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replication-associated_protein

Euk-Vir

Human_genital-associated_circular_DNA_virus-1

replication-associated_protein__YP_009130657__Human_genital-associated_circular_DNA_virus-1__1488574

Identity

Accession:
YP_009130657 ↗
Protein ID:
replication-associated_protein
Kingdom:
euk

Quality

85.5 mean pLDDT

Taxonomy

Shotokuvirae› Cressdnaviricota› Repensiviricetes› Geplafuvirales› Genomoviridae› Gemygorvirus› Human_genital-associated_circular_DNA_virus-1

TaxID: 1488574

Cluster

View cluster (491 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 8-103
PDB
Domain cluster: rep: RepA__YP_009252354__Faeces_associated_gemycircularvirus_20__1843740__D6-101
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF00799.27 best Gemini_AL1 39.8 5.50e-10 100.0% 90.3%
D2 high residues 116-159
PDB
Domain cluster: rep: replication_associated_protein__YP_009551401__Lepus_americanus_faeces_associated_genomovirus_SHP7__2219120__D110-157
D3 high residues 180-303
PDB
Domain cluster: rep: IMGVR_UViG_638276918_000001-638276918-638305645__D148-283
CATH (37)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4zpxA01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.76 70.0 5.66e-01 100.0% 88.0%
3nbxX01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.72 66.0 5.51e-01 100.0% 67.0%
1g8pA01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.72 66.0 5.59e-01 100.0% 93.0%
1svmA03 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.71 66.0 6.11e-01 100.0% 96.1%
1tueD00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.71 65.0 5.52e-01 100.0% 66.8%
3ja8204 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.71 65.0 4.70e-01 100.0% 50.7%
3vkhB09 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.71 64.0 5.65e-01 100.0% 88.0%
3vkhB07 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.70 63.0 5.51e-01 100.0% 84.7%
4r7zA00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.69 63.0 4.68e-01 100.0% 53.2%
4akgA12 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.68 59.0 6.12e-01 95.2% 100.0%
2r44A02 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.67 60.0 5.47e-01 100.0% 88.6%
2i3bA00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.62 53.0 4.63e-01 93.5% 88.4%
2oztA02 3.20.20.120 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Enolase-like C-terminal domain 0.61 45.0 3.81e-01 77.4% 55.7%
3crvA03 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.60 51.0 4.39e-01 93.5% 98.0%
3cu2A00 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.59 52.0 4.21e-01 96.0% 90.6%
3ll7A02 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.59 48.0 4.13e-01 87.1% 77.4%
1gkuB03 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.58 50.0 4.44e-01 94.4% 81.1%
7xpcA01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.57 52.0 3.82e-01 100.0% 73.2%
3kkiA02 3.40.640.10 Alpha Beta › 3-Layer(aba) Sandwich › Aspartate Aminotransferase; domain 2 › Type I PLP-dependent aspartate aminotransferase-like (Major domain) 0.57 47.0 3.85e-01 89.5% 62.9%
6r62A00 3.20.20.60 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Phosphoenolpyruvate-binding domains 0.56 50.0 4.00e-01 100.0% 90.9%
1nvmA01 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.56 47.0 3.73e-01 93.5% 95.2%
2oktA02 3.20.20.120 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Enolase-like C-terminal domain 0.56 41.0 3.50e-01 77.4% 48.1%
1zq9A01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.55 45.0 3.96e-01 86.3% 82.8%
1mumA00 3.20.20.60 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Phosphoenolpyruvate-binding domains 0.55 45.0 3.42e-01 87.1% 83.0%
2iojA00 3.40.1390.20 Alpha Beta › 3-Layer(aba) Sandwich › Udp-n-acetylmuramoylalanyl-d-glutamate--2,6- Diaminopimelate Ligase; Chain: A, domain 1 › HprK N-terminal domain-like 0.55 40.0 4.13e-01 98.4% 79.2%
1xxlA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.55 43.0 3.58e-01 86.3% 71.4%
3bt7A01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.54 44.0 3.65e-01 89.5% 75.0%
7f8aA01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.53 43.0 3.86e-01 87.1% 83.7%
1o2dA01 3.40.50.1970 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.53 47.0 4.25e-01 100.0% 87.9%
1wekF01 3.40.50.450 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.53 42.0 3.72e-01 87.9% 74.5%
1lj8A01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.52 42.0 3.25e-01 87.1% 68.3%
2b4yA01 3.40.50.1220 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › TPP-binding domain 0.51 45.0 4.24e-01 100.0% 78.9%
5nmxB02 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.51 33.0 3.76e-01 100.0% 87.1%
1mdbA02 3.40.50.980 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.51 45.0 4.10e-01 100.0% 72.4%
5lklB01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.51 45.0 4.35e-01 100.0% 96.5%
3u31A01 3.40.50.1220 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › TPP-binding domain 0.51 45.0 4.14e-01 100.0% 81.1%
5yjwA00 3.50.50.100 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › 0.51 40.0 2.78e-01 86.3% 26.7%
ECOD (58)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4542391 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.85 81.0 6.24e-01 100.0% 61.2%
3707197 2004.1.1.153 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_2 0.76 70.0 5.60e-01 100.0% 84.6%
3981677 2004.1.1.22 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Sigma54_activat 0.74 69.0 5.43e-01 100.0% 64.9%
3669453 2004.1.1.153 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_2 0.74 68.0 5.45e-01 100.0% 79.6%
4318504 2004.1.1.156 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_5 0.73 67.0 6.05e-01 100.0% 92.4%
3481498 2004.1.1.418 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › MCM, Mg_chelatase 0.73 68.0 5.11e-01 100.0% 62.5%
4518390 2004.1.1.156 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_5 0.73 67.0 5.97e-01 100.0% 90.9%
2810781 8001.1.1.1 ↗ alpha arrays › N-terminal domain of large tumor antigen › N-terminal domain of large tumor antigen › N-terminal domain of large tumor antigen › PPV_E1_C 0.73 67.0 5.49e-01 100.0% 61.1%
4030223 2004.1.1.418 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › MCM, Mg_chelatase 0.73 67.0 5.16e-01 100.0% 64.8%
3703312 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.73 67.0 4.63e-01 100.0% 42.3%
3166065 2004.1.1.207 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_32 0.72 66.0 5.36e-01 100.0% 86.5%
5018184 2004.1.1.156 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_5 0.72 66.0 5.72e-01 100.0% 80.5%
2392267 2004.1.1.55 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › RNA_helicase 0.72 62.0 5.20e-01 93.5% 56.2%
5006563 2004.1.1.156 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_5 0.72 66.0 5.19e-01 100.0% 75.7%
3702069 2004.1.1.181 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_7 0.72 66.0 5.48e-01 100.0% 72.8%
5011495 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.72 66.0 5.61e-01 100.0% 68.0%
None — 0.72 66.0 6.04e-01 100.0% 88.7%
5023501 2004.1.1.58 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Mg_chelatase 0.72 66.0 5.12e-01 100.0% 72.3%
4351475 2004.1.1.624 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Mg_chelatase, AAA_5 0.71 66.0 5.08e-01 100.0% 72.5%
3590003 2004.1.1.156 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_5 0.71 66.0 5.16e-01 100.0% 86.4%
3604643 2004.1.1.46 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › MCM 0.71 65.0 5.07e-01 100.0% 62.6%
4941848 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.71 66.0 4.62e-01 100.0% 36.3%
4959586 2004.1.1.409 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › DUF5906 0.71 65.0 4.97e-01 100.0% 51.3%
4552869 2004.1.1.2 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.71 65.0 5.35e-01 100.0% 78.6%
None — 0.71 65.0 5.64e-01 100.0% 74.7%
None — 0.71 65.0 5.99e-01 100.0% 88.7%
4974815 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.71 65.0 5.55e-01 100.0% 79.5%
3659436 2004.1.1.153 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_2 0.71 65.0 4.41e-01 100.0% 37.8%
3954129 2004.1.1.58 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Mg_chelatase 0.71 65.0 5.15e-01 100.0% 75.9%
None — 0.70 65.0 5.75e-01 100.0% 81.1%
5036693 2004.1.1.156 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_5 0.70 64.0 5.60e-01 100.0% 84.9%
3253892 2004.1.1.409 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › DUF5906 0.70 64.0 5.50e-01 100.0% 70.3%
4931926 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.70 64.0 4.72e-01 100.0% 44.1%
3281544 2004.1.1.584 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Sigma54_activat, Mg_chelatase 0.70 64.0 5.07e-01 100.0% 75.1%
3166204 2004.1.1.418 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › MCM, Mg_chelatase 0.69 64.0 5.13e-01 100.0% 69.8%
4974760 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.69 62.0 5.33e-01 100.0% 86.7%
5014143 2004.1.1.156 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_5 0.68 61.0 5.19e-01 100.0% 95.7%
3954608 2004.1.1.409 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › DUF5906 0.68 62.0 4.87e-01 100.0% 56.2%
5081314 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.68 61.0 4.80e-01 100.0% 54.6%
3610966 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.67 61.0 4.69e-01 100.0% 61.1%
5070037 2004.1.1.189 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_16 0.67 62.0 4.95e-01 100.0% 73.2%
5022020 2004.1.1.409 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › DUF5906 0.66 60.0 4.69e-01 100.0% 54.7%
4033843 2004.1.1.313 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › VapE-like_dom 0.66 61.0 5.21e-01 100.0% 77.9%
4002451 2004.1.1.93 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Dynein_heavy 0.64 59.0 5.13e-01 100.0% 72.4%
4995767 2004.1.1.23 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SNF2-rel_dom 0.62 57.0 4.39e-01 100.0% 92.2%
5014360 2004.1.1.1200 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › DUF835 0.61 54.0 5.07e-01 97.6% 98.7%
1682309 2004.1.1.194 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Helicase_C_2 0.60 51.0 4.34e-01 93.5% 94.1%
3261673 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 0.58 50.0 4.34e-01 93.5% 96.8%
9923 2006.1.3.2 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › Toprim domain › Toprim 0.57 42.0 4.43e-01 76.6% 95.4%
4239050 2003.1.5.2 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › RrnaAD 0.55 44.0 3.78e-01 86.3% 71.0%
9388 2003.1.5.154 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_29, Methyltransf_11 0.55 43.0 3.58e-01 86.3% 71.4%
3590242 2007.24.1.1 ↗ a/b three-layered sandwiches › Flavodoxin-like › AtpF-like › AtpF-like › ATP-synt_F 0.53 35.0 3.74e-01 82.3% 80.6%
5063002 2007.24.1.1 ↗ a/b three-layered sandwiches › Flavodoxin-like › AtpF-like › AtpF-like › ATP-synt_F 0.53 34.0 3.75e-01 76.6% 84.2%
2606092 7577.1.1.1 ↗ a/b three-layered sandwiches › PLP-dependent transferases › PLP-dependent transferases › PLP-dependent transferases › Aminotran_1_2 0.52 46.0 3.69e-01 100.0% 66.0%
1102197 101.1.2.163 ↗ alpha arrays › HTH › HTH › winged helix domain › PMT2_N 0.51 46.0 4.15e-01 100.0% 83.6%
4197001 2003.1.5.182 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › RrnaAD, Methyltransf_11 0.51 45.0 3.90e-01 100.0% 77.0%
4956678 7589.1.1.2 ↗ a/b three-layered sandwiches › YgbK-like › YgbK-like › YgbK-like › NBD_C 0.51 44.0 4.28e-01 99.2% 88.3%
1203505 323.1.1.3 ↗ a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases › AMP-binding 0.51 45.0 3.77e-01 100.0% 57.4%