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微生物 : Sphingobium sp.

微生物株情報

NBRC番号 103272
学名 Sphingobium sp.
別名(シノニム) 該当データなし
由来 Nagaoka Univ. Technol. (E. Masai, SYK-6) <- Tokyo Univ. Agriculture Technol. (Y. Katayama) <- Univ. Tokyo (M. Yamasaki)
他保存機関番号
他株番号 SYK-6
参考文献
2185230
Molecular cloning of the protocatechuate 4,5-dioxygenase genes of Pseudomonas paucimobilis. (J Bacteriol. 1990)
2737293
Detection and localization of a new enzyme catalyzing the beta-aryl ether cleavage in the soil bacterium (Pseudomonas paucimobilis SYK-6). (FEBS Lett. 1989)
8495726
A bacterial enzyme degrading the model lignin compound beta-etherase is a member of the glutathione-S-transferase superfamily. (FEBS Lett. 1993)
9647824
Cloning of a Sphingomonas paucimobilis SYK-6 gene encoding a novel oxygenase that cleaves lignin-related biphenyl and characterization of the enzyme. (Appl Environ Microbiol. 1998)
12200295
Cloning and characterization of the ferulic acid catabolic genes of Sphingomonas paucimobilis SYK-6. (Appl Environ Microbiol. 2002)
12486039
Characterization of the 4-carboxy-4-hydroxy-2-oxoadipate aldolase gene and operon structure of the protocatechuate 4,5-cleavage pathway genes in Sphingomonas paucimobilis SYK-6. (J Bacteriol. 2003)
12618439
Roles of the enantioselective glutathione S-transferases in cleavage of beta-aryl ether. (J Bacteriol. 2003)
15090517
A novel tetrahydrofolate-dependent O-demethylase gene is essential for growth of Sphingomonas paucimobilis SYK-6 with syringate. (J Bacteriol. 2004)
15262932
Characterization of the 3-O-methylgallate dioxygenase gene and evidence of multiple 3-O-methylgallate catabolic pathways in Sphingomonas paucimobilis SYK-6. (J Bacteriol. 2004)
15743951
A tetrahydrofolate-dependent O-demethylase, LigM, is crucial for catabolism of vanillate and syringate in Sphingomonas paucimobilis SYK-6. (J Bacteriol. 2005)
16030198
Characterization of the gallate dioxygenase gene: three distinct ring cleavage dioxygenases are involved in syringate degradation by Sphingomonas paucimobilis SYK-6. (J Bacteriol. 2005)
16151081
A second 5-carboxyvanillate decarboxylase gene, ligW2, is important for lignin-related biphenyl catabolism in Sphingomonas paucimobilis SYK-6. (Appl Environ Microbiol. 2005)
17213657
Genetic and biochemical investigations on bacterial catabolic pathways for lignin-derived aromatic compounds. (Biosci Biotechnol Biochem. 2007)
17645527
Degradation of 3-O-methylgallate in Sphingomonas paucimobilis SYK-6 by pathways involving protocatechuate 4,5-dioxygenase. (FEMS Microbiol Lett. 2007)

推定保有機能 >>詳細

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タイプパターン 構成遺伝子 該当CDS
Alanine racemization(NFUNC_0063)
必須A
ALR
(NRULE_0228)
Alanine racemaseSLG_24650
Ampicillin resistance(NFUNC_0046)
必須A
BLAA
(NRULE_0122)
Beta-lactamase class ASLG_01940
Anthranilate biosynthesis(NFUNC_0038)
必須A
GLAT
(NRULE_0142)
Glutamine amidotransferaseSLG_25880
TRPE
(NRULE_0143)
Anthranilate synthase component ISLG_25840
Aromatic azo compounds degradation(NFUNC_0073)
必須A
AZOR
(NRULE_0236)
FMN-dependent NADH-azoreductaseSLG_06410
Arsenical resistance(NFUNC_0004)
必須D
ARSB2
(NRULE_0016)
Arsenite resistance protein ArsBSLG_06260 SLG_p_01420
ARSC1
(NRULE_0017)
Arsenate reductaseSLG_p_01430 SLG_16250 SLG_06250
E
ARSB2
(NRULE_0016)
Arsenite resistance protein ArsBSLG_06260 SLG_p_01420
ARSC2
(NRULE_0018)
Arsenate reductaseSLG_p_01440
任意 
ARSH
(NRULE_0021)
ArsH proteinSLG_p_01400
Bacitracin resistance(NFUNC_0022)
必須A
UPPP
(NRULE_0097)
Undecaprenyl-diphosphataseSLG_29270
Beta-lactam antibiotic resistance(NFUNC_0033)
必須A
BLAA
(NRULE_0122)
Beta-lactamase class ASLG_01940
Bioplastic degradation(NFUNC_0015)
必須A
PHAZ1
(NRULE_0023)
Intracellular poly(3-hydroxyalkanoate) depolymeraseSLG_14530
Bioplastic synthesis(NFUNC_0001)
必須A
PHAC1
(NRULE_0010)
Poly(3-hydroxyalkanoate) polymeraseSLG_06210
任意 
PHAB
(NRULE_0011)
Acetoacetyl-CoA reductaseSLG_38730
 
PHAP1
(NRULE_0374)
PhasinSLG_06220
Ectoine biosynthesis(NFUNC_0056)
必須A
ECTB
(NRULE_0186)
Diaminobutyrate--2-oxoglutarate transaminaseSLG_08050
ECTA
(NRULE_0187)
L-2,4-diaminobutyric acid acetyltransferaseSLG_08040
ECTC
(NRULE_0188)
L-ectoine synthaseSLG_08060
Hydroxyectoine biosynthesis(NFUNC_0057)
必須A
ECTD
(NRULE_0189)
Ectoine hydroxylaseSLG_08070
任意 
ECTB
(NRULE_0186)
Diaminobutyrate--2-oxoglutarate transaminaseSLG_08050
 
ECTA
(NRULE_0187)
L-2,4-diaminobutyric acid acetyltransferaseSLG_08040
 
ECTC
(NRULE_0188)
L-ectoine synthaseSLG_08060
Mercury resistance(NFUNC_0005)
必須A
MERA
(NRULE_0008)
Mercuric reductaseSLG_p_00120
Metal-binding protein(NFUNC_0105)
必須C
MODA
(NRULE_0324)
Molybdate ABC transporter substrate-binding proteinSLG_32540 SLG_35210
E
CUER
(NRULE_0328)
Copper-responsive transcriptional regulator CueRSLG_p_00890
F
SOXR
(NRULE_0329)
Redox-sensitive transcriptional activator SoxRSLG_23740
Molybdate transport (ABC transporter)(NFUNC_0097)
必須A
MODA
(NRULE_0324)
Molybdate ABC transporter substrate-binding proteinSLG_32540 SLG_35210
任意 
MODB
(NRULE_0325)
Molybdate ABC transporter permease proteinSLG_32530
 
MODC
(NRULE_0326)
Molybdate ABC transporter ATP-binding proteinSLG_32520
Penicillin resistance(NFUNC_0047)
必須A
BLAA
(NRULE_0122)
Beta-lactamase class ASLG_01940
Phenol degradation(NFUNC_0028)
必須B
PHEA1
(NRULE_0083)
Aromatic ring hydroxylaseSLG_11330
任意 
FDR1
(NRULE_0032)
Oxygenase electron transfer componentSLG_p_00600
 
FDX1
(NRULE_0034)
Putative Rieske-type ferredoxinSLG_16640 SLG_34970 SLG_34870 SLG_34280 SLG_32620 SLG_27710 SLG_19120 SLG_18880 SLG_18730 SLG_18530 SLG_18370 SLG_07770 SLG_07580 SLG_05220
 
FADR1
(NRULE_0101)
NADH-dependent flavin reductaseSLG_19070 SLG_34820 SLG_03810 SLG_11320
Phytic acid hydrolysis(NFUNC_0085)
必須A
PHYT
(NRULE_0258)
3-phytaseSLG_11510
Trehalose biosynthesis (from maltooligosaccharide)(NFUNC_0037)
必須A
TREY
(NRULE_0140)
Maltooligosyl trehalose synthaseSLG_10390
TREZ
(NRULE_0141)
Malto-oligosyltrehalose trehalohydrolaseSLG_10400
任意 
GLGX
(NRULE_0139)
Glycogen debranching enzymeSLG_08630 SLG_10410

ゲノム配列情報

BioProject IDPRJNA67115
ローカスタグSLG
INSDC entriesAP012222
ステータスComplete
解析状況
コンティグ数2
サイズ(bp) 4,348,133
遺伝子数 4,063
フィニッシングゴール
アセンブル方法phred/phrap v. 0.020425.c
冗長度8.0x
シーケンス方法
  • Sanger ABI3730
参考文献
  • Complete genome sequence of Sphingobium sp. strain SYK-6, a degrader of lignin-derived biaryls and monoaryls. (J Bacteriol. 2012) PMID: 22207743

データダウンロード

ゲノム塩基配列 CDS塩基配列 CDSアミノ酸変換配列 遺伝子/ORF リスト
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