LOCUS ACU03178.1 1154 aa PRT BCT 28-JAN-2014
DEFINITION Pedobacter heparinus DSM 2366 TonB-dependent receptor plug protein.
ACCESSION CP001681-952
PROTEIN_ID ACU03178.1
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JOURNAL Unpublished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_0956"
/note="PFAM: TonB dependent receptor; TonB-dependent
Receptor Plug Domain"
/transl_table=11
BEGIN
1 MYKKYFAYKR GMPYGNLPKF FLAMKLLSVL IFLGAFQLNA AVHAQYINID VKNTSLKEVF
61 SMLTRQSNYE FMYDSQTLQN ARPVTLKVVN ATLKEVLNKC FANQAITYQI KENTIIVAKA
121 DDQPQVWMQV NGIVLSGEDG LPLPGVIVRV KGTNKSIVTN NSGQFTINAE IGDVLVLSFI
181 GYKTQEIVIK DDVALKVRLI SSPTDLDNVI VTGYGTTQKS DVISSLGVIK GEDLQKAPVK
241 SFEEALAGRV SGVQVTSSEG GPGATTNIVI RGNNSLSQDN SPLWVIDGFP IENPNNNTIN
301 PADVETITVL KDAASTAIYG SRGANGVILV TTKTGKSGNP VVSFDGSYGF QRSLKLMELL
361 KPYEYVQLVI ERNGVVAKER YTPGDPELDG RPAYVPGGRT IDYYKTQPYT NWQDKLFQTA
421 PFQNYSLSLS GGTDKSKYLI SGSTTDQDGT ILQTNFKRYQ GRFVFSQEVN KKTDFNLNVN
481 YARTRTTGTS PSNIPTNGSA SLSLLYGIWG YRPAVSPSSS VEDQLNLPID PDGQNAYSFN
541 PIVQNNNTTI NAHLNNLVAN AGIDYKILPE LTFRVTGGIN YTQRLSNAFY SALTYQGGPG
601 SVLGPNGFID NYALTNLVNE NTLNYKKVFN TEHTLNLLGG FSIQGTKLTT SRALASKVPN
661 DVLGVSGLDE GTPYAISSGS TQNFLSSYFS RINYNYKSKY YFSGVIRADG SSKFAPGNQW
721 GYFPSAAVSW NIGREDFMKN ISSVSALKFR ASYGTSGNNR IADYAYLSPI NQSDISSTYT
781 FGNTYIKGSY QSGLANEALK WETTAITDLG LDFGFLKNRI ELTVDYYRKI TSDLLLQATI
841 PGHIGYTSAI QNIGSVRNSG WEFSLNTVNS DKALKWSSNF NISFNRNEVL ALSSGQRGLI
901 SQVSYNINPA FPYVAIVGGP ISQIIGFKWL GNYQYEDFDL LPNGAYVLKG NLPANGSART
961 AMQPGDIKYE DINQDGTITD ADKVVIGNPN PLFTGGFSNN FNFKNFDLSI LLTFSYGNDI
1021 LNANRLIFEG MPDSYTNQFA SYANRWTPEN QTNLYPRAGG ATTIPAVSSR VIEDGSFLRL
1081 QTVSLGYNLP QKISESLKVK NARIYASAQN LAVWSKYQGS DPEVSTRPGA LTQGFDYAAY
1141 PRSFTMTFGL NFSF
//