Contacts of the helix formed by residues 148 - 179 (chain A) in PDB entry 4TKR
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 GLY 148 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140A GLY 5.7 0.2 - - - -
143A ALA* 5.0 1.1 - - - -
146A GLY 4.2 1.0 + - - -
147A TRP* 1.3 76.8 - - - +
149A ALA* 1.3 61.5 + - - -
150A GLN 3.4 2.5 - - - -
151A LEU* 4.0 13.1 - - - +
152A PHE* 3.0 28.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 149 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135A GLY 4.2 2.0 - - - +
136A VAL* 3.6 20.5 - - - +
140A GLY* 4.0 25.3 + - - -
148A GLY* 1.3 71.6 - - - +
150A GLN* 1.3 58.5 + - - +
152A PHE* 3.6 4.1 + - - +
153A SER* 3.0 30.7 + - - -
5B ARG* 3.3 31.9 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 150 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132A TYR* 3.2 32.2 + - - +
136A VAL* 3.8 21.8 - - + +
148A GLY 3.4 0.4 - - - -
149A ALA* 1.3 76.9 - - - +
151A LEU* 1.3 73.5 + - - +
153A SER* 3.2 1.6 + - - -
154A ILE* 3.0 34.9 + - - +
5B ARG* 4.8 1.9 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 151 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146A GLY 5.5 1.1 - - - +
147A TRP* 3.9 38.6 - - + -
148A GLY* 3.6 15.0 + - - +
150A GLN* 1.3 87.9 + - - +
152A PHE* 1.3 62.4 + - - +
154A ILE* 3.3 6.8 - - + +
155A VAL* 3.2 44.3 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 152 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32A SER* 3.1 32.8 - - - -
135A GLY 5.8 0.2 - - - -
139A TRP 3.9 12.3 - - - -
140A GLY* 5.4 0.7 - - - -
142A TYR* 3.2 28.0 - - + -
143A ALA* 3.5 30.1 - - + -
144A PHE* 3.5 41.1 - + - -
147A TRP* 3.7 9.6 - - + -
148A GLY 3.0 19.7 + - - +
149A ALA* 4.0 4.3 - - - +
151A LEU* 1.3 78.1 - - - +
153A SER* 1.3 58.3 + - - +
156A MET* 3.2 35.5 + - + +
301A TPP 3.8 15.5 - - + -
303A BGL 4.6 6.1 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 153 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132A TYR* 2.6 31.7 + - - -
135A GLY* 3.3 8.2 - - - -
136A VAL* 3.7 14.1 - - - -
149A ALA 3.0 19.2 + - - -
150A GLN 3.6 3.6 - - - -
151A LEU 3.2 0.2 - - - -
152A PHE* 1.3 76.4 - - - +
154A ILE* 1.3 60.0 + - - +
157A ASN* 2.8 47.3 + - - +
301A TPP 3.7 9.0 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 154 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132A TYR* 3.7 30.9 - - + -
150A GLN* 3.0 32.4 + - - +
151A LEU* 3.3 16.4 - - + +
153A SER* 1.3 77.6 - - - +
155A VAL* 1.3 66.6 + - + +
157A ASN* 5.1 0.2 - - - -
158A GLY* 3.0 29.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 155 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147A TRP* 4.0 22.0 - - + -
151A LEU* 3.2 31.9 + - + +
152A PHE 4.5 0.2 - - - +
154A ILE* 1.3 81.1 - - + +
156A MET* 1.3 79.6 + - + +
158A GLY* 3.8 0.3 - - - -
159A ALA* 2.9 28.9 + - - +
304A BGL 4.1 21.9 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with MET 156 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32A SER* 3.5 27.0 - - - +
33A PHE* 4.5 6.5 - - - -
144A PHE* 3.8 23.1 - - + -
152A PHE* 3.2 38.5 + - + +
155A VAL* 1.3 101.6 - - + +
157A ASN* 1.3 60.8 + - - +
159A ALA* 3.3 5.2 + - + +
160A SER* 2.9 32.4 + - - -
301A TPP 4.3 4.3 - - + -
303A BGL 3.9 36.1 - - + +
304A BGL 4.0 17.9 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 157 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32A SER 4.8 2.8 + - - -
128A TYR* 3.7 14.3 - - + +
131A HIS* 3.3 30.2 - - + +
132A TYR* 4.2 14.1 - - + +
153A SER* 2.8 39.3 + - - +
154A ILE* 5.1 0.4 - - - -
156A MET* 1.3 75.3 - - - +
158A GLY* 1.3 59.7 + - - +
160A SER* 4.3 4.7 - - - -
161A CYS* 3.0 29.6 + - - +
301A TPP 3.2 40.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 158 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154A ILE* 3.0 25.5 + - - +
155A VAL 3.8 0.7 - - - -
157A ASN* 1.3 77.1 - - - +
159A ALA* 1.3 56.4 + - - +
161A CYS* 3.4 5.6 + - - +
162A LEU* 2.8 30.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 159 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33A PHE* 3.5 23.9 - - + -
155A VAL 2.9 17.9 + - - +
156A MET* 3.7 8.3 - - + +
158A GLY* 1.3 73.9 - - - +
160A SER* 1.3 60.4 + - - +
162A LEU* 3.7 8.7 - - - +
163A GLY* 2.9 26.7 + - - -
303A BGL 5.3 0.2 - - + -
304A BGL 3.7 30.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 160 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32A SER 3.2 15.9 + - - -
33A PHE* 3.2 8.2 - - - -
34A SER* 3.2 30.1 + - - +
35A ILE* 5.0 0.2 - - - -
128A TYR* 3.8 16.8 - - - -
156A MET 2.9 20.0 + - - -
157A ASN* 4.0 6.5 - - - -
159A ALA* 1.3 75.6 - - - +
161A CYS* 1.3 56.6 + - - +
163A GLY* 4.1 0.6 - - - +
164A THR* 2.7 36.9 + - - -
301A TPP 6.1 3.0 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with CYS 161 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124A GLY 3.8 31.6 - - - -
125A VAL* 4.0 16.4 - - - -
128A TYR* 3.6 25.9 - - + -
157A ASN 3.0 19.5 + - - +
158A GLY* 3.7 6.3 - - - +
160A SER* 1.3 75.1 - - - +
162A LEU* 1.3 66.1 + - - +
164A THR* 3.3 0.5 + - - -
165A VAL* 3.0 37.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 162 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158A GLY 2.8 18.5 + - - +
159A ALA* 3.7 8.5 - - - +
161A CYS* 1.3 77.9 - - - +
163A GLY* 1.3 62.9 + - - +
165A VAL* 4.2 2.8 - - - +
166A LEU* 3.1 53.3 + - + +
304A BGL 6.4 1.8 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 163 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33A PHE* 5.2 4.5 - - - -
35A ILE* 4.2 17.8 - - - +
159A ALA 2.9 15.8 + - - -
160A SER 4.1 0.4 - - - -
162A LEU* 1.3 78.9 - - - +
164A THR* 1.3 60.8 + - - +
166A LEU* 3.6 6.4 + - - +
167A VAL* 3.3 32.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 164 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34A SER 3.5 3.6 + - - -
35A ILE* 3.5 7.6 - - - +
36A SER* 2.9 43.2 + - - +
39A MET* 3.6 22.2 - - + -
43A TYR* 5.5 0.7 - - - +
128A TYR* 3.1 20.1 + - + +
160A SER 2.7 23.1 + - - -
161A CYS 3.8 2.5 - - - -
162A LEU 3.3 0.2 - - - -
163A GLY* 1.3 75.6 - - - +
165A VAL* 1.3 68.8 + - + +
167A VAL* 3.6 0.9 - - - +
168A SER* 2.8 30.8 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 165 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43A TYR* 3.7 20.6 - - - +
117A TRP* 3.7 10.8 - - + -
120A MET* 3.9 25.1 - - + +
121A ILE* 3.9 26.0 - - + +
124A GLY* 4.0 15.0 - - - -
128A TYR* 5.8 0.9 - - + -
161A CYS* 3.0 25.3 + - - +
162A LEU* 4.3 2.9 - - + +
164A THR* 1.3 78.4 - - + +
166A LEU* 1.3 54.4 + - + +
168A SER* 4.7 1.3 - - - -
169A GLY* 2.7 31.0 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 166 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117A TRP* 3.6 9.9 - - + -
162A LEU* 3.1 48.3 + - + +
163A GLY* 3.8 7.2 - - - +
164A THR 3.2 0.2 - - - -
165A VAL* 1.3 78.8 - - + +
167A VAL* 1.3 65.2 + - + +
170A ILE* 3.1 35.5 + - + +
306A BGL 3.7 34.5 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 167 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27A LEU* 6.2 0.7 - - + -
35A ILE* 3.5 35.0 - - + -
37A LEU* 4.1 13.9 - - + -
40A ILE* 5.2 0.2 - - - -
163A GLY* 3.3 18.6 + - - +
164A THR 3.6 4.9 - - - +
166A LEU* 1.3 78.6 - - + +
168A SER* 1.3 69.6 + - - +
170A ILE* 3.9 7.3 + - + +
171A ILE* 3.3 31.1 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 168 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36A SER 3.8 14.7 + - - -
37A LEU* 4.8 0.5 - - - -
39A MET* 4.0 2.9 - - - +
40A ILE* 3.6 28.5 - - - +
43A TYR* 3.6 24.2 - - - -
164A THR 2.8 21.9 + - - -
167A VAL* 1.3 78.7 - - - +
169A GLY* 1.3 61.6 + - - +
171A ILE* 3.4 1.6 + - - +
172A ILE* 2.9 36.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 169 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117A TRP* 3.3 17.6 - - - -
120A MET* 3.6 22.5 - - - +
165A VAL 2.7 20.4 + - - -
168A SER* 1.3 78.0 - - - +
170A ILE* 1.3 51.4 + - - +
172A ILE* 3.4 2.1 + - - +
173A SER* 2.7 37.1 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 170 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117A TRP* 4.0 13.2 - - + -
166A LEU* 3.1 22.6 + - + +
167A VAL* 4.1 7.6 - - - +
168A SER 3.3 0.2 - - - -
169A GLY* 1.3 76.2 - - - +
171A ILE* 1.3 64.6 + - + +
173A SER* 3.2 6.6 + - - -
174A ILE* 3.0 40.4 + - + +
305A BGL 4.1 19.1 - - + -
306A BGL 4.2 16.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 171 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37A LEU* 5.9 2.9 - - + -
40A ILE* 3.6 32.5 - - + -
167A VAL* 3.3 17.4 + - + +
168A SER 3.4 3.9 + - - +
170A ILE* 1.3 75.6 - - + +
172A ILE* 1.3 60.7 + - - +
174A ILE* 3.2 15.5 + - + +
175A LEU* 2.9 45.8 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 172 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40A ILE* 3.8 25.1 - - + +
43A TYR* 3.7 30.5 - - + -
44A VAL* 4.1 7.4 - - + +
47A ILE* 4.3 15.3 - - + -
116A ALA* 4.7 0.2 - - + -
120A MET* 3.7 24.0 - - + -
168A SER 2.9 21.2 + - - +
169A GLY 3.7 3.6 - - - +
171A ILE* 1.3 74.5 - - - +
173A SER* 1.3 58.6 + - - +
175A LEU* 3.1 10.5 + - + +
176A LEU* 2.8 43.2 + - + +
183A PHE* 4.1 15.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 173 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113A ILE* 3.6 25.3 - - - +
116A ALA* 5.9 0.2 - - - +
117A TRP* 2.9 24.9 + - - -
120A MET* 4.8 1.2 - - - +
169A GLY 2.7 19.0 + - - -
170A ILE 3.2 9.2 + - - -
172A ILE* 1.3 77.0 - - - +
174A ILE* 1.3 61.5 + - - +
176A LEU* 3.3 16.2 + - - +
177A LYS* 3.3 17.2 + - - +
305A BGL 3.9 19.6 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 174 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
170A ILE* 3.0 30.0 + - + +
171A ILE* 3.5 15.7 - - + +
173A SER* 1.3 77.6 - - - +
175A LEU* 1.3 55.8 + - + +
177A LYS* 2.9 10.4 + - + +
178A THR* 2.7 53.4 + - + +
305A BGL 5.1 5.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 175 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40A ILE* 4.6 8.7 - - + -
44A VAL* 6.0 2.5 - - + -
171A ILE* 2.9 37.9 + - + +
172A ILE* 3.1 19.3 + - + +
174A ILE* 1.3 80.5 - - + +
176A LEU* 1.3 56.2 + - - +
178A THR* 3.5 12.8 - - - +
179A SER* 2.8 44.7 + - - +
182A LEU* 4.7 15.3 - - + -
183A PHE* 3.5 17.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 176 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47A ILE* 4.8 1.3 - - + -
100A VAL* 4.4 11.2 - - + -
104A LEU* 3.7 22.1 - - + +
109A LEU* 3.7 20.8 - - + +
112A ALA* 4.2 5.6 - - + +
113A ILE* 3.8 24.7 - - + +
116A ALA* 3.8 26.7 - - + -
172A ILE* 2.8 21.0 + - + +
173A SER* 3.4 12.6 - - - +
174A ILE 3.2 0.2 - - - -
175A LEU* 1.3 76.7 - - - +
177A LYS* 1.3 61.2 + - - +
180A PRO* 3.6 17.8 - - - +
183A PHE* 3.6 37.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 177 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109A LEU* 3.6 29.2 - - + +
113A ILE* 5.7 0.7 - - + -
173A SER 3.3 8.1 + - - +
174A ILE* 2.9 11.9 + - + +
176A LEU* 1.3 80.5 - - - +
178A THR* 1.3 71.2 + - + +
180A PRO* 4.1 8.5 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 178 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174A ILE* 2.7 40.4 + - + +
175A LEU* 3.5 15.2 - - - +
177A LYS* 1.3 82.2 - - + +
179A SER* 1.3 69.1 + - - +
180A PRO* 3.6 6.1 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 179 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175A LEU* 2.8 28.9 + - - +
178A THR* 1.3 85.7 + - - +
180A PRO* 1.3 64.3 - - - +
181A LYS* 3.3 2.7 - - - +
182A LEU* 3.4 24.9 + - - +
183A PHE* 3.3 13.7 - - - -
----------------------------------------------------------
Back to top of page
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
------------------------------------------------------------
Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
------------------------------------------------------------
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