Contacts of the helix formed by residues 2097 - 2116 (chain B) in PDB entry 1WUE
Residue contacts within the protein are
derived with the CSU software (Sobolev V., Sorokine A.,
Prilusky J., Abola E.E. and Edelman M. (1999) Automated
analysis of interatomic contacts in proteins.
Bioinformatics, 15, 327-332). A
short description of the analytical approach
is given at the end of the page.
Note:
Non-standard 3 letter residue
codes indicate a heterogroup. To identify
and analyse, use LPC software
Legend:
Dist - nearest distance (Å) between atoms of two residues
Surf - contact surface area (Å2) between two residues
HB - hydrophilic-hydrophilic contact (hydrogen bond)
Arom - aromatic-aromatic contact
Phob - hydrophobic-hydrophobic contact
DC - hydrophobic-hydrophilic contact (destabilizing contact)
+/- - indicates presence/absence of a specific contacts
* - indicates residues forming contacts by their side chain
(including CA atoms)
Residues in contact with HIS2097 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1054A PRO* 3.8 9.0 - - + -
1058A GLN* 2.7 41.6 + - + +
1059A GLU* 5.3 0.6 - - - -
1063A THR* 4.9 6.7 + - - +
2058B GLN* 6.3 0.2 - - - +
2059B GLU* 4.3 7.3 - - + +
2063B THR* 5.7 2.0 - - - -
2064B GLU* 2.7 40.3 - - - +
2067B ILE* 3.6 37.5 - - + +
2072B LEU* 5.3 0.7 - - + -
2094B VAL* 4.0 13.3 - - + +
2095B LYS 3.0 16.5 + - - -
2096B GLY* 1.3 71.2 - - - +
2098B TRP* 1.3 70.4 + - - +
2100B GLY* 5.2 0.4 - - - -
2101B LYS* 3.1 22.3 + - + +
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Residues in contact with TRP2098 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1058A GLN* 4.1 13.7 - - - -
2058B GLN* 3.8 24.9 - - + -
2059B GLU* 3.3 11.8 + - - +
2096B GLY* 3.1 30.0 + - - +
2097B HIS* 1.3 79.8 - - - +
2099B MET* 1.3 58.7 + - - +
2101B LYS* 3.2 9.5 + - + +
2102B ALA 2.9 24.8 + - - -
2243B ARG* 3.4 52.6 + - + +
2244B SER* 5.4 3.0 - - - -
2265B PRO 3.4 2.8 - - - +
2266B ARG 3.3 25.4 - - - +
2267B VAL 4.0 16.8 - - - -
2268B GLY* 3.3 16.2 - - - +
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Residues in contact with MET2099 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2047B GLU 5.0 0.7 - - - +
2048B LEU* 3.6 22.7 - - + +
2049B VAL* 4.5 1.5 + - + -
2050B ALA* 3.7 31.9 - - + +
2051B PHE 5.1 0.4 - - - -
2056B TYR* 4.2 6.1 - - + -
2057B VAL* 3.8 22.2 - - + -
2059B GLU* 3.2 27.1 + - + +
2064B GLU* 4.4 0.2 - - - +
2097B HIS 3.4 0.4 - - - -
2098B TRP* 1.3 75.8 - - - +
2100B GLY* 1.3 61.9 + - - +
2102B ALA* 3.4 2.8 + - - +
2103B ALA* 3.1 18.5 + - - +
2265B PRO* 3.3 24.5 - - + +
2266B ARG* 4.2 13.0 - - + -
2292B MET* 3.4 37.7 - - + -
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Residues in contact with GLY2100 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2048B LEU* 4.1 4.0 - - - -
2064B GLU* 2.8 30.4 + - - +
2067B ILE* 6.2 0.2 - - - -
2068B ILE* 3.6 29.3 - - - +
2072B LEU* 3.7 11.1 - - - +
2097B HIS 3.8 0.4 - - - -
2099B MET* 1.3 74.5 - - - +
2101B LYS* 1.3 63.2 + - - +
2103B ALA* 3.5 13.0 + - - +
2104B LEU* 3.7 4.3 + - - +
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Residues in contact with LYS2101 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2072B LEU* 3.7 13.9 - - + +
2088B SER* 5.3 1.3 + - - -
2091B PHE* 3.1 55.0 + - + +
2092B GLU* 4.3 5.5 + - - +
2094B VAL* 2.8 33.7 + - - -
2096B GLY 3.6 18.3 + - - +
2097B HIS* 3.1 12.9 + - + +
2098B TRP* 3.4 13.9 - - + +
2100B GLY* 1.3 74.3 - - - +
2102B ALA* 1.3 54.2 + - - +
2104B LEU* 3.1 5.4 + - - +
2105B GLU* 2.8 34.7 + - - +
2268B GLY* 4.0 12.8 - - - +
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Residues in contact with ALA2102 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2047B GLU 5.0 1.3 - - - +
2098B TRP 2.9 16.2 + - - +
2099B MET 3.7 5.4 - - - +
2101B LYS* 1.3 78.6 - - - +
2103B ALA* 1.3 51.1 + - - +
2105B GLU* 4.2 0.9 - - - -
2106B THR* 2.7 46.5 + - + +
2264B ILE 4.0 1.1 - - - +
2265B PRO* 3.7 27.1 - - + -
2268B GLY 3.5 22.8 + - - -
2269B GLY* 3.7 6.5 - - - +
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Residues in contact with ALA2103 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2034B PHE* 4.1 10.2 - - + +
2046B GLY* 3.4 17.0 - - - -
2047B GLU 3.6 24.1 + - - +
2048B LEU* 3.7 21.5 - - + +
2068B ILE* 4.0 10.1 - - + -
2099B MET 3.1 11.7 + - - +
2100B GLY 3.6 11.2 - - - +
2101B LYS 3.2 0.4 - - - -
2102B ALA* 1.3 77.0 - - - +
2104B LEU* 1.3 62.1 + - - +
2106B THR* 3.4 10.7 + - - -
2107B ALA* 3.7 3.5 + - - +
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Residues in contact with LEU2104 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2006B ILE* 5.4 2.9 - - + -
2034B PHE* 4.3 20.9 - - + -
2036B ILE* 4.2 18.2 - - + +
2068B ILE* 4.0 19.7 - - + -
2072B LEU* 3.6 33.9 - - + -
2073B ILE* 4.0 26.0 - - + +
2076B LEU* 5.2 7.2 - - + -
2091B PHE* 3.8 19.7 - - + -
2100B GLY 3.7 5.1 + - - +
2101B LYS 3.1 6.5 + - - +
2103B ALA* 1.3 76.6 - - - +
2105B GLU* 1.3 64.8 + - - +
2107B ALA* 3.2 7.0 + - - +
2108B ILE* 3.1 26.9 + - - +
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Residues in contact with GLU2105 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2084B PRO 4.6 0.9 - - - +
2087B VAL* 3.7 35.4 - - + -
2088B SER* 4.6 7.8 - - - +
2091B PHE* 4.5 2.2 - - + -
2101B LYS 2.8 21.7 + - - +
2102B ALA 4.1 1.6 - - - +
2104B LEU* 1.3 73.6 - - - +
2106B THR* 1.3 65.3 + - - +
2108B ILE* 3.2 5.1 + - - +
2109B TRP* 2.8 56.5 + - - +
2268B GLY 4.2 9.9 - - - +
2269B GLY* 3.4 6.5 - - - -
2270B ILE 3.0 22.3 + - - -
2271B HIS* 3.0 26.3 + - - +
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Residues in contact with THR2106 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2045B PHE 4.0 3.3 - - - +
2046B GLY* 3.8 10.0 - - - -
2047B GLU 4.3 3.1 + - - -
2102B ALA* 2.7 33.5 + - + +
2103B ALA* 3.4 8.0 + - - -
2105B GLU* 1.3 82.4 - - - +
2107B ALA* 1.3 62.6 + - - +
2109B TRP* 3.4 3.5 + - - +
2110B ASP* 3.1 22.2 + - - +
2120B LEU* 5.4 0.9 - - - +
2264B ILE* 3.9 19.7 - - + -
2265B PRO* 6.4 0.4 - - + -
2269B GLY* 4.5 1.3 - - - -
2270B ILE* 4.1 10.4 - - + +
2301B LEU* 3.5 32.8 - - + +
2348B ILE* 5.7 1.4 - - - +
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Residues in contact with ALA2107 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2034B PHE* 4.5 3.1 - - + +
2036B ILE* 4.0 16.8 - - + +
2044B GLY* 3.3 19.9 - - - +
2045B PHE 3.3 29.6 - - - -
2046B GLY 3.6 4.3 - - - +
2103B ALA 3.7 7.6 + - - +
2104B LEU* 3.2 10.7 + - - +
2105B GLU 3.2 0.6 - - - -
2106B THR* 1.3 79.2 + - - +
2108B ILE* 1.3 61.6 + - - +
2110B ASP* 3.4 0.7 + - - -
2111B LEU* 3.0 23.8 + - - +
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Residues in contact with ILE2108 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2001B MET* 4.4 16.4 - - + -
2003B ILE* 4.3 3.8 - - + -
2036B ILE* 3.7 31.9 - - + -
2076B LEU* 4.2 23.1 - - + -
2081B ILE* 4.7 8.5 - - + -
2084B PRO* 4.2 14.6 - - + -
2087B VAL* 3.8 30.1 - - + -
2104B LEU 3.1 16.5 + - - +
2105B GLU 3.2 7.2 + - - +
2107B ALA* 1.3 75.2 - - - +
2109B TRP* 1.3 60.2 + - - +
2111B LEU* 3.4 10.2 + - + +
2112B TYR* 2.9 27.5 + - - +
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Residues in contact with TRP2109 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2084B PRO* 3.5 37.5 + - + +
2085B GLN* 3.3 41.3 - - + -
2105B GLU* 2.8 56.4 + - + -
2106B THR 3.6 2.2 - - - +
2107B ALA 3.3 0.2 - - - -
2108B ILE* 1.3 74.3 - - - +
2110B ASP* 1.3 66.2 - - - +
2112B TYR* 3.4 4.0 + + - +
2113B ALA* 3.0 24.8 + - - +
2120B LEU* 4.1 22.2 - - + +
2123B PHE* 4.3 24.0 - + + -
2124B PHE* 4.5 1.8 - + - -
2270B ILE* 3.5 42.1 - - + +
2271B HIS* 4.1 11.2 - - + -
2274B LEU* 3.9 19.3 - - + -
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Residues in contact with ASP2110 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2044B GLY* 3.4 1.0 - - - -
2045B PHE* 2.9 29.9 + - - +
2106B THR 3.1 10.8 + - - +
2107B ALA 3.6 7.9 - - - +
2109B TRP* 1.3 78.8 - - - +
2111B LEU* 1.3 61.7 + - - +
2113B ALA* 3.1 7.2 + - - +
2114B LYS* 2.7 49.1 + - - +
2120B LEU* 4.6 5.3 - - - +
2347B GLY* 3.0 9.6 - - - -
2348B ILE* 2.8 43.6 + - + -
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Residues in contact with LEU2111 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2001B MET* 3.5 33.4 - - + -
2003B ILE* 5.3 2.7 - - + -
2036B ILE* 4.1 28.5 - - + +
2038B ASP* 3.7 18.2 - - + +
2042B ASN* 3.6 40.4 - - + +
2043B GLN 4.1 1.6 - - - +
2044B GLY* 3.7 10.0 - - - -
2107B ALA 3.0 17.4 + - - +
2108B ILE* 3.6 10.5 - - + +
2109B TRP 3.3 0.2 - - - -
2110B ASP* 1.3 77.1 - - - +
2112B TYR* 1.3 57.6 + - - +
2114B LYS* 3.2 7.6 + - - +
2115B ARG* 2.8 28.1 + - + +
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Residues in contact with TYR2112 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2001B MET* 4.0 15.9 - - + -
2082B GLU 3.4 23.6 - - - -
2083B GLN* 4.3 15.8 + - + +
2084B PRO* 3.6 35.4 - - + -
2108B ILE 2.9 17.7 + - - +
2109B TRP* 3.7 5.6 - + - +
2111B LEU* 1.3 77.2 - - - +
2113B ALA* 1.3 65.0 + - - +
2115B ARG* 3.1 15.9 - - - +
2116B GLN* 3.1 52.8 + - + +
2123B PHE* 3.6 36.9 - + - -
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Residues in contact with ALA2113 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2109B TRP 3.0 14.2 + - - +
2110B ASP 3.4 8.7 - - - +
2112B TYR* 1.3 78.0 - - - +
2114B LYS* 1.3 61.4 + - - +
2116B GLN* 3.0 12.5 + - - +
2118B LYS* 3.0 33.8 + - - +
2120B LEU* 3.8 11.9 - - + -
2123B PHE* 3.5 25.6 - - + -
2347B GLY* 3.8 13.0 - - - -
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Residues in contact with LYS2114 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2042B ASN* 4.6 18.7 + - + +
2043B GLN* 2.8 29.8 + - - +
2045B PHE* 3.6 25.9 - - - -
2110B ASP* 2.7 47.9 + - - +
2111B LEU* 3.5 7.0 - - - +
2113B ALA* 1.3 74.1 - - - +
2115B ARG* 1.3 55.7 + - - +
2117B GLN* 2.8 26.4 + - - +
2346B LEU* 3.9 34.7 - - + +
2347B GLY 3.8 9.9 - - - +
2348B ILE* 4.7 1.7 - - - +
2350B VAL 4.8 3.8 + - - -
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Residues in contact with ARG2115 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1999B SER 3.7 8.7 + - - -
2000B HIS* 3.3 1.6 + - - +
2001B MET* 3.0 61.7 - - - +
2038B ASP* 3.2 17.7 + - - +
2039B GLU* 2.5 41.2 + - - -
2040B GLN* 3.2 28.5 - - - +
2042B ASN* 3.6 12.5 + - - +
2111B LEU* 2.8 13.8 + - - +
2112B TYR* 3.1 14.6 - - + +
2114B LYS* 1.3 77.4 - - - +
2116B GLN* 1.3 66.1 + - + +
2117B GLN* 3.3 10.2 + - - +
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Residues in contact with GLN2116 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2112B TYR* 3.3 41.8 + - + +
2113B ALA 3.0 8.1 + - - +
2115B ARG* 1.3 80.2 - - - +
2117B GLN* 1.3 71.8 + - - +
2118B LYS* 3.2 22.2 + - + +
2123B PHE* 3.8 24.7 - - + -
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A short description of the
analytical approach
The contact analysis used in this page
is based upon the approach
developed in:
Sobolev V., Wade R.C., Vriend G.
and Edelman M. PROTEINS (1996)
25, 120-129.
Contact legitimacy depends on the hydrophobic-hydrophilic
properties of the contacting atoms. In order to
define it, for each inter-atomic contact,
eight atom classes have been introduced:
I Hydrophilic - N and O that can donate and accept hydrogen bonds
(e.g., oxygen of hydroxyl group of Ser. or Thr)
II Acceptor - N or O that can only accept a hydrogen bond
III Donor - N that can only donate a hydrogen bond
IV Hydrophobic - Cl, Br, I and all C atoms that are not in
aromatic rings and do not have a covalent bond to
a N or O atom
V Aromatic - C in aromatic rings irrespective of any other
bonds formed by the atom
VI Neutral - C atoms that have a covalent bond to at least one
atom of class I or two or more atoms from class II
or III; atoms; S, F, P, and metal atoms in all cases
VII Neutral-donor - C atoms that have a covalent bond with only one
atom of class III
VIII Neutral-acceptor - C atoms that have a covalent bond with only
one atom of class II
For each pair of contacts the state of legitimacy
is shown below:
Legend:
+, legitimate
-, illegitimate
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Atomic class I II III IV V VI VII VIII
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I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
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Warning!
Atom classes for heterogroups are automatically
assigned based on the atomic coordinates. However, in
three cases (see below) the automatic assignment
is currently ambiguous. In these
cases, the user is advised to manually analyse
the full list of contacts using
LPC software.
1. Carbon atoms belonging to a 4-, 5- or 6-member ring are
considered "aromatic" (Class V) if the ring is approximately
planar, and "hydrophobic" (Class IV) or "neutral" (Classes
VI, VII, VIII) if the ring is non-planar.
2. The oxygen atom of a carbonyl or hydroxy group is considered
"hydroxy" (Class I) if the CO bond is longer than 1.29 Å, and
"carbonyl" (Class II) if shorter.
3. All nitrogen atoms are considered "hydrophilic" (Class I).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il