LOCUS ADU49267.1 1150 aa PRT BCT 08-JAN-2015
DEFINITION Intrasporangium calvum DSM 43043 DNA-directed RNA polymerase
subunit beta protein.
ACCESSION CP002343-2705
PROTEIN_ID ADU49267.1
SOURCE Intrasporangium calvum DSM 43043
ORGANISM Intrasporangium calvum DSM 43043
Bacteria; Actinobacteria; Micrococcales; Intrasporangiaceae;
Intrasporangium.
REFERENCE 1 (bases 1 to 4024382)
AUTHORS Del Rio,T.G., Chertkov,O., Yasawong,M., Lucas,S., Deshpande,S.,
Cheng,J.F., Detter,C., Tapia,R., Han,C., Goodwin,L., Pitluck,S.,
Liolios,K., Ivanova,N., Mavromatis,K., Pati,A., Chen,A.,
Palaniappan,K., Land,M., Hauser,L., Chang,Y.J., Jeffries,C.D.,
Rohde,M., Pukall,R., Sikorski,J., Goker,M., Woyke,T., Bristow,J.,
Eisen,J.A., Markowitz,V., Hugenholtz,P., Kyrpides,N.C., Klenk,H.P.
and Lapidus,A.
TITLE Complete genome sequence of Intrasporangium calvum type strain (7
KIP)
JOURNAL Stand Genomic Sci 3 (3), 294-303 (2010)
PUBMED 21304734
REMARK Publication Status: Online-Only
REFERENCE 2 (bases 1 to 4024382)
AUTHORS Lucas,S., Copeland,A., Lapidus,A., Glavina del Rio,T., Bruce,D.,
Goodwin,L., Pitluck,S., Kyrpides,N., Mavromatis,K., Ivanova,N.,
Chertkov,O., Brettin,T., Tapia,R., Detter,J.C., Han,C., Land,M.,
Hauser,L., Markowitz,V., Cheng,J.-F., Hugenholtz,P., Woyke,T.,
Wu,D., Pukall,R., Gehrich-Schroeter,G., Schneider,S., Klenk,H.-P.
and Eisen,J.A.
CONSRTM US DOE Joint Genome Institute (JGI-PGF)
TITLE The complete genome of Intrasporangium calvum DSM 43043
JOURNAL Unpublished
REFERENCE 3 (bases 1 to 4024382)
AUTHORS Lucas,S., Copeland,A., Lapidus,A., Glavina del Rio,T., Bruce,D.,
Goodwin,L., Pitluck,S., Kyrpides,N., Mavromatis,K., Ivanova,N.,
Chertkov,O., Brettin,T., Detter,J.C., Tapia,R., Han,C., Land,M.,
Hauser,L., Markowitz,V., Cheng,J.-F., Hugenholtz,P., Woyke,T.,
Wu,D., Pukall,R., Gehrich-Schroeter,G., Schneider,S., Klenk,H.-P.
and Eisen,J.A.
CONSRTM US DOE Joint Genome Institute (JGI-PGF)
TITLE Direct Submission
JOURNAL Submitted (17-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: 4083316
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 :: Intrasporangium calvum 7KIP, DSM 43043
collection_date :: 1967
lat_lon :: 55.753 37.604
depth :: Missing
alt_elev :: Missing
country :: Russia
environment :: Air
num_replicons :: Missing
ref_biomaterial :: DSM 43043, ATCC 23552, CUB 430, IFO 12989,
IMET 7816, JCM 3097, KCC A-0097, NBRC 12989,
NCIB 10167
biotic_relationship :: Free living
trophic_level :: Chemoorganotroph
rel_to_oxygen :: Aerobe
isol_growth_condt :: Missing
sequencing_meth :: WGS
assembly :: Newbler v. 2.3 (pre-release)
finishing_strategy :: Finished
GOLD Stamp ID :: Gi02320
Type Strain :: Yes
Greengenes ID :: 90541
Funding Program :: DOE-GEBA 2007
Number of Reads :: 847906 pyrosequencing, 11758818 Illumina
Gene Calling Method :: Prodigal 1.4, GenePRIMP
Isolation Site :: Air in a school dining room
Isolation Comments :: isolated by L.V. Kalakoutskii
Motility :: Nonmotile
Sporulation :: Nonsporulating
Temperature Range :: Mesophile
Temperature Optimum :: 37C
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 :: 454-FLX, 454-Titanium, Illumina GAii
##Genome-Assembly-Data-END##
FEATURES Qualifiers
source /organism="Intrasporangium calvum DSM 43043"
/mol_type="genomic DNA"
/strain="DSM 43043"
/isolation_source="air in a school dining room"
/culture_collection="DSM:43043"
/type_material="type strain of Intrasporangium calvum"
/db_xref="taxon:710696"
/country="Russia"
/lat_lon="55.753 N 37.604 E"
/collection_date="1967"
/collected_by="L.V. Kalakoutskii"
protein /locus_tag="Intca_2766"
/EC_number="2.7.7.6"
/note="COGs: COG0085 DNA-directed RNA polymerase beta
subunit/140 kD subunit; InterProIPR010243: IPR007644:
IPR007642: IPR007645: IPR 019462: IPR007120: IPR007641:
IPR007121; KEGG: kra:Krad_0680 DNA-directed RNA polymerase
subunit beta; PFAM: RNA polymerase Rpb2 domain 6; RNA
polymerase Rpb2 domain 3; RNA polymerase beta subunit; RNA
polymerase Rpb2 domain 2; DNA-directed RNA polymerase,
beta subunit, external 1 domain; RNA polymerase Rpb2
domain 7; SPTR: DNA-directed RNA polymerase subunit beta;
TIGRFAM: DNA-directed RNA polymerase, beta subunit; PFAM:
RNA polymerase Rpb2, domain 3; RNA polymerase Rpb2, domain
6; RNA polymerase beta subunit external 1 domain; RNA
polymerase Rpb2, domain 2; RNA polymerase beta subunit;
RNA polymerase Rpb2, domain 7; TIGRFAM: DNA-directed RNA
polymerase, beta subunit"
/transl_table=11
BEGIN
1 MSTAQTPSGR LSFAKIREPL EVPDLLALQT ESFDWLLGNE RWQARVAAAK AEGRTDVPDR
61 SGLEEIFEEI SPIEDFSGSM SLSFRDHRFE ETRKTIEACK ERDQTYDAPL FVTAEFMNAQ
121 TGEIKSQTVF MGDFPLMTER GTFIINGTER VVVSQLVRSP GVYFERTPDK TSDKDIYTTK
181 IIPSRGAWLE FEIDKRDMVG VRVDRKRKQS VTVLLKALGW TEAQILEEFG DFESMRLTLE
241 KDHTQGQDDA LLDIYRKLRP GEPPTKEAAQ TLLDNLYFNP KRYDLAKVGR YKINKKLGLD
301 GSINDSTLAI DDIVATIKFL VTLHDGRDSM QGVKNGEPID VRVEVDDIDH FGNRRLRSVG
361 ELIQNQVRTG LSRMERVVRE RMTTQDVEAI TPQTLINIRP VVASIKEFFG TSQLSQFMDQ
421 NNPLAGLTHK RRLSALGPGG ISRDRAQMEV RDVHHSHYGR MCPIETPEGP NIGLIGSLAS
481 YGRINAFGFI ETPYRKVNEG VVSDEVHYLS ADEEDKYVVA QANARVDEDG RFAEDRVLVR
541 RKGEVELIPG EDVDYMDVSP RQMVSAATAM IPFLEHDDAN RALMGANMQR QAVPLVKSEA
601 PLVGTGMEFR AALDSGDVVR AEKAGVVQEV SADLVTVAND DGTYQTYRIA KFARSNQGTS
661 YNQVVVVNEG DRVETGGVIA DGPATDGGEM ALGRNLLVAF MSWEGHNYED AIILSQRLVQ
721 DDVLSSIHIE EHEVDARDTK LGPEEITRDI PNVSEDVLAD LDERGIIRVG AEVRDGDLLV
781 GKVTPKGETE LTPEERLLRA IFGEKAREVR DTSLKVPHGE TGTVIGVKEF RADLGDDLPP
841 GVNQLVRVYV ANKRKITDGD KLAGRHGNKG VISKILPVED MPFLEDGTPV DVILNPHGVP
901 RRMNLGQILE LHLGWAANRG WKIEGNPEWA KQIPADAHEA PPGSRVATPV FDGASEDVVT
961 GLLDSTLKTR DGVRLIDGTG KTRLFDGRSG EPFPEPVAVG YMYILKLHHL VDDKIHARST
1021 GPYSMITQQP LGGKAQFGGQ RFGEMEVWAL EAYGAAYTLQ ELLTIKSDDV PGRVKVYEAI
1081 VKGENIPDSG IPESFKVLLK EMQSLCLNVE VLNSEGTTIE MKESDEEVFR AAEELGIDLS
1141 RREPSSVEEV
//