Homologs in group_1244

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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_07235 FBDBKF_07235 85.0 Morganella morganii S1 ldtD L,D-transpeptidase
EHELCC_03735 EHELCC_03735 85.0 Morganella morganii S2 ldtD L,D-transpeptidase
NLDBIP_03735 NLDBIP_03735 85.0 Morganella morganii S4 ldtD L,D-transpeptidase
LHKJJB_09565 LHKJJB_09565 85.0 Morganella morganii S3 ldtD L,D-transpeptidase
HKOGLL_09410 HKOGLL_09410 85.0 Morganella morganii S5 ldtD L,D-transpeptidase
PMI_RS03590 PMI_RS03590 52.7 Proteus mirabilis HI4320 ldtD L,D-transpeptidase

Distribution of the homologs in the orthogroup group_1244

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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_1244

Swissprot accession Eval Score ID (%) N gaps Alignment length Annot score Gene Description Organism
P22525 1.05e-176 516 48 4 537 1 ycbB Probable L,D-transpeptidase YcbB Escherichia coli (strain K12)
P44285 5.55e-72 242 50 5 240 3 HI_1667 Putative L,D-transpeptidase HI_1667 Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd)
P44285 6.95e-10 65 28 2 172 3 HI_1667 Putative L,D-transpeptidase HI_1667 Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd)

  • Number of RefSeq hits:

General

Source Morganella psychrotolerans
Locus tag F4V73_RS01420
Feature type CDS
Gene ldtD
Product L,D-transpeptidase
Location 311910 - 313664 (strand: 1)
Length 1755 (nucleotides) / 584 (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_1244
Orthogroup size 7
N. genomes 7

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Genomic region

Domains

PF01471 Putative peptidoglycan binding domain
PF03734 L,D-transpeptidase catalytic domain
PF20142 Scaffold domain

COG entry Annotation(s)

ID Function(s) descr. Function(s) cat. Description
COG2989 Cell wall/membrane/envelope biogenesis (M) M Murein L,D-transpeptidase YcbB/YkuD

Kegg Ortholog Annotation(s)

KO Description Pathways Modules
K21470 L,D-transpeptidase YcbB - -

Protein Sequence

MVKGVKKAVPISAMIGTLLLTQVSWATTAPVNHQATAGAQKVVPEPAVQTQTLLPDSSQAAQPLLTPTPETGITALPLNEVSDKIRSEVPAATKLVYSDALVKLYAEHQLQPRWTDEKARLSLENQLAEAALAGFQPQFALWLTALAQPDLTPLARDVILTDAALGYLYYLDNVKAKGDKWLYGAKPFTFSEVSAPALARLNTAMHNGTLATFTDGLLPVNSMYPAMRKAMLAELADTAVWPEMVIARTLRPGESHESVIALREILHRFKLISANDMMSASPVYDKTLVAAVKQFQAQHGLEADGVIGKQTREWLNKTPQMRAAIMAANIQRLHIVPDNVPTAILVNIPDFSLYFYVDKNLILESRTIVGREARKTPIMSSALNNVVINPPWTVPPTMSRQDIVPRGRADPSYFSSRGYTIYNGWSNNASVVDPYSINWSVITPSNFPYRITQAPGPTNSLGRYKFNMPNSEAIYLHDTPNHSLFNKNMRAISSGCVRVNKAKDLAAILLGDAGWNTTRVDGALKAGSTRYVSIPDRIPVFLYYQTAWVNTDNVPQYRADIYRYDDASLNGLDKLADISPFLIK

Flanking regions ( +/- flanking 50bp)

TATTAACAATTGGTCAGAATAACATAATAAAAAAATGAGAGAGGGATGTTATGGTGAAGGGAGTTAAAAAAGCTGTTCCCATTTCCGCCATGATAGGAACACTGTTACTGACGCAGGTTTCGTGGGCAACAACCGCACCGGTAAACCATCAGGCAACCGCCGGGGCACAGAAAGTCGTACCGGAACCGGCAGTACAGACACAAACACTGCTGCCGGACTCTTCGCAGGCAGCGCAACCGCTGCTGACACCCACACCGGAAACCGGTATCACTGCATTACCGCTGAATGAGGTTTCTGACAAAATCCGCAGTGAAGTACCTGCGGCGACTAAACTGGTGTATAGCGATGCACTGGTGAAATTATATGCAGAGCATCAGTTACAACCACGCTGGACAGATGAGAAAGCGCGTCTGTCTCTGGAAAATCAACTGGCAGAGGCCGCGCTTGCTGGTTTTCAGCCGCAGTTTGCACTCTGGCTGACGGCACTGGCTCAGCCGGATCTGACTCCGCTGGCGCGTGATGTTATCTTAACGGATGCTGCACTCGGTTATCTTTATTATCTTGATAACGTGAAAGCAAAAGGGGACAAGTGGCTTTACGGCGCAAAGCCCTTTACCTTTTCTGAGGTCAGCGCCCCGGCACTTGCGCGGCTGAATACCGCCATGCATAACGGAACACTTGCTACCTTTACTGACGGATTGCTGCCGGTGAACTCAATGTACCCGGCAATGCGCAAAGCGATGCTGGCAGAGCTGGCTGATACCGCGGTATGGCCGGAAATGGTTATCGCGCGGACACTGCGTCCGGGTGAAAGCCATGAGTCCGTTATTGCGCTGCGGGAAATTTTGCACCGTTTTAAACTGATTTCTGCCAATGACATGATGAGTGCAAGTCCGGTGTATGACAAAACGCTGGTGGCGGCGGTTAAGCAGTTCCAGGCGCAACACGGACTGGAAGCGGATGGTGTTATCGGTAAGCAAACCCGTGAATGGCTGAATAAGACCCCGCAGATGCGCGCGGCGATTATGGCGGCAAATATTCAGCGTCTGCATATTGTGCCGGATAATGTTCCGACCGCTATTCTTGTTAATATCCCGGATTTCTCACTCTATTTTTATGTGGATAAAAACTTGATCCTGGAGTCCAGAACCATTGTCGGACGTGAGGCCCGTAAAACCCCTATTATGAGCAGCGCGCTTAATAATGTGGTGATTAACCCGCCGTGGACGGTTCCGCCGACCATGAGCCGTCAGGATATTGTGCCGCGCGGACGCGCTGACCCAAGCTATTTCAGCAGCCGGGGATATACTATCTATAACGGATGGAGCAATAACGCATCTGTTGTTGACCCCTATAGTATTAACTGGAGTGTTATTACCCCGTCAAACTTTCCGTACCGGATAACACAGGCGCCGGGACCGACGAACTCGTTAGGTCGGTATAAGTTTAATATGCCGAACTCAGAGGCGATTTATCTGCATGACACACCAAACCACTCACTGTTTAATAAAAACATGCGTGCTATCAGTTCCGGCTGTGTCAGGGTCAATAAAGCGAAGGACTTAGCGGCGATCCTGCTGGGTGATGCGGGGTGGAACACAACGCGTGTTGATGGCGCATTAAAAGCGGGCAGCACCCGTTATGTCTCTATCCCTGACCGTATACCGGTTTTCCTCTATTATCAGACTGCATGGGTGAATACGGATAATGTCCCGCAATATCGTGCGGATATTTACCGCTACGATGACGCGAGTCTGAACGGGCTTGATAAATTAGCGGATATCTCACCGTTCCTCATTAAATAATAATCAGAACAGGCCGCTTAATTATTATAAATAAGCGGCCTGTTCTTTAT