Summary
The literature section presents previous knowledge about this protein. There have been five different efforts to annotate minimal organism genome. The annotations from those efforts are given in the Literature section for completeness.
AVX54571.1
JCVISYN3A_0003
Ribonuclease M5.
M. mycoides homolog: Q6MUM5.
TIGRfam Classification: 5=Equivalog.
Category: Quasiessential.
Statistics
Total GO Annotation: 13
Unique PROST Go: 3
Unique BLAST Go: 0
Unique Foldseek Go: 5
Total Homologs: 47
Unique PROST Homologs: 2
Unique BLAST Homologs: 1
Unique Foldseek Homologs: 21
Structures and Sequence Alignment
The best structural homolog that predicted by 1. PBF was
Q8YAE3
(Ribonuclease M5) with a FATCAT P-Value: 0 and RMSD of 2.68 angstrom. The sequence alignment identity is 31.0%.
Structural alignment shown in left. Query protein AVX54571.1 colored as red in alignment, homolog Q8YAE3 colored as blue.
Query protein AVX54571.1 is also shown in right top, homolog Q8YAE3 showed in right bottom. They are colored based on secondary structures.
AVX54571.1 MS-K--IKQIIIVEGKTDSDKL-KSIYGNDLKTIQTKGLSLNKKTLEMIKEFNNKTGVIIFTDPDGAGKKIRQTIIDYLDNKV---LNAFIKKDD-ISKT 92 Q8YAE3 MSGKPVIHEFIVVEGRDDTTAINRSVIA-D--TIETNGSALSQETIEKIRHAQELRGVIIFTDPDFPGEKIRK----QIDSAVPGCKHAFINRQDALPKA 93 AVX54571.1 SKKVGIAEASDDAIKKALDNLIIYDKNNVSLSWTD--YINND--FYL--------KSNR--I-VICK--YFNFDNNISSKTLFKWLNWMNVSIDDI---- 171 Q8YAE3 GRGLGVEHASSANIREALEN---FHTSGAP---TEKQFISKDILVHLGLLGGVGAKERREKIGNILKIGYTN------GKQLQTRLESFAISEEQLVAAC 181 AVX54571.1 KKIIGEYES- 180 Q8YAE3 QKIMQEEENE 191
Go Annotations
1. PBF indicates the go terms that are found by both PROST and BLAST and Foldseek.
2. PF indicates the go terms that are found by only PROST and Foldseek.
3. BF indicates the go terms that are found by only BLAST and Foldseek.
4. PB indicates the go terms that are found by both PROST and BLAST.
5. P indicates the go terms that are found by only PROST.
6. F indicates the go terms that are found by only Foldseek.
7. B indicates the go terms that are found by only BLAST.
| Source | GO | Description |
|---|---|---|
| 1. PBF | GO:0005737 | cytoplasm |
| 1. PBF | GO:0006364 | rRNA processing |
| 1. PBF | GO:0046872 | metal ion binding |
| 1. PBF | GO:0019843 | rRNA binding |
| 1. PBF | GO:0043822 | ribonuclease M5 activity |
| 5. P | GO:0009330 | DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) complex |
| 5. P | GO:0006265 | DNA topological change |
| 5. P | GO:0003918 | DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) activity |
| 6. F | GO:0008143 | poly(A) binding |
| 6. F | GO:1990077 | primosome complex |
| 6. F | GO:0000178 | exosome (RNase complex) |
| 6. F | GO:0003896 | DNA primase activity |
| 6. F | GO:0006269 | DNA replication, synthesis of RNA primer |
Uniprot GO Annotations
| GO | Description |
|---|---|
| GO:0003723 | RNA binding |
| GO:0090305 | nucleic acid phosphodiester bond hydrolysis |
| GO:0005737 | cytoplasm |
| GO:0004518 | nuclease activity |
| GO:0042254 | ribosome biogenesis |
| GO:0006364 | rRNA processing |
| GO:0004519 | endonuclease activity |
| GO:0046872 | metal ion binding |
| GO:0016787 | hydrolase activity |
| GO:0090502 | RNA phosphodiester bond hydrolysis, endonucleolytic |
| GO:0019843 | rRNA binding |
| GO:0043822 | ribonuclease M5 activity |
Homologs
1. PBF indicates the homologs that are found by both PROST and BLAST and Foldseek.
2. PF indicates the homologs that are found by only PROST and Foldseek.
3. BF indicates the homologs that are found by only BLAST and Foldseek.
4. PB indicates the homologs that are found by both PROST and BLAST.
5. P indicates the homologs that are found by only PROST.
6. F indicates the homologs that are found by only Foldseek.
7. B indicates the homologs that are found by only BLAST.
| Source | Homolog | Description | Fatcat Pvalue | PROST Evalue | BLAST Evalue | Foldseek TMScore |
|---|---|---|---|---|---|---|
| 1. PBF | P75045 | Ribonuclease M5 | 0.00e+00 | 4.29e-57 | 3.87e-31 | 0.893 |
| 1. PBF | O51571 | Ribonuclease M5 | 1.56e-13 | 2.33e-57 | 1.16e-10 | 0.5308 |
| 1. PBF | Q9CHN9 | Ribonuclease M5 | 4.44e-15 | 2.35e-37 | 6.01e-15 | 0.8126 |
| 1. PBF | P47303 | Ribonuclease M5 | 0.00e+00 | 1.21e-59 | 1.41e-18 | 0.9201 |
| 1. PBF | Q8RH71 | Ribonuclease M5 | 6.57e-12 | 1.95e-63 | 1.25e-08 | 0.5534 |
| 1. PBF | Q6MUM5 | Ribonuclease M5 | 0.00e+00 | 2.03e-98 | 2.81e-117 | 0.9966 |
| 1. PBF | Q8DNC9 | Ribonuclease M5 | 3.68e-13 | 1.76e-51 | 1.96e-19 | 0.5588 |
| 1. PBF | P43041 | Ribonuclease M5 | 0.00e+00 | 8.86e-114 | 1.65e-121 | 0.9897 |
| 1. PBF | Q837A8 | Ribonuclease M5 | 5.55e-16 | 1.78e-50 | 6.36e-15 | 0.7933 |
| 1. PBF | A5HXX7 | Ribonuclease M5 | 2.30e-14 | 5.42e-55 | 6.54e-12 | 0.5531 |
| 1. PBF | Q1WSC7 | Ribonuclease M5 2 | 2.52e-12 | 4.06e-50 | 2.73e-15 | 0.5522 |
| 1. PBF | P37547 | Ribonuclease M5 | 0.00e+00 | 7.91e-53 | 1.09e-12 | 0.8273 |
| 1. PBF | D8IMC7 | Ribonuclease M5 2 | 2.53e-12 | 4.06e-50 | 2.73e-15 | 0.5516 |
| 1. PBF | Q6F2B5 | Ribonuclease M5 | 0.00e+00 | 5.27e-77 | 2.41e-73 | 0.8513 |
| 1. PBF | D8IJV0 | Ribonuclease M5 1 | 0.00e+00 | 3.09e-48 | 7.89e-21 | 0.8363 |
| 1. PBF | Q81JA6 | Ribonuclease M5 | 4.13e-14 | 3.29e-57 | 4.72e-21 | 0.5672 |
| 1. PBF | Q81W01 | Ribonuclease M5 | 1.92e-14 | 1.74e-56 | 2.39e-20 | 0.5775 |
| 1. PBF | Q97EW9 | Ribonuclease M5 | 1.42e-14 | 8.11e-53 | 4.21e-11 | 0.5568 |
| 1. PBF | Q8YAE3 | Ribonuclease M5 | 0.00e+00 | 2.94e-48 | 2.57e-14 | 0.8078 |
| 1. PBF | Q1WV74 | Ribonuclease M5 1 | 0.00e+00 | 8.03e-52 | 1.33e-20 | 0.838 |
| 1. PBF | F9UU40 | Ribonuclease M5 | 3.60e-14 | 1.21e-56 | 2.50e-16 | 0.573 |
| 3. BF | O32172 | Uncharacterized protein YusF | 5.04e-07 | NA | 2.82e-04 | 0.649 |
| 4. PB | Q2G0T1 | Ribonuclease M5 | 0.00e+00 | 5.68e-60 | 1.40e-14 | NA |
| 5. P | Q60274 | Uncharacterized protein MJECL12 | 5.72e-02 | 3.27e-04 | NA | NA |
| 5. P | P23992 | DNA topoisomerase small subunit | NA | 4.43e-06 | NA | NA |
| 6. F | Q2FLB2 | DNA primase DnaG | 2.64e-03 | NA | NA | 0.5504 |
| 6. F | A6UPT0 | DNA primase DnaG | 1.68e-03 | NA | NA | 0.7004 |
| 6. F | Q3INE3 | DNA primase DnaG | 3.19e-03 | NA | NA | 0.6852 |
| 6. F | A6VGM3 | DNA primase DnaG | 7.34e-03 | NA | NA | 0.6042 |
| 6. F | P75426 | DNA primase | 2.29e-02 | NA | NA | 0.4683 |
| 6. F | Q5JH14 | DNA primase DnaG | 3.71e-03 | NA | NA | 0.692 |
| 6. F | Q9HLX7 | DNA primase DnaG | 6.97e-03 | NA | NA | 0.6912 |
| 6. F | Q97CE5 | DNA primase DnaG | 1.04e-02 | NA | NA | 0.6935 |
| 6. F | A2SQD1 | DNA primase DnaG | 5.27e-04 | NA | NA | 0.7007 |
| 6. F | O28380 | DNA primase DnaG | 1.23e-03 | NA | NA | 0.6654 |
| 6. F | Q6LXR3 | DNA primase DnaG | 3.21e-03 | NA | NA | 0.6831 |
| 6. F | Q5V1H7 | DNA primase DnaG | 2.19e-03 | NA | NA | 0.7377 |
| 6. F | B6YSY6 | DNA primase DnaG | 4.79e-04 | NA | NA | 0.596 |
| 6. F | B9LR58 | DNA primase DnaG | 1.41e-03 | NA | NA | 0.6918 |
| 6. F | Q2NEM0 | DNA primase DnaG | 1.15e-02 | NA | NA | 0.6964 |
| 6. F | A5UKA4 | DNA primase DnaG | 5.04e-03 | NA | NA | 0.6938 |
| 6. F | O59362 | DNA primase DnaG | 9.28e-04 | NA | NA | 0.6918 |
| 6. F | O26977 | DNA primase DnaG | 1.68e-03 | NA | NA | 0.5239 |
| 6. F | A3CUA0 | DNA primase DnaG | 4.27e-03 | NA | NA | 0.7048 |
| 6. F | Q9V1F2 | DNA primase DnaG | 1.46e-03 | NA | NA | 0.5134 |
| 6. F | Q8U076 | DNA primase DnaG | 5.11e-03 | NA | NA | 0.6889 |
| 7. B | Q8U077 | UPF0292 protein PF1724 | 2.22e-04 | NA | 0.032 | NA |