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The map label for this gene is ybjF [C]

Identifier: 21910560

GI number: 21910560

Start: 1062097

End: 1063326

Strand: Reverse

Name: ybjF [C]

Synonym: SpyM3_1024

Alternate gene names: 21910560

Gene position: 1063326-1062097 (Counterclockwise)

Preceding gene: 21910561

Following gene: 21910559

Centisome position: 55.95

GC content: 41.79

Gene sequence:

>1230_bases
ATGCGTGTCTTAAAGGTCAATAAAAACAGCGGTTTTGGCAAAGTAGAAGCCTATCATTACCTGTCGCCAGCTAGAAATGC
AGATGTCAATTTAACTTATTTGCGAACAGGCATTGCAGACCTTGGACATCTAACTTATGAAGACCAACTGACTTTCAAAA
AGAAACAAGTTCAGGACAGCCTCTATAAAATTGCTGGAATCAGTGACGTGACAGTCGAAAGCACGATTGGGATGACAGAA
CCTTTAGCTTACCGAAATAAGGCTCAAGTTCCTGTTAGACGTGTTAATGGTCAGCTAGAAACAGGCTTTTTCCGCAAGCA
TTCTCATGACTTGATTCCTATTTCGGATTATTATATTCAGGACAAAGAGATTGATCGTCTCATTAATTTTACCCGTGATT
TATTACGCCGCTTTGATATTAAACCGTATGACGAAACAGAACAAACAGGTCTCTTGAGAAATATTGTTGTTCGCCGAGGC
CATTACTCTGGAGAAATGATGCTGGTCTTAGTGACTACACGCCCAAAAGTTTTCCGTGTTGACCAAGTCATTGAAAAAAT
CGTTGAAGCTTTTCCAGCAGTGGTGTCTATTATTCAAAATATTAATGATAAGAACACCAATGCAATCTTTGGTAAAGATT
TCAAAACGCTTTACGGCAAGGATACCATTACTGATAGCATGCTTGGAAACAACTATGCCATTTCTGCCCAGTCTTTCTAC
CAAGTGAATACGGTTATGGCAGAAAAACTCTATCAAACAGCTATAGCCTTTTCAGACCTTTCTAAAGATGACATTGTGAT
TGACGCCTACTCAGGTATCGGAACCATTGGCCTATCATTTGCTAAAACAGTTAAAGCTGTTTATGGTGTTGAAGTGATTG
AAGCAGCTGTTAGAGATGCTCAACACAATGCCGCTCTTAATGGCATCACCAATGCCTACTTTGTCGCAGATACCGCAGAA
CATGCCATGGCAACATGGGCGAAAGATGGCATTAAACCAAGTGTTATTCTGGTAGACCCGCCACGAAAAGGCTTAACAGA
AAGTTTCATCCAAGCCAGCGTGGCAATGGGACCACAAAAAATTACCTACGTTTCCTGCAACCCAGCCACCATGGCGCGTG
ACATCAAGCGTTATCAAGAGTTGGGTTACAAACTGGCCAAAGTACAGCCCGTAGATTTGTTTCCGCAAACGCATCACGTC
GAGTGCGTAGTGTTGCTAATCAAGGAGTAA

Upstream 100 bases:

>100_bases
AGTTGCTATTTCAGATTTAAGCCATGAGGGAGCAGGTGTCGCTAAACACGATGGTTTTGTTTTCTTTGTTGATAATGCCT
TGCCAGAAGAAGTGATTGAC

Downstream 100 bases:

>100_bases
GGTAGCTGCCTCCACATGACAAAAATAAGGAGAAACGAATGCCTATTACCAAACACGAGATTCCCCTTTTAGAATGTGAT
AGTAATCCATCAGCCGTCAT

Product: TrmA family RNA methyltransferase

Products: NA

Alternate protein names: NA

Number of amino acids: Translated: 409; Mature: 409

Protein sequence:

>409_residues
MRVLKVNKNSGFGKVEAYHYLSPARNADVNLTYLRTGIADLGHLTYEDQLTFKKKQVQDSLYKIAGISDVTVESTIGMTE
PLAYRNKAQVPVRRVNGQLETGFFRKHSHDLIPISDYYIQDKEIDRLINFTRDLLRRFDIKPYDETEQTGLLRNIVVRRG
HYSGEMMLVLVTTRPKVFRVDQVIEKIVEAFPAVVSIIQNINDKNTNAIFGKDFKTLYGKDTITDSMLGNNYAISAQSFY
QVNTVMAEKLYQTAIAFSDLSKDDIVIDAYSGIGTIGLSFAKTVKAVYGVEVIEAAVRDAQHNAALNGITNAYFVADTAE
HAMATWAKDGIKPSVILVDPPRKGLTESFIQASVAMGPQKITYVSCNPATMARDIKRYQELGYKLAKVQPVDLFPQTHHV
ECVVLLIKE

Sequences:

>Translated_409_residues
MRVLKVNKNSGFGKVEAYHYLSPARNADVNLTYLRTGIADLGHLTYEDQLTFKKKQVQDSLYKIAGISDVTVESTIGMTE
PLAYRNKAQVPVRRVNGQLETGFFRKHSHDLIPISDYYIQDKEIDRLINFTRDLLRRFDIKPYDETEQTGLLRNIVVRRG
HYSGEMMLVLVTTRPKVFRVDQVIEKIVEAFPAVVSIIQNINDKNTNAIFGKDFKTLYGKDTITDSMLGNNYAISAQSFY
QVNTVMAEKLYQTAIAFSDLSKDDIVIDAYSGIGTIGLSFAKTVKAVYGVEVIEAAVRDAQHNAALNGITNAYFVADTAE
HAMATWAKDGIKPSVILVDPPRKGLTESFIQASVAMGPQKITYVSCNPATMARDIKRYQELGYKLAKVQPVDLFPQTHHV
ECVVLLIKE
>Mature_409_residues
MRVLKVNKNSGFGKVEAYHYLSPARNADVNLTYLRTGIADLGHLTYEDQLTFKKKQVQDSLYKIAGISDVTVESTIGMTE
PLAYRNKAQVPVRRVNGQLETGFFRKHSHDLIPISDYYIQDKEIDRLINFTRDLLRRFDIKPYDETEQTGLLRNIVVRRG
HYSGEMMLVLVTTRPKVFRVDQVIEKIVEAFPAVVSIIQNINDKNTNAIFGKDFKTLYGKDTITDSMLGNNYAISAQSFY
QVNTVMAEKLYQTAIAFSDLSKDDIVIDAYSGIGTIGLSFAKTVKAVYGVEVIEAAVRDAQHNAALNGITNAYFVADTAE
HAMATWAKDGIKPSVILVDPPRKGLTESFIQASVAMGPQKITYVSCNPATMARDIKRYQELGYKLAKVQPVDLFPQTHHV
ECVVLLIKE

Specific function: Could Be A 23s rRNA (Uracil-5-)-Methyltransferase. [C]

COG id: COG2265

COG function: function code J; SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase

Gene ontology:

Cell location: Cytoplasm [C]

Metaboloic importance: Unknown [C]

Operon status: Not Known

Operon components: None

Similarity: Contains 1 TRAM domain

Homologues:

Organism=Homo sapiens, GI269784680, Length=428, Percent_Identity=27.1028037383178, Blast_Score=118, Evalue=1e-26,
Organism=Homo sapiens, GI269784676, Length=428, Percent_Identity=27.1028037383178, Blast_Score=118, Evalue=1e-26,
Organism=Homo sapiens, GI20149688, Length=428, Percent_Identity=27.1028037383178, Blast_Score=118, Evalue=1e-26,
Organism=Homo sapiens, GI34222389, Length=215, Percent_Identity=34.8837209302326, Blast_Score=114, Evalue=1e-25,
Organism=Homo sapiens, GI51173878, Length=215, Percent_Identity=34.8837209302326, Blast_Score=114, Evalue=1e-25,
Organism=Homo sapiens, GI269784678, Length=360, Percent_Identity=27.5, Blast_Score=112, Evalue=9e-25,
Organism=Escherichia coli, GI1787083, Length=331, Percent_Identity=27.4924471299094, Blast_Score=125, Evalue=6e-30,
Organism=Escherichia coli, GI1789148, Length=197, Percent_Identity=35.0253807106599, Blast_Score=121, Evalue=1e-28,
Organism=Escherichia coli, GI1790403, Length=186, Percent_Identity=32.258064516129, Blast_Score=91, Evalue=2e-19,
Organism=Caenorhabditis elegans, GI71997438, Length=509, Percent_Identity=23.5756385068762, Blast_Score=105, Evalue=3e-23,
Organism=Saccharomyces cerevisiae, GI6322909, Length=378, Percent_Identity=25.6613756613757, Blast_Score=72, Evalue=2e-13,
Organism=Drosophila melanogaster, GI24666579, Length=361, Percent_Identity=29.3628808864266, Blast_Score=137, Evalue=1e-32,

Paralogues:

None

Copy number: NA

Swissprot (AC and ID): Y1024_STRP3 (Q8K722)

Other databases:

- EMBL:   AE014074
- EMBL:   BA000034
- RefSeq:   NP_664828.1
- RefSeq:   NP_802098.1
- ProteinModelPortal:   Q8K722
- SMR:   Q8K722
- EnsemblBacteria:   EBSTRT00000034906
- EnsemblBacteria:   EBSTRT00000036081
- GeneID:   1009339
- GeneID:   1065982
- GenomeReviews:   AE014074_GR
- GenomeReviews:   BA000034_GR
- KEGG:   spg:SpyM3_1024
- KEGG:   sps:SPs0836
- GeneTree:   EBGT00050000027558
- HOGENOM:   HBG690163
- OMA:   RKGCDEA
- ProtClustDB:   CLSK877201
- BioCyc:   SPYO193567:SPS0836-MONOMER
- BioCyc:   SPYO198466:SPYM3_1024-MONOMER
- InterPro:   IPR016027
- InterPro:   IPR001566
- InterPro:   IPR002792
- InterPro:   IPR010280
- TIGRFAMs:   TIGR00479

Pfam domain/function: PF01938 TRAM; PF05958 tRNA_U5-meth_tr; SSF50249 Nucleic_acid_OB

EC number: 2.1.1.- [C]

Molecular weight: Translated: 45877; Mature: 45877

Theoretical pI: Translated: 8.77; Mature: 8.77

Prosite motif: PS50926 TRAM; PS01230 TRMA_1; PS01231 TRMA_2

Important sites: ACT_SITE 419-419 BINDING 294-294 BINDING 323-323 BINDING 344-344 BINDING 392-392

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.5 %Cys     (Translated Protein)
2.2 %Met     (Translated Protein)
2.7 %Cys+Met (Translated Protein)
0.5 %Cys     (Mature Protein)
2.2 %Met     (Mature Protein)
2.7 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MRVLKVNKNSGFGKVEAYHYLSPARNADVNLTYLRTGIADLGHLTYEDQLTFKKKQVQDS
CEEEEECCCCCCCCEEEEEEECCCCCCCCEEEEEHHHHHHHCCCCCCHHHHHHHHHHHHH
LYKIAGISDVTVESTIGMTEPLAYRNKAQVPVRRVNGQLETGFFRKHSHDLIPISDYYIQ
HHHHCCCCCCEEHHHCCCCCCHHHCCCCCCCHHHHCCCCCCCHHHHCCCCEEECHHHEEC
DKEIDRLINFTRDLLRRFDIKPYDETEQTGLLRNIVVRRGHYSGEMMLVLVTTRPKVFRV
HHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHCCCCCCCEEEEEEECCCCEEEH
DQVIEKIVEAFPAVVSIIQNINDKNTNAIFGKDFKTLYGKDTITDSMLGNNYAISAQSFY
HHHHHHHHHHHHHHHHHHHHCCCCCCCEEECCCHHHHCCCCHHHHHHCCCCEEEEHHHHH
QVNTVMAEKLYQTAIAFSDLSKDDIVIDAYSGIGTIGLSFAKTVKAVYGVEVIEAAVRDA
HHHHHHHHHHHHHHHHHHCCCCCCEEEECCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
QHNAALNGITNAYFVADTAEHAMATWAKDGIKPSVILVDPPRKGLTESFIQASVAMGPQK
HHHHHHHCCCCEEEEECCHHHHHHHHHHCCCCCEEEEECCCCCCHHHHHHHHHHHCCCCE
ITYVSCNPATMARDIKRYQELGYKLAKVQPVDLFPQTHHVECVVLLIKE
EEEEECCHHHHHHHHHHHHHHCCEEHEECCCCCCCCCCCCEEEEEEEEC
>Mature Secondary Structure
MRVLKVNKNSGFGKVEAYHYLSPARNADVNLTYLRTGIADLGHLTYEDQLTFKKKQVQDS
CEEEEECCCCCCCCEEEEEEECCCCCCCCEEEEEHHHHHHHCCCCCCHHHHHHHHHHHHH
LYKIAGISDVTVESTIGMTEPLAYRNKAQVPVRRVNGQLETGFFRKHSHDLIPISDYYIQ
HHHHCCCCCCEEHHHCCCCCCHHHCCCCCCCHHHHCCCCCCCHHHHCCCCEEECHHHEEC
DKEIDRLINFTRDLLRRFDIKPYDETEQTGLLRNIVVRRGHYSGEMMLVLVTTRPKVFRV
HHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHCCCCCCCEEEEEEECCCCEEEH
DQVIEKIVEAFPAVVSIIQNINDKNTNAIFGKDFKTLYGKDTITDSMLGNNYAISAQSFY
HHHHHHHHHHHHHHHHHHHHCCCCCCCEEECCCHHHHCCCCHHHHHHCCCCEEEEHHHHH
QVNTVMAEKLYQTAIAFSDLSKDDIVIDAYSGIGTIGLSFAKTVKAVYGVEVIEAAVRDA
HHHHHHHHHHHHHHHHHHCCCCCCEEEECCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
QHNAALNGITNAYFVADTAEHAMATWAKDGIKPSVILVDPPRKGLTESFIQASVAMGPQK
HHHHHHHCCCCEEEEECCHHHHHHHHHHCCCCCEEEEECCCCCCHHHHHHHHHHHCCCCE
ITYVSCNPATMARDIKRYQELGYKLAKVQPVDLFPQTHHVECVVLLIKE
EEEEECCHHHHHHHHHHHHHHCCEEHEECCCCCCCCCCCCEEEEEEEEC

PDB accession: NA

Resolution: NA

Structure class: Alpha Beta

Cofactors: NA

Metal ions: NA

Kcat value (1/min): NA

Specific activity: NA

Km value (mM): NA

Substrates: NA

Specific reaction: NA

General reaction: NA

Inhibitor: NA

Structure determination priority: 9.0

TargetDB status: NA

Availability: NA

References: 12122206; 12799345