein of unknown function DUF1311 0.52 38.0 3.24e-01 86.3% 49.6%
3460685 101.1.10.9 ↗ alpha arrays › HTH › HTH › Cyclin-like › Cyclin 0.51 42.0 3.29e-01 91.3% 62.8%
3990437 101.1.10.9 ↗ alpha arrays › HTH › HTH › Cyclin-like › Cyclin 0.51 40.0 3.22e-01 88.7% 69.7%
3632146 101.1.10.9 ↗ alpha arrays › HTH › HTH › Cyclin-like › Cyclin 0.51 41.0 3.25e-01 88.7% 50.6%
3254469 101.1.10.9 ↗ alpha arrays › HTH › HTH › Cyclin-like › Cyclin 0.51 39.0 3.12e-01 86.3% 51.1%
3781490 101.1.10.9 ↗ alpha arrays › HTH › HTH › Cyclin-like › Cyclin 0.50 41.0 3.44e-01 93.8% 87.3%
3264092 101.1.10.9 ↗ alpha arrays › HTH › HTH › Cyclin-like › Cyclin 0.50 38.0 3.06e-01 86.3% 48.6%
D2 medium residues 1-24_133-214_693-728
PDB
Domain cluster: rep: JM5__YP_238308__Macaca_fuscata_rhadinovirus__272551__D62-101_150-211_236-257_687-715
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF00747.23 best Viral_DNA_bp 99.8 9.90e-29 62.0% 8.0%
ECOD (1)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
7679 4174.1.1.1 ↗ a+b complex topology › N-terminal domain in viral ssDNA binding protein › N-terminal domain in viral ssDNA binding protein › N-terminal domain in viral ssDNA binding protein › Viral_DNA_bp 0.65 58.0 4.57e-01 94.4% 94.2%
D3 medium residues 215-278
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF00747.23 best Viral_DNA_bp 81.4 3.70e-23 100.0% 5.7%
ECOD (2)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
7679 4174.1.1.1 ↗ a+b complex topology › N-terminal domain in viral ssDNA binding protein › N-terminal domain in viral ssDNA binding protein › N-terminal domain in viral ssDNA binding protein › Viral_DNA_bp 0.90 71.0 4.53e-01 84.4% 19.7%
3668968 148.1.1.3 ↗ alpha arrays › Histone-like › Histone-related › Histone › Histone,Histone_H2A_C 0.53 42.0 3.30e-01 90.6% 70.3%
D4 medium residues 414-501
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF00747.23 best Viral_DNA_bp 115.2 2.20e-33 100.0% 7.9%
CATH (2)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2khmA01 1.10.10.1350 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Spidroin domain, C-terminal domain 0.51 36.0 3.36e-01 72.7% 74.1%
2vkhA03 1.10.10.1780 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › 0.51 25.0 2.77e-01 84.1% 58.0%
ECOD (2)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3516489 138.1.1.17 ↗ alpha arrays › DNA polymerase III clamp loader subunits, C-terminal domain › DNA polymerase III clamp loader subunits, C-terminal domain › DNA polymerase III clamp loader subunits, C-terminal domain › RAD24_helical 0.52 38.0 3.24e-01 85.2% 45.2%
3673805 148.1.3.285 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › Cyclin_C 0.51 36.0 3.66e-01 72.7% 78.8%
D5 medium residues 540-597_765-863
PDB
Domain cluster: rep: single-stranded_DNA-binding_protein__YP_073781__Human_betaherpesvirus_7__10372__D539-623_810-829_841-855
Pfam (2)
AccessionNameScoreE-valueQ covHMM cov
PF00747.23 best Viral_DNA_bp 142.3 1.50e-41 64.3% 8.8%
PF00747.23 Viral_DNA_bp 53.7 8.20e-15 37.6% 5.4%