Homologs in group_1965

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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_14740 FBDBKF_14740 79.3 Morganella morganii S1 yceD 23S rRNA accumulation protein YceD
EHELCC_15545 EHELCC_15545 79.3 Morganella morganii S2 yceD 23S rRNA accumulation protein YceD
NLDBIP_16075 NLDBIP_16075 79.3 Morganella morganii S4 yceD 23S rRNA accumulation protein YceD
LHKJJB_15765 LHKJJB_15765 79.3 Morganella morganii S3 yceD 23S rRNA accumulation protein YceD
HKOGLL_14885 HKOGLL_14885 79.3 Morganella morganii S5 yceD 23S rRNA accumulation protein YceD
F4V73_RS07535 F4V73_RS07535 79.3 Morganella psychrotolerans yceD 23S rRNA accumulation protein YceD

Distribution of the homologs in the orthogroup group_1965

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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_1965

Swissprot accession Eval Score ID (%) N gaps Alignment length Annot score Gene Description Organism
P0AB28 4.52e-88 258 72 1 173 2 yceD Large ribosomal RNA subunit accumulation protein YceD Escherichia coli (strain K12)
P0AB29 4.52e-88 258 72 1 173 3 yceD Large ribosomal RNA subunit accumulation protein YceD Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC)
P0AB30 4.52e-88 258 72 1 173 3 yceD Large ribosomal RNA subunit accumulation protein YceD Escherichia coli O157:H7
P0A1T2 5.92e-86 253 71 1 173 2 yceD Large ribosomal RNA subunit accumulation protein YceD Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)
P0A1T3 5.92e-86 253 71 1 173 3 yceD Large ribosomal RNA subunit accumulation protein YceD Salmonella typhi
P43790 4.92e-67 205 56 0 174 3 yceD Large ribosomal RNA subunit accumulation protein YceD Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd)

  • Number of RefSeq hits:

General

Source Proteus mirabilis HI4320
Locus tag PMI_RS04200
Feature type CDS
Gene yceD
Product 23S rRNA accumulation protein YceD
Location 947483 - 948016 (strand: 1)
Length 534 (nucleotides) / 177 (amino acids)

Contig

Accession NC_010554
Length 4063606 nucleotides
Topology circular
Plasmid False

Orthology

Orthogroup group_1965
Orthogroup size 7
N. genomes 7

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Genomic region

Domains

PF02620 Large ribosomal RNA subunit accumulation protein YceD

COG entry Annotation(s)

ID Function(s) descr. Function(s) cat. Description
COG1399 Translation, ribosomal structure and biogenesis (J) J 23S rRNA accumulation protein YceD (essential in plants, uncharacterized in bacteria)

Kegg Ortholog Annotation(s)

KO Description Pathways Modules
K07040 DUF177 domain-containing protein - -

Protein Sequence

MQKVKLPLTIDALRAAQKNLDYDGQYSSEQVSRLAESVVSVDSNIDVALSFDIDHQRLAVIKGHSDVDVTLECQRCGGHFPYHVHTTYCFSPVVSDERAEALPEEYEPIDVDDFGEIDLLAMIEDEIILNLPVVPVHDFEHCEVSDAEQVFGELPEELSEKPNPFAVLASLKKSTKE

Flanking regions ( +/- flanking 50bp)

CCGCCTTTTTCTTTGACTATATTCCATTACAAAGATAATATGCGCGCCTTATGCAAAAGGTAAAATTACCCCTGACCATTGATGCGCTGCGAGCAGCACAGAAGAATTTAGACTATGACGGTCAATATTCCTCTGAGCAAGTTAGCCGCTTAGCTGAATCGGTGGTCAGTGTGGACAGTAATATTGATGTGGCTTTATCATTTGATATTGACCATCAACGTTTGGCAGTCATCAAGGGGCATTCCGATGTGGATGTCACTTTAGAGTGTCAACGTTGCGGGGGCCATTTTCCCTATCATGTTCACACAACATATTGTTTTAGCCCTGTTGTTAGTGATGAACGGGCTGAAGCATTACCGGAAGAATATGAGCCAATCGACGTAGACGATTTTGGTGAAATAGATTTGCTGGCGATGATTGAAGATGAAATAATCCTCAACTTGCCGGTGGTTCCGGTACATGATTTTGAACACTGTGAAGTGTCCGACGCGGAACAAGTGTTCGGTGAACTCCCTGAAGAATTATCAGAGAAGCCGAATCCATTTGCCGTATTAGCCAGTTTAAAGAAAAGTACTAAGGAGTAAGGTCAATGGCCGTACAACAAAACAAACCAACTCGTTCTAAACGTGGTATG