LOCUS ADR18024.1 1154 aa PRT BCT 08-JUN-2015
DEFINITION Calditerrivibrio nitroreducens DSM 19672 DNA polymerase
III, alpha subunit protein.
ACCESSION CP002347-107
PROTEIN_ID ADR18024.1
SOURCE Calditerrivibrio nitroreducens DSM 19672
ORGANISM Calditerrivibrio nitroreducens DSM 19672
Bacteria; Deferribacteres; Deferribacterales;
Calditerrivibrionaceae.
REFERENCE 1 (bases 1 to 2157835)
AUTHORS Pitluck,S., Sikorski,J., Zeytun,A., Lapidus,A., Nolan,M., Lucas,S.,
Hammon,N., Deshpande,S., Cheng,J.F., Tapia,R., Han,C., Goodwin,L.,
Liolios,K., Pagani,I., Ivanova,N., Mavromatis,K., Pati,A., Chen,A.,
Palaniappan,K., Hauser,L., Chang,Y.J., Jeffries,C.D., Detter,J.C.,
Brambilla,E., Djao,O.D., Rohde,M., Spring,S., Goker,M., Woyke,T.,
Bristow,J., Eisen,J.A., Markowitz,V., Hugenholtz,P., Kyrpides,N.C.,
Klenk,H.P. and Land,M.
TITLE Complete genome sequence of Calditerrivibrio nitroreducens type
strain (Yu37-1)
JOURNAL Stand Genomic Sci 4 (1), 54-62 (2011)
PUBMED 21475587
REMARK Publication Status: Online-Only
REFERENCE 2 (bases 1 to 2157835)
AUTHORS Lucas,S., Copeland,A., Lapidus,A., Bruce,D., Goodwin,L.,
Pitluck,S., Kyrpides,N., Mavromatis,K., Ivanova,N., Mikhailova,N.,
Zeytun,A., Brettin,T., Detter,J.C., Tapia,R., Han,C., Land,M.,
Hauser,L., Markowitz,V., Cheng,J.-F., Hugenholtz,P., Woyke,T.,
Wu,D., Spring,S., Schroeder,M., Brambilla,E., Klenk,H.-P. and
Eisen,J.A.
CONSRTM US DOE Joint Genome Institute (JGI-PGF)
TITLE The complete genome of chromosome of Calditerrivibrio nitroreducens
DSM 19672
JOURNAL Unpublished
REFERENCE 3 (bases 1 to 2157835)
AUTHORS Lucas,S., Copeland,A., Lapidus,A., Bruce,D., Goodwin,L.,
Pitluck,S., Kyrpides,N., Mavromatis,K., Ivanova,N., Mikhailova,N.,
Zeytun,A., Brettin,T., Detter,J.C., Tapia,R., Han,C., Land,M.,
Hauser,L., Markowitz,V., Cheng,J.-F., Hugenholtz,P., Woyke,T.,
Wu,D., Spring,S., Schroeder,M., Brambilla,E., Klenk,H.-P. and
Eisen,J.A.
CONSRTM US DOE Joint Genome Institute (JGI-PGF)
TITLE Direct Submission
JOURNAL Submitted (18-NOV-2010) US DOE Joint Genome Institute, 2800
Mitchell Drive, Walnut Creek, CA 94598-1698, USA
COMMENT URL -- http://www.jgi.doe.gov
JGI Project ID: 4087656
Source DNA and organism available from Hans-Peter Klenk at the
German Collection of Microorganisms and Cell Cultures (DSMZ)
(hans-peter.klenk@dsmz.de)
Contacts: Jonathan A. Eisen (jaeisen@ucdavis.edu)
David Bruce (microbe@cuba.jgi-psf.org)
Whole genome sequencing and draft assembly at JGI-PGF
Finishing done by JGI-LANL
Annotation by JGI-ORNL and JGI-PGF
The JGI and collaborators endorse the principles for the
distribution and use of large scale sequencing data adopted by the
larger genome sequencing community and urge users of this data to
follow them. It is our intention to publish the work of this
project in a timely fashion and we welcome collaborative
interaction on the project and analysis.
(http://www.genome.gov/page.cfm?pageID=10506376).
##MIGS-Data-START##
investigation_type :: bacteria_archaea
project_name :: Calditerrivibrio nitroreducens Yu37-1, DSM
19672
collection_date :: Missing
lat_lon :: 36.829513 138.217163
depth :: Missing
alt_elev :: Missing
country :: Japan
environment :: Host
num_replicons :: 2
ref_biomaterial :: DSM 19672, NBRC 101217
biotic_relationship :: Free living
trophic_level :: Missing
rel_to_oxygen :: Anaerobe
isol_growth_condt :: 18599715
sequencing_meth :: WGS
assembly :: Newbler v. 2.3 (pre-release)
finishing_strategy :: Finished
GOLD Stamp ID :: Gi04007
Type Strain :: Yes
Funding Program :: DOE-GEBA 2009
Gene Calling Method :: Prodigal 1.4, GenePRIMP
Isolation Site :: Terrestrial hot spring; Japan, Nagano,
Yumata
Cell Shape :: Vibrio-shaped
Motility :: Motile
Sporulation :: Nonsporulating
Temperature Range :: Thermophile
Temperature Optimum :: 55C
pH :: 7.0 - 7.5
Gram Staining :: Gram-
Diseases :: None
##MIGS-Data-END##
##Genome-Assembly-Data-START##
Finishing Goal :: Finished
Current Finishing Status :: Finished
Assembly Method :: Newbler v. 2.3
Genome Coverage :: 30x
Sequencing Technology :: Illumina, 454
##Genome-Assembly-Data-END##
FEATURES Qualifiers
source /organism="Calditerrivibrio nitroreducens DSM 19672"
/mol_type="genomic DNA"
/strain="DSM 19672"
/isolation_source="terrestrial hot spring"
/type_material="type strain of Calditerrivibrio
nitroreducens"
/db_xref="taxon:768670"
/country="Japan: Nagano, Yumata"
/lat_lon="36.829514 N 138.217163 E"
protein /locus_tag="Calni_0109"
/EC_number="2.7.7.7"
/note="COGs: COG0587 DNA polymerase III alpha subunit;
InterPro IPR004805: IPR004013: IPR011708: IPR004365: IPR
003141; KEGG: ddf:DEFDS_2002 DNA polymerase III subunit
alpha; PFAM: DNA polymerase III alpha subunit; PHP domain
protein; nucleic acid binding OB-fold tRNA/helicase-type;
PRIAM: DNA-directed DNA polymerase; SMART: phosphoesterase
PHP domain protein; SPTR: DNA polymerase III, alpha
subunit; TIGRFAM: DNA polymerase III, alpha subunit; PFAM:
PHP domain; Bacterial DNA polymerase III alpha subunit;
OB-fold nucleic acid binding domain; TIGRFAM: DNA-directed
DNA polymerase III (polc)"
/transl_table=11
BEGIN
1 MKSRDFVHLH LHSQYSLLDG AIQINKMMDK LKKFGSSAVA VTDHGTMYGV VDFYKKAIAN
61 NIKPIIGCEV YVAPDDRKNR NYEKGEDKNY HLILLAKNNK GLKNLQYLVS LAQLEGFYYK
121 PRIDKELLAK YSEGLIGLSA CLAGEIPRYV IRGDLKEAVK SAKEYEDILS KGNFYLELQE
181 NGIPEQRIVN RELISIGKNH DIPIVATNDC HYLEKGDHVA HQILMCIQMQ TTISNRDKLE
241 FHSDQLYVKS PEEMWEAFSE IPEACLNTLK IAEECNVTID LGKLHLPHYK VPKGYTVESY
301 FEHLARTGLH RRLARIPADE HKKYIDRLNF ELKVIIEKNY AGYYLIVWDF INYSKENGIP
361 VGPGRGSGAG SLVAYALGIT DIDPIKFNLL FERFLNPERK SMPDFDIDFC KNRRDEVIKY
421 VIDKYGNDRV AQIVTFGQLL ARGVIRDVGR VLEIPLKTVD KVAKMIPEAP GMTLEKALKD
481 DPDLEKNIKQ IEKGEELLTN ARKLEGLLRQ TGMHAAGIVI SDKPLIEYVP LCKGQNDEVL
541 TQYEKNTLEE IGLVKFDFLG LKNLTVIDDT VKLIRRRYNN NFDINSIPLN DKKTYELLSN
601 GETTGVFQLE SAGMKNLLKK LRPNKFEDII ALVALYRPGP IGSGMLDDFV KRKHGEQKVT
661 YFLPELEPIL QDTYGIIVYQ EQVMQIAQVI AGYSLGSADL LRRAMGKKKP EEMQKHKEIF
721 LYGSEELKIE GAKKRGFDLK IAEEIFNLME KFAEYGFNKS HSAAYALISY QTAYLKAHYP
781 VEYMSQLLSS ELDKGEKVVV FIEECKRMGI KVLPPTINKS SKDFIIDENS IRFGLGAIKN
841 VGFSAIESIV AAREDGEFKS IYDFCSRVDL RTVNKRVVES LIKTGVFDEF GKKRKVLLNV
901 LDAAIEEGQR KQKNREIGIT TVEELLGISD TEEYYPDLDE FQEHDILKME KELLGFYLTN
961 HPLSSYSNIL STLTIGSNEL ELMEEEKDVV VGGIIKNIKT HLARTGEKMA FVTLEDLEGS
1021 FDIVVFASLY KEYIQILEED KIIIVKGRYS SNGENRSVVA NEILEPNEAM EKMITSITIL
1081 INLTGFTEDR VLKLKNIIDN YKGESTVKFA LEQAGQFKAL LKVNSDLKVK PCLALFSQLD
1141 SLLGENRYEI DLEY
//