LOCUS ACU05037.1 1077 aa PRT BCT 28-JAN-2014
DEFINITION Pedobacter heparinus DSM 2366 Lyase catalytic protein.
ACCESSION CP001681-2811
PROTEIN_ID ACU05037.1
SOURCE Pedobacter heparinus DSM 2366
ORGANISM Pedobacter heparinus DSM 2366
Bacteria; Bacteroidota; Sphingobacteriia; Sphingobacteriales;
Sphingobacteriaceae; Pedobacter.
REFERENCE 1 (bases 1 to 5167383)
AUTHORS Han,C., Spring,S., Lapidus,A., Del Rio,T.G., Tice,H., Copeland,A.,
Cheng,J.F., Lucas,S., Chen,F., Nolan,M., Bruce,D., Goodwin,L.,
Pitluck,S., Ivanova,N., Mavromatis,K., Mikhailova,N., Pati,A.,
Chen,A., Palaniappan,K., Land,M., Hauser,L., Chang,Y.J.,
Jeffries,C.C., Saunders,E., Chertkov,O., Brettin,T., Goker,M.,
Rohde,M., Bristow,J., Eisen,J.A., Markowitz,V., Hugenholtz,P.,
Kyrpides,N.C., Klenk,H.P. and Detter,J.C.
TITLE Complete genome sequence of Pedobacter heparinus type strain (HIM
762-3)
JOURNAL Stand Genomic Sci 1 (1), 54-62 (2009)
PUBMED 21304637
REMARK Publication Status: Online-Only
REFERENCE 2 (bases 1 to 5167383)
AUTHORS Lucas,S., Copeland,A., Lapidus,A., Glavina del Rio,T., Dalin,E.,
Tice,H., Bruce,D., Goodwin,L., Pitluck,S., Kyrpides,N.,
Mavromatis,K., Mikhailova,N., Markowitz,V., Cheng,J.-F.,
Hugenholtz,P., Woyke,T., Wu,D., Spring,S., Klenk,H.-P. and
Eisen,J.A.
CONSRTM US DOE Joint Genome Institute (JGI-PGF)
TITLE The draft genome of Pedobacter heparinus DSM 2366
JOURNAL Unpublished
REFERENCE 3 (bases 1 to 5167383)
AUTHORS Lucas,S., Copeland,A., Lapidus,A., Glavina del Rio,T., Dalin,E.,
Tice,H., Bruce,D., Goodwin,L., Pitluck,S., Kyrpides,N.,
Mavromatis,K., Mikhailova,N., Markowitz,V., Cheng,J.-F.,
Hugenholtz,P., Woyke,T., Wu,D., Spring,S., Klenk,H.-P. and
Eisen,J.A.
CONSRTM US DOE Joint Genome Institute (JGI-PGF)
TITLE Direct Submission
JOURNAL Submitted (31-JUL-2009) US DOE Joint Genome Institute, 2800
Mitchell Drive, Walnut Creek, CA 94598-1698, USA
COMMENT URL -- http://www.jgi.doe.gov
JGI Project ID: 4083041
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).
##Metadata-START##
Organism Display Name :: Pedobacter heparinus HIM 762-3, DSM 2366
Culture Collection ID :: DSM 2366, ATCC 13125, IFO 12017, NBRC
12017, NCIB 9290
GOLD Stamp ID :: Gc01041
Funding Program :: DOE-GEBA 2007
Assembly Method :: Phrap
Sequencing Depth :: 7.5x
Gene Calling Method :: Prodigal
Isolation Site :: Soil
Oxygen Requirement :: Aerobe
Cell Shape :: Rod-shaped
Motility :: Motile
Sporulation :: Nonsporulating
Temperature Range :: Mesophile
Temperature Optimum :: 25 - 30C
pH :: 7
Gram Staining :: gram-
Biotic Relationship :: Free living
Diseases :: None
Habitat :: Soil
Phenotypes :: Chondroitinases producer, Heparinases
producer
Energy Source :: Chemoorganotroph
##Metadata-END##
FEATURES Qualifiers
source /organism="Pedobacter heparinus DSM 2366"
/mol_type="genomic DNA"
/strain="DSM 2366"
/type_material="type strain of Pedobacter heparinus"
/db_xref="taxon:485917"
protein /locus_tag="Phep_2838"
/note="PFAM: Polysaccharide lyase family 8, super-sandwich
domain; Lyase, N terminal; Lyase, catalytic"
/transl_table=11
BEGIN
1 MNYRIATLAL TLGLSTIAPG LKAQKESVPT FVKDIVTNYL TFEEAQDIAN WKSEKGNLSF
61 SSAHFKDGTQ SLLWTYQNGA TIEIANLKGL KEAGDFYPGG QPEVYEPSFY KKSHYGGVKM
121 WLYQEKPSIG KITFQVGSNL QMANTAPKYR FSVNLNFTGW RAVWVNFNED ALVKNYKGSD
181 EMTSLVALTP SGQSGKIFID HFMLLSFVSN KRHSDLQFEN HKLNLRSGDG YEILAPYQIF
241 LAKQFNQQVD VKKLTEESKT IADRLEFLIL GDKTNDWKKR NTGIEKTIDG KIKGASAIFD
301 KLGIHKANDF VNGRPLFGIR DEHIPKEGLN YDEAILPTAF PLAMDYRLNG NKTAREKLML
361 TFDYLQDQGW AAGSAFGTVD HVIKLNPIAT AIFLVRDDLK AQNKLKAETD MLIWHTRLGS
421 MLTIDYTRGE NSDKIRGGAL AKLITILLME NDSRKQELLQ DFKSYMDYVA SISPGYSDTF
481 KPDFSIYHHR GTYLNTYGTN ALNTMALIHW LLSGTPYQLS PQTTGNLKQA LKRQAEIAYG
541 VDIHYGAGGR FPLGNSSLDG FTFPALAYMS MNGNTIADKE MAELFNYIYD IAEPDVVARM
601 LSPVLTYSGT FGTLNLIERL HKMVGAQKHR PADGAVSMPY SGLMAYRQGN AFATVKGYNK
661 YVWDFESGRG ENNLGRYLSH GMLVTAQGDE KMGFKSLGLG LNEGFDWSML PGATTKMLPA
721 DKVLYYTKGD QKYIEGKHRN FSESVVASGL QQGTNGLFAL DLRDDVFPDE DKSLFDNSFR
781 ARKTYFFIGN EIICLGSSIQ NNDTRYPTVT TLFQYRTDEK RKNSFNGKEI SASSSLNQKA
841 DGGYFTDQNG LHYIIPKGQP IVLGQDKQIS YRGANVGDQK SIVLNTSGAY EKTQEVYTKA
901 WFDHGTNPKD KGYEYEIVLN TPTADLKPYL QNKTYEVMQK NASAHIIRHP LSGITAYAVY
961 SAAQPLKGTL IHVDRPMLAM VKEQAGHLWL SLADPDIRQP KWNHNMSHMP DSITNGWGTG
1021 SIATLTLKGA WYIAKQLQEV ETVSYMNGNT ILKVFCKEGK SIDIPLQHRT MDNVDTE
//