LOCUS WQZ30471.1 656 aa PRT BCT 29-DEC-2023
DEFINITION Helicobacter pylori NAD-dependent DNA ligase LigA protein.
ACCESSION CP079244-586
PROTEIN_ID WQZ30471.1
SOURCE Helicobacter pylori
ORGANISM Helicobacter pylori
Bacteria; Campylobacterota; Epsilonproteobacteria;
Campylobacterales; Helicobacteraceae; Helicobacter.
REFERENCE 1 (bases 1 to 1570870)
AUTHORS Thorell,K., Munoz-Ramirez,Z.Y., Wang,D., Sandoval-Motta,S., Boscolo
Agostini,R., Ghirotto,S., Torres,R.C., Falush,D., Camargo,M.C. and
Rabkin,C.S.
CONSRTM HpGP Research Network
TITLE The Helicobacter pylori Genome Project: insights into H. pylori
population structure from analysis of a worldwide collection of
complete genomes
JOURNAL Nat Commun 14 (1), 8184 (2023)
PUBMED 38081806
REMARK Publication Status: Online-Only
REFERENCE 2 (bases 1 to 1570870)
AUTHORS Camargo,M.C. and Rabkin,C.S.
TITLE Direct Submission
JOURNAL Submitted (15-JUL-2021) IIB, National Cancer Institute, 9609
Medical Center Dr., Rm. 6E110, Bethesda, MD 20892, USA
COMMENT The annotation was added by the NCBI Prokaryotic Genome Annotation
Pipeline (PGAP). Information about PGAP can be found here:
https://www.ncbi.nlm.nih.gov/genome/annotation_prok/
##Genome-Assembly-Data-START##
Assembly Method :: HGAP v. 4
Assembly Name :: HpGP-TWN-021
Genome Representation :: Full
Expected Final Version :: Yes
Genome Coverage :: 2661x
Sequencing Technology :: PacBio Sequel II
##Genome-Assembly-Data-END##
##Genome-Annotation-Data-START##
Annotation Provider :: NCBI
Annotation Date :: 07/16/2021 08:12:09
Annotation Pipeline :: NCBI Prokaryotic Genome
Annotation Pipeline (PGAP)
Annotation Method :: Best-placed reference protein
set; GeneMarkS-2+
Annotation Software revision :: 5.2
Features Annotated :: Gene; CDS; rRNA; tRNA; ncRNA;
repeat_region
Genes (total) :: 1,497
CDSs (total) :: 1,452
Genes (coding) :: 1,391
CDSs (with protein) :: 1,391
Genes (RNA) :: 45
rRNAs :: 2, 2, 2 (5S, 16S, 23S)
complete rRNAs :: 2, 2, 2 (5S, 16S, 23S)
tRNAs :: 36
ncRNAs :: 3
Pseudo Genes (total) :: 61
CDSs (without protein) :: 61
Pseudo Genes (ambiguous residues) :: 0 of 61
Pseudo Genes (frameshifted) :: 44 of 61
Pseudo Genes (incomplete) :: 11 of 61
Pseudo Genes (internal stop) :: 18 of 61
Pseudo Genes (multiple problems) :: 12 of 61
##Genome-Annotation-Data-END##
FEATURES Qualifiers
source /organism="Helicobacter pylori"
/mol_type="genomic DNA"
/strain="HpGP-TWN-021"
/isolation_source="Biopsy"
/host="Homo sapiens"
/db_xref="taxon:210"
/geo_loc_name="Taiwan"
/lat_lon="23.30 N 121.00 E"
/collected_by="Maria Camargo and Charles Rabkins"
protein /gene="ligA"
/locus_tag="E5P95_03000"
/EC_number="6.5.1.2"
/inference="COORDINATES: similar to AA
sequence:RefSeq:WP_015645029.1"
/note="Derived by automated computational analysis using
gene prediction method: Protein Homology."
/transl_table=11
BEGIN
1 MIKSQKEYLE RIEYLNTLSH HYYNLDDPIV SDAVYDELYQ ELKAYEEKNP NSIQANSPTQ
61 KVGATTTNSF NKNSHLMRMW SLDDVFNQSE LQAWLQRILK AYPSASFVCS PKLDGVSLNL
121 LYQHGKLVKA TTRGNGLEGE LVSANAKHIA NIPHAIAYNG EIEIRGEVII SKKDFDALNK
181 ERLNANEPLF SNPRNAASGS LRQLDSEITK KRKLQFIPWG VGKHSLNFLS FKECLDFIVS
241 LGFSPIQYLS LNKNHQEIEE NYHTLIKERE GFFALLDGMV IVVNELNIQK ELGYTQKSPK
301 FACAYKFPAL EKHTKIVGVI NQVGRSGAIT PVAVLEPVEI AGAIITKATL HNYSEIEKKN
361 IMLNDRVVVI RSGDVIPKII KPLESYRDGS QHKIERPKVC PICSHELLCE EIFTYCQNLN
421 CPARLKESLI HFASKDALNI QGLGDKVIEQ LFEEKLIFNA LDLYALKLED LMRLDKFKIK
481 KAQNLLDAIQ KSKNPPLWRL INALGIEHIG KGASKTLAKY GLNVLEKSEA EFLEMEGFGV
541 EMARSLVNFY ASNQEFIRSL FDLLDPKNSD ITEEKQESSS VFNNKTIVLT GTLSKPRQEY
601 AQMLENLGAK ISSSVSAKTD FLIVGENAGS KLALAKKHGV SVLNEEELLK RLKEFD
//