LOCUS ADU48904.1 749 aa PRT BCT 08-JAN-2015
DEFINITION Intrasporangium calvum DSM 43043 glycogen debranching
enzyme GlgX protein.
ACCESSION CP002343-2342
PROTEIN_ID ADU48904.1
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JOURNAL Unpublished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_2397"
/note="COGs: COG1523 Type II secretory pathway pullulanase
PulA and related glycosidase; InterProIPR011837:
IPR006589: IPR001412: IPR004193: IPR 006047; KEGG:
cfl:Cfla_1101 glycogen debranching enzyme GlgX; PFAM:
glycoside hydrolase family 13 domain protein; alpha
amylase catalytic region; SMART: alpha amylase catalytic
sub domain; SPTR: Putative glycosyl hydrolase (Putative
secreted protein); TIGRFAM: glycogen debranching enzyme
GlgX; PFAM: Carbohydrate-binding module 48 (Isoamylase
N-terminal domain); Alpha amylase, catalytic domain;
TIGRFAM: glycogen debranching enzyme GlgX"
/transl_table=11
BEGIN
1 MRYAAGLASP PAHRGCPPAL EGWRAKAPGR SRLCPVPPPP PGMPDVPPLP GARPTAGGVE
61 FCVYAGHATG VEVCLFDRDA AGQETERRIP LRHRAHGTWF DTVPGVRAGQ RYAFRADGPW
121 EPARAQRYNP AKLLLDPYAR ALDGDVTLDP AVFAHQVGPD LTGDLTVPDG RNSAAYVPRC
181 VVVDDTFDWG SDHPPRRSLT ESVIYEVHVK NATALHPGVP ATLRGTYAGL AHPAFIAHLT
241 SLGVTAVELL PVHAFTHEPE LVARGLTNHW GYNTLGFFAP HAGYAAADDP QGVLDEFKGM
301 VKLLHAAGIE VILDVVYNHT AEQAQDRMSL SWRGLDPRAY YRLDARGQDI DVTGCGNTVD
361 LTHPVVVAMV LDSLRYWVEE CHVDGFRFDL AVALARGRDD AYDPTHPFLV ALRADPVLSR
421 VKLIAEPWDV GLHGWRTGQF PPPFSEWNDR FRDSLRTFWL RDLAASTVGE TGHGVRDVAT
481 RLAGSQDLFG ARDRGTIASV NFVTAHDGFT LADLTAYDVK HNDANGQGGR DGSDDNRSWN
541 HGVEGPTDDE TVNARRRRSM RNLMGTLLLS SGVPMINAGD EFGRTQRGNN NPYCQDNEIS
601 WYSWDLEPWQ EDLLATVRHL VALRREHPVL RQRQFFSGRQ VHPDGSTDLA WYGGDGHEMG
661 RRWDGPAVDA LQVLFNGAVV GHRSVLLSLN GSAWAAELTL PAAPGSAAYE LLWDSADERP
721 GTRGPRVAAG SEFTMSASSL RVWTAFDPT
//