Contacts of the helix formed by residues 212 - 233 (chain G) 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 G).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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114G ARG* 3.8 39.0 - - + +
117G CYS* 3.6 23.3 - - + +
118G LYS* 3.4 51.6 - - + +
121G MET* 3.5 12.1 - - + +
210G GLU 3.3 1.2 + - - +
211G GLY* 1.3 71.8 - - - -
213G SER* 1.3 64.8 + - - +
214G MET 3.0 6.2 + - - -
215G GLY* 3.2 12.0 + - - +
216G ASP* 3.3 11.4 + - - +
349G PHE* 3.9 9.4 - - + -
352G THR* 6.1 0.2 - - - -
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Residues in contact with SER 213 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
209G CYS* 3.6 7.3 - - - +
210G GLU* 2.7 30.6 + - - +
211G GLY 3.1 0.2 - - - -
212G ILE* 1.3 81.1 - - - +
214G MET* 1.3 63.5 + - - +
215G GLY 3.4 0.2 - - - -
216G ASP* 3.8 13.7 - - - -
217G HIS* 3.1 39.2 + - - +
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Residues in contact with MET 214 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131G PHE* 3.4 51.1 - - + +
133G MET* 3.6 37.9 - - + -
206G ILE* 3.3 39.0 - - + +
209G CYS* 3.5 12.7 - - + +
211G GLY 3.0 15.2 + - - +
213G SER* 1.3 79.7 + - - +
215G GLY* 1.3 57.5 + - - +
217G HIS* 3.8 0.3 - - - -
218G LEU* 2.9 36.0 + - + +
352G THR* 3.8 9.6 - - + -
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Residues in contact with GLY 215 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
211G GLY 4.5 0.2 + - - -
212G ILE 3.2 3.8 + - - -
214G MET* 1.3 76.3 - - - +
216G ASP* 1.3 65.8 + - - +
219G TRP* 3.0 30.7 + - - -
348G PRO* 3.8 24.7 - - - -
349G PHE* 3.6 23.2 - - - -
352G THR* 5.2 2.0 + - - +
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Residues in contact with ASP 216 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82G ALA 4.9 0.3 - - - +
83G ALA* 3.6 27.7 - - + +
85G PHE* 4.7 0.7 - - + -
98G LEU* 3.8 10.4 - - + +
114G ARG* 2.7 45.4 + - - -
212G ILE* 3.3 11.7 + - - +
213G SER* 4.1 13.8 - - - -
214G MET 3.3 0.6 - - - -
215G GLY* 1.3 77.7 - - - +
217G HIS* 1.3 69.4 + - + +
219G TRP* 4.0 1.2 - - - +
220G VAL* 3.1 29.2 + - - +
349G PHE* 3.4 8.3 - - - -
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Residues in contact with HIS 217 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
85G PHE* 3.8 24.3 - + - -
187G GLY 3.4 17.3 - - - -
188G VAL* 3.5 10.2 - - + +
189G LYS* 2.9 42.0 + - + +
206G ILE* 3.8 17.9 - - + -
209G CYS* 4.1 6.3 - - - -
213G SER* 3.1 37.1 + - - +
214G MET 3.9 0.4 - - - +
216G ASP* 1.3 81.7 - - + +
218G LEU* 1.3 58.4 + - - +
220G VAL* 3.3 1.2 + - - +
221G ALA* 2.8 31.0 + - - +
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Residues in contact with LEU 218 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133G MET* 3.5 38.1 - - + +
135G GLN* 4.0 30.1 - - + +
204G PHE* 4.0 6.1 - - + -
206G ILE* 4.0 22.8 - - + +
214G MET* 2.9 25.7 + - + +
217G HIS* 1.3 75.9 - - - +
219G TRP* 1.3 56.5 + - - +
221G ALA* 3.2 5.8 - - - +
222G ARG* 2.8 40.8 + - - +
252G CYS* 4.1 10.8 - - - -
348G PRO* 3.8 17.7 - - + -
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Residues in contact with TRP 219 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33G ILE* 3.3 26.3 - - + +
37G GLY 3.7 18.4 - - - -
38G GLU* 3.9 21.5 - - - -
40G LEU* 3.8 35.5 - - + +
98G LEU* 4.3 17.3 - - + -
215G GLY 3.0 27.5 + - - +
216G ASP 4.0 2.0 - - - +
218G LEU* 1.3 76.0 - - - +
220G VAL* 1.3 59.1 + - - +
222G ARG* 3.0 36.1 + - - +
223G PHE* 2.8 27.8 + - - +
238G PHE* 6.0 1.3 - + - -
345G ASN 5.8 1.3 - - - -
346G CYS 4.9 0.4 - - - -
347G ASP* 3.2 39.0 + - - -
348G PRO* 3.4 13.5 - - + +
349G PHE* 3.4 21.7 - + - -
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Residues in contact with VAL 220 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31G ILE* 4.9 10.8 - - + -
85G PHE* 3.5 38.4 - - + -
96G LEU* 4.4 14.1 - - + -
98G LEU* 3.8 26.9 - - + +
188G VAL* 4.0 13.5 - - + -
216G ASP 3.1 18.8 + - - +
217G HIS 3.9 1.8 - - - +
219G TRP* 1.3 74.7 - - - +
221G ALA* 1.3 57.3 + - - +
223G PHE* 3.0 6.7 + - + +
224G ILE* 2.8 40.6 + - + +
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Residues in contact with ALA 221 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
179G HIS* 2.8 26.7 + - - -
183G CYS* 4.4 11.4 - - - -
188G VAL* 4.0 7.2 - - + +
204G PHE* 3.7 26.9 - - + -
206G ILE* 3.8 15.9 - - + -
217G HIS 2.8 18.2 + - - +
218G LEU* 3.2 11.2 - - - +
220G VAL* 1.3 72.4 - - - +
222G ARG* 1.3 56.3 + - - +
224G ILE* 3.4 1.1 + - - +
225G LEU* 3.0 12.6 + - - +
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Residues in contact with ARG 222 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40G LEU* 4.1 7.6 - - + -
135G GLN* 3.0 29.8 + - + +
204G PHE* 4.9 1.8 - - + -
218G LEU* 2.8 31.4 + - + +
219G TRP* 3.2 49.4 - - - +
221G ALA* 1.3 71.0 - - - +
223G PHE* 1.3 66.9 + - - +
225G LEU* 3.3 4.6 + - - +
226G HIS* 3.1 31.0 + - - -
238G PHE* 3.5 36.2 - - + -
344G ALA 3.1 16.8 + - - -
345G ASN 4.8 2.1 + - - -
346G CYS* 2.8 39.2 + - - +
348G PRO* 3.6 9.3 - - - +
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Residues in contact with PHE 223 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29G MET* 3.7 17.0 - - - -
31G ILE* 3.6 43.7 - - + -
40G LEU* 3.8 21.0 - - + +
41G ARG 4.6 2.0 - - - -
42G CYS* 3.7 39.0 - - + -
89G PHE* 4.5 3.1 - + - -
96G LEU* 4.4 15.5 - - + -
219G TRP 2.8 15.8 + - - +
220G VAL* 3.0 8.0 + - - +
222G ARG* 1.3 72.7 - - - +
224G ILE* 1.3 68.7 + - - +
226G HIS* 3.2 7.1 + - - +
227G ARG* 3.0 43.4 + - + +
165H VAL* 4.0 19.1 - - + -
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Residues in contact with ILE 224 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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88G PRO* 4.5 1.6 - - + -
89G PHE* 3.6 19.0 - - + -
96G LEU* 4.1 21.1 - - + -
179G HIS* 3.6 13.9 - - + +
182G ALA* 3.4 32.8 - - + +
183G CYS* 4.1 9.4 - - - -
186G ALA* 3.9 28.9 - - + -
188G VAL* 4.1 9.9 - - + -
220G VAL* 2.8 28.7 + - + +
221G ALA 3.6 4.3 - - - +
223G PHE* 1.3 78.7 - - + +
225G LEU* 1.3 56.1 + - - +
227G ARG 3.5 0.2 + - - -
228G VAL* 2.9 35.6 + - + +
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Residues in contact with LEU 225 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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137G TYR* 3.7 44.2 - - + +
175G ILE* 3.8 26.9 - - + -
179G HIS* 3.4 29.5 - - + +
204G PHE* 4.1 7.9 - - + -
221G ALA 3.0 11.7 + - - +
222G ARG* 3.7 6.1 - - - +
223G PHE 3.2 0.2 - - - -
224G ILE* 1.3 73.9 - - - +
226G HIS* 1.3 59.7 + - - +
228G VAL* 3.3 2.3 + - + -
229G CYS* 2.8 37.4 + - - +
236G ALA* 3.7 17.3 - - + -
238G PHE* 3.8 20.6 - - + -
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Residues in contact with HIS 226 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38G GLU 5.8 1.6 + - - -
40G LEU* 4.3 15.6 - - + +
222G ARG 3.1 24.0 + - - -
223G PHE 3.7 5.2 - - - +
225G LEU* 1.3 74.7 - - - +
227G ARG* 1.3 52.4 + - - +
229G CYS* 3.2 6.3 + - - +
230G GLU* 2.7 34.3 + - - +
235G ILE* 6.1 0.2 - - - +
236G ALA* 3.2 41.4 + - + +
238G PHE* 3.6 26.3 - + - -
165H VAL* 4.0 32.7 + - + +
166H GLY* 4.4 7.5 - - - -
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Residues in contact with ARG 227 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14G LYS* 3.9 19.8 - - - +
29G MET* 5.5 6.3 - - - +
89G PHE* 3.2 56.4 - - + +
223G PHE* 3.0 32.0 + - + +
226G HIS* 1.3 74.7 - - - +
228G VAL* 1.3 66.8 + - - +
230G GLU* 3.1 20.1 + - - +
231G ASP* 2.9 32.8 + - - -
165H VAL* 3.7 21.1 - - + +
173H ARG* 3.6 38.7 - - - +
177H GLU* 4.8 7.3 + - - +
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Residues in contact with VAL 228 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17F TYR* 3.7 33.2 - - + -
89G PHE* 3.7 6.0 - - + -
175G ILE* 3.8 19.1 - - + +
178G ALA* 3.8 23.8 - - + -
179G HIS* 4.2 9.2 - - + +
182G ALA* 4.1 6.1 - - + -
224G ILE* 2.9 35.9 + - + +
225G LEU* 3.7 5.4 - - - +
227G ARG* 1.3 75.5 - - - +
229G CYS* 1.3 62.5 + - - +
231G ASP* 3.0 12.3 + - - +
232G PHE* 3.2 26.1 - - + -
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Residues in contact with CYS 229 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139G LEU* 3.7 19.1 - - - -
175G ILE* 3.7 26.2 - - - -
225G LEU* 2.8 25.3 + - - +
226G HIS* 3.5 7.4 - - - +
228G VAL* 1.3 78.4 - - - +
230G GLU* 1.3 63.7 + - - +
232G PHE* 2.9 13.2 + - - +
233G GLY 3.0 10.2 + - - -
234G VAL* 3.1 33.7 + - + +
235G ILE* 4.7 0.2 - - - -
236G ALA* 3.8 21.1 - - - +
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Residues in contact with GLU 230 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11G LYS* 4.4 4.4 + - - -
226G HIS 2.7 13.3 + - - +
227G ARG* 3.1 19.2 + - - +
229G CYS* 1.3 76.9 - - - +
231G ASP* 1.3 60.0 - - - +
233G GLY* 3.2 12.1 + - - -
234G VAL 4.1 0.6 + - - -
165H VAL* 3.7 4.3 - - - +
166H GLY 3.0 35.0 + - - +
167H ALA* 3.9 17.2 - - - +
170H ALA* 3.5 14.1 - - - +
173H ARG* 2.7 56.8 + - - +
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Residues in contact with ASP 231 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13F ILE* 3.2 36.1 - - + +
17F TYR* 2.3 34.5 + - - +
11G LYS* 3.4 31.4 + - - +
14G LYS* 4.3 12.7 + - - -
89G PHE* 4.6 0.2 - - - -
227G ARG* 2.9 33.8 + - - -
228G VAL 3.0 8.7 + - - +
230G GLU* 1.3 76.2 - - - +
232G PHE* 1.3 61.3 + - + +
233G GLY 3.3 1.0 + - - -
174H ASP* 4.7 0.7 - - - +
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Residues in contact with PHE 232 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10F ASN 3.4 43.4 + - - +
13F ILE* 4.0 17.7 - - + -
14F LYS* 3.8 23.1 - - - -
17F TYR* 4.7 1.8 - + - -
174G ASP* 3.7 28.9 - - + -
175G ILE* 3.9 23.6 - - + -
178G ALA* 4.0 8.5 - - + -
228G VAL* 3.2 38.2 + - + -
229G CYS 2.9 7.3 + - - +
231G ASP* 1.3 76.0 - - - +
233G GLY* 1.3 62.7 + - - +
234G VAL* 3.3 20.7 + - + +
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Residues in contact with GLY 233 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141G GLY* 5.3 0.3 - - - -
142G THR* 4.4 17.7 + - - +
229G CYS 3.0 3.9 + - - -
230G GLU 3.2 7.9 + - - -
231G ASP 3.2 6.5 + - - -
232G PHE* 1.3 78.9 - - - +
234G VAL* 1.3 61.7 + - - +
167H ALA* 4.0 13.0 - - - +
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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) + - + + + + + -
------------------------------------------------------------
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