Contacts of the helix formed by residues 212 - 232 (chain J) 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 J).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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114J ARG* 3.7 39.0 - - + +
117J CYS* 3.8 21.5 - - + -
118J LYS* 3.6 49.4 - - + +
121J MET* 3.6 11.3 - - + +
210J GLU 3.3 1.6 + - - +
211J GLY* 1.3 71.4 - - - -
213J SER* 1.3 69.5 + - - +
214J MET 3.2 1.4 + - - -
215J GLY* 3.2 11.3 + - - -
216J ASP* 3.3 12.5 + - - +
349J PHE* 3.9 13.4 - - + -
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Residues in contact with SER 213 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
209J CYS* 3.4 15.8 - - - +
210J GLU* 3.0 21.2 + - - +
211J GLY 3.1 1.4 - - - -
212J ILE* 1.3 82.9 - - - +
214J MET* 1.3 59.8 + - - +
216J ASP* 3.8 11.0 - - - -
217J HIS* 2.8 49.1 + - - +
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Residues in contact with MET 214 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131J PHE* 3.4 53.4 - - + +
133J MET* 3.5 41.7 - - + -
206J ILE* 3.5 36.3 - - + +
209J CYS* 3.4 15.7 - - + +
211J GLY 3.2 14.1 + - - +
212J ILE 3.1 0.8 - - - -
213J SER* 1.3 78.8 + - - +
215J GLY* 1.3 58.4 + - - +
217J HIS* 3.8 0.3 - - - -
218J LEU* 2.9 32.8 + - + +
352J THR* 3.8 9.0 - - + -
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Residues in contact with GLY 215 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
211J GLY 4.6 0.2 + - - -
212J ILE 3.2 4.4 + - - -
214J MET* 1.3 77.1 - - - +
216J ASP* 1.3 64.8 + - - +
217J HIS 3.3 0.2 + - - -
218J LEU* 3.3 1.0 + - - +
219J TRP* 2.9 29.1 + - - -
348J PRO* 3.8 21.8 - - - -
349J PHE* 3.4 26.6 - - - -
352J THR* 5.0 2.8 + - - +
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Residues in contact with ASP 216 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82J ALA 4.6 0.3 - - - +
83J ALA* 3.9 28.4 - - + +
85J PHE* 4.8 0.7 - - + -
98J LEU* 3.7 14.0 - - + +
114J ARG* 2.7 45.4 + - - -
212J ILE* 3.3 16.5 + - - +
213J SER* 3.7 10.5 - - - +
215J GLY* 1.3 72.8 - - - +
217J HIS* 1.3 68.8 + - + +
220J VAL* 3.0 31.0 + - - +
349J PHE* 3.4 9.0 - - - -
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Residues in contact with HIS 217 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
85J PHE* 3.7 24.9 - + - -
187J GLY 3.4 24.5 - - - -
188J VAL* 3.6 8.1 - - + +
189J LYS* 2.9 33.7 + - + +
206J ILE* 3.6 18.8 - - + -
209J CYS* 4.0 6.7 - - - -
213J SER* 2.8 45.3 + - - +
214J MET 3.9 0.9 - - - +
216J ASP* 1.3 76.8 - - + +
218J LEU* 1.3 52.5 + - - +
220J VAL* 3.7 0.9 - - - +
221J ALA* 2.7 36.4 + - - +
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Residues in contact with LEU 218 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133J MET* 4.0 29.8 - - + +
135J GLN* 3.9 28.5 - - + +
204J PHE* 4.0 15.0 - - + -
206J ILE* 3.9 23.0 - - + +
214J MET* 2.9 23.9 + - + +
215J GLY 4.0 2.0 - - - +
217J HIS* 1.3 72.6 - - - +
219J TRP* 1.3 61.1 + - - +
221J ALA* 3.2 5.1 + - - +
222J ARG* 2.7 45.3 + - - +
252J CYS* 4.1 7.4 - - - -
348J PRO* 3.9 21.3 - - + -
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Residues in contact with TRP 219 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31J ILE* 6.1 0.2 - - - -
33J ILE* 3.3 28.1 - - + +
37J GLY 3.9 16.6 - - - -
38J GLU* 4.0 20.9 - - - -
40J LEU* 3.9 33.4 - - + +
98J LEU* 4.1 18.8 - - + -
215J GLY 2.9 25.6 + - - +
216J ASP 4.1 2.2 - - - +
218J LEU* 1.3 75.2 - - - +
220J VAL* 1.3 59.5 + - - +
222J ARG* 3.1 39.0 + - - +
223J PHE* 2.8 27.5 + - - +
238J PHE* 6.1 0.9 - + - -
345J ASN 6.0 0.7 - - - -
346J CYS 4.8 1.3 - - - -
347J ASP* 3.0 40.2 + - + -
348J PRO* 3.5 13.0 - - + +
349J PHE* 3.4 22.0 - + - -
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Residues in contact with VAL 220 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31J ILE* 4.8 8.3 - - + -
85J PHE* 3.5 35.9 - - + -
96J LEU* 4.0 28.5 - - + -
98J LEU* 4.0 27.4 - - + +
188J VAL* 4.3 5.6 - - + -
216J ASP 3.0 18.8 + - - +
217J HIS 4.0 1.8 - - - +
219J TRP* 1.3 72.5 - - - +
221J ALA* 1.3 66.2 + - - +
223J PHE* 3.1 5.3 + - + +
224J ILE* 2.9 30.6 + - + +
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Residues in contact with ALA 221 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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179J HIS* 3.2 16.2 + - - +
183J CYS* 4.6 4.0 - - - -
188J VAL* 4.0 15.5 - - + +
204J PHE* 3.5 28.0 - - + -
206J ILE* 4.0 8.7 - - + -
217J HIS 2.7 19.2 + - - +
218J LEU* 3.2 13.0 - - - +
220J VAL* 1.3 71.2 - - - +
222J ARG* 1.3 57.0 + - - +
224J ILE* 3.1 3.2 + - - +
225J LEU* 2.9 24.4 + - - +
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Residues in contact with ARG 222 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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40J LEU* 4.2 7.9 - - + -
135J GLN* 2.9 23.4 + - + +
204J PHE* 4.8 1.6 - - + -
218J LEU* 2.7 33.6 + - + +
219J TRP* 3.3 47.1 - - - +
221J ALA* 1.3 70.0 - - - +
223J PHE* 1.3 68.1 + - - +
225J LEU* 3.2 8.5 + - - +
226J HIS* 3.0 28.4 + - - -
238J PHE* 3.5 34.0 - - + -
252J CYS* 4.8 0.2 - - - -
344J ALA 3.0 24.5 + - - -
345J ASN 4.1 1.9 + - - -
346J CYS* 2.7 39.4 + - - +
348J PRO* 3.5 9.6 - - - +
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Residues in contact with PHE 223 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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165F VAL* 4.1 18.8 - - + -
29J MET* 3.6 28.5 - - - -
31J ILE* 3.7 40.4 - - + -
40J LEU* 3.7 22.4 - - + +
41J ARG 5.0 1.1 - - - -
42J CYS* 3.8 26.2 - - + -
89J PHE* 4.5 3.4 - + - -
96J LEU* 4.3 14.6 - - + -
219J TRP 2.8 13.2 + - - +
220J VAL* 3.1 11.6 + - - +
222J ARG* 1.3 75.9 - - - +
224J ILE* 1.3 62.1 + - + +
226J HIS* 3.2 4.7 + - - +
227J ARG* 3.0 48.5 + - + +
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Residues in contact with ILE 224 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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88J PRO* 4.4 2.5 - - + -
89J PHE* 3.6 19.5 - - + -
96J LEU* 4.1 18.8 - - + -
179J HIS* 3.7 11.0 - - + -
182J ALA* 3.4 29.8 - - + -
183J CYS* 4.2 10.8 - - - -
186J ALA* 3.8 29.4 - - + -
188J VAL* 4.1 15.0 - - + -
220J VAL* 2.9 24.0 + - + +
221J ALA 3.5 6.3 - - - +
223J PHE* 1.3 73.5 - - - +
225J LEU* 1.3 58.6 + - - +
228J VAL* 2.8 29.7 + - + +
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Residues in contact with LEU 225 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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137J TYR* 3.8 36.3 - - + +
175J ILE* 4.0 15.7 - - + -
179J HIS* 3.4 24.4 - - + +
204J PHE* 4.1 6.3 - - + -
221J ALA 2.9 12.0 + - - +
222J ARG* 3.5 9.0 - - - +
224J ILE* 1.3 77.2 - - - +
226J HIS* 1.3 57.1 + - - +
228J VAL* 3.8 1.2 - - + +
229J CYS* 2.8 47.7 + - - -
236J ALA* 3.5 25.8 - - + -
238J PHE* 3.8 20.6 - - + -
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Residues in contact with HIS 226 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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165F VAL* 4.0 30.3 - - + +
166F GLY* 4.2 8.1 - - - -
38J GLU 5.8 2.4 + - - -
40J LEU* 4.3 16.7 - - + +
222J ARG 3.0 24.3 + - - -
223J PHE 3.7 4.5 - - - +
225J LEU* 1.3 75.5 - - - +
227J ARG* 1.3 58.3 + - - +
229J CYS* 3.5 5.1 + - - +
230J GLU* 2.9 28.1 + - - +
236J ALA* 3.5 40.1 + - + +
238J PHE* 3.5 29.6 - + - -
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Residues in contact with ARG 227 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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165F VAL* 3.7 16.5 - - + +
173F ARG* 3.7 37.6 - - - +
177F GLU* 4.6 7.7 + - - -
14J LYS* 3.8 20.2 - - - +
29J MET* 5.5 6.0 - - - +
89J PHE* 3.3 55.9 - - + +
223J PHE* 3.0 38.3 + - + +
226J HIS* 1.3 75.0 - - - +
228J VAL* 1.3 66.0 + - - +
230J GLU* 3.4 11.7 + - - +
231J ASP* 2.7 37.8 + - - +
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Residues in contact with VAL 228 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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17I TYR* 3.6 32.3 - - + -
89J PHE* 3.8 6.5 - - + -
175J ILE* 3.8 26.9 - - + +
178J ALA* 3.9 5.4 - - + -
179J HIS* 4.0 16.2 - - + +
182J ALA* 4.2 0.7 - - + -
224J ILE* 2.8 38.0 + - + +
225J LEU* 3.8 4.0 - - - +
227J ARG* 1.3 71.6 - - - +
229J CYS* 1.3 61.3 + - - +
231J ASP* 2.8 27.5 + - - +
232J PHE* 3.2 29.2 + - + -
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Residues in contact with CYS 229 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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139J LEU* 3.5 31.6 - - - -
175J ILE* 3.7 17.7 - - - -
225J LEU* 2.8 31.4 + - - +
226J HIS* 3.8 5.6 - - - +
228J VAL* 1.3 78.4 - - - +
230J GLU* 1.3 61.3 + - - +
232J PHE* 2.9 12.8 + - - +
233J GLY 3.0 9.9 + - - -
234J VAL* 3.1 30.7 + - + +
235J ILE* 4.6 0.2 - - - -
236J ALA* 4.0 16.2 - - - +
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Residues in contact with GLU 230 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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165F VAL* 3.6 4.2 - - - +
166F GLY 2.8 25.6 + - - -
167F ALA* 3.7 29.1 - - - +
170F ALA* 3.5 15.9 - - - +
173F ARG* 2.7 53.8 + - - +
11J LYS* 4.8 2.6 + - - -
226J HIS 2.9 17.1 + - - +
227J ARG* 3.4 12.6 + - - +
229J CYS* 1.3 76.1 - - - +
231J ASP* 1.3 63.2 + - - +
233J GLY* 3.1 12.6 + - - -
234J VAL 3.9 0.6 + - - -
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Residues in contact with ASP 231 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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174F ASP* 4.8 0.2 - - - +
13I ILE* 3.3 35.3 - - + +
17I TYR* 2.4 34.6 + - - +
11J LYS* 3.3 35.8 + - - +
14J LYS* 4.4 7.5 + - - -
89J PHE* 4.7 0.5 - - - -
227J ARG* 2.7 32.1 + - - -
228J VAL 2.8 17.7 + - - +
230J GLU* 1.3 75.0 - - - +
232J PHE* 1.3 56.4 + - - -
233J GLY 3.4 0.7 + - - -
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Residues in contact with PHE 232 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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10I ASN 3.7 37.2 + - - +
13I ILE* 3.8 26.9 - - + -
14I LYS* 3.9 15.0 - - - -
17I TYR* 4.6 1.1 - + - -
174J ASP* 3.6 35.9 - - + -
175J ILE* 3.8 32.8 - - + -
178J ALA* 4.0 8.3 - - + -
228J VAL* 3.2 38.3 + - + -
229J CYS 2.9 8.0 + - - +
231J ASP* 1.3 77.0 - - - +
233J GLY* 1.3 62.5 + - - +
234J VAL* 3.4 9.3 + - + +
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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