LOCUS ADU47098.1 930 aa PRT BCT 08-JAN-2015
DEFINITION Intrasporangium calvum DSM 43043 DNA topoisomerase I protein.
ACCESSION CP002343-536
PROTEIN_ID ADU47098.1
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JOURNAL Unpublished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_0553"
/EC_number="5.99.1.2"
/note="COGs: COG0550 Topoisomerase IA; InterProIPR006171:
IPR013497: IPR006154: IPR003601: IPR 003602: IPR000380:
IPR005733; KEGG: kse:Ksed_25040 DNA topoisomerase I; PFAM:
DNA topoisomerase type IA central domain protein; TOPRIM
domain-containing protein; PRIAM: DNA topoisomerase;
SMART: DNA topoisomerase I DNA-binding; DNA topoisomerase
I ATP-binding; Toprim sub domain-containing protein; SPTR:
DNA topoisomerase; TIGRFAM: DNA topoisomerase I; PFAM:
Toprim domain; DNA topoisomerase; TIGRFAM: DNA
topoisomerase I, bacterial"
/transl_table=11
BEGIN
1 MAAGKGRKLV IVESPGKVKS IASYLGGDYE VEASIGHIRD LPNPSELPAE MKKGPFGKFA
61 VDVDHGFEPY YVVDADKRKK VAELKRKLKD ASELYLATDE DREGEAIAWH LLEALKPRVP
121 VKRMVFHEIT REAIQRAVND TREIDQDLVD AQETRRILDR LYGYEVSPVL WRKVRQGLSA
181 GRVQSVATRM VVERERERMA FVRASYWDVE GDFTPDGATQ QFTARLSGVD GARVATGRDF
241 ADDGRLTGRN VVHVDEALAR RIAEACLSVG QGATRVTDVQ EKPYTRRPSA PFTTSTLQQE
301 ASRKLRMSSK NSMRVAQRLY EGGFITYMRT DSTTLSDAAL TAARSQARDL YGAEYVPDAP
361 RRYEKKVKNA QEAHEAIRPA GDRFRTPAMV AGQLRGEDYA LYELIWKRTV ASQMADARGS
421 TATVKLSVDT AVESARQVEF SASGTVITFK GFLAAYEEGR DDEALARADA AAEERRLPRL
481 SSGVALQVVR AEADGHETAP PARYTEATLV KAMEEKGIGR PSTYASTIGT IQDRGYVYSK
541 GQALVPTWLA FAVTRLLEEH FSELVDYEFT ASMEEDLDRI AGGELARVDW LKRFYFGDEA
601 STAEGLKELV DDLGEIDARE ISTIPLGDGM VVRVGRYGPY VEETAPHGVD LETGELAAGT
661 DAAEVPTTPR RATINDDIPP DEMTPARARE LLEAAADDGK VLGRDPETGR EIIARAGRYG
721 PYVTEVLPEP EPELTASGKP KKVAKAKPRT ASLFKDMDLG TIDLETALQL LSLPRVVGTD
781 ADGVEITAQN GRYGPYLKKG TDSRSLQSEQ QLFDITLDQA LAIYAQPKQR GRGAATAPLK
841 ELGEDPVSGK PVVVKDGRFG AYVTDGETNA TLRKDDDPAT ITPERGFELL AEKRAKGPTT
901 RKRATKKTAK RATKKAPAKR ATKKATTKKA
//