Contacts of the helix formed by residues 212 - 232 (chain A) in PDB entry 2QC8
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 ILE 212 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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114A ARG* 3.7 38.1 - - + +
117A CYS* 3.5 33.2 - - + +
118A LYS* 3.7 39.0 - - + +
121A MET* 3.7 10.7 - - + +
210A GLU 3.5 0.4 + - - -
211A GLY* 1.3 68.0 - - - -
213A SER* 1.3 69.5 + - - +
214A MET 3.0 4.4 + - - -
215A GLY 3.4 9.5 + - - +
216A ASP* 3.5 12.1 + - - +
349A PHE* 3.7 17.5 - - + -
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Residues in contact with SER 213 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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209A CYS* 3.5 7.0 - - - +
210A GLU* 2.7 31.1 + - - +
211A GLY 3.2 1.0 - - - -
212A ILE* 1.3 81.9 - - - +
214A MET* 1.3 63.6 + - - +
215A GLY 3.4 0.2 - - - -
216A ASP* 3.8 11.2 - - - -
217A HIS* 2.9 42.8 + - - +
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Residues in contact with MET 214 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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131A PHE* 3.4 52.9 - - + +
133A MET* 3.6 37.5 - - + -
206A ILE* 3.5 39.7 - - + +
209A CYS* 3.5 14.3 - - + +
211A GLY 3.4 13.7 + - - +
212A ILE 3.0 1.2 - - - -
213A SER* 1.3 81.5 + - - +
215A GLY* 1.3 64.1 + - - +
217A HIS 3.3 0.2 + - - -
218A LEU* 3.0 25.6 + - + +
352A THR* 3.9 8.7 - - + -
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Residues in contact with GLY 215 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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211A GLY 4.8 0.2 + - - -
212A ILE 3.4 4.6 + - - -
214A MET* 1.3 80.3 - - - +
216A ASP* 1.3 61.5 + - - +
219A TRP* 3.0 30.8 + - - -
348A PRO* 3.7 23.9 - - - +
349A PHE* 3.4 25.4 - - - -
352A THR* 5.4 1.6 + - - +
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Residues in contact with ASP 216 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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82A ALA 4.9 0.2 - - - +
83A ALA* 3.8 27.6 - - + +
85A PHE* 4.6 1.1 - - - -
98A LEU* 3.7 10.9 - - - +
114A ARG* 2.7 47.2 + - - -
212A ILE* 3.5 13.5 + - - +
213A SER* 3.4 14.0 + - - +
214A MET 3.2 0.4 - - - -
215A GLY* 1.3 76.9 - - - +
217A HIS* 1.3 68.3 + - + +
219A TRP* 4.0 1.0 - - - +
220A VAL* 3.1 30.8 + - - +
349A PHE* 3.3 7.8 - - - -
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Residues in contact with HIS 217 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
85A PHE* 3.8 23.9 - + - -
187A GLY 3.4 25.4 - - - -
188A VAL* 3.5 10.5 - - + +
189A LYS* 3.0 36.0 + - + +
206A ILE* 3.8 17.0 - - + -
209A CYS* 4.0 8.3 - - - -
213A SER* 2.9 40.1 + - - +
214A MET 3.9 1.3 - - - +
216A ASP* 1.3 81.0 - - + +
218A LEU* 1.3 57.1 + - - +
220A VAL* 3.8 1.0 - - - +
221A ALA* 2.8 29.2 + - - +
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Residues in contact with LEU 218 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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133A MET* 3.6 40.4 - - + +
135A GLN* 3.8 22.2 - - + +
204A PHE* 3.9 26.0 - - + -
206A ILE* 4.3 10.0 - - + +
214A MET* 3.0 22.7 + - + +
217A HIS* 1.3 75.2 - - - +
219A TRP* 1.3 60.9 + - - +
221A ALA* 3.0 3.1 + - - +
222A ARG* 2.7 49.2 + - + +
252A CYS* 3.9 13.5 - - - -
348A PRO* 4.1 15.9 - - + -
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Residues in contact with TRP 219 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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31A ILE* 6.1 0.2 - - - -
33A ILE* 3.5 25.2 - - + +
37A GLY 3.7 18.8 - - - -
38A GLU* 3.8 20.4 - - + -
40A LEU* 3.7 36.0 - - + +
98A LEU* 4.1 19.1 - - + -
215A GLY 3.0 26.3 + - - +
216A ASP 4.1 2.2 - - - +
218A LEU* 1.3 77.5 - - - +
220A VAL* 1.3 57.1 + - - +
222A ARG* 3.2 42.6 + - - +
223A PHE* 2.9 26.5 + - - +
238A PHE* 6.3 0.4 - + - -
345A ASN 6.0 0.4 - - - -
346A CYS 4.9 0.7 - - - -
347A ASP* 2.9 42.9 + - + -
348A PRO* 3.3 10.0 - - + +
349A PHE* 3.5 18.3 - + - -
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Residues in contact with VAL 220 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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31A ILE* 4.8 10.1 - - + -
85A PHE* 3.4 43.5 - - + -
96A LEU* 4.3 14.4 - - + -
98A LEU* 3.7 26.5 - - + +
188A VAL* 3.9 7.6 - - + -
216A ASP 3.1 17.1 + - - +
217A HIS 4.1 2.7 - - - +
219A TRP* 1.3 76.0 - - - +
221A ALA* 1.3 57.5 + - - +
223A PHE* 3.2 7.2 + - - +
224A ILE* 2.9 46.0 + - + +
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Residues in contact with ALA 221 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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179A HIS* 3.0 14.9 + - - -
183A CYS* 4.4 11.7 - - - -
188A VAL* 4.0 6.7 - - + +
204A PHE* 3.7 25.5 - - + -
206A ILE* 3.8 16.6 - - + -
217A HIS 2.8 19.8 + - - +
218A LEU* 3.0 6.0 + - - +
220A VAL* 1.3 73.9 - - - +
222A ARG* 1.3 66.4 + - - +
224A ILE* 3.3 2.2 + - - +
225A LEU* 3.0 18.5 + - - +
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Residues in contact with ARG 222 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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40A LEU* 4.2 8.1 - - + -
135A GLN* 2.9 22.2 + - + +
204A PHE* 4.8 1.6 - - + -
218A LEU* 2.7 33.9 + - + +
219A TRP* 3.3 48.1 - - - +
221A ALA* 1.3 72.0 - - - +
223A PHE* 1.3 64.0 + - - +
225A LEU* 3.0 18.4 + - - +
226A HIS* 3.1 19.9 + - - -
238A PHE* 3.7 32.4 - - + -
252A CYS* 4.8 0.2 - - - -
344A ALA 3.2 23.6 + - - -
345A ASN 4.1 2.9 + - - -
346A CYS* 2.7 39.2 + - - +
348A PRO* 3.6 9.3 - - - +
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Residues in contact with PHE 223 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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29A MET* 3.7 29.8 - - - -
31A ILE* 3.8 37.2 - - + -
40A LEU* 3.7 21.5 - - + +
41A ARG 4.8 1.8 - - - -
42A CYS* 3.7 26.7 - - + -
89A PHE* 4.6 2.5 - + - -
96A LEU* 4.4 14.8 - - + -
219A TRP 2.9 13.9 + - - +
220A VAL* 3.2 12.1 + - - +
222A ARG* 1.3 78.1 - - - +
224A ILE* 1.3 64.9 + - + +
226A HIS* 3.3 3.8 + - - +
227A ARG* 3.1 43.9 + - + +
165B VAL* 4.0 20.6 - - + -
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Residues in contact with ILE 224 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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88A PRO* 4.6 1.6 - - + -
89A PHE* 3.7 19.5 - - + -
96A LEU* 4.0 19.3 - - + -
179A HIS* 3.9 12.8 - - + +
182A ALA* 3.5 30.5 - - + -
183A CYS* 4.3 9.0 - - - -
186A ALA* 3.9 26.2 - - + -
188A VAL* 4.1 8.7 - - + -
220A VAL* 2.9 36.1 + - + +
221A ALA 3.7 4.9 - - - +
222A ARG 3.3 0.2 - - - -
223A PHE* 1.3 75.6 - - + +
225A LEU* 1.3 56.9 + - - +
227A ARG 3.4 0.2 + - - -
228A VAL* 2.9 35.8 + - + +
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Residues in contact with LEU 225 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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137A TYR* 3.8 29.6 - - + +
175A ILE* 4.0 23.8 - - + -
179A HIS* 3.4 25.7 - - + +
204A PHE* 3.8 16.4 - - + -
221A ALA 3.0 13.1 + - - +
222A ARG* 3.0 10.3 + - - +
224A ILE* 1.3 76.6 - - - +
226A HIS* 1.3 52.7 + - - +
228A VAL* 3.8 1.8 - - + +
229A CYS* 2.7 42.9 + - - +
236A ALA* 3.9 12.8 - - + -
238A PHE* 3.6 33.4 - - + -
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Residues in contact with HIS 226 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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38A GLU 5.9 1.0 + - - -
40A LEU* 4.2 17.5 - - + +
222A ARG 3.1 23.3 + - - -
223A PHE* 3.3 5.1 + - - +
225A LEU* 1.3 76.1 - - - +
227A ARG* 1.3 57.7 + - - +
229A CYS* 3.6 5.4 - - - +
230A GLU* 2.8 30.0 + - - +
236A ALA* 3.5 38.2 + - + +
238A PHE* 3.6 27.3 - + - -
165B VAL* 3.9 30.7 + - + +
166B GLY* 4.3 7.7 - - - +
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Residues in contact with ARG 227 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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14A LYS* 3.9 19.6 - - - +
29A MET* 5.4 5.3 - - - +
89A PHE* 3.2 55.7 - - + +
223A PHE* 3.1 37.8 + - + +
226A HIS* 1.3 76.0 - - - +
228A VAL* 1.3 65.7 + - - +
230A GLU* 3.2 8.4 + - - +
231A ASP* 2.7 41.6 + - - +
165B VAL* 3.9 12.1 - - + +
173B ARG* 3.6 47.0 - - - +
177B GLU* 4.4 7.9 + - - -
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Residues in contact with VAL 228 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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89A PHE* 3.7 16.4 - - + -
175A ILE* 3.8 17.5 - - + +
178A ALA* 3.7 25.8 - - + -
179A HIS* 4.2 12.3 - - + +
182A ALA* 4.4 0.2 - - + -
224A ILE* 2.9 35.6 + - + +
225A LEU* 3.8 4.5 - - - +
227A ARG* 1.3 72.7 - - - +
229A CYS* 1.3 69.7 + - - +
231A ASP* 2.8 16.8 + - - +
232A PHE* 3.2 25.5 + - + -
17E TYR* 3.8 21.8 - - + +
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Residues in contact with CYS 229 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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139A LEU* 3.6 31.0 - - - -
175A ILE* 3.8 18.4 - - - -
225A LEU* 2.7 30.0 + - - +
226A HIS* 3.6 7.0 - - - +
228A VAL* 1.3 72.5 - - - +
230A GLU* 1.3 63.3 + - - +
232A PHE* 2.9 12.9 + - - +
234A VAL* 3.1 41.8 + - + +
235A ILE* 4.7 0.2 - - - -
236A ALA* 3.9 19.1 - - - +
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Residues in contact with GLU 230 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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11A LYS* 4.7 3.8 + - - -
226A HIS 2.8 14.0 + - - +
227A ARG* 3.2 14.9 + - - +
228A VAL 3.1 0.4 - - - -
229A CYS* 1.3 75.8 - - - +
231A ASP* 1.3 63.3 + - - +
233A GLY* 2.9 15.4 + - - -
234A VAL 3.8 1.1 + - - -
165B VAL* 3.6 4.2 - - - +
166B GLY 2.8 23.9 + - - -
167B ALA* 3.5 30.7 - - - +
170B ALA* 3.6 14.3 - - - +
173B ARG* 2.9 54.9 + - - +
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Residues in contact with ASP 231 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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11A LYS* 3.5 32.4 + - + +
14A LYS* 4.5 10.1 + - - -
89A PHE* 4.7 0.7 - - - -
227A ARG* 2.7 35.8 + - - -
228A VAL 2.8 11.2 + - - +
230A GLU* 1.3 76.4 - - - +
232A PHE* 1.3 59.5 + - + +
233A GLY 3.4 0.5 + - - -
174B ASP* 4.8 1.4 - - - +
13E ILE* 3.4 34.3 - - + +
17E TYR* 2.5 34.3 + - - +
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Residues in contact with PHE 232 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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174A ASP* 3.7 30.5 - - + -
175A ILE* 3.7 36.1 - - + -
178A ALA* 3.9 8.5 - - + -
228A VAL* 3.2 38.1 + - + -
229A CYS 2.9 8.6 + - - +
231A ASP* 1.3 77.1 - - - +
233A GLY* 1.3 62.4 + - - +
234A VAL* 3.3 10.2 + - + +
10E ASN 3.6 39.5 + - - -
13E ILE* 3.6 29.4 - - + -
14E LYS* 3.7 13.9 - - - -
17E TYR* 4.6 1.8 - + - -
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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
------------------------------------------------------------
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