←Back to structures

NC_023502.1__YP_009003211.1__CC53_gp054__00054

Bact-Vir

NC_023502.1__YP_009003211.1__CC53_gp054__00054

Identity

Accession:
NC_023502 ↗
Kingdom:
phage

Quality

83.6 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Rhizobium_phage_vB_RleS_L338C

TaxID: 1414737

Cluster

View cluster (2 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 38-119
PDB
Domain cluster: rep: OP009274.1__UUV43810.1__RCKICKAPOO_69__00069__D35-113
CATH (33)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1ntyA02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.67 40.0 3.48e-01 100.0% 39.5%
1yj7B01 3.30.70.1530 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Hypothetical protein rpa1041 0.65 44.0 4.71e-01 85.4% 81.7%
1upqA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.65 37.0 3.43e-01 97.6% 43.9%
2dhjA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.63 37.0 3.25e-01 100.0% 38.4%
1in0A01 3.30.70.860 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.62 44.0 4.67e-01 87.8% 87.1%
1s7hA01 3.30.70.930 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.61 44.0 4.52e-01 89.0% 78.8%
2dy1A03 3.30.70.870 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Elongation Factor G (Translational Gtpase), domain 3 0.61 45.0 4.64e-01 86.6% 84.2%
7uvpA02 3.30.70.870 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Elongation Factor G (Translational Gtpase), domain 3 0.61 44.0 4.74e-01 86.6% 92.8%
4erdA00 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.59 42.0 3.80e-01 97.6% 55.6%
2gqcA01 3.30.70.2080 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.59 39.0 4.48e-01 81.7% 100.0%
3ezjA02 3.30.1370.120 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › 0.57 43.0 4.65e-01 95.1% 95.6%
1lxjA00 3.30.70.930 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.57 43.0 3.98e-01 89.0% 64.1%
1lxnA00 3.30.70.930 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.57 43.0 4.07e-01 87.8% 67.3%
2iboA00 3.30.70.930 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.57 42.0 4.18e-01 89.0% 74.2%
2l48A00 3.30.70.2030 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.56 43.0 4.25e-01 96.3% 77.6%
1fxkB00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.56 31.0 2.81e-01 100.0% 41.3%
1vk8A00 3.30.70.930 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.55 41.0 3.96e-01 89.0% 69.9%
2anrA02 3.30.1370.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › K Homology domain, type 1 0.55 45.0 4.69e-01 91.5% 97.3%
1hi9A02 3.30.1360.130 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › Dipeptide transport protein 0.55 43.0 4.44e-01 100.0% 89.5%
2x7iA02 3.30.70.890 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › GHMP kinase, C-terminal domain 0.54 45.0 3.88e-01 90.2% 92.2%
1utaA00 3.30.70.1070 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Sporulation related repeat 0.54 38.0 3.96e-01 91.5% 79.2%
6lpwB01 3.30.559.10 Alpha Beta › 2-Layer Sandwich › Chloramphenicol Acetyltransferase › Chloramphenicol acetyltransferase-like domain 0.54 44.0 3.43e-01 90.2% 76.5%
2ctfA00 3.30.1370.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › K Homology domain, type 1 0.54 48.0 4.49e-01 98.8% 84.3%
3ungC03 3.30.70.270 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain 0.53 43.0 3.71e-01 89.0% 55.6%
4e1pA00 3.30.60.230 Alpha Beta › 2-Layer Sandwich › Wheat Germ Agglutinin (Isolectin 2); domain 1 › Lsr2, dimerisation domain 0.53 32.0 3.71e-01 91.5% 89.1%
2ebbA00 3.30.1360.20 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › Transcriptional coactivator/pterin dehydratase 0.53 45.0 4.36e-01 100.0% 84.4%
4mt1A07 3.30.70.1440 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Multidrug efflux transporter AcrB pore domain 0.52 41.0 3.94e-01 90.2% 81.4%
3ossD00 3.30.1370.120 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › 0.52 44.0 3.60e-01 96.3% 73.9%
3devA02 3.10.310.30 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › 0.51 45.0 4.04e-01 100.0% 83.6%
2pa8D01 3.30.1360.10 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › RNA polymerase, RBP11-like subunit 0.51 41.0 4.05e-01 100.0% 86.4%
7uinD01 3.30.70.270 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain 0.51 43.0 3.43e-01 93.9% 67.1%
2cpqA01 3.30.1370.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › K Homology domain, type 1 0.50 36.0 3.90e-01 81.7% 98.4%
3c0wA02 3.10.28.10 Alpha Beta › Roll › Endonuclease I-creI › Homing endonucleases 0.50 38.0 3.63e-01 86.6% 67.0%
ECOD (58)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3666672 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.74 40.0 3.66e-01 100.0% 40.0%
3413217 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.66 37.0 3.24e-01 100.0% 39.1%
3251059 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.62 36.0 2.84e-01 100.0% 27.1%
4949196 304.117.1.0 ↗ a+b two layers › Alpha-beta plaits › Ferredoxin-like domain in YebC › Ferredoxin-like domain in YebC 0.61 37.0 4.20e-01 85.4% 81.7%
3614763 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.61 32.0 2.85e-01 100.0% 35.8%
5042476 1036.1.1.1 ↗ a+b two layers › 60S ribosomal export protein NMD3 a+b domain › 60S ribosomal export protein NMD3 a+b domain › 60S ribosomal export protein NMD3 a+b domain › NMD3 0.59 45.0 4.33e-01 87.8% 70.5%
3932926 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.59 44.0 4.37e-01 95.1% 76.5%
3610739 304.24.1.35 ↗ a+b two layers › Alpha-beta plaits › EF-G C-terminal domain-like › EF-G C-terminal domain-like › PF26955 0.58 44.0 4.54e-01 91.5% 88.0%
3936671 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.58 43.0 4.15e-01 89.0% 68.4%
4681355 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.58 32.0 2.79e-01 100.0% 37.5%
4090279 304.36.1.1 ↗ a+b two layers › Alpha-beta plaits › YajQ-like › YajQ-like › DUF520 0.57 46.0 4.62e-01 89.0% 89.4%
3482328 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.57 32.0 2.93e-01 100.0% 42.9%
3869516 327.11.2.56 ↗ a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) › PF28453 0.57 42.0 4.63e-01 87.8% 100.0%
3945039 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.57 48.0 3.17e-01 91.5% 40.0%
3583392 101.1.2.506 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_NWD1 0.57 35.0 3.70e-01 89.0% 68.0%
5035636 304.26.1.1 ↗ a+b two layers › Alpha-beta plaits › MTH1187/YkoF-like › MTH1187/YkoF-like › Thiamine_BP 0.57 42.0 4.00e-01 89.0% 66.0%
3710757 304.163.1.1 ↗ a+b two layers › Alpha-beta plaits › ATP-binding protein TM_1403 insertion domain › ATP-binding protein TM_1403 insertion domain › R1_ABCA1 0.57 40.0 4.26e-01 86.6% 87.1%
3598886 304.163.1.0 ↗ a+b two layers › Alpha-beta plaits › ATP-binding protein TM_1403 insertion domain › ATP-binding protein TM_1403 insertion domain 0.57 42.0 4.40e-01 92.7% 88.0%
3524888 304.8.1.10 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ACT_7 0.56 43.0 4.53e-01 86.6% 98.6%
3712081 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.56 31.0 2.82e-01 100.0% 40.9%
3593339 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.56 31.0 2.76e-01 100.0% 39.1%
3551744 304.163.1.1 ↗ a+b two layers › Alpha-beta plaits › ATP-binding protein TM_1403 insertion domain › ATP-binding protein TM_1403 insertion domain › R1_ABCA1 0.56 42.0 4.39e-01 92.7% 88.0%
5040248 304.3.1.0 ↗ a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain 0.56 41.0 4.25e-01 87.8% 85.3%
4017372 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.56 31.0 2.76e-01 100.0% 39.1%
3606945 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.56 42.0 4.24e-01 87.8% 81.2%
3571315 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.56 47.0 3.36e-01 91.5% 47.2%
3774427 304.8.1.54 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ACT_13 0.56 40.0 3.91e-01 87.8% 67.4%
4341158 4099.1.1.0 ↗ a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like 0.56 49.0 3.97e-01 100.0% 64.4%
3530796 3016.1.1.2 ↗ a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › Aminotran_3 0.56 47.0 4.51e-01 100.0% 90.0%
5031902 304.24.1.5 ↗ a+b two layers › Alpha-beta plaits › EF-G C-terminal domain-like › EF-G C-terminal domain-like › Trm5_N 0.55 38.0 4.07e-01 87.8% 85.7%
3406678 3016.1.1.0 ↗ a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases 0.55 44.0 4.52e-01 89.0% 100.0%
5079598 5104.1.1.0 ↗ a+b three layers › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases 0.55 48.0 4.32e-01 100.0% 81.5%
3960648 304.48.1.0 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like 0.55 46.0 3.09e-01 90.2% 47.5%
3914050 327.11.2.0 ↗ a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) 0.55 48.0 4.84e-01 100.0% 96.5%
5050501 3715.1.1.1 ↗ a+b two layers › Ribosomal protein L22e › Ribosomal protein L22e › Ribosomal protein L22e › Ribosomal_L22e 0.55 42.0 4.02e-01 89.0% 71.6%
3983816 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.55 46.0 3.30e-01 93.9% 52.0%
5075233 304.24.1.5 ↗ a+b two layers › Alpha-beta plaits › EF-G C-terminal domain-like › EF-G C-terminal domain-like › Trm5_N 0.54 39.0 4.07e-01 91.5% 84.0%
3550136 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.54 31.0 2.77e-01 100.0% 40.9%
5039768 3501.1.1.0 ↗ a+b two layers › protein PCC1 › protein PCC1 › protein PCC1 0.54 40.0 4.21e-01 90.2% 88.0%
4434853 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.54 45.0 3.25e-01 91.5% 47.9%
3215476 304.120.1.0 ↗ a+b two layers › Alpha-beta plaits › Ferredoxin-like domain in ThiI › Ferredoxin-like domain in ThiI 0.53 43.0 4.02e-01 87.8% 72.0%
4512489 304.3.1.1 ↗ a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain › HMA 0.53 39.0 4.30e-01 89.0% 100.0%
3573007 327.11.2.79 ↗ a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) › KH_PARP14_1, KH_PARP14_2 0.53 42.0 3.55e-01 90.2% 82.0%
3265942 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.53 44.0 3.46e-01 91.5% 58.3%
4927259 5104.1.1.1 ↗ a+b three layers › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › DHHA1 0.52 46.0 4.05e-01 100.0% 76.0%
4977126 5104.1.1.0 ↗ a+b three layers › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases 0.52 46.0 4.09e-01 100.0% 81.7%
3251732 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.52 42.0 2.94e-01 87.8% 37.4%
3416198 327.11.2.14 ↗ a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) › KH_9 0.52 42.0 4.20e-01 91.5% 85.9%
3795359 304.8.1.54 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ACT_13 0.52 41.0 4.23e-01 89.0% 90.0%
3781291 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.52 32.0 2.96e-01 100.0% 51.0%
4934118 242.1.1.7 ↗ a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › LAGLIDADG_3 0.52 37.0 3.75e-01 93.9% 75.3%
3260113 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.52 44.0 4.02e-01 93.9% 75.5%
3402465 304.8.1.0 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.51 38.0 3.89e-01 95.1% 82.5%
3617015 304.120.1.12 ↗ a+b two layers › Alpha-beta plaits › Ferredoxin-like domain in ThiI › Ferredoxin-like domain in ThiI › PF26955 0.51 42.0 4.22e-01 91.5% 88.2%
4991797 304.8.1.4 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › NikR_C 0.51 42.0 4.26e-01 96.3% 92.5%
4933888 5051.1.1.10 ↗ alpha complex topology › Sodium:neurotransmitter symporter family (SNF)-like › Sodium:neurotransmitter symporter family (SNF)-like › Sodium:neurotransmitter symporter family (SNF)-like › AA_permease_2 0.51 43.0 2.68e-01 96.3% 75.6%
3708806 304.48.1.0 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like 0.51 43.0 3.16e-01 93.9% 54.7%
3521668 304.8.1.49 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › R1_ABCA1 0.50 39.0 3.94e-01 89.0% 85.0%