LOCUS ADU48984.1 1295 aa PRT BCT 08-JAN-2015
DEFINITION Intrasporangium calvum DSM 43043 2-oxoglutarate dehydrogenase
E1 component protein.
ACCESSION CP002343-2422
PROTEIN_ID ADU48984.1
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JOURNAL Unpublished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_2477"
/EC_number="1.2.4.2"
/note="COGs: COG0567 2-oxoglutarate dehydrogenase complex
dehydrogenase (E1); InterProIPR011603: IPR001078:
IPR001017: IPR005475: IPR 000897; KEGG: kra:Krad_1228
alpha-ketoglutarate decarboxylase; PFAM: Transketolase
central region; dehydrogenase E1 component; catalytic
domain-containing protein of components of various
dehydrogenase complexes; SPTR: Alpha-ketoglutarate
decarboxylase; TIGRFAM: 2-oxoglutarate dehydrogenase, E1
subunit; PFAM: 2-oxoacid dehydrogenases acyltransferase
(catalytic domain); Dehydrogenase E1 component;
Transketolase, pyrimidine binding domain; TIGRFAM:
2-oxoglutarate dehydrogenase, E1 component"
/transl_table=11
BEGIN
1 MSDQSTSGDP MASFGPNEWL VDELYQQYLT DKNSVDRAWW EFFEGYTPHD ADTRRELAGG
61 NGAPAGPAVK APPPSTATAP SAPATAAAKT RPAPAATAGV PAKVAAPATA AAPQPETPAA
121 ATRAPAATPD APTAAADGAA PKPRDIPAVK GTGPVNEDVL VPLRGAPARV VTNMESSLEV
181 PTATSVRAVP AKLLIDNRVV INNHLARSRG GKVSFTHIIG YAMVKALGVM PEMNYGYAET
241 NGKPAVLQPA HVNFGLAIDL QKPDGSRTLV VPSIKSAEEM DFVHFWTAYE DMVKKARNNK
301 LTVEDFQGTT ISLTNPGGIG TVHSVPRLMK GQGTIIGVGA LDYPAEWQGA STETLNRNAV
361 SKILTLTSTY DHRIIQGAVS GDFLRVIHEL LLGGNRFYDE IFESLRIPYE PVRWIQDIDS
421 SHDDDINKVA RVQELIHAYR VRGHLMADTD PLEYKQRRHH DLDVTTHGLT LWDLDRTFAT
481 GGFGGAPFLK LRKILGILRD SYCRTVGIEY MHIQDPDQRK WIQDKMEVPY KKISREEQLR
541 IMRRLNAAEA FETFLQTKFV GQKRFSLEGG ESVIALLDRI LWRAAGDDLD EVCIGMPHRG
601 RLNVLANIAG KSYGQIFREF EGKQDPQSVQ GSGDVKYHLG TEGEFHAEDG KSTKVYLAAN
661 PSHLEAVNPV LEGIVRAKQD RLNLAGESFT VLPVLLHGDA AFAGQGVVAE TLNLSQLRGY
721 RTGGTIHVVI NNQVGFTTSP SSSRSSVYST DVARMIQAPI FHVNGDDPEA CVRVAELAYE
781 FRQEFNKDVV VDMVCYRRRG HNEGDDPSMT QPLMYNLIEA KRSVRKLYTE SLIGRGDISV
841 EDAEAALRDY QQQLERVFIE TREAAKELAS HASRQADPDT EVPDNAGLEK PTAQVLDDRA
901 PHRSSSKTGV PAETIVQIGE AFGRPPAGFT VHPKLKQLMD RRVQMVHEGG VDWPMAELLA
961 FGTLLKEGTP IRLAGQDSRR GTFVQRHAVL IDKTTAEEWT PLLYLGEGQA RFWVYDSLLS
1021 EYAAMGFEYG YSVERPDALV LWEAQFGDFA NGAQTIVDEF ISSSEQKWGQ RSSVVLLLPH
1081 GYEGQGPDHS SARIERYLQL CAENNMTVAY PSTAASYFHL LRRQAYARPR TPLVVFTPKS
1141 MLRSKAAASD VEAFTQGGFQ PVLADHDGVA ENVDRVLFAS GKVVHELDAE RAKREDTATA
1201 IIRVEQLYPI PVEEIREVAA RYPGAELMWV QDEPRNQGAW PLMAQWLHED LARVGETRPW
1261 RVVARKASAS PATGSTKKHA AEQAELMDQA FIRSR
//