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guanosine_monophosphate_kinase

Euk-Vir

Penaeus_monodon_nudivirus

guanosine_monophosphate_kinase__YP_009051876__Penaeus_monodon_nudivirus__1529056

Identity

Accession:
YP_009051876 ↗
Protein ID:
guanosine_monophosphate_kinase
Kingdom:
euk

Quality

67.9 mean pLDDT

Taxonomy

Naldaviricetes› Lefavirales› Nudiviridae› Gammanudivirus› Penaeus_monodon_nudivirus

TaxID: 1529056

Cluster

View cluster (16 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 medium residues 55-153_200-223
PDB
Domain cluster: representative
CATH (11)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1zm7B00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.75 60.0 5.06e-01 84.6% 78.8%
1knqA00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.65 53.0 4.72e-01 86.2% 76.0%
2vliB00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.64 51.0 4.54e-01 85.4% 76.3%
7yq0B01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.62 49.0 4.43e-01 82.9% 78.9%
1m8pA03 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.62 50.0 4.39e-01 87.0% 76.6%
5aykA07 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.59 34.0 3.53e-01 76.4% 59.1%
2ekdA00 3.40.50.11570 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Protein of unknown function DUF257 0.58 43.0 3.67e-01 78.0% 89.1%
4nwyA00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.54 31.0 3.15e-01 75.6% 53.9%
2b4qB00 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.52 42.0 3.39e-01 87.0% 78.6%
2qbyA02 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.51 39.0 3.51e-01 82.1% 85.5%
4mj7B00 3.40.50.1010 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 5'-nuclease 0.50 39.0 3.63e-01 82.1% 92.2%
ECOD (12)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4213018 2004.1.1.79 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Thymidylate_kin 0.74 59.0 4.93e-01 85.4% 75.7%
None — 0.71 57.0 5.02e-01 84.6% 73.7%
4575355 2004.1.1.60 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SKI 0.67 56.0 4.85e-01 87.8% 70.0%
4292712 2004.1.1.60 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SKI 0.65 53.0 4.77e-01 85.4% 74.5%
4992925 2004.1.1.163 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › KTI12 0.64 51.0 4.41e-01 84.6% 70.5%
4130856 2004.1.1.60 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SKI 0.62 57.0 4.79e-01 100.0% 71.5%
4946861 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.59 46.0 3.49e-01 82.1% 68.3%
4995746 2006.1.1.78 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › QueC 0.52 40.0 3.37e-01 82.1% 80.4%
4064073 2004.1.1.209 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Sigma54_activ_2 0.52 40.0 3.80e-01 83.7% 91.0%
5075030 2003.1.7.4 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NagB/RpiA/CoA transferase-like › Glucosamine_iso 0.51 46.0 3.70e-01 100.0% 71.0%
4378058 2004.1.1.201 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_26 0.51 38.0 3.04e-01 78.9% 62.3%
3720072 7512.1.1.54 ↗ a/b three-layered sandwiches › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › Alg14 0.51 37.0 3.01e-01 77.2% 78.8%
D2 medium residues 154-199_224-278
PDB
Domain cluster: representative
CATH (16)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2c2xA02 3.40.50.10860 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Leucine Dehydrogenase, chain A, domain 1 0.63 47.0 4.07e-01 78.2% 100.0%
6ecpB01 3.40.50.10860 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Leucine Dehydrogenase, chain A, domain 1 0.61 46.0 4.10e-01 79.2% 98.6%
7zghA01 3.40.50.1240 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Phosphoglycerate mutase-like 0.57 41.0 2.74e-01 73.3% 30.3%
1egaA01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.54 38.0 3.13e-01 71.3% 60.2%
5kztA03 3.10.105.10 Alpha Beta › Roll › Dipeptide-binding Protein; domain 3 › Dipeptide-binding Protein; Domain 3 0.54 38.0 2.97e-01 73.3% 43.8%
1m0wA04 3.40.50.1760 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Glutathione synthase, substrate-binding domain superfamily, eukaryotic 0.54 38.0 3.50e-01 72.3% 89.9%
2jfzA02 3.40.50.1860 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.54 33.0 3.16e-01 73.3% 50.8%
2b4lA02 3.10.105.10 Alpha Beta › Roll › Dipeptide-binding Protein; domain 3 › Dipeptide-binding Protein; Domain 3 0.54 45.0 3.92e-01 93.1% 59.2%
2wyoA04 3.40.50.1760 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Glutathione synthase, substrate-binding domain superfamily, eukaryotic 0.54 38.0 3.42e-01 72.3% 94.2%
3zs6A03 3.10.105.10 Alpha Beta › Roll › Dipeptide-binding Protein; domain 3 › Dipeptide-binding Protein; Domain 3 0.53 38.0 2.98e-01 74.3% 42.9%
1u8zA00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.53 36.0 3.13e-01 71.3% 61.8%
2z1dA01 3.40.50.11750 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HypD, alpha/beta domain 1 0.52 35.0 3.22e-01 91.1% 49.6%
1z06A00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.52 36.0 3.10e-01 71.3% 60.0%
3l49A02 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.51 40.0 3.54e-01 100.0% 57.1%
1qwoA01 3.40.50.1240 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Phosphoglycerate mutase-like 0.51 44.0 3.01e-01 99.0% 69.0%
1d5cA00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.51 36.0 3.14e-01 74.3% 59.9%
ECOD (24)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3439443 2485.1.1.0 ↗ a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like 0.67 48.0 5.10e-01 74.3% 95.5%
4677221 2007.1.6.2 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Aminoacid dehydrogenase-like, N-terminal domain › THF_DHG_CYH 0.64 48.0 4.64e-01 78.2% 69.6%
4065153 2007.1.6.2 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Aminoacid dehydrogenase-like, N-terminal domain › THF_DHG_CYH 0.64 46.0 4.24e-01 75.2% 63.1%
3593248 2007.1.6.0 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Aminoacid dehydrogenase-like, N-terminal domain 0.62 46.0 4.35e-01 77.2% 66.7%
4048656 2007.1.6.2 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Aminoacid dehydrogenase-like, N-terminal domain › THF_DHG_CYH 0.62 45.0 4.38e-01 77.2% 71.3%
4570848 2007.1.6.2 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Aminoacid dehydrogenase-like, N-terminal domain › THF_DHG_CYH 0.61 44.0 4.26e-01 74.3% 66.1%
4093291 2007.1.6.2 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Aminoacid dehydrogenase-like, N-terminal domain › THF_DHG_CYH 0.60 45.0 4.45e-01 77.2% 97.1%
4158502 2007.1.6.2 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Aminoacid dehydrogenase-like, N-terminal domain › THF_DHG_CYH 0.59 46.0 4.26e-01 81.2% 95.2%
3987929 2007.1.2.10 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Periplasmic binding protein-like I › Peripla_BP_3 0.58 42.0 3.79e-01 100.0% 55.0%
4511125 2007.1.6.2 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Aminoacid dehydrogenase-like, N-terminal domain › THF_DHG_CYH 0.58 44.0 4.14e-01 80.2% 87.5%
3389977 2004.1.1.19 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Ras 0.56 38.0 3.03e-01 70.3% 47.4%
4027367 2004.1.1.571 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Ras, MMR_HSR1 0.56 39.0 3.09e-01 71.3% 67.1%
3404547 2004.1.1.19 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Ras 0.54 37.0 2.88e-01 70.3% 44.0%
3893786 2004.1.1.19 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Ras 0.52 36.0 2.90e-01 70.3% 52.0%
3638384 2003.1.5.1 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › DNA_methylase 0.52 43.0 2.87e-01 94.1% 25.7%
3004619 2003.1.10.7 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › PreATP-grasp domain › GSP_synth 0.52 37.0 3.71e-01 76.2% 94.4%
3173227 7528.1.1.1 ↗ a/b three-layered sandwiches › Phosphoglucomutase, first 3 domains › Phosphoglucomutase, first 3 domains › Phosphoglucomutase, first 3 domains › PGM_PMM_I 0.52 40.0 3.32e-01 84.2% 93.7%
5073927 2004.1.1.196 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_22 0.52 43.0 3.54e-01 92.1% 80.5%
3495573 2004.1.1.19 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Ras 0.52 33.0 3.47e-01 70.3% 71.1%
4542172 2003.1.11.12 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › Formate/glycerate dehydrogenase catalytic domain-like › Glyco_transf_61 0.51 44.0 3.41e-01 97.0% 96.7%
4635446 2005.1.1.11 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › ATP_bind_3 0.51 39.0 3.04e-01 82.2% 51.7%
5078148 2005.1.1.11 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › ATP_bind_3 0.51 43.0 3.11e-01 94.1% 57.9%
4337741 2004.1.1.19 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Ras 0.51 35.0 2.87e-01 70.3% 53.2%
3795351 2004.1.1.19 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Ras 0.50 35.0 2.88e-01 71.3% 54.2%