LOCUS ADR19435.1 1350 aa PRT BCT 08-JUN-2015
DEFINITION Calditerrivibrio nitroreducens DSM 19672 DNA-directed
RNA polymerase subunit beta' protein.
ACCESSION CP002347-1518
PROTEIN_ID ADR19435.1
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JOURNAL Unpublished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_1527"
/EC_number="2.7.7.6"
/note="COGs: COG0086 DNA-directed RNA polymerase beta'
subunit/160 kD subunit; InterPro IPR007080: IPR000722:
IPR007066: IPR007083: IPR 007081: IPR012754: IPR006592;
KEGG: ddf:DEFDS_1778 DNA-directed RNA polymerase subunit
beta'; PFAM: RNA polymerase Rpb1 domain 1; RNA polymerase
alpha subunit; RNA polymerase Rpb1 domain 3; RNA
polymerase Rpb1 domain 4; RNA polymerase Rpb1 domain 5;
SMART: RNA polymerase I subunit A domain protein; SPTR:
DNA-directed RNA polymerase subunit beta'; TIGRFAM:
DNA-directed RNA polymerase, beta' subunit; PFAM: RNA
polymerase Rpb1, domain 2; RNA polymerase Rpb1, domain 4;
RNA polymerase Rpb1, domain 1; RNA polymerase Rpb1, domain
3; RNA polymerase Rpb1, domain 5; TIGRFAM: DNA-directed
RNA polymerase, beta' subunit, predominant form"
/transl_table=11
BEGIN
1 MAKDTYNEEK SPTFFDAIKI RIASPEKIRS WSHGEVTKPE TINYRTFKPE RDGLFCAKIF
61 GPVKDWECLC GKYKRMKHRG IVCEKCGVEV IQSKVRRERM GHIELATPVV HIWFFKSSPS
121 RIGTILDMSV KDIERIVYFE SYVVIDPKNV KEVNENEIIS EDRYRQIIDK YGPNSIVAKM
181 GAEAIKDLLK KIDLDIAIPE LKTELKETSS EQKRLKIAKR LKVMEAFRKS GNKPEWMVLD
241 VIPVIPPELR PLVPLDGGRF ATSDLNDLYR RVINRNNRLK RLIELNAPEI IIRNEKRMLQ
301 EAVDALLDNG RRGRIIRGSN KRPLKSLSDM IKGKQGRFRQ NLLGKRVDYS GRSVIVAGPH
361 LKMHQCGIPK LMALELFKPF IYYKLEKEKG IALTIKQAKR MVEEQREEVW DVLEEVIKEH
421 PVLLNRAPTL HRLGIQAFEP VLVEGKAIQL HPLVCPAFNA DFDGDQMAVH VPLSIDAQLE
481 AKVLMLAPYN ILSPASGKPL AVPTQDMVLG IYYLSRGVKN AKGQGMIFSS QEEVIIAYDQ
541 GVVDINAFIK VRTNGKLYDT TTGRVILYQI VPEGIPFDVI NDVLEKKKIT KMVEEIYNKL
601 GNYETAKFLD NLKDLGFKYS TMAGFSICID DLIIPKEKQE LIDAAMEQVL KIEESYKDGA
661 LTPGERYNQI IEIWSATNDK IASYLMKTIE EQGGDKSQTE KRKRFYNPIY VMAHSGARGS
721 KNQISQLAGM RGLMAKPSGE IIETPIISNF REGLTVSEYF NSTHGARKGL ADTALKTANA
781 GYLTRRLVDV SQDVIILEED CGTIKGIEMT ALMEGSEIIE PLGERVYGRY TLEDVYDPVT
841 DDVIIPANTL IDDKIVKIIE ESGIDRIKIR SVLTCELEHG VCKYCYGMDL ATKREVEIGE
901 AVGIIAAQSI GEPGTQLTMR TFHIGGAAST TTEASNIHSK FGGTVQLVDV KVIKNRFGQN
961 VVMNRNGVLQ IVDKTGRVLE KFVVTYGTRL NVSEGEEIKQ GTMLAEWDPY VSVILTEFEG
1021 RVAFGDIIEG ETLKEEVDPV TGVAQKIIIS NTREKRQPRI SIKDANNKTI HRYILPVGAI
1081 INCEEGSVVL PGDVIAKIPK ETMKTKDITV GLPRVSELFE ARKPKESAII AEIDGIVKIE
1141 GISKGTRKVI IENPETGDKK TYNISVQKFI NVRNGDRIKA GEQIVDGLVN PHDILAILGE
1201 DELQKYLVNE IQTVYRKQGV TINDKHIEVI VRQMLKKVVI EDPGDSDYMP NEEVYKHEFL
1261 KTQQELISQG LVPPKGRVIL QGITKAALNT ESFISAASFQ ETTRVLTDAA CLGKIDFLRG
1321 LKENVIMGRL IPAGTGSGYL QTEKYKFTKG
//