LOCUS ADU48889.1 715 aa PRT BCT 08-JAN-2015
DEFINITION Intrasporangium calvum DSM 43043 DNA ligase, NAD-dependent protein.
ACCESSION CP002343-2327
PROTEIN_ID ADU48889.1
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JOURNAL Unpublished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_2382"
/EC_number="6.5.1.2"
/note="COGs: COG0272 NAD-dependent DNA ligase (contains
BRCT domain type II); InterProIPR001679: IPR013840:
IPR001357: IPR018239: IPR 013839: IPR004150: IPR004149:
IPR000445; KEGG: kse:Ksed_09780 DNA ligase, NAD-dependent;
PFAM: NAD-dependent DNA ligase adenylation; NAD-dependent
DNA ligase OB-fold; helix-hairpin-helix motif; BRCT domain
protein; SMART: NAD-dependent DNA ligase; BRCT domain
protein; SPTR: DNA ligase; TIGRFAM: DNA ligase,
NAD-dependent; PFAM: NAD-dependent DNA ligase OB-fold
domain; NAD-dependent DNA ligase adenylation domain; BRCA1
C Terminus (BRCT) domain; NAD-dependent DNA ligase C4 zinc
finger domain; TIGRFAM: DNA ligase, NAD-dependent"
/transl_table=11
BEGIN
1 MSDSTGSQAI EDAIPDEVHH EWADLAERAS AAQFAYHVKD APTISDAEYD GLIRRLNALE
61 AQWPSLRTPD SPTQKVGASA FATGFETVDH LERMLSLDNA FSFEELRAWA ERVEREVGAG
121 AHFLTELKID GLAVNLLYEQ GRLVRALTRG DGRTGEDVTN NVRTIEGVPE RLSGDDVPEL
181 VEIRGEVFFP TAGFADLNAA LVAAGKAPFA NPRNAAAGSL RQKDPKVTAG RPLRLLVHGI
241 GARRGFDIAR QSEGYAALRS WGLPTSDQVK VLDDIADVEE FVTFHGEHRH DGLHEIDGIV
301 VKVDEVTLQR QLGATSRAPR WAIAFKYPPE EVNTRLLDIR VNVGRTGRVT PYGVMQPVVV
361 AGSTVEQATL HNQHEVERKG VLIGDTVVLR KAGDVIPEIV GPVVDLRDGS ERPFVMPTQC
421 PSCGTQLAPE KEGDKDIRCP NSRSCPSQLR ERVFALASRS ALDIEALGWE GSIALLESGI
481 LTDEGDLFAP PEDSPEAGAY GVTRERLAAV GLYTRAAKRT DDPAHVVDGR VLSANGEKLL
541 AELEKAKTQP LWRVLVALSI RHVGPTAARA LATTFGSMDA IRRASIEELA EAEGVGQIIA
601 ESVTAWFAVD WHAEIVRKWA AARVRMEDEV DASVARTLEG RTVVVTGSLE GFSRDETKEA
661 ILSRGGKAAG SVSRKTDWVV VGANAGSKAA KAEELGLRVL DEAQFVRLLE TGSPD
//