Gene

KWMTBOMO05699  Validated by peptides from experiments

Pre Gene Modal

BGIBMGA006828

Annotation

PREDICTED:_tRNA-splicing_ligase_RtcB_homolog_[Amyelois_transitella]

Location

Bomo_Chr10(-):8514955-8517541      View in EpiBrowser

Full name

tRNA-splicing ligase RtcB homolog       + More
tRNA-splicing ligase RtcB homolog 1      

Location in the cell

Cytoplasmic   Reliability : 2.375 Mitochondrial   Reliability : 1.988

CDS

ATGGTTGTAAGGCAGTATAATGAAGAAATTAAATATTTGGAAAAAATTAATCCATATTGTTGGAGAATTAAAAAAGGCTTCCAACCAAATATGAATGTTGAAGGAGTGTTTTACGTTAACAGTACACTTGAGAAACTAATGTTGGAGGAGCTTAGGAATTGTTGTAGACCTGGTATGTCAGGTGGATTCCTTCCTGGTGTAAAACAGATAGCTAATGTTGCAGCTTTACCGGGAATTGTAGGCCGGTCAGTGGGATTGCCTGATGTTCATTCTGGATATGGGTTCGCTATAGGAAATATGGCAGCTTTTGATATGGATGATCCCAAATCTATAGTATCTCCAGGAGGCGTAGGATTCGATATAAACTGTGGTGTTCGTTTATTGAGAACAAATTTACATGAGAAGGATGTTCTACCTATTAAGGAACAATTAGCTCAGAGCTTGTTTGACCATATACCTGTTGGAGTTGGCTCCAAGGGTATTATTCCAATGAATGCACGTGATTTGGAAGAAGCATTAGAAATGGGTATGGACTGGTCTCTAAGGGAAGGTTATGTTTGGGCCGAAGATAAGGAACACTGTGAAGAATATGGAAGAATGTTGAATGCTGATCCATCAAAAGTCAGTCTCAGAGCAAAGAAAAGAGGTCTACCTCAACTGGGCACACTAGGAGCTGGAAATCATTATGCAGAGATTCAAGTTGTTGATGAAATATTTGATAAATATGCTGCTGGAAAAATGGGTATTGAAAGTATTGGTCAAGTTTGTGTGATGATTCACTCTGGAAGTCGTGGTTTTGGGCATCAAGTAGCAACTGATGCTTTAGTGCAAATGGAGAAAGCTATGAAGAGAGATAACATAGAAACTAATGATAGACAACTTGCATGTGCCAGGATAAAATCTGTTGAAGGTCAAGATTATCTTAAAGCTATGTCTGCTGCTGCCAATTTTGCTTGGGTGAACCGTAGCTCAATGACATTCTTGACCCGTCAAGCTTTTGCGAAGCAATTTAAAATGGCACCTGATGATCTTGACATGCATGTCATATATGATGTGTCTCATAATATTGCCAAGGTTGAAGAACATGTAGTAGATGGGAAATTGAAAACTCTACTAGTACATAGGAAGGGCTCAACTAGAGCATTCCCACCAAATCATCCATTAATACCTGTGGATTATCAACTAACTGGTCAGCCTGTACTTATTGGTGGTACAATGGGAACCTGCAGTTATGTACTAACTGGTACTCATCAAGGAATGACAGAAACGTTTGGATCCACATGCCATGGTGCTGGTCGAGCTCTGTCTAGAGCCAAGTCTAGAAGAAACATAGACTACAAAGAAGTTCTAAACAAACTTGAAACTATGGGTATTTCCATTAGAGTTGCATCTCCAAAACTAGTAATGGAAGAGGCACCAGAGTCATACAAGAATGTAACAGATGTCGTAGATACATGTCATGCTGCTGGTATTAGCAAAAAAACTGTTAAATTAAGACCAATTGCAGTTATAAAAGGATGA

Protein

MVVRQYNEEIKYLEKINPYCWRIKKGFQPNMNVEGVFYVNSTLEKLMLEELRNCCRPGMSGGFLPGVKQIANVAALPGIVGRSVGLPDVHSGYGFAIGNMAAFDMDDPKSIVSPGGVGFDINCGVRLLRTNLHEKDVLPIKEQLAQSLFDHIPVGVGSKGIIPMNARDLEEALEMGMDWSLREGYVWAEDKEHCEEYGRMLNADPSKVSLRAKKRGLPQLGTLGAGNHYAEIQVVDEIFDKYAAGKMGIESIGQVCVMIHSGSRGFGHQVATDALVQMEKAMKRDNIETNDRQLACARIKSVEGQDYLKAMSAAANFAWVNRSSMTFLTRQAFAKQFKMAPDDLDMHVIYDVSHNIAKVEEHVVDGKLKTLLVHRKGSTRAFPPNHPLIPVDYQLTGQPVLIGGTMGTCSYVLTGTHQGMTETFGSTCHGAGRALSRAKSRRNIDYKEVLNKLETMGISIRVASPKLVMEEAPESYKNVTDVVDTCHAAGISKKTVKLRPIAVIKG

Description

Catalytic subunit of the tRNA-splicing ligase complex that acts by directly joining spliced tRNA halves to mature-sized tRNAs by incorporating the precursor-derived splice junction phosphate into the mature tRNA as a canonical 3',5'-phosphodiester. May act as a RNA ligase with broad substrate specificity, and may function toward other RNAs.
Catalytic subunit of the tRNA-splicing ligase complex that acts by directly joining spliced tRNA halves to mature-sized tRNAs by incorporating the precursor-derived splice junction phosphate into the mature tRNA as a canonical 3',5'-phosphodiester. May act as an RNA ligase with broad substrate specificity, and may function toward other RNAs.

Catalytic Activity

ATP + (ribonucleotide)(n)-3'-hydroxyl + 5'-phospho-(ribonucleotide)(m) = (ribonucleotide)(n+m) + AMP + diphosphate.

Cofactor

Mn(2+)
Mg(2+)

Subunit

Catalytic component of the tRNA-splicing ligase complex.

Miscellaneous

Ligation probably proceeds through 3 nucleotidyl transfer steps, with 2',3'-cyclic phosphate termini being hydrolyzed to 3'-P termini in a step that precedes 3'-P activation with GMP. In the first nucleotidyl transfer step, RTCB reacts with GTP to form a covalent RTCB-histidine-GMP intermediate with release of PPi; in the second step, the GMP moiety is transferred to the RNA 3'-P; in the third step, the 5'-OH from the opposite RNA strand attacks the activated 3'-P to form a 3',5'-phosphodiester bond and release GMP (By similarity).

Similarity

Belongs to the RtcB family.
Belongs to the PP2C family.

Keywords

ATP-binding   Complete proteome   Ligase   Manganese   Metal-binding   Nucleotide-binding   Reference proteome   tRNA processing  

Feature

chain  tRNA-splicing ligase RtcB homolog

Uniprot

H9JBD3   A0A2A4JXE7   S4P2I1   A0A067R6Q5   A0A2J7PJX5   D6X2M2   + More
A0A194RB85   A0A212F6Z6   A0A194PDY6   A0A1W4WJG3   A0A1B6MSQ8   J3JXR6   E0W052   A0A0A9YMD2   A0A1Y1JYW8   A0A1B0G046   A0A232EPJ7   A0A026WKW4   K7IRR0   E2BMV5   E2AA83   A0A2H1VIK8   A0A2A3ERE5   A0A1I8PP30   A0A088AVQ8   A0A0P4WBJ9   A0A1A9X854   A0A1A9V1A8   A0A0V0GAS7   A0A069DUS0   A0A158NRH5   T1I6I8   A0A023F4W9   A0A1B0A883   F4WBN8   A0A151IK44   A0A2H8TWY2   A0A0L7LUE5   A0A0L0BW38   V5HPV6   A0A2S2R6J2   J9JML1   A0A1W4VFA5   B4PAY3   A0A0M5J6I3   A0A3B0KGL5   B3MK04   B4M963   A0A1L8DAT5   A0A1I8MLA1   Q29K48   B4GWW3   B3NM58   B4MTG4   A0A1B0D6J7   A0A0J9R4J8   A0A154PN65   B4I5U9   A0A2M4AMA7   W5JBW7   A0A084W855   B4KK68   Q9VIW7   A0A1E1X3E6   B4Q9X8   B0WCT9   A0A131XP60   A0A224Z4C6   A0A182MQS9   B4JP85   A0A182W707   A0A182SJ88   W8CA79   A0A182RCS7   A0A182YQX8   A0A0A1XE59   A0A182QK70   A0A182V991   A0A182UFB1   A0A182L1D4   A0A182WU02   A0A182HUL8   Q7Q412   A0A2R5LIC6   A0A1Q3FA44   A0A182NUG2   A0A131Z1G4   A0A182JPP6   A0A023GCS6   A0A182PPK9   A0A182F4X4   A0A0P5EUL4   A0A0K8TW85   A0A034W5W1   A0A023FKH8   T1IMQ9   A0A1D2MN93   A0A0P5MQ97   E9HNI6   A0A336LXW7  

EC Number

6.5.1.3

Pubmed

19121390    23622113    24845553    18362917    19820115    26354079    + More
22118469    22516182    20566863    25401762    26823975    28004739    28648823    24508170    30249741    20075255    20798317    26334808    21347285    25474469    21719571    26227816    26108605    25765539    17994087    17550304    25315136    15632085    22936249    20920257    23761445    24438588    18057021    10731132    12537572    12537569    28503490    28049606    28797301    24495485    25244985    25830018    20966253    12364791    26830274    25348373    27289101    21292972   

EMBL

BABH01030873    NWSH01000473    PCG76173.1    GAIX01012005    JAA80555.1    KK852704    + More
KDR18043.1    NEVH01024944    PNF16636.1    KQ971372    EFA09424.1    KQ460398    KPJ15088.1    AGBW02009960    OWR49497.1    KQ459606    KPI91472.1    GEBQ01001052    JAT38925.1    BT128037    AEE62998.1    AAZO01006625    DS235855    EEB19008.1    GBHO01009402    GDHC01004341    JAG34202.1    JAQ14288.1    GEZM01102990    JAV51637.1    CCAG010002365    NNAY01002948    OXU20236.1    KK107167    QOIP01000010    EZA56311.1    RLU18191.1    GL449347    EFN82990.1    GL438030    EFN69663.1    ODYU01002761    SOQ40657.1    KZ288198    PBC33699.1    GDRN01071189    JAI63738.1    GECL01000841    JAP05283.1    GBGD01001204    JAC87685.1    ADTU01024032    ACPB03011590    GBBI01002181    JAC16531.1    GL888066    EGI68316.1    KQ977255    KYN04645.1    GFXV01007000    MBW18805.1    JTDY01000103    KOB78846.1    JRES01001249    KNC24242.1    GANP01006686    JAB77782.1    GGMS01016361    MBY85564.1    ABLF02037893    CM000158    EDW90412.1    CP012523    ALC39974.1    OUUW01000010    SPP85489.1    CH902620    EDV32459.1    CH940654    EDW57739.1    GFDF01010515    JAV03569.1    CH379061    EAL33330.1    CH479195    EDW27290.1    CH954179    EDV54658.1    CH963852    EDW75403.1    AJVK01003665    CM002910    KMY91008.1    KQ434998    KZC13306.1    CH480822    EDW55755.1    GGFK01008556    MBW41877.1    ADMH02001944    ETN60385.1    ATLV01021368    KE525317    KFB46399.1    CH933807    EDW11586.1    KRG02784.1    AE014134    AY119213    GFAC01005426    JAT93762.1    CM000361    EDX05508.1    DS231890    GEFH01000671    JAP67910.1    GFPF01012879    MAA24025.1    AXCM01008504    CH916372    EDV98715.1    GAMC01001519    JAC05037.1    GBXI01005062    JAD09230.1    AXCN02000761    APCN01002465    AAAB01008964    GGLE01005148    MBY09274.1    GFDL01010590    JAV24455.1    GEDV01004576    JAP83981.1    GBBM01003739    JAC31679.1    GDIP01143132    LRGB01002860    JAJ80270.1    KZS05822.1    GDHF01033756    JAI18558.1    GAKP01007976    JAC50976.1    GBBK01002345    JAC22137.1    JH431093    LJIJ01000802    ODM94463.1    GDIQ01152934    JAK98791.1    GL732696    EFX66707.1    UFQS01000215    UFQT01000215    SSX01451.1    SSX21831.1   

Proteomes

UP000005204    UP000218220    UP000027135    UP000235965    UP000007266    UP000053240    + More
UP000007151    UP000053268    UP000192223    UP000009046    UP000092444    UP000215335    UP000053097    UP000279307    UP000002358    UP000008237    UP000000311    UP000242457    UP000095300    UP000005203    UP000092443    UP000078200    UP000005205    UP000015103    UP000092445    UP000007755    UP000078542    UP000037510    UP000037069    UP000007819    UP000192221    UP000002282    UP000092553    UP000268350    UP000007801    UP000008792    UP000095301    UP000001819    UP000008744    UP000008711    UP000007798    UP000092462    UP000076502    UP000001292    UP000000673    UP000030765    UP000009192    UP000000803    UP000000304    UP000002320    UP000075883    UP000001070    UP000075920    UP000075901    UP000075900    UP000076408    UP000075886    UP000075903    UP000075902    UP000075882    UP000076407    UP000075840    UP000007062    UP000075884    UP000075881    UP000075885    UP000069272    UP000076858    UP000094527    UP000000305   

PRIDE

H9JBD3    V5HPV6    Q9VIW7   

Pfam

PF01139   RtcB        + More
PF00481   PP2C
PF00622   SPRY
PF07830   PP2C_C

Interpro

IPR001233   RtcB        + More
IPR036025   RtcB-like_sf       
IPR027513   RtcB_euk       
IPR036457   PPM-type_dom_sf       
IPR013320   ConA-like_dom_sf       
IPR012911   PP2C_C       
IPR001870   B30.2/SPRY       
IPR000222   PP2C_BS       
IPR001932   PPM-type_phosphatase_dom       
IPR036580   PP2C_C_sf       
IPR003877   SPRY_dom       

SUPFAM

SSF103365   SSF103365        + More
SSF81601   SSF81601       
SSF49899   SSF49899       
SSF81606   SSF81606       

Gene 3D

3.90.1860.10     1.10.10.430     3.60.40.10    

CDD

cd00143  PP2Cc

ProteinModelPortal

H9JBD3   A0A2A4JXE7   S4P2I1   A0A067R6Q5   A0A2J7PJX5   D6X2M2   + More
A0A194RB85   A0A212F6Z6   A0A194PDY6   A0A1W4WJG3   A0A1B6MSQ8   J3JXR6   E0W052   A0A0A9YMD2   A0A1Y1JYW8   A0A1B0G046   A0A232EPJ7   A0A026WKW4   K7IRR0   E2BMV5   E2AA83   A0A2H1VIK8   A0A2A3ERE5   A0A1I8PP30   A0A088AVQ8   A0A0P4WBJ9   A0A1A9X854   A0A1A9V1A8   A0A0V0GAS7   A0A069DUS0   A0A158NRH5   T1I6I8   A0A023F4W9   A0A1B0A883   F4WBN8   A0A151IK44   A0A2H8TWY2   A0A0L7LUE5   A0A0L0BW38   V5HPV6   A0A2S2R6J2   J9JML1   A0A1W4VFA5   B4PAY3   A0A0M5J6I3   A0A3B0KGL5   B3MK04   B4M963   A0A1L8DAT5   A0A1I8MLA1   Q29K48   B4GWW3   B3NM58   B4MTG4   A0A1B0D6J7   A0A0J9R4J8   A0A154PN65   B4I5U9   A0A2M4AMA7   W5JBW7   A0A084W855   B4KK68   Q9VIW7   A0A1E1X3E6   B4Q9X8   B0WCT9   A0A131XP60   A0A224Z4C6   A0A182MQS9   B4JP85   A0A182W707   A0A182SJ88   W8CA79   A0A182RCS7   A0A182YQX8   A0A0A1XE59   A0A182QK70   A0A182V991   A0A182UFB1   A0A182L1D4   A0A182WU02   A0A182HUL8   Q7Q412   A0A2R5LIC6   A0A1Q3FA44   A0A182NUG2   A0A131Z1G4   A0A182JPP6   A0A023GCS6   A0A182PPK9   A0A182F4X4   A0A0P5EUL4   A0A0K8TW85   A0A034W5W1   A0A023FKH8   T1IMQ9   A0A1D2MN93   A0A0P5MQ97   E9HNI6   A0A336LXW7  

PDB

4IT0     E-value=6.68519e-128,     Score=1172

KEGG

101739631    K14415 tRNA-splicing ligase RtcB (3'-phosphate/5'-hydroxy nucleic acid ligase) [EC:6.5.1.8] | (RefSe

GO

GO:0046872   GO:0072669   GO:0006388   GO:0003972   GO:0005524   GO:0005634   GO:0000971   GO:2000237   GO:0030145   GO:0000287   GO:0004721   GO:0006396   GO:0008452   GO:0009881   GO:0019226   GO:0042065   GO:0042066   GO:0003707   GO:0043565  

PANTHER

PTHR11118  

Length:

506

Number of predicted TMHs:

0

Exp number of AAs in TMHs:

0.0992700000000001

Exp number, first 60 AAs:

0.00235

Total prob of N-in:

0.00756

outside

1  -  506

 

 

Pi

228.5173

Theta

198.211153

Tajima's D

0.590671

CLR

0.370892

CSRT

0.538773061346933

Interpretation

Uncertain