Homologs in group_3281

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4 homologs were identified in 4 genomes with OrthoFinder.
The following table displays the locus tag of each homolog, the organism to which it belongs, the gene name and product.

Locus tag Identity Source Gene Product
FBDBKF_08865 FBDBKF_08865 100.0 Morganella morganii S1 rtcB RNA-splicing ligase RtcB, repairs tRNA damage
EHELCC_12660 EHELCC_12660 100.0 Morganella morganii S2 rtcB RNA-splicing ligase RtcB, repairs tRNA damage
NLDBIP_13000 NLDBIP_13000 100.0 Morganella morganii S4 rtcB RNA-splicing ligase RtcB, repairs tRNA damage
LHKJJB_13555 LHKJJB_13555 100.0 Morganella morganii S3 rtcB RNA-splicing ligase RtcB, repairs tRNA damage

Distribution of the homologs in the orthogroup group_3281

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Number of homologs in each genome (first column) and amino-acid identity of the closest homolog (second column).

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Phylogeny of the RefSeq best hits of group_3281

Swissprot accession Eval Score ID (%) N gaps Alignment length Annot score Gene Description Organism
P46850 0.0 608 71 1 405 1 rtcB RNA-splicing ligase RtcB Escherichia coli (strain K12)
P0DX92 0.0 607 70 1 405 1 rtcB1 RNA-splicing ligase RtcB1 Escherichia coli (strain ATCC 25922 / DSM 1103 / LMG 8223 / NCIMB 12210 / NCTC 12241 / WDCM 00013 / Seattle 1946)
Q74MJ0 1.03e-43 161 29 15 465 3 rtcB tRNA-splicing ligase RtcB Nanoarchaeum equitans (strain Kin4-M)
Q6LXF9 2.76e-41 155 31 14 417 3 rtcB tRNA-splicing ligase RtcB Methanococcus maripaludis (strain DSM 14266 / JCM 13030 / NBRC 101832 / S2 / LL)
O27634 1.91e-40 153 31 11 417 3 rtcB tRNA-splicing ligase RtcB Methanothermobacter thermautotrophicus (strain ATCC 29096 / DSM 1053 / JCM 10044 / NBRC 100330 / Delta H)
Q8ZY09 7.48e-40 151 29 16 464 1 rtcB tRNA-splicing ligase RtcB Pyrobaculum aerophilum (strain ATCC 51768 / DSM 7523 / JCM 9630 / CIP 104966 / NBRC 100827 / IM2)
O29399 1.52e-39 150 30 15 446 3 rtcB tRNA-splicing ligase RtcB Archaeoglobus fulgidus (strain ATCC 49558 / DSM 4304 / JCM 9628 / NBRC 100126 / VC-16)
Q5JCZ1 5.23e-36 140 28 14 443 3 rtcB tRNA-splicing ligase RtcB Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
P0DX91 5.2e-35 136 29 15 406 1 rtcB2 RNA-splicing ligase RtcB2 Escherichia coli (strain ATCC 25922 / DSM 1103 / LMG 8223 / NCIMB 12210 / NCTC 12241 / WDCM 00013 / Seattle 1946)
Q9YB37 1.26e-34 137 28 14 442 3 rtcB tRNA-splicing ligase RtcB Aeropyrum pernix (strain ATCC 700893 / DSM 11879 / JCM 9820 / NBRC 100138 / K1)
C4M6T2 1.43e-34 137 28 16 443 3 EHI_184560 RNA-splicing ligase RtcB homolog 2 Entamoeba histolytica (strain ATCC 30459 / HM-1:IMSS / ABRM)
Q7RI54 1.46e-34 137 27 14 448 3 PY03776 RNA-splicing ligase RtcB homolog Plasmodium yoelii yoelii
Q4YUZ9 1.89e-34 137 27 14 448 3 RTCB RNA-splicing ligase RtcB homolog Plasmodium berghei (strain Anka)
B0EAV2 3.85e-34 136 28 16 443 3 EDI_022970 RNA-splicing ligase RtcB homolog 1 Entamoeba dispar (strain ATCC PRA-260 / SAW760)
Q54Y09 5.21e-34 135 27 13 451 3 DDB_G0278481 RNA-splicing ligase RtcB homolog Dictyostelium discoideum
P9WGW4 1.96e-33 132 28 14 446 2 rtcB RNA-splicing ligase RtcB Mycobacterium tuberculosis (strain CDC 1551 / Oshkosh)
C1MI97 1.25e-32 132 27 15 450 3 MICPUCDRAFT_24370 RNA-splicing ligase RtcB homolog Micromonas pusilla (strain CCMP1545)
P9WGW5 1.91e-32 130 28 14 446 2 rtcB RNA-splicing ligase RtcB Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)
P59975 1.91e-32 130 28 14 446 3 rtcB RNA-splicing ligase RtcB Mycobacterium bovis (strain ATCC BAA-935 / AF2122/97)
Q8IIU6 3.44e-32 130 26 17 478 3 RTCB RNA-splicing ligase RtcB homolog Plasmodium falciparum (isolate 3D7)
A7RKF6 6.45e-32 129 26 16 452 3 v1g198406 RNA-splicing ligase RtcB homolog Nematostella vectensis
C1E9Y5 1.1e-31 129 27 15 451 3 MICPUN_59883 RNA-splicing ligase RtcB homolog Micromonas commoda (strain RCC299 / NOUM17 / CCMP2709)
A9CB42 1.43e-31 129 27 16 451 3 RTCB RNA-splicing ligase RtcB homolog Papio anubis
Q4R6X4 1.43e-31 129 27 16 451 2 RTCB RNA-splicing ligase RtcB homolog Macaca fascicularis
Q561P3 1.49e-31 129 27 15 451 2 rtcb RNA-splicing ligase RtcB homolog Xenopus tropicalis
Q9Y3I0 2.9e-31 127 27 15 451 1 RTCB RNA-splicing ligase RtcB homolog Homo sapiens
Q5E9T9 2.99e-31 127 27 15 451 2 RTCB RNA-splicing ligase RtcB homolog Bos taurus
Q19PY3 3.05e-31 127 27 15 451 2 RTCB RNA-splicing ligase RtcB homolog Sus scrofa
Q6AYT3 3.53e-31 127 27 15 451 2 Rtcb RNA-splicing ligase RtcB homolog Rattus norvegicus
Q99LF4 3.53e-31 127 27 15 451 1 Rtcb RNA-splicing ligase RtcB homolog Mus musculus
A8JC00 3.76e-31 127 27 15 448 3 CHLREDRAFT_139581 RNA-splicing ligase RtcB homolog Chlamydomonas reinhardtii
B3L4K9 9.23e-31 126 26 15 448 3 PKH_090290 RNA-splicing ligase RtcB homolog Plasmodium knowlesi (strain H)
B0WCT9 2.63e-30 125 26 16 452 3 CPIJ004874 RNA-splicing ligase RtcB homolog 1 Culex quinquefasciatus
Q7Q412 8.57e-30 124 26 15 452 3 AGAP008147 RNA-splicing ligase RtcB homolog Anopheles gambiae
P90838 1.87e-29 122 25 13 450 1 rtcb-1 RNA-splicing ligase RtcB homolog Caenorhabditis elegans
Q6NZS4 4.27e-29 121 26 14 451 2 rtcb RNA-splicing ligase RtcB homolog Danio rerio
A9UXG6 4.69e-29 121 27 15 453 3 24995 RNA-splicing ligase RtcB homolog Monosiga brevicollis
A8QC60 4.46e-28 119 24 13 449 3 Bm1_49220 RNA-splicing ligase RtcB homolog Brugia malayi
Q9VIW7 5.1e-28 119 27 16 452 2 RtcB RNA-splicing ligase RtcB homolog Drosophila melanogaster
B3RID0 6.7e-28 118 25 15 458 3 TRIADDRAFT_18395 RNA-splicing ligase RtcB homolog Trichoplax adhaerens
B8LBM8 9.82e-28 117 28 18 451 3 THAPSDRAFT_41953 RNA-splicing ligase RtcB homolog Thalassiosira pseudonana
C3YN79 1.1e-27 117 25 15 447 3 BRAFLDRAFT_216547 RNA-splicing ligase RtcB homolog Branchiostoma floridae
B0XKF3 2.18e-27 117 26 12 390 3 CPIJ019543 RNA-splicing ligase RtcB homolog 2 Culex quinquefasciatus
A4S3S3 3.23e-27 116 26 14 447 3 OSTLU_25152 RNA-splicing ligase RtcB homolog Ostreococcus lucimarinus (strain CCE9901)
Q58095 6.58e-27 117 28 10 364 3 rtcB tRNA-splicing ligase RtcB Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440)
Q58095 1.59e-06 54 38 2 73 3 rtcB tRNA-splicing ligase RtcB Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440)
C4M244 8.6e-27 115 26 18 458 3 EHI_169260 RNA-splicing ligase RtcB homolog 1 Entamoeba histolytica (strain ATCC 30459 / HM-1:IMSS / ABRM)
Q00ZY2 1.38e-26 114 26 15 447 3 Ot10g01930 RNA-splicing ligase RtcB homolog Ostreococcus tauri
B0EIW5 1.63e-26 114 27 18 458 3 EDI_260790 RNA-splicing ligase RtcB homolog 2 Entamoeba dispar (strain ATCC PRA-260 / SAW760)
Q17FP1 2.66e-26 114 26 15 451 3 AAEL003336 RNA-splicing ligase RtcB homolog Aedes aegypti
Q9V168 2.09e-23 106 26 13 387 3 rtcB tRNA-splicing ligase RtcB Pyrococcus abyssi (strain GE5 / Orsay)
Q4N1R8 2.86e-23 105 23 13 444 3 TP04_0661 RNA-splicing ligase RtcB homolog Theileria parva
Q8U0H4 9.77e-23 104 25 12 386 3 rtcB tRNA-splicing ligase RtcB Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)
O59245 1.04e-22 104 26 13 391 1 rtcB tRNA-splicing ligase RtcB Pyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3)
Q4U923 2.91e-22 102 23 13 452 3 TA10620 RNA-splicing ligase RtcB homolog Theileria annulata
Q8TUS2 1.15e-17 89 27 14 407 1 rtcB tRNA-splicing ligase RtcB Methanopyrus kandleri (strain AV19 / DSM 6324 / JCM 9639 / NBRC 100938)

  • Number of RefSeq hits:

General

Source Morganella morganii S5
Locus tag HKOGLL_11475
Feature type CDS
Gene rtcB
Product RNA-splicing ligase RtcB, repairs tRNA damage
Location 8207 - 9433 (strand: -1)
Length 1227 (nucleotides) / 408 (amino acids)

Contig

Accession ZDB_689
Length 162442 nucleotides
Topology linear
Plasmid False

Orthology

Orthogroup group_3281
Orthogroup size 5
N. genomes 5

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Genomic region

Domains

PF01139 tRNA-splicing ligase RtcB

COG entry Annotation(s)

ID Function(s) descr. Function(s) cat. Description
COG1690 Translation, ribosomal structure and biogenesis (J) J RNA-splicing ligase RtcB, repairs tRNA damage

Kegg Ortholog Annotation(s)

KO Description Pathways Modules
K14415 tRNA-splicing ligase RtcB (3'-phosphate/5'-hydroxy nucleic acid ligase) [EC:6.5.1.8] - -

Protein Sequence

MINRDFNELIQENSAPVKLWTNGVPVDPKAVLQLQNTAKMPFIFKHLAVMPDVHVGKGSTIGSVIPTKGAIIPAAVGVDIGCGMIAVKTSLTASDLPDSLQNIRFAIEAAVPHGRTTERHGRDKGTWKNVPDIVDNHWMQLDEQFRRICDKYPKLRNTNNYKHLGTLGTGNHFIELCLDEADFVWVMLHSGSRGVGNAIGNLFISLAQKDMQTHIANLPDRDLAYFEEGSVHFNDYMEAVGWAQDFARHNREVMMHRVLEALSREITKPFTTQQEAVNCHHNYVQKEQHFGEEVLVTRKGAVSAQKGQMGIIPGSMGAKSYIVRGRGNEESFCSCSHGAGRVMSRTEAKKRFSVADQQRATAHVECRKDSDVIDEIPMAYKDIDAVMTAQSSLVEIVHTLRQVVCVKG

Flanking regions ( +/- flanking 50bp)

CTGGCACACTTATCGCAATACTACCGGTACCAAACGAAAGGAATGTAAAAATGATAAATCGTGATTTTAATGAACTGATTCAGGAAAACAGTGCGCCGGTAAAATTGTGGACAAACGGTGTGCCGGTGGATCCGAAAGCGGTGCTGCAATTGCAGAATACGGCAAAAATGCCTTTTATTTTTAAACACCTGGCGGTAATGCCGGATGTGCATGTCGGTAAGGGATCGACTATCGGCAGTGTTATTCCGACCAAAGGCGCGATTATCCCGGCCGCTGTCGGGGTGGATATCGGCTGCGGAATGATCGCGGTGAAAACCTCGCTGACTGCGTCTGATCTGCCGGACAGCCTGCAAAATATCCGCTTTGCCATTGAAGCCGCGGTACCGCACGGACGAACTACTGAACGCCACGGACGGGATAAGGGAACCTGGAAAAATGTCCCGGATATTGTTGATAACCACTGGATGCAGCTGGATGAGCAGTTCCGCCGTATCTGCGATAAATACCCGAAACTGCGTAATACCAACAACTACAAACATCTGGGAACGCTGGGAACCGGGAACCACTTTATCGAACTGTGTCTGGATGAGGCGGACTTTGTCTGGGTGATGCTGCACAGCGGGTCACGCGGTGTCGGTAATGCCATCGGCAATCTGTTTATCTCGCTGGCACAAAAAGATATGCAGACGCACATTGCCAATCTGCCGGATCGCGATCTGGCGTATTTCGAAGAGGGAAGTGTGCATTTTAATGATTATATGGAAGCTGTCGGCTGGGCACAGGATTTTGCCCGTCATAACCGTGAAGTGATGATGCACCGCGTGCTGGAAGCTCTGTCCCGTGAAATCACCAAACCGTTCACCACACAACAGGAAGCCGTAAACTGCCACCATAACTATGTGCAGAAAGAACAGCATTTTGGTGAGGAAGTGCTGGTAACACGAAAAGGGGCTGTATCGGCACAAAAAGGGCAGATGGGGATCATCCCGGGCTCTATGGGCGCGAAAAGCTACATTGTGCGCGGACGCGGAAACGAAGAAAGCTTCTGCTCATGCAGCCATGGTGCAGGTCGTGTGATGAGCCGTACCGAAGCGAAAAAACGCTTCTCAGTGGCAGACCAGCAGCGCGCTACTGCTCATGTGGAGTGCCGTAAAGACAGCGATGTGATCGACGAGATCCCGATGGCGTACAAAGATATCGATGCGGTGATGACCGCACAGTCATCGCTGGTGGAAATTGTGCATACACTGCGTCAGGTGGTGTGTGTGAAGGGGTAAGGAAACAGTCACTGCATATACAGAGCATGCCCGCGCCTGATGCGGGCATG