Cytochrome P450 Homepage

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Citation for this page: Nelson, DR (2009) The Cytochrome P450 Homepage. Human Genomics 4, 59-65.

What’s New

Databases

Nomenclature

P450 Blast server sequences

P450 Genomes

3D P450 Structure tour uses CHIME

Trees

Alignments

Rogue’s Gallery

P450 Stats

Publications

P450 Talks/Lectures

Animals

human May 17, 2007

chimp revised June 23, 2011

Rhesus monkey Jan. 26, 2006

mouse May 15, 2007

rat April 27, 2007

cattle Revised July 21, 2005

pig June 21, 2007

dog Oct. 6, 2003

Opossum June 10, 2005

duckbilled platypus Jan. 22, 2008

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chicken Jan. 14, 2004

Xenopus June 30, 2010

pufferfishes rev. Mar. 2, 2005

zebrafish June 8, 2004

Atlantic salmon Jan. 17, 2008

Elephant shark

lamprey

Amphioxus genome rev. Feb. 5, 2008

Ciona (sea squirt) 2003

sea urchin Nov. 29, 2006

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C. elegans RNAi, revised March 23, 2004

C. briggsae Nov. 2003

Planarian, Schmidtea mediterranea Nov. 5, 2009

Dros. pseudoobscura Feb. 13, 2004

Drosophila melanogaster

Anopheles Feb. 2003

Aedes aegypti Aug. 30, 2005

whitefly Trialeurodes vaporariorum Nov. 30, 2011

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Silkworm revised Dec. 12, 2009

Monarch butterfly Nov. 30, 2011

Lepidoptera July 1, 2004

honeybee Sept. 26, 2005

parasitoid wasp, a hymenopteran Sept. 6, 2007

Leaf cutter ant May 16, 2011

Argentine ant May 10, 2011

seed-harvester ant May 10, 2011

fire ant Revised May 23, 2011

Tribolium castaneum, red flour beetle April 11, 2006

Dendroctonus ponderosae (bark beetle) very soon

Rhodnius prolixus, kissing bug Aug. 27, 2014 (from Nicolas Pedrini)

aphid Nov. 2, 2009

All named public insect sequences Feb. 9, 2010

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Two-spotted spider mite Nov. 30, 2011

Ixodes scapularis (tick) Nov. 2, 2009

Daphnia pulex (water flea) first crustacean Dec. 13, 2011

Sea anemone, a Cnidarian Sept. 4, 2007

Hydra, a Cnidarian May 25, 2005

Acropora millepora (coral, a Cnidarian)

Trichoplax adhaerens rev. Jan. 30, 2008

sponge July 11, 2005

Monosiga (Choanoflagellates) Feb. 20, 2008

Plants

tomato June 19, 2012

potato July 14, 2011

Capsicum annum Oct. 21, 2014

Arabidopsis thaliana

Arabidopsis lyrata Oct. 21, 2014

Thellungiella parvula Oct. 21, 2014

Eutrema salsugineum Oct. 21, 2014

Capsella grandiflora Oct. 21, 2014

Capsella rubella Oct. 21, 2014

Brassica rapa Oct. 21, 2014

Boechera stricta Oct. 21, 2014

Carica papaya May 16, 2008

Mimulus guttatus (monkeyflower) Oct. 21, 2014

Theobroma cacao Oct. 21, 2014

Gossypium.raimondii (cotton) Oct. 21, 2014

Citrus clementina (Clementine mandarin) July 1, 2014

Citrus sinensis (sweet orange) July 1, 2014

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Eucalyptus grandis Oct. 21, 2014

Cucumis sativus (cucumber) Oct. 21, 2014

Citrulus lanatus (watermelon) Oct. 21, 2014

Prunus persica updated Oct. 21, 2014

Prunus persica (peach) older version April 25, 2013

Prunus mume (Korean apricot) Oct. 21, 2014

Malus domestica (apple) Oct. 21, 2014

Fragaria ananassa (strawberry) Oct. 21, 2014

Fragaria vesca (wild strawberry) Oct. 21, 2014

Cannabis sativa (marijuana) Oct. 21, 2014

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soybean revised June 25, 2009

Medicago truncatula Nov. 9, 2006

Lotus japonicus Oct. 21, 2014

Cicer arietinum Oct. 21, 2014

Cajanus cajanifolius (pigeonpea) Oct. 21, 2014

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Populus trichocarpa (black cottonwood) Sept. 15, 2006

Jatropha curcas Revised June 19, 2012

Ricinus communis (castor bean) Revised June 1, 2012

Manihot esculenta (cassava) Oct. 21, 2014

Linum usitatissimum (flax) Oct. 21, 2014

Vitis vinifera revised Sept. 24, 2007

Nelumbo nucifera (sacred lotus) Oct. 31, 2012

Nelumbo nucifera (sacred lotus) seq. file Oct. 31, 2012

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Aquilegia coerulea (columbine) Oct. 21, 2014

Aquilegia coerulea (columbine) old version August 18, 2012

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Zea mays

rice revised Sept. 19, 2007

Oryza brachyantha (wild rice) Oct. 21, 2014

Brachypodium distachyon Aug. 4, 2014

Setaria italica Oct. 21, 2014

Panicum virgatum Oct. 21, 2014

Triticum aestivum (wheat) Oct. 21, 2014

Sorghum bicolor New Jan. 13, 2011

Lolium rigidum         (ryegrass)

Musa acuminata (banana) Oct. 21, 2014

Phoenix dactylifera (date palm) Oct. 21, 2014

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Amborella trichopoda Revised Aug. 4. 2014

Pinus Jan. 2, 2004

ferns Sept. 12, 2006

Selaginella moellendorffii (Gemmiferous spike moss) revised May 11, 2011

Physcomitrella patens (moss) Nov. 8, 2005

Marchantia polymorpha (liverwort) Sept. 12, 2006

Chlamydomonas Sept. 2 2004

Volvox carteri colonial algae Sept 11, 2007

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Chlorella vulgaris Oct. 21, 2014

Chlorella variabilis Oct. 21, 2014

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Ostreococcus micro algae revised Oct. 21, 2014

Micromonas species April 13, 2009

Red Algae May 12, 2006

Fungi

Fungi have expanded to a new page Aug. 7, 2009

Stramenopiles

also known as heterokonts or Chromista

Phytophthora ramorum July 26, 2004

Phytophthora sojae July 26, 2004

Diatom July 22, 2004

Alveolates

Paramecium tetrauralia April 16, 2004

Tetrahymena thermophila April 20, 2004

Mycetozoa

Dictyostelium discoideum June 2003

Euglenozoa

Trypanosoma brucei July 27, 2004

Trypanosoma cruzi July 27, 2004

Trypanosoma congolense July 28, 2004

Trypanosoma vivax July 28, 2004

Leishmania major July 27, 2004

Bacteria March 8, 2004

Bacteria plus Sargasso sequences March 8, 2004

These pages change frequently. Oct. 21, 2014

The sequence guru at work

My email address is

clickable

David Nelson   dnelson@uthsc.edu

My phone is (901) 448-8303 My FAX is (901) 448-7360

Royal Society Publishing has just published Cytochrome P450 and its impact on planet Earth, compiled and edited by David R Nelson. This content can be accessed at http://bit.ly/YKdQVL A print version is also available at the special price of 35 pounds. You can order online via the above web page (enter special code TB 1612 when prompted) or, alternatively you can contact debbie.vaughan@royalsociety.org.

The 10th International Symposium on Cytochrome P450 Biodiversity and Biotechnology

will be held in Woods Hole, Massachusetts, USA Oct. 3-7, 2010. A Link to the website

A new Cytochrome P450 Expression Database using Arabidopsis:

A Link to the CYPedia website

A Link to the CYPedia paper

The 9th International Symposium on Cytochrome P450 Biodiversity and Biotechnology

will be held in Nice, France June 8-12, 2008. A Link to the website

MDO2008, The 17th International Symposium on Microsomes and Drug Oxidations

will be held July 6 to 10, 2008, at Saratoga Springs, NY, USA. A Link to the website

A link to a figure showing the distribution of plant P450 families over plant phylogeny

part A clans 51-74

A link to a figure showing the distribution of plant P450 families over plant phylogeny

part B clans 85-746

The 8th International Symposium on Cytochrome P450 Biodiversity and Biotechnology

was held in Swansea, Wales UK July 23-27 2006. A Link to the website

MDO2006, 16th International Symposium on Microsomes and Drug Oxidations

Will be held 3-7 September 2006, Budapest Hungary. A Link to the website

  I have counted the number of named cytochrome P450s as of May 28, 2006. There are Animals = 2255, Plants = 1918, Bacteria = 629, Fungi = 1001, Lower eukaryotes = 205 sequences named. That is a total of 6008 different sequences. for a list of these sequences see P450 Stats Page

  A BLAST server has been set up on a RedHat Linux machine to allow blast searching of selected P450 sets. There are 27 P450 sets to choose from. Only BLASTP or BLASTX work since this is a protein database. The server address is http://blast.uthsc.edu/ GO THERE NOW

THE CRYSTAL STRUCTURE OF CYP3A4, THE MOST PROLIFIC HUMAN DRUG METABOLISING P450, HAS BEEN SOLVED BY ASTEX.
SEE THE ASTEX PRESS RELEASE

A table of P450 accession numbers, (60k)

This is a list of all known cytochrome P450 accession numbers from PIR 44 (4/12/95)

SwissProt 31 (3/20/95) and GenBank 89 (6/9/95).

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The following list is a familycount, (2k) This is a brief listing of the breakdown

of the 477 sequences in the alignment, how many families, subfamilies, how many

plant familes, mammalian families etc.

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The number of genes in a given species is listed here last modified Dec. 3, 1998

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The distribution of P450s in each family between major biological classes (mammals,

fish, birds ) is given here (3k)

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A midwest P450 Symposium server

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A European P450 WWW Server

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Kirill Degtiarenko has also set up a cytochrome P450 WWW server in Trieste, Italy.

This server has features not included here, such as hyperlinks to the database

entries for Genbank and SwissProt accession numbers. He has some bibliographic

information that is different from the file maintained here. Some additional types of

sequences are also included, such as NADPH cytochrome P450 reductases and

NO synthases. To connect to Kirill's server click here.

The larger files of the alignments, the bibliography and the accession number table

will be posted on Kirill Degtiarenko's server to help those having difficulty in down-

loading these files from the UK and Europe. I can see from the usage log that many

of you have not been able to get these larger files intact.

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A Protein Family Classification Server

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MIPS (Martinsreid Institute for Protein Sequences) has a server that has sorted families

and superfamilies of proteins. These families are listed with their member's PIR

accession numbers, and alignments made by pileup can be obtained for the families.

The superfamily number for P450s is 0027.0 and this can be connected directly by

clicking here.

The accession number table in my server has all the PIR accession numbers in the

MIPS server, but they are hyperlinked there, so you can get the sequence entry

directly. The URL for the more general section of this server is

http://www.mips.biochem.mpg.de/www/programs/classification.html

to go there now click here.

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For an equivalency table of the MIPS family numbers and the P450 nomenclature click here

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For an obituary of Ryo Sato by Ron Estabrook click here

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Disclaimer and copywrite notice, (2k)