KEGG   PATHWAY: scb00860Help
Entry
scb00860                    Pathway                                

Name
Porphyrin and chlorophyll metabolism - Streptomyces scabiei
Class
Metabolism; Metabolism of cofactors and vitamins
BRITE hierarchy
Pathway map
scb00860  Porphyrin and chlorophyll metabolism
scb00860

Ortholog table
Module
scb_M00122  Cobalamin biosynthesis, cobinamide => cobalamin [PATH:scb00860]
scb_M00846  Siroheme biosynthesis, glutamate => siroheme [PATH:scb00860]
Other DBs
BSID: 144848
GO: 0006778
Organism
Streptomyces scabiei [GN:scb]
Gene
SCAB_26661  gltX; glutamyl-tRNA synthetase [KO:K01885] [EC:6.1.1.17]
SCAB_21321  putative glutamyl-tRNA synthetase [KO:K01885] [EC:6.1.1.17]
SCAB_39081  hemA; putative glutamyl-tRNA reductase [KO:K02492] [EC:1.2.1.70]
SCAB_23541  putative aminotransferase [KO:K01845] [EC:5.4.3.8]
SCAB_38711  hemL; glutamate-1-semialdehyde 2,1-aminomutase [KO:K01845] [EC:5.4.3.8]
SCAB_39031  hemB; porphobilinogen synthase [KO:K01698] [EC:4.2.1.24]
SCAB_7581  hemC; porphobilinogen deaminase. [KO:K01749] [EC:2.5.1.61]
SCAB_39071  hemC1; putative hydroxymethylbilane synthase [KO:K01749] [EC:2.5.1.61]
SCAB_55881  putative transcriptional regulator [KO:K01719] [EC:4.2.1.75]
SCAB_20861  hemE; uroporphyrinogen decarboxylase [KO:K01599] [EC:4.1.1.37]
SCAB_10471  conserved hypothetical protein [KO:K00230] [EC:1.3.5.3]
SCAB_20811  putative oxidoreductase [KO:K00231] [EC:1.3.3.15 1.3.3.4]
SCAB_24111  hemH; ferrochelatase [KO:K01772] [EC:4.99.1.9 4.99.1.1]
SCAB_39061  hemD; putative uroporphyrinogen-III synthase [KO:K13542] [EC:4.2.1.75 2.1.1.107]
SCAB_74471  putative uroporphyrin-III methyltransferase [KO:K02302] [EC:4.99.1.4 1.3.1.76 2.1.1.107]
SCAB_69941  putative cytochrome oxidase assembly factor [KO:K02257] [EC:2.5.1.141]
SCAB_69981  putative cytochrome assembly protein [KO:K02259]
SCAB_70811  putative cobalamin biosynthesis protein [KO:K03795] [EC:4.99.1.3]
SCAB_9801  cobI; Probable bifunctional protein, CobI-CobJ fusion protein: S-adenosyl-L-methionine-precorrin-2 methyl transferase + precorrin-3 methylase [KO:K13540] [EC:2.1.1.131 2.1.1.130]
SCAB_9781  cobG; Possible cobalamin biosynthesis protein CobG [KO:K02229] [EC:1.14.13.83]
SCAB_9861  cobM; precorrin-4 C11-methyltransferase [KO:K05936] [EC:2.1.1.271 2.1.1.133]
SCAB_9811  putative precorrin-6X reductase [KO:K05895] [EC:1.3.1.106 1.3.1.54]
SCAB_9821  putative cobalamin biosynthesis-related protein [KO:K02188] [EC:2.1.1.195]
SCAB_9871  cobL; precorrin-6Y C5,15-methyltransferase [decarboxylating] [KO:K00595] [EC:2.1.1.132]
SCAB_74441  putative SAM-dependent methyltransferase [KO:K00595] [EC:2.1.1.132]
SCAB_9791  putative precorrin-8X methylmutase [KO:K06042] [EC:5.4.99.60 5.4.99.61]
SCAB_70841  cobB; cobyrinic acid A,C-diamide synthase [KO:K02224] [EC:6.3.5.11 6.3.5.9]
SCAB_9771  cobN; Probable cobalamin biosynthesis protein cobN [KO:K02230] [EC:6.6.1.2]
SCAB_28681  putative cobalamin adenosyltransferase [KO:K00798] [EC:2.5.1.17]
SCAB_70851  cobO; cob(I)yrinic acid a,c-diamide adenosyltransferase (EC 2.5.1.17) [KO:K19221] [EC:2.5.1.17]
SCAB_70871  cobQ; cobyric acid synthase [KO:K02232] [EC:6.3.5.10]
SCAB_70881  cobD; cobalamin biosynthesis protein [KO:K02227] [EC:6.3.1.10]
SCAB_67141  cobU; putative cobalamin biosynthesis protein [KO:K02231] [EC:2.7.7.62 2.7.1.156]
SCAB_67091  cobS; putative cobalamin-5'-phosphate synthase [KO:K02233] [EC:2.7.8.26]
SCAB_67121  cobT; putativenicotinate-nucleotide-dimethylbenzimida zo lephosphoribosyltransferase [KO:K00768] [EC:2.4.2.21]
SCAB_74461  putative phosphoribosyltransferase [KO:K00768] [EC:2.4.2.21]
SCAB_65661  putative ribonuclease [KO:K22316] [EC:3.1.3.73 3.1.26.4]
SCAB_70861  putative chelatase [KO:K03404] [EC:6.6.1.1]
SCAB_66281  probable heme oxygenase [KO:K21480] [EC:1.14.15.20]
SCAB_87461  putative beta-galactosidase [KO:K01195] [EC:3.2.1.31]
SCAB_67681  bfr; putative bacterioferritin [KO:K03594] [EC:1.16.3.1]
Compound
C00025  L-Glutamate
C00032  Heme
C00037  Glycine
C00188  L-Threonine
C00194  Cobamide coenzyme
C00430  5-Aminolevulinate
C00486  Bilirubin
C00500  Biliverdin
C00524  Cytochrome c
C00541  Cob(II)alamin
C00748  Siroheme
C00853  Cob(I)alamin
C00931  Porphobilinogen
C00992  Aquacob(III)alamin
C01024  Hydroxymethylbilane
C01051  Uroporphyrinogen III
C01079  Protoporphyrinogen IX
C01708  Hemoglobin
C02139  Chlorophyllide
C02191  Protoporphyrin
C02463  Precorrin 2
C02469  Uroporphyrin III
C02800  4,5-Dioxopentanoate
C02823  Cyanocobalamin
C02880  Protochlorophyllide
C02987  L-Glutamyl-tRNA(Glu)
C03029  Transferrin[Fe(II)]2
C03114  Dimethylbenzimidazole
C03179  Transferrin[Fe(III)]2
C03194  (R)-1-Aminopropan-2-ol
C03263  Coproporphyrinogen III
C03516  Magnesium protoporphyrin
C03741  (S)-4-Amino-5-oxopentanoate
C04122  D-1-Aminopropan-2-ol O-phosphate
C04536  Magnesium protoporphyrin monomethyl ester
C04778  N1-(5-Phospho-alpha-D-ribosyl)-5,6-dimethylbenzimidazole
C05306  Chlorophyll a
C05307  Chlorophyll b
C05766  Uroporphyrinogen I
C05767  Uroporphyrin I
C05768  Coproporphyrinogen I
C05769  Coproporphyrin I
C05770  Coproporphyrin III
C05772  Precorrin 3A
C05773  Cobyrinate
C05774  Cobinamide
C05775  alpha-Ribazole
C05777  Coenzyme F430
C05778  Sirohydrochlorin
C05779  Apoferritin
C05780  Apotransferrin
C05781  Oxyhemoglobin
C05782  Myoglobin
C05783  Cytochrome a
C05784  Catalase
C05785  Peroxidase
C05786  (3Z)-Phycocyanobilin
C05787  Bilirubin beta-diglucuronide
C05789  L-Urobilinogen
C05790  I-Urobilinogen
C05791  D-Urobilinogen
C05793  L-Urobilin
C05794  Urobilin
C05795  D-Urobilin
C05797  Pheophytin a
C05798  Bacteriopheophytin
C05912  (3Z)-Phycoerythrobilin
C05913  (3Z)-Phytochromobilin
C06319  Precorrin 6Y
C06320  Precorrin 6X
C06399  Hydrogenobyrinate
C06406  Precorrin 3B
C06407  Precorrin 4
C06408  Precorrin 8X
C06416  Precorrin 5
C06503  Hydrogenobyrinate a,c diamide
C06504  Cob(II)yrinate a,c diamide
C06505  Cob(I)yrinate a,c diamide
C06506  Adenosyl cobyrinate a,c diamide
C06507  Adenosyl cobyrinate hexaamide
C06508  Adenosyl cobinamide
C06509  Adenosyl cobinamide phosphate
C06510  Adenosine-GDP-cobinamide
C11242  Bacteriochlorophyll a
C11243  Bacteriochlorophyll b
C11538  Cobalt-sirohydrochlorin
C11539  Cobalt-precorrin 3
C11540  Cobalt-precorrin 4
C11542  Cobalt-precorrin 6
C11543  Cobalt-dihydro-precorrin 6
C11545  Cobalt-precorrin 8
C11630  15,16-Dihydrobiliverdin
C11829  13(1)-Hydroxy-magnesium-protoporphyrin IX 13-monomethyl ester
C11830  13(1)-Oxo-magnesium-protoporphyrin IX 13-monomethyl ester
C11831  Divinylprotochlorophyllide
C11832  Divinyl chlorophyllide a
C11850  Divinylchlorophyll a
C11851  Zn-Bacteriochlorophyll a
C12147  L-Threonine O-3-phosphate
C14818  Fe2+
C14819  Fe3+
C15670  Heme A
C15672  Heme O
C16242  Cobalt-precorrin 5A
C16243  Cobalt-precorrin 5B
C16244  Cobalt-precorrin 7
C16540  7(1)-Hydroxychlorophyllide a
C16541  Chlorophyllide b
C17401  Cobalt-factor III
C18021  Pheophorbide a
C18022  Red chlorophyll catabolite
C18064  Pyropheophorbide a
C18098  Primary fluorescent chlorophyll catabolite
C18151  7(1)-Hydroxychlorophyll a
C18152  3-Vinylbacteriochlorophyllide a
C18153  3-Hydroxyethylbacteriochlorophyllide a
C18154  3-Hydroxyethylchlorophyllide a
C18155  Bacteriochlorophyllide a
C18156  Bacteriochlorophyllide b
C18157  8-Ethyl-12-methyl-3-vinylbacteriochlorophyllide d
C18160  Bacteriochlorophyllide d
C18161  Bacteriochlorophyllide c
C18162  Bacteriochlorophyll d
C18163  Bacteriochlorophyll c
C20666  5-Oxo-delta-bilirubin
C21217  Geranylgeranyl bacteriochlorophyllide a
C21284  Fe-coproporphyrin III
C21427  8,12-Diethyl-3-vinylbacteriochlorophyllide d
C21428  12-Ethyl-8-propyl-3-vinylbacteriochlorophyllide d
C21429  12-Ethyl-8-isobutyl-3-vinylbacteriochlorophyllide d
C21431  8-Ethyl-12-methylbacteriochlorophyllide d
C21432  8,12-Diethylbacteriochlorophyllide d
C21433  12-Ethyl-8-propylbacteriochlorophyllide d
C21434  12-Ethyl-8-isobutylbacteriochlorophyllide d
C21435  Geranylgeranyl bacteriochlorophyllide b
C21510  Nickel-sirohydrochlorin
C21511  Nickel-sirohydrochlorin a,c-diamide
C21512  15,17(3)-Seco-F430-17(3)-acid
C21582  Bacteriochlorophyllide e
C21723  Biliverdin-IX-delta
C21724  Biliverdin-IX-beta
C21835  12,18-Didecarboxysiroheme
Reference
PMID:9461500
  Authors
Woodcock SC, Raux E, Levillayer F, Thermes C, Rambach A, Warren MJ.
  Title
Effect of mutations in the transmethylase and dehydrogenase/chelatase domains of sirohaem synthase (CysG) on sirohaem and cobalamin biosynthesis.
  Journal
Biochem J 330:121-9 (1998)
DOI:10.1042/bj3300121
Reference
  Authors
Johansson P, Hederstedt L
  Title
Organization of genes for tetrapyrrole biosynthesis in gram--positive bacteria.
  Journal
Microbiology 145 ( Pt 3):529-38 (1999)
DOI:10.1099/13500872-145-3-529
Reference
  Authors
Maggio-Hall LA, Escalante-Semerena JC.
  Title
In vitro synthesis of the nucleotide loop of cobalamin by Salmonella typhimurium enzymes.
  Journal
Proc Natl Acad Sci USA 96:11798-803 (1999)
DOI:10.1073/pnas.96.21.11798
Reference
  Authors
Roper JM, Raux E, Brindley AA, Schubert HL, Gharbia SE, Shah HN, Warren MJ.
  Title
The enigma of cobalamin (Vitamin B12) biosynthesis in Porphyromonas gingivalis. Identification and characterization of a functional corrin pathway.
  Journal
J Biol Chem 275:40316-23 (2000)
DOI:10.1074/jbc.M007146200
Reference
  Authors
Scott AI, Roessner CA.
  Title
Biosynthesis of cobalamin (vitamin B(12)).
  Journal
Biochem Soc Trans 30:613-20 (2002)
DOI:10.1042/bst0300613
Reference
  Authors
Warren MJ, Raux E, Schubert HL, Escalante-Semerena JC.
  Title
The biosynthesis of adenosylcobalamin (vitamin B12).
  Journal
Nat Prod Rep 19:390-412 (2002)
DOI:10.1039/b108967f
Reference
  Authors
Roessner CA, Huang KX, Warren MJ, Raux E, Scott AI.
  Title
Isolation and characterization of 14 additional genes specifying the anaerobic biosynthesis of cobalamin (vitamin B12) in Propionibacterium freudenreichii (P. shermanii).
  Journal
Microbiology 148:1845-53 (2002)
DOI:10.1099/00221287-148-6-1845
Reference
  Authors
Frankenberg N, Mukougawa K, Kohchi T, Lagarias JC.
  Title
Functional genomic analysis of the HY2 family of ferredoxin-dependent bilin reductases from oxygenic photosynthetic organisms.
  Journal
Plant Cell 13:965-78 (2001)
DOI:10.1105/tpc.13.4.965
Reference
  Authors
Chew AG, Bryant DA
  Title
Chlorophyll biosynthesis in bacteria: the origins of structural and functional diversity.
  Journal
Annu Rev Microbiol 61:113-29 (2007)
DOI:10.1146/annurev.micro.61.080706.093242
Reference
  Authors
Frigaard NU, Chew AG, Li H, Maresca JA, Bryant DA
  Title
Chlorobium tepidum: insights into the structure, physiology, and metabolism of a green sulfur bacterium derived from the complete genome sequence.
  Journal
Photosynth Res 78:93-117 (2003)
DOI:10.1023/B:PRES.0000004310.96189.b4
Reference
  Authors
Deery E, Schroeder S, Lawrence AD, Taylor SL, Seyedarabi A, Waterman J, Wilson KS, Brown D, Geeves MA, Howard MJ, Pickersgill RW, Warren MJ
  Title
An enzyme-trap approach allows isolation of intermediates in cobalamin biosynthesis.
  Journal
Nat Chem Biol 8:933-40 (2012)
DOI:10.1038/nchembio.1086
Reference
  Authors
Moore SJ, Lawrence AD, Biedendieck R, Deery E, Frank S, Howard MJ, Rigby SE, Warren MJ
  Title
Elucidation of the anaerobic pathway for the corrin component of cobalamin (vitamin B12).
  Journal
Proc Natl Acad Sci U S A 110:14906-11 (2013)
DOI:10.1073/pnas.1308098110
KO pathway
ko00860   

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