From mitne from usp.br Sat Nov 10 18:44:24 2007 From: mitne from usp.br (mitne@usp.br) Date: Sat Nov 10 21:02:37 2007 Subject: [Protein-analysis] serum protein analysis Message-ID: <20071110214424.x6ehnuamonxcgk4o@webmail.usp.br> Hi, does anyone know what protein could be used as a control when looking for SERUM PROTEINS on Western Blot? Thanks Miguel Centro de Estudos do Genoma Humano Universidade de S?o Paulo Instituto de Bioci?ncias IB-USP R. Mat?o, 277 - sala 211 tel. 55 11 3091 7563 fax. 55 11 3091 7419 Cidade Universit?ria 05508-090 From engelbert_buxbaum from hotmail.com Thu Nov 15 09:20:26 2007 From: engelbert_buxbaum from hotmail.com (Dr Engelbert Buxbaum) Date: Thu Nov 15 13:04:10 2007 Subject: [Protein-analysis] Re: serum protein analysis References: Message-ID: Am 10.11.2007, 19:44 Uhr, schrieb : > does anyone know what protein could be used as a control when looking > for SERUM PROTEINS on Western Blot? If you tell us what you want to control for, it would be easier to answer the question. Is serum albumin as a control for loading + transfer efficiency not sufficient? From Li-Hua.Zhu from ltj.slu.se Fri Nov 16 05:00:24 2007 From: Li-Hua.Zhu from ltj.slu.se (Li-Hua Zhu) Date: Fri Nov 16 10:27:52 2007 Subject: [Protein-analysis] nptII protein Message-ID: <6.2.5.6.1.20071116105447.04c216a8@ltj.slu.se> We are going to analyse npt protein from the transgenic plants by Western blot. For this purpose, we need to have nptII protein as positive control. Does anybody know where we can buy this protein? Have checked some websites, but did not find it. Thanks a lot for any tips! Lihua From yelenaiv from u.washington.edu Sat Nov 17 19:46:03 2007 From: yelenaiv from u.washington.edu (Yelena Ivanivna Verbitskaya) Date: Sat Nov 17 20:06:11 2007 Subject: [Protein-analysis] Hi, need your help Message-ID: Hi Lauren, my name is Yelena and I found your post about 'IP before 2D'. I was curious if anyone gave you any reference about this technique? If someone did, can you please tell me that reference too. Thank you so much!!! From menkaur from gmail.com Thu Nov 22 04:09:49 2007 From: menkaur from gmail.com (menkaur@gmail.com) Date: Thu Nov 22 10:57:16 2007 Subject: [Protein-analysis] how do the proteins work Message-ID: <60e2a4d3-9980-4511-ab8e-40195e93dee4@b40g2000prf.googlegroups.com> hi. i'm searching for an answer how do the proteins work. i've found stuff in internet which tells what they do, but not how they do it. i'm interested in answer on the question which of the protein properties (spatial structure, chemical structure, charge distribution etc) is the most important one to consider bout protein functions. why? thank you From kaj.stenberg from helsinki.fi.invalid Thu Nov 22 06:23:55 2007 From: kaj.stenberg from helsinki.fi.invalid (kaj.stenberg@helsinki.fi.invalid) Date: Thu Nov 22 10:57:22 2007 Subject: [Protein-analysis] Re: how do the proteins work References: <60e2a4d3-9980-4511-ab8e-40195e93dee4@b40g2000prf.googlegroups.com> Message-ID: menkaur@gmail.com wrote: > hi. i'm searching for an answer how do the proteins work. i've found > stuff in internet which tells what they do, but not how they do it. > i'm interested in answer on the question which of the protein > properties (spatial structure, chemical structure, charge distribution > etc) is the most important one to consider bout protein functions. > why? Which is the most important part of a functioning car: the engine, the frame, the weels or the control system? Why? -- Kaj From bazmohd from gmail.com Fri Nov 23 19:15:38 2007 From: bazmohd from gmail.com (bazmohd@gmail.com) Date: Fri Nov 23 23:25:38 2007 Subject: [Protein-analysis] looking for a software to predict my protein structure...! Message-ID: if any one can help...iam looking for a software or awebsite to predict my protein structure...! iam working with a promissing protein. Thanks BAZ From pculhane from brain.riken.jp Mon Nov 26 01:46:33 2007 From: pculhane from brain.riken.jp (Patrick Culhane) Date: Mon Nov 26 10:07:10 2007 Subject: [Protein-analysis] (no subject) Message-ID: Are there any tricks and/or is it possible to passively bind nanogram to picogram quantities of protein to ELISA plates for antigen analysis? Thanks Patrick Patrick Culhane Neural Circuit Mechanisms Research Group Murphy Research Unit Riken Brain Science Institute 2-1 Hirosawa, Wako-shi Saitama, 351-0198, Japan Phone: +81-48-467-7183 Fax: +81-48-467-7145 E-mail: pculhane@brain.riken.jp From engelbert_buxbaum from hotmail.com Mon Nov 26 07:14:03 2007 From: engelbert_buxbaum from hotmail.com (Dr Engelbert Buxbaum) Date: Mon Nov 26 10:07:25 2007 Subject: [Protein-analysis] Re: looking for a software to predict my protein structure...! References: Message-ID: Am 23.11.2007, 20:15 Uhr, schrieb : > if any one can help...iam looking for a software or awebsite to > predict my protein structure...! iam working with a promissing > protein. There are web-servers that offer such models, for example www.predictprotein.org/ or bioinf.cs.ucl.ac.uk/psipred/, but they take a leap of faith in their results. Even limiting to the 4 most common structural elements (helix, strand, turn, coil) you have to expect that a quarter of the residues are assigned the wrong structures. And rarer structures (pi-helix, 3-10 helix, poly-proline helix...) are not even mentioned. From holdri39 from uwosh.edu Mon Nov 26 12:53:26 2007 From: holdri39 from uwosh.edu (Isabelle Holdridge) Date: Mon Nov 26 14:21:08 2007 Subject: [Protein-analysis] Re: Protien stucture MALDI In-Reply-To: <200711251703.lAPH3aY08814@net.bio.net> References: <200711251703.lAPH3aY08814@net.bio.net> Message-ID: ----- Original Message ----- From: proteins-request@oat.bio.indiana.edu Date: Sunday, November 25, 2007 11:04 am Subject: Proteins Digest, Vol 30, Issue 8 To: proteins@magpie.bio.indiana.edu > Send Proteins mailing list submissions to > proteins@net.bio.net > > To subscribe or unsubscribe via the World Wide Web, visit > http://www.bio.net/biomail/listinfo/proteins > or, via email, send a message with subject or body 'help' to > proteins-request@net.bio.net > > You can reach the person managing the list at > proteins-owner@net.bio.net > > When replying, please edit your Subject line so it is more specific > than "Re: Contents of Proteins digest..." > > > Today's Topics: > > 1. Re: looking for a software to predict my protein > structure...! (DK) > > > ----------------------------------------------------------------- > ----- > > Message: 1 > Date: Sat, 24 Nov 2007 06:59:11 GMT > From: dk@no.email.thankstospam.net (DK) > Subject: [Protein-analysis] Re: looking for a software to > predict my > protein structure...! > To: proteins@net.bio.net > Message-ID: <3ZP1j.74$uc.5@newsfe05.lga> > > bazmohd@gmail.com wrote: > >if any one can help...iam looking for a software or awebsite to > >predict my protein structure...! iam working with a promissing > >protein. > > No one can help. There is no such thing. > Everyone hope there was but, alas, there isn't. > > DK > > If your protien is embedded in a gel you could try running on MALDI-TOF mass spec to identify and characterise your protien. Once you determine a possible structure, then you can pay a company to make your protein based on the stucture you come up with from the mass spec. Then test your protein against the created protein to see if they have the same function. Our lab is trying to characterise proteins in this way. We start with a silver stained 2-D gel to visualize the protein. Then we will run cut that particular protein out of the gel and then run it through the MALDI-TOF mass spec. It is very difficult, but supposidly it can be done. Good Luck! > > ------------------------------ > > _______________________________________________ > Proteins mailing list > Proteins@net.bio.net > http://www.bio.net/biomail/listinfo/proteins > > End of Proteins Digest, Vol 30, Issue 8 > *************************************** > From sander.groffen from cncr.vu.nl Mon Nov 26 14:53:31 2007 From: sander.groffen from cncr.vu.nl (Sander Groffen) Date: Mon Nov 26 16:46:57 2007 Subject: [Protein-analysis] protein structure prediction Message-ID: <474B243B.9060206@cncr.vu.nl> Are you all talking about the same type of structure? If you want the tertiary structure (3D) there is no such thing, as DK pointed out. If you want the secondary structure, protein prediction servers might get you started as Dr Buxbaum pointed out. If you have no idea what kind of protein you have, a mass spectrometer can help to identify it. (If you have no idea what the difference between primary, secondary and tertiary structure is, go read a textbook on biochemistry). Sander