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IMGVR_UViG_3300014914_000369-3300014914-Ga0164311_1000081615

Arc-Vir

IMGVR_UViG_3300014914_000369-3300014914-Ga0164311_1000081615

Identity

Kingdom:
archaea

Quality

91.3 mean pLDDT

Cluster

Singleton — not in a non-trivial cluster

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 5-56
PDB
Domain cluster: representative
CATH (40)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2c61A00 3.40.50.12240 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.77 60.0 3.48e-01 88.5% 10.2%
1nrkA03 2.40.30.160 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › 0.73 62.0 4.72e-01 96.2% 67.2%
4ii1A02 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.70 46.0 4.56e-01 73.1% 64.3%
2kr7A02 2.40.10.330 Mainly Beta › Beta Barrel › Thrombin, subunit H › 0.69 57.0 5.55e-01 92.3% 87.7%
4dt4A02 2.40.10.330 Mainly Beta › Beta Barrel › Thrombin, subunit H › 0.69 57.0 5.58e-01 92.3% 89.5%
1wosA04 2.40.30.110 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Aminomethyltransferase beta-barrel domains 0.68 57.0 4.85e-01 94.2% 59.3%
1vloA04 2.40.30.110 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Aminomethyltransferase beta-barrel domains 0.68 56.0 4.69e-01 92.3% 59.3%
2eqjA00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.67 45.0 4.20e-01 71.2% 56.1%
3lnnA02 2.40.30.170 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Efflux pump adaptor protein, beta barrel domain 0.66 57.0 4.75e-01 98.1% 64.5%
7cfdA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.66 45.0 4.01e-01 73.1% 50.7%
2gpjA01 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.66 56.0 4.57e-01 98.1% 60.0%
6tdyD01 2.40.10.170 Mainly Beta › Beta Barrel › Thrombin, subunit H › 0.65 53.0 4.80e-01 98.1% 65.3%
1qfjA01 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.65 53.0 4.54e-01 98.1% 59.3%
2gfaB01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.64 45.0 4.25e-01 73.1% 66.1%
8gz3B01 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.64 53.0 4.53e-01 98.1% 59.1%
2kz4A00 2.40.10.270 Mainly Beta › Beta Barrel › Thrombin, subunit H › Bacteriophage SPP1 head-tail adaptor protein 0.63 53.0 4.26e-01 100.0% 58.9%
2dpyA00 3.40.50.12240 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.63 50.0 2.99e-01 98.1% 11.4%
5kcoA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.61 42.0 4.10e-01 73.1% 67.8%
4he6A00 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.61 49.0 4.29e-01 98.1% 67.4%
5ylyA01 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.60 48.0 3.93e-01 98.1% 52.7%
4j3cA01 2.40.240.20 Mainly Beta › Beta Barrel › Ribosomal Protein L25; Chain P › Hypothetical PUA domain-like; domain 1 0.59 51.0 4.75e-01 96.2% 79.7%
4hh3A01 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.59 48.0 3.88e-01 96.2% 87.7%
3zn6A02 2.60.40.3410 Mainly Beta › Sandwich › Immunoglobulin-like › 0.59 49.0 4.24e-01 98.1% 72.4%
4paaA05 2.40.30.110 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Aminomethyltransferase beta-barrel domains 0.59 46.0 4.20e-01 94.2% 64.6%
2d7eA01 3.40.1440.60 Alpha Beta › 3-Layer(aba) Sandwich › GIY-YIG endonuclease › PriA, 3(prime) DNA-binding domain 0.58 44.0 3.70e-01 82.7% 87.8%
2q7nA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.57 38.0 3.40e-01 71.2% 100.0%
5yzzC00 2.40.330.10 Mainly Beta › Beta Barrel › At1g16640 B3 domain › DNA-binding pseudobarrel domain 0.56 47.0 3.80e-01 100.0% 55.9%
1a3qA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.56 46.0 3.88e-01 98.1% 58.2%
2jilA00 2.30.42.10 Mainly Beta › Roll › Pdz3 Domain › PDZ domain 0.55 44.0 3.70e-01 90.4% 92.6%
3ttcA03 3.30.420.360 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › 0.55 39.0 3.07e-01 94.2% 33.1%
2m83A00 2.60.40.2440 Mainly Beta › Sandwich › Immunoglobulin-like › Carbohydrate binding type-21 domain 0.54 44.0 3.40e-01 100.0% 61.2%
2blfA02 2.60.40.650 Mainly Beta › Sandwich › Immunoglobulin-like › 0.54 44.0 3.56e-01 98.1% 50.9%
2r78C00 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.54 42.0 3.48e-01 98.1% 83.6%
5os9A00 2.40.330.10 Mainly Beta › Beta Barrel › At1g16640 B3 domain › DNA-binding pseudobarrel domain 0.53 43.0 3.52e-01 100.0% 53.0%
2r4hC01 2.30.42.10 Mainly Beta › Roll › Pdz3 Domain › PDZ domain 0.53 44.0 3.78e-01 96.2% 97.7%
3ne5B01 2.40.420.20 Mainly Beta › Beta Barrel › conserved putative lor/sdh protein from methanococcus maripaludis s2 fold › 0.53 38.0 3.39e-01 82.7% 54.7%
2xzlA02 2.40.30.230 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › 0.52 42.0 3.81e-01 98.1% 73.4%
4mn5A00 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.52 40.0 3.38e-01 92.3% 85.4%
1f0xA04 3.30.1370.20 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › D-lactate dehydrogenase, cap domain, subdomain 2 0.52 40.0 3.52e-01 92.3% 55.3%
3h8zA02 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.51 34.0 3.31e-01 71.2% 59.4%
ECOD (54)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4083044 1.1.7.17 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.73 57.0 5.09e-01 98.1% 60.0%
3878271 101.1.2.284 ↗ alpha arrays › HTH › HTH › winged helix domain › WAC_Acf1_DNA_bd 0.73 50.0 3.55e-01 73.1% 24.5%
5076995 1.1.7.17 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.72 57.0 4.91e-01 98.1% 56.2%
3642150 1.1.7.17 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.72 57.0 4.70e-01 98.1% 48.4%
4215822 1.1.8.7 ↗ beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain › YgfZ_barrel 0.72 57.0 5.18e-01 88.5% 72.9%
4973665 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.72 61.0 5.27e-01 98.1% 65.9%
4060133 1.1.7.11 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › RimM 0.71 55.0 4.60e-01 84.6% 60.0%
3946849 1.1.13.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins 0.71 51.0 5.24e-01 78.8% 94.0%
3718008 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.71 49.0 5.03e-01 73.1% 76.0%
4011239 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.71 55.0 4.83e-01 98.1% 56.2%
4166012 1.1.7.17 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.71 57.0 5.03e-01 98.1% 61.3%
3976133 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.70 58.0 4.88e-01 98.1% 52.6%
4350337 1.1.7.17 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.70 57.0 5.02e-01 98.1% 61.3%
4080130 1.1.7.17 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.70 55.0 4.88e-01 98.1% 60.0%
3604610 1.1.13.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins 0.70 59.0 5.52e-01 98.1% 92.3%
3967745 1.1.7.17 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.69 56.0 4.98e-01 98.1% 62.7%
3183224 1.1.7.24 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › FAD_binding_8 0.69 59.0 4.82e-01 98.1% 56.0%
4072878 1.1.7.17 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.68 56.0 4.88e-01 98.1% 60.0%
4319764 1.1.7.17 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.67 54.0 4.24e-01 98.1% 42.7%
3959019 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.67 55.0 4.76e-01 96.2% 67.1%
3785228 1.1.7.24 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › FAD_binding_8 0.66 55.0 4.50e-01 98.1% 56.2%
3516562 1.1.7.9 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › tRNA-synt_2c 0.66 55.0 4.13e-01 98.1% 47.9%
4954736 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.65 53.0 4.65e-01 98.1% 58.8%
5069408 1.1.7.7 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › FAD_binding_6 0.65 54.0 4.61e-01 98.1% 60.0%
4946634 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.65 49.0 4.18e-01 84.6% 60.0%
3945286 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.64 54.0 4.42e-01 98.1% 54.3%
4069807 1.1.7.7 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › FAD_binding_6 0.64 53.0 4.42e-01 98.1% 56.0%
4028698 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.64 52.0 4.22e-01 98.1% 52.6%
5064178 1.1.13.73 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › PUA 0.63 53.0 5.10e-01 98.1% 96.7%
3688796 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.62 50.0 4.32e-01 98.1% 55.6%
4218835 1.1.8.5 ↗ beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain › tRNA_Me_trans_C 0.62 47.0 3.97e-01 86.5% 74.7%
4051617 1.1.7.9 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › tRNA-synt_2c 0.59 48.0 3.79e-01 98.1% 52.8%
4950708 223.1.1.25 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains › PAS_9 0.59 49.0 3.79e-01 96.2% 80.0%
3268048 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.59 45.0 4.38e-01 98.1% 76.7%
4108039 1.1.8.5 ↗ beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain › tRNA_Me_trans_C 0.59 45.0 3.91e-01 86.5% 55.3%
3383246 1.1.11.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Type II restriction endonuclease effector domain 0.58 50.0 4.31e-01 100.0% 68.2%
3868227 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.58 48.0 4.07e-01 98.1% 60.0%
4642797 69.1.1.4 ↗ beta complex topology › Hedgehog/intein › Hedgehog/intein › Hint › Intein_splicing 0.57 42.0 2.99e-01 78.8% 91.2%
3321180 1.1.11.1 ↗ beta barrels › cradle loop barrel › RIFT-related › Type II restriction endonuclease effector domain › B3 0.57 48.0 3.81e-01 100.0% 53.0%
3472974 7.1.1.1 ↗ beta barrels › PDZ domain › PDZ domain › PDZ domain › PDZ 0.57 46.0 3.84e-01 92.3% 92.6%
4497776 1.1.8.5 ↗ beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain › tRNA_Me_trans_C 0.56 45.0 4.03e-01 96.2% 66.3%
3925688 7.1.1.1 ↗ beta barrels › PDZ domain › PDZ domain › PDZ domain › PDZ 0.55 44.0 3.73e-01 90.4% 97.8%
3596677 223.1.1.0 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains 0.55 44.0 3.78e-01 96.2% 90.5%
5053568 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.54 42.0 3.22e-01 90.4% 51.9%
3630677 7.1.1.1 ↗ beta barrels › PDZ domain › PDZ domain › PDZ domain › PDZ 0.54 43.0 3.37e-01 90.4% 73.3%
3528870 391.1.2.13 ↗ few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › VWC domain-related › Fn1-VW_OTOGL 0.54 39.0 3.05e-01 78.8% 36.7%
4172447 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.53 43.0 3.94e-01 98.1% 70.7%
3731651 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.52 43.0 3.96e-01 100.0% 76.0%
5059044 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.52 41.0 3.61e-01 100.0% 56.8%
5055679 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.52 40.0 3.75e-01 92.3% 75.7%
5067952 11.1.1.288 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Big_13 0.52 43.0 3.63e-01 98.1% 56.8%
3841998 11.1.1.2 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › fn3 0.51 42.0 3.57e-01 98.1% 53.7%
3321067 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.51 41.0 3.58e-01 98.1% 56.7%
3251645 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.50 40.0 3.40e-01 98.1% 51.6%
D2 high residues 61-119
PDB
Domain cluster: rep: OM681334.1__UNJ22046.1__X__00006__D51-106
CATH (8)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1c5eA00 2.40.300.10 Mainly Beta › Beta Barrel › Virus Head Decoration Protein; Chain: A, › Head decoration protein D 0.76 66.0 5.65e-01 100.0% 60.0%
6xgqb01 2.40.300.10 Mainly Beta › Beta Barrel › Virus Head Decoration Protein; Chain: A, › Head decoration protein D 0.68 60.0 5.17e-01 100.0% 64.5%
8bveA03 2.40.340.10 Mainly Beta › Beta Barrel › Beta-clip › MoeA, C-terminal, domain IV 0.62 55.0 5.16e-01 100.0% 100.0%
1zunB02 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.61 50.0 4.40e-01 100.0% 61.1%
1x7fA02 2.40.100.10 Mainly Beta › Beta Barrel › Cyclophilin › Cyclophilin-like 0.53 44.0 3.65e-01 98.3% 94.1%
3gg8C03 2.40.33.10 Mainly Beta › Beta Barrel › M1 Pyruvate Kinase; Domain 3 › PK beta-barrel domain-like 0.53 45.0 3.91e-01 100.0% 61.9%
5yl6A01 2.60.120.590 Mainly Beta › Sandwich › Jelly Rolls › Alpha-ketoglutarate-dependent dioxygenase AlkB-like 0.52 36.0 2.63e-01 72.9% 89.8%
3cngC02 3.90.79.10 Alpha Beta › Alpha-Beta Complex › Nucleoside Triphosphate Pyrophosphohydrolase › Nucleoside Triphosphate Pyrophosphohydrolase 0.52 36.0 2.83e-01 76.3% 81.8%
ECOD (9)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3981037 70.4.1.9 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) › Phage_cement_2 0.78 66.0 6.79e-01 100.0% 98.2%
4937267 70.4.1.0 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) 0.78 71.0 5.50e-01 98.3% 48.3%
2559744 70.4.1.2 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) › Phage_head_fibr 0.77 62.0 6.22e-01 100.0% 86.4%
5033307 70.4.1.0 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) 0.77 72.0 5.28e-01 100.0% 42.9%
2808420 70.4.1.1 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) › HDPD 0.77 67.0 5.42e-01 100.0% 52.3%
3945811 70.4.1.7 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) › XM1_gp53_minor_capsid 0.75 66.0 6.61e-01 98.3% 95.0%
5083172 70.4.1.9 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) › Phage_cement_2 0.74 60.0 6.22e-01 93.2% 100.0%
5002644 70.4.1.0 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) 0.69 62.0 5.71e-01 100.0% 94.7%
3261422 1.1.15.1 ↗ beta barrels › cradle loop barrel › RIFT-related › PK beta-barrel domain-like › PK 0.54 41.0 3.49e-01 84.7% 84.8%