Homologs in group_652

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6 homologs were identified in 6 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_02230 FBDBKF_02230 61.6 Morganella morganii S1 rnd ribonuclease D
EHELCC_02700 EHELCC_02700 61.6 Morganella morganii S2 rnd ribonuclease D
NLDBIP_00760 NLDBIP_00760 61.6 Morganella morganii S4 rnd ribonuclease D
LHKJJB_01275 LHKJJB_01275 61.6 Morganella morganii S3 rnd ribonuclease D
HKOGLL_01315 HKOGLL_01315 61.6 Morganella morganii S5 rnd ribonuclease D
F4V73_RS04600 F4V73_RS04600 58.6 Morganella psychrotolerans rnd ribonuclease D

Distribution of the homologs in the orthogroup group_652

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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_652

Swissprot accession Eval Score ID (%) N gaps Alignment length Annot score Gene Description Organism
P09155 4.28e-170 482 59 1 374 1 rnd Ribonuclease D Escherichia coli (strain K12)
A8GFH0 3.47e-169 479 63 1 373 3 rnd Ribonuclease D Serratia proteamaculans (strain 568)
C9XUE4 2.56e-167 474 59 1 369 3 rnd Ribonuclease D Cronobacter turicensis (strain DSM 18703 / CCUG 55852 / LMG 23827 / z3032)
C6C608 3.46e-166 472 59 1 373 3 rnd Ribonuclease D Musicola paradisiaca (strain Ech703)
P44442 3.55e-105 318 43 5 373 3 rnd Ribonuclease D Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd)
A0KXU5 1.16e-84 265 40 3 367 3 rnd Ribonuclease D Shewanella sp. (strain ANA-3)
A1SVE6 2.67e-79 250 38 3 370 3 rnd Ribonuclease D Psychromonas ingrahamii (strain DSM 17664 / CCUG 51855 / 37)
A6V8R6 7.5e-68 221 36 4 367 3 rnd Ribonuclease D Pseudomonas aeruginosa (strain PA7)
A7HYE5 4.03e-45 162 33 4 292 3 rnd Ribonuclease D Parvibaculum lavamentivorans (strain DS-1 / DSM 13023 / NCIMB 13966)
A5G127 5.78e-44 159 33 5 295 3 rnd Ribonuclease D Acidiphilium cryptum (strain JF-5)
Q5NPM2 3.52e-43 157 34 6 297 3 rnd Ribonuclease D Zymomonas mobilis subsp. mobilis (strain ATCC 31821 / ZM4 / CP4)
Q6AJF4 8.34e-42 153 28 2 361 3 rnd Ribonuclease D Desulfotalea psychrophila (strain LSv54 / DSM 12343)
D4Z694 3.46e-39 146 31 5 295 3 rnd Ribonuclease D Sphingobium indicum (strain DSM 16413 / CCM 7287 / MTCC 6362 / UT26 / NBRC 101211 / UT26S)
Q1QLI8 1.1e-38 145 32 2 258 3 rnd Ribonuclease D Nitrobacter hamburgensis (strain DSM 10229 / NCIMB 13809 / X14)
Q0BVP4 1.85e-36 139 27 7 370 3 rnd Ribonuclease D Granulibacter bethesdensis (strain ATCC BAA-1260 / CGDNIH1)
Q5GZ75 2.3e-34 133 32 10 376 3 rnd Ribonuclease D Xanthomonas oryzae pv. oryzae (strain KACC10331 / KXO85)
Q28RA7 1.06e-33 132 32 6 300 3 rnd Ribonuclease D Jannaschia sp. (strain CCS1)
Q6G329 1.26e-33 132 31 4 262 3 rnd Ribonuclease D Bartonella henselae (strain ATCC 49882 / DSM 28221 / CCUG 30454 / Houston 1)
A9H9B7 2.47e-33 130 27 8 372 3 rnd Ribonuclease D Gluconacetobacter diazotrophicus (strain ATCC 49037 / DSM 5601 / CCUG 37298 / CIP 103539 / LMG 7603 / PAl5)
B8EN54 4.59e-33 130 31 3 258 3 rnd Ribonuclease D Methylocella silvestris (strain DSM 15510 / CIP 108128 / LMG 27833 / NCIMB 13906 / BL2)
G5EBX6 1.86e-17 87 28 6 260 1 crn-3 Exosome complex component 10 homolog Caenorhabditis elegans
Q12149 5.44e-17 86 23 6 310 1 RRP6 Exosome complex exonuclease RRP6 Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Q10146 1.19e-15 82 25 6 280 1 rrp6 Exosome complex exonuclease rrp6 Schizosaccharomyces pombe (strain 972 / ATCC 24843)
Q9VFF3 2.1e-14 78 25 6 259 1 Rrp6 Exosome complex component 10 homolog Drosophila melanogaster
Q0WVE8 1.09e-11 69 24 6 273 2 RRP6L1 Protein RRP6-like 1 Arabidopsis thaliana
Q01780 1.21e-11 69 24 6 260 1 EXOSC10 Exosome complex component 10 Homo sapiens
P56960 8.92e-11 67 24 6 240 1 Exosc10 Exosome complex component 10 Mus musculus
A9LLI7 9.61e-11 67 22 5 269 2 RRP6L2 Protein RRP6-like 2 Arabidopsis thaliana
A9LLI8 1.64e-10 66 22 7 282 2 RRP6L3 Protein RRP6-like 3 Arabidopsis thaliana
D4A1X2 1.65e-10 66 24 6 240 1 Exosc10 Exosome complex component 10 Rattus norvegicus
O67779 1.12e-08 60 26 5 168 3 polA DNA polymerase I Aquifex aeolicus (strain VF5)

  • Number of RefSeq hits:

General

Source Proteus mirabilis HI4320
Locus tag PMI_RS05630
Feature type CDS
Gene rnd
Product ribonuclease D
Location 1228527 - 1229645 (strand: 1)
Length 1119 (nucleotides) / 372 (amino acids)

Contig

Accession NC_010554
Length 4063606 nucleotides
Topology circular
Plasmid False

Orthology

Orthogroup group_652
Orthogroup size 7
N. genomes 7

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Genomic region

Domains

PF00570 HRDC domain
PF01612 3'-5' exonuclease
PF21293 Ribonuclease D, C-terminal HRDC domain

COG entry Annotation(s)

ID Function(s) descr. Function(s) cat. Description
COG0349 Translation, ribosomal structure and biogenesis (J) J Ribonuclease D

Kegg Ortholog Annotation(s)

KO Description Pathways Modules
K03684 ribonuclease D [EC:3.1.13.5] - -

Protein Sequence

MNYQFITTNTALEDVCKAASEVSQIALDTEFVRIRTYYPHLGLIQMYDGKQISLIDPLTITEWTPFVELLTNPAVLKYLHAGSEDLEVFSHQFGCVPTPMIDTQVVAAFLGYPISCGFATLVEKYEHIALDKSESRTDWLARPLTEKQCQYASGDVFYLLPLAKKLIAQAQEAGYMDAIVDECEMIAERRQETVSPELAYRDIGNAWQLRGQQLACLKMLAEWRLNQARARDMALNFVVREEHLWSVARYLPTSLAELDALSLSGQEIRCHGRRLLDFVAKAKQIKDEDCPEPIGNLIEQPNYKKAFKAIKTVIQEVSEGQRYNPELLASRRQINQLLNIHWKIKTGEPELLSRWRKALLAEKITAILAQYP

Flanking regions ( +/- flanking 50bp)

TTGTCTTTACGAAAAAGTCATTAGACATAAAAACACAAGAGAAACCTGTTTTGAATTATCAATTTATCACGACAAACACAGCACTAGAAGATGTCTGTAAAGCAGCGTCTGAGGTATCACAAATTGCATTAGATACAGAGTTTGTCCGTATACGCACCTATTACCCACATTTGGGGCTTATCCAAATGTACGATGGGAAACAGATCTCTCTTATTGATCCCCTGACCATTACTGAGTGGACTCCTTTTGTTGAATTATTAACTAATCCCGCAGTCCTTAAATATTTGCATGCTGGAAGTGAAGATCTTGAAGTGTTTTCTCATCAATTTGGTTGTGTTCCGACACCCATGATAGACACCCAAGTCGTGGCCGCTTTTCTGGGCTATCCCATTTCTTGTGGCTTTGCGACCTTAGTAGAAAAATATGAACATATTGCTCTCGATAAAAGTGAATCACGAACAGATTGGCTGGCACGCCCATTAACCGAAAAACAGTGCCAATATGCGAGTGGTGATGTGTTTTATTTGTTACCTCTAGCTAAGAAATTAATCGCACAGGCACAAGAAGCCGGTTATATGGACGCGATTGTTGATGAGTGCGAAATGATAGCCGAGCGTCGCCAAGAGACCGTATCACCAGAGCTTGCCTATCGCGATATTGGTAATGCATGGCAATTACGAGGTCAACAATTGGCATGCTTAAAAATGTTGGCAGAATGGCGTTTAAATCAAGCTAGAGCCCGTGATATGGCATTAAATTTTGTTGTAAGGGAAGAGCATTTATGGTCAGTAGCACGCTATTTACCGACCTCTCTTGCTGAATTAGATGCGCTTTCTCTATCGGGGCAAGAAATTCGTTGTCATGGCCGTCGCTTGTTGGATTTTGTTGCTAAAGCCAAACAGATCAAAGATGAAGATTGTCCTGAGCCTATTGGCAATTTAATTGAACAACCTAACTATAAAAAAGCCTTTAAAGCAATAAAAACGGTGATCCAAGAGGTAAGTGAAGGGCAGCGTTATAACCCCGAGTTATTAGCCTCAAGAAGACAAATAAACCAATTGCTTAATATTCACTGGAAAATTAAAACAGGGGAGCCTGAATTGCTTTCACGCTGGCGTAAAGCATTATTAGCAGAAAAAATTACTGCAATTTTGGCGCAATATCCTTAATATCACGTTATATTAATTCAGGCTAAAGAGTAATTATTTAGCCTGAAATT