Contacts of the helix formed by residues 190 - 212 (chain C) in PDB entry 2RCY
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 SER 190 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
226A PRO* 4.3 11.2 - - - -
188C GLY 3.9 1.4 + - - -
189C LEU* 1.3 73.9 - - - +
191C ARG* 1.3 56.4 + - - +
192C GLU* 3.9 6.3 + - - +
193C LEU* 3.2 29.0 + - - +
194C SER* 2.7 37.2 + - - -
67E LYS* 5.7 0.9 - - - +
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Residues in contact with ARG 191 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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221A ASP* 2.9 65.0 + - - +
222A ASN* 6.2 0.9 - - - +
224A VAL* 4.0 19.4 + - - +
226A PRO* 5.0 3.0 - - - +
181C ILE* 3.9 13.7 - - + +
182C ASP* 3.5 24.2 + - - +
185C VAL* 3.8 37.5 - - + +
189C LEU 3.9 1.4 + - - -
190C SER* 1.3 73.2 - - - +
192C GLU* 1.3 62.5 + - - +
194C SER* 3.8 1.6 - - - -
195C LYS* 3.1 26.5 + - + +
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Residues in contact with GLU 192 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
190C SER* 3.2 6.8 + - - +
191C ARG* 1.3 79.4 - - - +
193C LEU* 1.3 57.7 + - - +
195C LYS* 3.5 16.3 + - - +
196C ASN* 3.1 45.4 + - - +
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Residues in contact with LEU 193 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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152B HIS* 4.2 19.1 - - + +
154B ILE* 3.7 31.9 - - + -
158B ASP* 5.4 2.7 - - - +
189C LEU* 3.7 28.5 - - + -
190C SER* 3.2 21.6 + - - +
192C GLU* 1.3 75.8 - - - +
194C SER* 1.3 66.5 + - - +
196C ASN* 3.2 8.2 + - - +
197C LEU* 2.9 50.7 + - + +
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Residues in contact with SER 194 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165B ILE* 5.0 2.9 - - - -
181C ILE* 3.8 31.2 - - - -
184C GLY* 3.8 13.3 - - - -
185C VAL* 3.8 0.9 + - - +
189C LEU* 3.3 27.1 - - - +
190C SER 2.7 22.6 + - - -
191C ARG 3.8 0.2 - - - -
193C LEU* 1.3 77.4 - - - +
195C LYS* 1.3 56.9 + - - +
197C LEU* 3.3 3.4 + - - +
198C VAL* 2.9 36.9 + - - +
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Residues in contact with LYS 195 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
209B VAL* 4.4 22.6 + - + -
210B LYS* 6.3 0.7 - - - +
216B VAL* 5.5 2.0 - - + -
181C ILE* 3.7 28.6 - - + +
191C ARG* 3.1 18.2 + - + +
192C GLU* 3.5 16.1 - - - +
194C SER* 1.3 79.3 - - - +
196C ASN* 1.3 64.3 + - - +
198C VAL* 3.3 1.4 + - - +
199C LEU* 2.9 54.5 + - + +
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Residues in contact with ASN 196 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152B HIS* 4.3 30.1 + - + +
192C GLU* 3.1 35.2 + - - +
193C LEU* 3.2 10.5 + - - +
195C LYS* 1.3 85.9 - - - +
197C LEU* 1.3 64.7 + - + +
199C LEU* 4.2 7.2 - - - +
200C GLN* 3.2 26.2 + - - +
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Residues in contact with LEU 197 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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124B SER* 4.0 11.5 + - - +
125B PHE 4.8 0.2 - - - +
126B ILE* 3.8 29.2 - - + -
152B HIS* 3.9 19.1 - - + +
162B ALA* 3.9 22.9 - - + -
165B ILE* 4.4 11.0 - - + -
166B SER* 3.9 20.0 - - - +
189C LEU* 4.4 12.8 - - + -
193C LEU* 2.9 40.8 + - + +
194C SER* 3.8 3.6 - - - +
196C ASN* 1.3 73.5 - - - +
198C VAL* 1.3 57.1 + - - +
200C GLN 4.0 0.3 - - - -
201C THR* 2.6 38.8 + - - -
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Residues in contact with VAL 198 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165B ILE* 3.7 18.8 - - + -
177C ILE* 4.0 22.2 - - + -
180C LEU* 3.6 45.5 - - + +
181C ILE* 4.0 2.9 - - + -
194C SER 2.9 30.0 + - - +
195C LYS* 3.6 5.6 - - - +
197C LEU* 1.3 74.6 - - - +
199C LEU* 1.3 58.9 + - - +
201C THR* 3.2 5.3 + - - -
202C ILE* 3.0 52.4 + - + +
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Residues in contact with LEU 199 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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206B VAL* 3.7 27.2 - - + +
209B VAL* 3.8 31.0 - - + -
210B LYS* 3.7 32.1 - - + +
177C ILE* 4.0 26.5 - - + -
195C LYS* 2.9 46.4 + - + +
196C ASN* 4.3 7.9 - - - +
198C VAL* 1.3 73.0 - - - +
200C GLN* 1.3 57.1 + - - +
202C ILE* 3.6 3.0 + - - +
203C LYS* 3.0 29.6 + - - +
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Residues in contact with GLN 200 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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115B ASN* 5.3 0.2 + - - -
122B GLU* 3.2 43.4 + - - +
123B GLY 2.9 28.7 + - - +
124B SER* 3.7 16.7 - - - +
149B GLY* 4.2 1.4 - - - -
150B ILE* 3.4 40.6 - - + +
152B HIS* 6.4 0.4 - - - +
210B LYS* 4.9 3.3 + - - +
196C ASN 3.2 19.7 + - - +
197C LEU 4.1 2.7 - - - +
199C LEU* 1.3 74.7 - - - +
201C THR* 1.3 60.2 + - - +
203C LYS* 3.9 11.1 - - - +
204C GLY* 3.1 24.9 + - - -
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Residues in contact with THR 201 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115B ASN* 4.2 8.5 - - - +
117B PRO* 4.6 1.9 - - - +
124B SER* 3.9 5.1 - - - -
165B ILE* 3.7 4.6 + - - +
166B SER* 3.4 22.2 + - - +
169B GLY* 3.6 13.2 - - - +
170B PRO* 3.5 38.1 - - + -
173B VAL* 4.6 4.0 - - + -
197C LEU 2.6 23.4 + - - -
198C VAL* 3.2 6.5 + - - -
200C GLN* 1.3 77.9 - - - +
202C ILE* 1.3 53.4 + - - +
204C GLY* 3.6 0.9 + - - -
205C SER* 2.7 36.5 + - - +
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Residues in contact with ILE 202 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
173B VAL* 3.8 32.3 - - + -
202B ILE* 3.4 32.3 - - + -
206B VAL* 3.7 11.4 - - + -
173C VAL* 5.4 1.8 - - + -
176C PHE* 4.5 9.9 - - + -
177C ILE* 3.6 33.4 - - + -
180C LEU* 4.4 9.4 - - + -
198C VAL* 3.0 27.0 + - + +
199C LEU* 4.0 4.0 - - - +
201C THR* 1.3 75.5 - - - +
203C LYS* 1.3 64.4 - - - +
205C SER* 3.2 1.7 + - - -
206C VAL* 3.0 24.6 + - + +
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Residues in contact with LYS 203 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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122B GLU* 3.2 37.0 + - + +
206B VAL* 4.8 6.0 - - + +
207B GLU* 5.0 8.7 - - - -
210B LYS* 3.7 28.0 - - + +
263B MG 3.4 18.5 - - - -
199C LEU 3.0 19.5 + - - +
200C GLN* 3.8 12.6 - - - +
202C ILE* 1.3 75.4 - - - +
204C GLY* 1.3 62.0 + - - +
206C VAL* 3.7 2.9 + - - +
207C GLU* 3.3 33.3 + - - +
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Residues in contact with GLY 204 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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117B PRO* 3.5 13.2 - - - +
120B VAL* 4.2 0.5 - - - +
122B GLU* 3.4 32.9 - - - +
200C GLN 3.1 12.5 + - - -
201C THR 4.0 0.2 - - - -
203C LYS* 1.3 73.6 - - - +
205C SER* 1.3 59.5 + - - +
207C GLU* 3.3 3.5 + - - +
208C MSE 3.0 31.7 + - - +
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Residues in contact with SER 205 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117B PRO* 3.8 1.5 - - - +
170B PRO* 3.2 28.2 - - - +
173B VAL* 3.7 23.4 - - - +
174B TYR* 3.3 24.3 - - - -
177B ILE* 4.7 0.9 - - - -
201C THR 2.7 22.6 + - - -
202C ILE 3.6 4.3 - - - -
204C GLY* 1.3 74.5 - - - +
206C VAL* 1.3 63.7 + - - +
208C MSE 3.2 1.0 + - - -
209C VAL* 3.2 28.4 + - - +
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Residues in contact with VAL 206 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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177B ILE* 4.4 9.4 - - + -
199B LEU* 3.8 43.0 - - + +
202B ILE* 3.7 32.1 - - + -
203B LYS* 4.7 3.4 - - + -
263B MG 3.8 15.3 - - - -
202C ILE* 3.0 21.9 + - + +
203C LYS 3.9 2.0 - - - +
205C SER* 1.3 75.4 - - - +
207C GLU* 1.3 59.6 + - - +
209C VAL* 3.4 4.2 + - - +
210C LYS* 3.0 39.0 + - + +
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Residues in contact with GLU 207 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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120B VAL* 3.9 20.6 - - + +
122B GLU* 4.7 9.8 - - + +
203B LYS* 5.6 6.7 - - - -
203C LYS* 3.3 27.7 + - - +
204C GLY* 3.5 11.2 - - - +
205C SER 3.2 0.6 - - - -
206C VAL* 1.3 81.0 - - - +
208C MSE 1.3 56.3 + - - +
210C LYS* 3.3 19.2 - - - +
211C LYS* 3.0 65.5 + - - +
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Residues in contact with MSE 208 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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18B ALA* 6.0 0.2 - - + -
116B THR* 3.7 34.1 - - - +
117B PRO* 3.6 11.0 - - + -
119B LEU* 4.1 23.8 - - + -
120B VAL* 3.8 26.0 - - + -
174B TYR* 3.2 29.8 - - + +
204C GLY 3.0 18.8 + - - +
205C SER 3.2 5.1 + - - +
207C GLU* 1.3 75.0 - - - +
209C VAL* 1.3 59.7 + - - +
212C SER* 3.0 39.4 + - - -
219C LEU* 3.8 26.4 - - + +
222C ASN* 5.7 3.4 - - + +
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Residues in contact with VAL 209 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174B TYR* 3.7 22.9 - - + -
177B ILE* 3.9 13.2 - - + -
195B LYS* 4.1 22.8 + - + -
199B LEU* 3.8 25.4 - - + +
205C SER 3.2 14.3 + - - +
206C VAL 3.7 6.3 - - - +
208C MSE 1.3 77.3 - - - +
210C LYS* 1.3 62.7 + - - +
211C LYS 3.6 0.2 + - - -
212C SER 4.2 9.2 + - - +
214C GLN 5.4 1.1 - - - +
216C VAL* 3.5 31.9 - - + -
219C LEU* 3.9 9.8 - - + +
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Residues in contact with LYS 210 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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195B LYS* 6.3 0.4 - - - +
199B LEU* 4.0 34.5 + - + +
200B GLN* 4.3 7.9 + - - +
203B LYS* 3.5 33.9 - - - +
150C ILE* 5.9 2.2 - - - +
206C VAL* 3.0 20.5 + - + +
207C GLU* 3.3 24.9 - - - +
209C VAL* 1.3 79.6 - - - +
211C LYS* 1.3 65.5 + - + +
212C SER 4.9 1.2 - - - +
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Residues in contact with LYS 211 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120B VAL* 3.8 37.2 + - + +
207C GLU* 3.0 44.6 + - + +
210C LYS* 1.3 83.4 - - + +
212C SER* 1.3 63.6 + - - +
213C ASP 4.0 0.9 + - - -
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Residues in contact with SER 212 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119B LEU* 6.2 2.9 - - - -
208C MSE 3.0 23.9 + - - +
209C VAL 4.2 7.3 - - - +
210C LYS 3.7 1.4 - - - +
211C LYS* 1.3 80.2 - - - +
213C ASP* 1.3 67.2 + - - +
214C GLN* 3.0 33.4 + - - +
219C LEU* 3.6 18.2 - - - +
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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