Contacts of the helix formed by residues 212 - 232 (chain E) 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 E).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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114E ARG* 3.8 37.5 - - + +
117E CYS* 3.7 20.2 - - + +
118E LYS* 3.8 38.4 - - + +
121E MET* 3.8 9.5 - - + +
210E GLU 3.4 0.4 + - - -
211E GLY* 1.3 67.0 - - - -
213E SER* 1.3 69.1 + - - +
214E MET 3.1 4.2 + - - -
215E GLY 3.3 3.3 + - - -
216E ASP* 3.2 19.3 + - - +
349E PHE* 3.4 32.3 - - + -
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Residues in contact with SER 213 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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209E CYS* 3.5 5.7 - - - +
210E GLU* 2.6 31.5 + - - +
211E GLY 3.2 0.2 - - - -
212E ILE* 1.3 82.9 - - - +
214E MET* 1.3 57.0 + - - +
216E ASP* 3.8 12.1 - - - -
217E HIS* 2.8 48.0 + - - +
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Residues in contact with MET 214 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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131E PHE* 3.3 52.7 - - + +
133E MET* 3.6 41.3 - - + -
206E ILE* 3.5 37.5 - - + +
209E CYS* 3.4 13.6 - - + +
211E GLY 3.3 13.0 + - - +
212E ILE 3.1 1.0 - - - -
213E SER* 1.3 80.5 + - - +
215E GLY* 1.3 58.0 + - - +
217E HIS* 3.8 0.2 - - - -
218E LEU* 2.9 34.2 + - + +
352E THR* 3.9 7.9 - - + -
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Residues in contact with GLY 215 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
211E GLY 4.7 0.2 + - - -
212E ILE 3.3 4.8 + - - -
214E MET* 1.3 78.1 - - - +
216E ASP* 1.3 63.1 + - - +
218E LEU* 3.9 0.5 - - - +
219E TRP* 3.0 29.6 + - - -
348E PRO* 3.8 23.5 - - - +
349E PHE* 3.4 27.7 - - - -
352E THR* 5.1 2.0 + - - +
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Residues in contact with ASP 216 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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82E ALA 4.8 0.2 - - - +
83E ALA* 3.8 26.7 - - + +
85E PHE* 4.8 0.9 - - - -
98E LEU* 3.8 12.1 - - + +
114E ARG* 2.7 47.2 + - - -
212E ILE* 3.2 15.8 + - - +
213E SER* 3.7 12.8 - - - +
215E GLY* 1.3 76.1 - - - +
217E HIS* 1.3 67.5 + - + +
219E TRP 3.5 0.2 + - - -
220E VAL* 3.1 30.0 + - - +
349E PHE* 3.3 8.7 - - - -
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Residues in contact with HIS 217 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
85E PHE* 3.8 25.2 - + - -
187E GLY 3.4 23.1 - - - -
188E VAL* 3.6 8.3 - - + +
189E LYS* 3.0 34.1 + - + +
206E ILE* 3.9 18.6 - - + -
209E CYS* 4.0 7.4 - - - -
213E SER* 2.8 45.5 + - - +
214E MET 4.0 0.9 - - - +
216E ASP* 1.3 75.8 - - + +
218E LEU* 1.3 57.6 + - - +
220E VAL* 3.8 1.5 - - - +
221E ALA* 2.8 29.2 + - - +
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Residues in contact with LEU 218 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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133E MET* 3.7 40.4 - - + +
135E GLN* 4.1 20.0 - - + +
204E PHE* 3.9 26.7 - - + -
206E ILE* 4.1 12.7 - - + +
214E MET* 2.9 23.5 + - + +
215E GLY 4.0 2.2 - - - +
217E HIS* 1.3 77.1 - - - +
219E TRP* 1.3 51.5 + - - +
221E ALA* 2.9 5.0 + - - +
222E ARG* 2.7 52.1 + - - +
252E CYS* 4.1 12.6 - - - -
348E PRO* 3.9 13.9 - - + -
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Residues in contact with TRP 219 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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31E ILE* 6.2 0.4 - - - -
33E ILE* 3.4 25.7 - - + +
37E GLY 3.8 19.1 - - - -
38E GLU* 4.0 18.8 - - - -
40E LEU* 3.9 31.5 - - + +
98E LEU* 4.1 19.5 - - + -
215E GLY 3.0 24.8 + - - +
216E ASP 4.0 2.9 - - - +
218E LEU* 1.3 77.5 - - - +
220E VAL* 1.3 57.7 + - - +
222E ARG* 3.2 40.7 + - - +
223E PHE* 2.9 27.2 + - - +
238E PHE* 6.0 1.3 - + - -
345E ASN 5.7 1.1 - - - -
346E CYS 4.7 1.8 - - - -
347E ASP* 3.2 41.3 + - + -
348E PRO* 3.4 12.3 - - + +
349E PHE* 3.5 20.3 - + - -
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Residues in contact with VAL 220 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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31E ILE* 5.2 8.5 - - + -
85E PHE* 3.5 37.7 - - + -
96E LEU* 4.1 17.0 - - + -
98E LEU* 3.8 26.2 - - + +
188E VAL* 4.1 7.4 - - + -
216E ASP 3.1 17.6 + - - +
217E HIS 4.1 2.0 - - - +
219E TRP* 1.3 72.8 - - - +
221E ALA* 1.3 65.9 + - - +
223E PHE* 3.2 7.0 + - + +
224E ILE* 2.9 41.3 + - + +
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Residues in contact with ALA 221 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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179E HIS* 2.9 29.6 + - - +
183E CYS* 4.5 8.7 - - - -
188E VAL* 4.2 5.5 - - + +
204E PHE* 3.6 26.9 - - + -
206E ILE* 3.7 15.9 - - + -
217E HIS 2.8 16.9 + - - +
218E LEU* 3.1 12.8 - - - +
220E VAL* 1.3 77.2 - - - +
222E ARG* 1.3 54.5 + - - +
224E ILE* 3.4 1.7 + - - -
225E LEU* 3.0 12.5 + - - +
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Residues in contact with ARG 222 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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40E LEU* 4.2 8.3 - - + -
135E GLN* 2.8 29.5 + - - +
204E PHE* 4.8 2.5 - - + -
218E LEU* 2.7 33.6 + - + +
219E TRP* 3.3 48.1 - - - +
220E VAL 3.1 0.2 - - - -
221E ALA* 1.3 71.8 - - - +
223E PHE* 1.3 66.1 + - - +
225E LEU* 3.1 8.7 + - - +
226E HIS* 3.1 28.7 + - - -
238E PHE* 3.7 32.4 - - + -
344E ALA 3.1 16.5 + - - -
345E ASN 4.2 1.5 + - - -
346E CYS* 2.8 38.6 + - - +
348E PRO* 3.6 9.1 - - - +
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Residues in contact with PHE 223 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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165A VAL* 3.8 29.6 - - + -
29E MET* 3.6 28.7 - - - -
31E ILE* 3.6 38.1 - - + -
40E LEU* 3.8 16.5 - - + +
41E ARG 4.9 1.3 - - - -
42E CYS* 3.6 25.4 - - + -
89E PHE* 4.7 2.2 - + - -
96E LEU* 4.6 15.0 - - + -
219E TRP 2.9 14.1 + - - +
220E VAL* 3.6 10.8 - - - +
222E ARG* 1.3 76.9 - - - +
224E ILE* 1.3 64.2 + - + +
226E HIS* 3.2 5.9 + - - +
227E ARG* 3.0 43.3 + - + +
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Residues in contact with ILE 224 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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88E PRO* 4.5 3.4 - - + -
89E PHE* 3.9 18.6 - - + -
96E LEU* 4.1 18.8 - - + -
179E HIS* 3.5 18.2 - - + +
182E ALA* 3.6 26.2 - - + -
183E CYS* 4.3 9.9 - - - -
186E ALA* 3.8 25.8 - - + -
188E VAL* 4.2 8.5 - - + -
220E VAL* 2.9 36.0 + - + +
221E ALA 3.7 4.5 - - - +
223E PHE* 1.3 74.8 - - + +
225E LEU* 1.3 57.0 + - - +
228E VAL* 2.8 37.0 + - + +
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Residues in contact with LEU 225 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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137E TYR* 3.7 35.4 - - + +
175E ILE* 3.8 26.5 - - + -
179E HIS* 3.3 22.4 - - + +
204E PHE* 3.8 13.7 - - + -
221E ALA 3.0 15.2 + - - +
222E ARG* 3.1 9.8 + - - +
224E ILE* 1.3 75.7 - - - +
226E HIS* 1.3 57.9 + - - +
228E VAL* 3.5 1.9 - - - +
229E CYS* 2.7 38.3 + - - -
236E ALA* 3.9 12.3 - - + -
238E PHE* 3.7 30.3 - - + -
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Residues in contact with HIS 226 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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165A VAL* 4.0 28.7 + - + +
166A GLY* 4.1 8.6 - - - -
40E LEU* 4.4 15.9 - - + -
222E ARG 3.1 23.0 + - - -
223E PHE 3.2 6.0 + - - +
225E LEU* 1.3 76.6 - - - +
227E ARG* 1.3 52.0 + - - +
229E CYS* 3.2 4.9 + - - +
230E GLU* 2.8 34.8 + - - +
236E ALA* 3.2 42.9 + - + +
238E PHE* 3.5 27.4 - + - -
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Residues in contact with ARG 227 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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165A VAL* 3.8 10.0 - - + +
173A ARG* 3.4 47.8 - - - +
177A GLU* 4.6 8.1 + - - -
14E LYS* 3.7 22.2 - - - +
29E MET* 5.3 6.2 - - - +
89E PHE* 3.3 55.2 - - + +
223E PHE* 3.0 37.1 + - + +
226E HIS* 1.3 72.8 - - - +
228E VAL* 1.3 67.5 + - - +
230E GLU* 3.3 8.6 + - - +
231E ASP* 2.8 42.3 + - - +
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Residues in contact with VAL 228 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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17D TYR* 3.8 30.7 - - + -
89E PHE* 3.8 6.5 - - + -
175E ILE* 3.9 27.6 - - + +
178E ALA* 4.1 4.9 - - + -
179E HIS* 4.1 13.0 - - + -
182E ALA* 4.4 0.4 - - + -
224E ILE* 2.8 33.4 + - + +
225E LEU* 3.5 4.9 - - - +
227E ARG* 1.3 76.9 - - - +
229E CYS* 1.3 62.5 + - - +
231E ASP* 3.1 12.6 + - - +
232E PHE* 3.2 34.8 - - + -
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Residues in contact with CYS 229 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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139E LEU* 3.7 30.1 - - - -
175E ILE* 3.8 17.0 - - - -
225E LEU* 2.7 34.9 + - - +
226E HIS* 3.7 5.6 - - - +
228E VAL* 1.3 71.5 - - - +
230E GLU* 1.3 67.2 + - - +
232E PHE* 2.9 12.4 + - - +
233E GLY 3.0 10.0 + - - -
234E VAL* 3.1 34.1 + - + +
235E ILE* 4.6 0.2 - - - -
236E ALA* 3.9 17.0 - - - +
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Residues in contact with GLU 230 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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165A VAL* 3.5 4.3 - - - +
166A GLY 2.8 36.9 + - - +
167A ALA* 3.8 18.1 - - - +
170A ALA* 3.6 13.8 - - - +
173A ARG* 2.7 56.3 + - - +
11E LYS* 4.5 5.4 + - - +
226E HIS 2.8 17.4 + - - +
227E ARG* 3.3 11.2 + - - +
229E CYS* 1.3 76.8 - - - +
231E ASP* 1.3 62.9 + - - +
233E GLY* 3.0 13.7 + - - -
234E VAL 3.8 0.6 + - - -
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Residues in contact with ASP 231 (chain E).
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* 4.7 1.4 - - - +
13D ILE* 3.5 29.0 - - + +
17D TYR* 2.5 30.9 + - - +
11E LYS* 3.3 38.2 + - + +
14E LYS* 4.5 12.0 + - - -
89E PHE* 4.6 0.3 - - - -
227E ARG* 2.8 31.9 + - - -
228E VAL 3.1 9.9 + - - +
230E GLU* 1.3 79.3 - - - +
232E PHE* 1.3 57.6 + - + +
233E GLY 3.2 1.2 + - - -
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Residues in contact with PHE 232 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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10D ASN 3.5 40.5 + - - +
13D ILE* 3.8 27.1 - - + -
14D LYS* 3.8 14.8 - - - -
17D TYR* 4.5 2.0 - + - -
174E ASP* 3.6 31.9 - - + -
175E ILE* 3.7 29.4 - - + -
178E ALA* 4.0 8.3 - - + -
228E VAL* 3.2 40.4 - - + -
229E CYS 2.9 8.1 + - - +
231E ASP* 1.3 77.2 - - - +
233E GLY* 1.3 62.1 + - - +
234E VAL* 3.3 11.7 + - + +
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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
------------------------------------------------------------
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