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 90.2 Morganella morganii S1 yceD 23S rRNA accumulation protein YceD
EHELCC_15545 EHELCC_15545 90.2 Morganella morganii S2 yceD 23S rRNA accumulation protein YceD
NLDBIP_16075 NLDBIP_16075 90.2 Morganella morganii S4 yceD 23S rRNA accumulation protein YceD
LHKJJB_15765 LHKJJB_15765 90.2 Morganella morganii S3 yceD 23S rRNA accumulation protein YceD
HKOGLL_14885 HKOGLL_14885 90.2 Morganella morganii S5 yceD 23S rRNA accumulation protein YceD
PMI_RS04200 PMI_RS04200 79.3 Proteus mirabilis HI4320 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 1.73e-89 261 72 0 172 2 yceD Large ribosomal RNA subunit accumulation protein YceD Escherichia coli (strain K12)
P0AB29 1.73e-89 261 72 0 172 3 yceD Large ribosomal RNA subunit accumulation protein YceD Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC)
P0AB30 1.73e-89 261 72 0 172 3 yceD Large ribosomal RNA subunit accumulation protein YceD Escherichia coli O157:H7
P0A1T2 1.6e-88 259 72 0 172 2 yceD Large ribosomal RNA subunit accumulation protein YceD Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)
P0A1T3 1.6e-88 259 72 0 172 3 yceD Large ribosomal RNA subunit accumulation protein YceD Salmonella typhi
P43790 5.31e-66 202 56 1 173 3 yceD Large ribosomal RNA subunit accumulation protein YceD Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd)

  • Number of RefSeq hits:

General

Source Morganella psychrotolerans
Locus tag F4V73_RS07535
Feature type CDS
Gene yceD
Product 23S rRNA accumulation protein YceD
Location 1573406 - 1573930 (strand: -1)
Length 525 (nucleotides) / 174 (amino acids)

Contig

Accession term accessions NZ_VXKB01000001 accessions NZ_VXKB01000000 Name: value, dtype: object
Length 2012992 nucleotides
Topology linear
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

MQKIKLPLTIDAKRTAQKRLDYQGCYTPEQVTRLAESVASVDSDVDVDLRFEIDPQRLAVIKGTADVDVSLECQRCGNIFPLHVHATYCFSPVTSDEKAEALPEEYEPIDVNDFGETDLLAMIEDELILSLPVVPVHESEHCEVSDAEKVFGKLPEEVEKPNPFAALASLKKSN

Flanking regions ( +/- flanking 50bp)

TCTATATTTTCTTTGACTAAATCGTCTTACAAATATAAGATGCGCGCCTTATGCAAAAGATAAAATTACCTCTGACCATTGATGCAAAACGTACCGCGCAGAAGCGACTGGATTACCAGGGGTGTTATACACCTGAGCAGGTTACGCGGTTAGCGGAGTCAGTGGCCAGTGTGGACAGCGATGTTGATGTTGATTTGCGGTTTGAAATCGATCCTCAGCGTCTGGCAGTAATTAAGGGAACAGCAGATGTTGATGTTTCACTTGAGTGCCAGCGTTGTGGTAACATCTTCCCGCTTCATGTCCACGCAACGTATTGTTTCAGCCCTGTCACCAGTGATGAAAAGGCTGAGGCATTACCGGAAGAGTATGAGCCAATTGACGTAAATGATTTTGGTGAAACAGATTTACTGGCAATGATTGAAGATGAGTTAATTCTGTCTTTGCCCGTGGTTCCGGTACATGAATCTGAACACTGTGAAGTGTCCGACGCGGAGAAAGTTTTTGGTAAACTTCCAGAGGAAGTTGAAAAGCCTAATCCTTTTGCCGCATTAGCCAGCTTAAAGAAAAGTAATTAAGGAGTAAGGTCAATGGCCGTACAACAAAATAAACCAACTCGCTCTAAACG