Talk:Hydrophobicity scales

Hydrophobicity scales was a Natural sciences good articles nominee, but did not meet the good article criteria at the time. There may be suggestions below for improving the article. Once these issues have been addressed, the article can be renominated. Editors may also seek a reassessment of the decision if they believe there was a mistake.

Article milestones
Date	Process	Result
June 12, 2009	Good article nominee	Not listed

Molecular Biology: MCB

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accommodate non-polar species

I find this expression inability of water molecules to accommodate non polar species in the first section awkward. "species" refers to "molecules", but is more diffuse. Also, "accommodate" is diffuse. "accommodate" seems wrong when referring to singular molecule-molecule interaction. I would say that the heart of the matter is that water molecules loose potential energy when they relocate to interact with each other, rather than with the hydrophobic molecule (group). The hydrophobic gains some potential energy in the relocation to interact with other hydrophobic, but not as much. --Ettrig (talk) 06:03, 10 May 2009 (UTC)[reply]

OK, I looked in a biochemistry textbook and made a rewrite. Maybe still not good. --Ettrig (talk) 18:20, 10 May 2009 (UTC)[reply]

Relevance of transmembrane proteins

Neither intro nor figure caption explains why it is meaningful to have a picture of transmembrane protein molecules at top right of article. Hydrophobicity is what makes these molecules stay put in this relation to the membrane? --Ettrig (talk) 18:20, 10 May 2009 (UTC)[reply]

Yes, and that should be explained.Biophys (talk) 23:55, 4 July 2010 (UTC)[reply]

Intro not sufficiently specific

This article is not about hydrophobicity, it is about hydrophobicity scales. But after the first sentence in the intro, there is nothing about the scales in the rest of the intro. --Ettrig (talk) 18:41, 10 May 2009 (UTC)[reply]

Yes, partly fixed, but the intro is still very poor.Biophys (talk) 23:55, 4 July 2010 (UTC)[reply]

Merge or "see also" with hydropathy index ?

Index in this context is a synonym for scale and so it seems a merge in one direction or the other may behoove the two pages. Kmcallenberg (talk) 05:39, 11 November 2009 (UTC)[reply]

Yes, it's exactly the same. The "index" should be a redirect page.Biophys (talk) 23:55, 4 July 2010 (UTC)[reply]

**Hydropathy Index for the twenty natural amino acids (Kyte and Doolittle)**
A	R	N	D	C	Q	E	G	H	I	L	K	M	F	P	S	T	W	Y	V
1.8	-4.5	-3.5	-3.5	2.5	-3.5	-3.5	-0.4	-3.2	4.5	3.8	-3.9	1.9	2.8	-1.6	-0.8	-0.7	-0.9	-1.3	4.2

**Amino acids sorted by increasing hydropathy index (based on previous table from Kyte and Doolittle)**
R	K	N	D	Q	E	H	P	Y	W	S	T	G	A	M	C	F	L	V	I
-4.5	-3.9	-3.5	-3.5	-3.5	-3.5	-3.2	-1.6	-1.3	-0.9	-0.8	-0.7	-0.4	1.8	1.9	2.5	2.8	3.8	4.2	4.5

**Hydropathy index from Eisenberg consensus scale (ECS)^[1]**
R	K	D	Q	N	E	H	S	T	P	Y	C	G	A	M	W	L	V	F	I
-2.5	-1.5	-0.90	-0.85	-0.78	-0.74	-0.40	-0.18	-0.05	0.12	0.26	0.29	0.48	0.62	0.64	0.81	1.1	1.1	1.2	1.4

The Table might be used in this article, but rather not.Biophys (talk) 14:40, 5 July 2010 (UTC)[reply]

I was actually looking for those as I had seen them before here, so they are useful (thanks for keeping them in the discussion page). --Squidonius (talk) 01:00, 22 July 2010 (UTC)[reply]

GA Review

This review is transcluded from Talk:Hydrophobicity scales/GA1. The edit link for this section can be used to add comments to the review.

I am failing this GA nomination because the article clearly needs some work and no editor has attempted to do that during the review. I list below my preliminary comments. They were produced after a quick glance through the article, and thus the next reviewer should will have to read the text more rather than rely on those comments. Materialscientist (talk) 08:04, 25 June 2009 (UTC)[reply]

1) References should contain a doi link. I would request to reformat all references into {{cite journal}} and other {{cite ..}} formats. Materialscientist (talk) 00:13, 12 June 2009 (UTC)[reply]

2) The lead should be a summary of an article (presently it is not). With rare exceptions, the lead should not contain references. Instead, the notions of the lead should be expanded in the body text and that is where the references go. Materialscientist (talk) 00:13, 12 June 2009 (UTC)[reply]

3) A few-second look reveals abundant typos (capitalization, spacing, etc.). I usually fix them myself instead of pointing, but here are too many, and I would like to see some (sorry, yet missing) efforts from the nominator(s). Materialscientist (talk) 00:13, 12 June 2009 (UTC)[reply]

4) File:Different hydrophobicity scales.png should be set up as a wikitable. I shall provide help on tables and reference formatting if necessary. Materialscientist (talk) 00:13, 12 June 2009 (UTC)[reply]

5) "Kauzmann first stated that hydrophobic interactions are the most significant property of protein folding and stability" does not sound scientific (kind of "x first stated that water is liquid and that is why it is flowing").Materialscientist (talk) 00:19, 12 June 2009 (UTC)[reply]

6) Captions of File:Membrane proteins.gif and Quadruple_Hydrogen_Bond AngewChemIntEd_1998_v37_p75.jpg should properly explain what is shown there. In the latter case, molecules should be specified.

References

^ Eisenberg D (1984). "Three-dimensional structure of membrane and surface proteins". Ann. Rev. Biochem. 53: 595–623. doi:10.1146/annurev.bi.53.070184.003115. PMID 6383201. {{cite journal}}: Unknown parameter |month= ignored (help)

[1] Eisenberg D (1984). "Three-dimensional structure of membrane and surface proteins". Ann. Rev. Biochem. 53: 595–623. doi:10.1146/annurev.bi.53.070184.003115. PMID 6383201. {{cite journal}}: Unknown parameter |month= ignored (help)

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