Contacts of the helix formed by residues 219 - 238 (chain A) in PDB entry 3CXW
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 HIS 219 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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195A ASP 3.4 27.2 + - - -
196A THR* 3.7 11.7 - - - -
197A VAL* 3.0 34.9 + - + +
198A TYR* 4.6 1.6 - - - -
211A GLU* 5.1 0.8 + - - -
217A ARG* 5.1 0.9 - - - -
218A TYR* 1.3 75.9 - - - +
220A GLY* 1.3 66.9 + - - +
221A ARG* 3.5 2.7 - - + +
222A SER* 3.5 16.4 + - - +
223A ALA* 3.1 25.1 + - - +
275A PRO* 6.3 0.4 - - - +
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Residues in contact with GLY 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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164A LEU* 3.5 36.7 - - - +
193A LEU* 4.8 3.8 - - - -
194A LYS 5.0 4.0 + - - -
196A THR 5.0 0.8 + - - -
198A TYR* 3.8 14.1 - - - -
218A TYR* 4.6 3.1 - - - -
219A HIS* 1.3 74.4 - - - +
221A ARG* 1.3 60.4 + - - +
223A ALA* 3.7 1.7 - - - +
224A ALA* 3.0 28.9 + - - +
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Residues in contact with ARG 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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159A HIS* 4.0 27.9 + - + +
193A LEU* 3.5 34.4 - - + +
194A LYS 3.5 15.8 + - - -
195A ASP* 2.9 32.7 + - - +
219A HIS* 3.5 1.6 - - + +
220A GLY* 1.3 75.4 - - - +
222A SER* 1.3 58.9 + - - +
224A ALA* 3.1 5.4 + - - +
225A VAL* 3.0 33.3 + - + +
281A PHE* 4.9 4.6 - - + -
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Residues in contact with SER 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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211A GLU* 4.4 1.2 + - - -
219A HIS* 3.5 23.5 + - - +
221A ARG* 1.3 77.4 - - - +
223A ALA* 1.3 58.2 + - - +
225A VAL* 3.4 7.1 + - - +
226A TRP 3.1 18.4 + - - -
275A PRO* 3.7 42.9 - - - +
278A ARG* 3.0 23.7 + - - +
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Residues in contact with ALA 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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207A TYR 4.9 1.2 - - - +
209A PRO* 3.9 27.1 - - + +
211A GLU* 4.5 0.8 + - - +
218A TYR* 3.5 25.4 - - + -
219A HIS 3.1 20.5 + - - +
220A GLY 3.7 2.2 - - - +
222A SER* 1.3 75.3 + - - +
224A ALA* 1.3 63.6 + - - +
226A TRP* 3.4 4.7 + - - +
227A SER* 3.1 22.0 + - - -
278A ARG* 4.0 3.1 - - - +
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Residues in contact with ALA 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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159A HIS* 4.1 23.6 - - + +
164A LEU* 4.6 4.5 - - + -
166A ARG 6.3 0.7 - - - +
168A ILE* 4.3 14.8 - - + -
220A GLY 3.0 15.3 + - - +
221A ARG 3.1 8.3 + - - +
223A ALA* 1.3 74.6 - - - +
225A VAL* 1.3 57.4 + - - +
227A SER* 2.6 25.7 + - - -
228A LEU* 3.0 19.7 + - - +
281A PHE* 4.5 7.4 - - + -
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Residues in contact with VAL 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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221A ARG* 3.0 19.9 + - + +
222A SER* 3.8 10.1 - - - +
223A ALA 3.3 0.2 - - - -
224A ALA* 1.3 73.8 - - - +
226A TRP* 1.3 59.3 + - - +
228A LEU* 3.2 9.8 + - - +
229A GLY 2.9 23.9 + - - -
270A CYS* 3.7 22.1 - - - +
278A ARG* 3.9 7.2 - - + -
279A PRO* 3.4 46.0 - - + +
280A THR* 4.9 1.1 - - - -
281A PHE* 3.8 27.6 - - + -
284A ILE* 4.0 6.5 - - + -
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Residues in contact with TRP 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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206A VAL 4.9 0.8 + - - -
207A TYR* 3.4 20.7 + - - +
208A SER 3.1 16.8 + - - -
209A PRO* 3.7 9.0 - - + -
210A PRO* 3.5 35.7 - - + -
222A SER 3.1 13.9 + - - +
223A ALA 3.5 8.1 - - - +
225A VAL* 1.3 74.2 - - - +
227A SER* 1.3 61.8 + - - +
229A GLY 3.0 11.4 + - - -
230A ILE* 3.1 23.8 + - + +
242A PHE* 3.7 30.0 - + - -
248A ILE* 3.6 22.8 - - + +
251A GLY* 6.2 0.7 - - - -
270A CYS 3.5 9.9 + - - -
271A LEU* 3.1 57.0 - - + +
272A ALA 3.7 4.0 - - - -
273A LEU* 4.6 4.3 - - + -
278A ARG* 3.7 19.1 - - - +
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Residues in contact with SER 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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168A ILE* 3.5 41.0 - - - +
207A TYR* 3.6 28.8 - - - -
223A ALA 3.1 12.0 + - - -
224A ALA* 2.6 23.1 + - - -
226A TRP* 1.3 75.6 - - - +
228A LEU* 1.3 55.4 + - - +
230A ILE* 3.5 4.4 + - - +
231A LEU* 3.0 26.7 + - - +
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Residues in contact with LEU 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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148A PHE* 3.3 26.3 - - + -
151A VAL* 3.6 30.5 - - + -
152A LEU* 4.1 25.4 - - + -
155A VAL* 4.5 5.4 - - + -
168A ILE* 3.8 23.3 - - + -
224A ALA 3.0 21.3 + - - +
225A VAL* 3.4 9.9 - - - +
226A TRP 3.1 0.2 - - - -
227A SER* 1.3 74.3 - - - +
229A GLY* 1.3 57.0 + - - +
231A LEU* 3.2 5.0 + - + +
232A LEU 2.8 26.2 + - - -
270A CYS* 4.9 0.4 - - - -
281A PHE* 3.8 29.4 - - + -
284A ILE* 4.8 5.4 - - + -
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Residues in contact with GLY 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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225A VAL 2.9 11.3 + - - -
226A TRP 3.0 4.4 + - - -
228A LEU* 1.3 71.4 - - - +
230A ILE* 1.3 63.8 + - - +
232A LEU* 3.5 5.9 + - - +
233A TYR* 3.1 24.6 + - - +
267A ILE* 4.0 9.3 - - - +
270A CYS* 3.6 24.4 - - - +
271A LEU* 3.8 12.3 - - - -
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Residues in contact with ILE 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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206A VAL 4.0 15.3 - - - +
207A TYR* 3.4 31.4 - - + -
226A TRP* 3.1 33.1 + - + +
227A SER 3.6 7.2 - - - +
229A GLY* 1.3 74.3 - - - +
231A LEU* 1.3 59.0 + - - +
233A TYR* 3.4 2.9 + - - +
234A ASP* 2.9 29.1 + - - +
240A ILE* 3.8 17.0 - - + -
241A PRO* 3.5 30.4 - - + +
242A PHE* 3.8 16.4 - - + -
271A LEU* 3.7 14.8 - - + -
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Residues in contact with LEU 231 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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129A LEU* 4.1 11.0 - - + -
148A PHE* 4.5 4.7 - - + -
151A VAL* 3.9 20.2 - - + -
168A ILE* 4.3 10.3 - - + -
169A LYS* 4.0 2.9 - - - -
170A ASP* 3.5 40.6 - - + +
173A ILE* 3.8 19.1 - - + -
207A TYR* 4.0 6.9 - - + +
227A SER 3.0 14.3 + - - +
228A LEU* 3.2 13.2 + - + +
230A ILE* 1.3 77.9 - - - +
232A LEU* 1.3 57.8 + - - +
234A ASP* 3.3 10.4 + - - +
235A MET* 2.9 45.0 + - + +
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Residues in contact with LEU 232 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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144A ALA* 4.5 4.9 - - + -
148A PHE* 3.7 33.8 - - + -
228A LEU 2.8 20.0 + - - +
229A GLY* 4.0 4.9 - - - +
231A LEU* 1.3 71.6 - - - +
233A TYR* 1.3 62.7 + - - +
235A MET* 3.1 6.1 + - + +
236A VAL* 3.0 31.2 + - + +
263A CYS* 4.5 2.5 - - - -
266A LEU* 3.9 33.0 - - + -
267A ILE* 3.6 27.6 - - + +
270A CYS* 5.8 0.9 - - - -
289A TRP* 3.6 33.2 - - + -
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Residues in contact with TYR 233 (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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229A GLY 3.1 17.9 + - - +
230A ILE 3.6 4.3 - - - +
232A LEU* 1.3 74.9 - - - +
234A ASP* 1.3 58.0 + - - +
235A MET 3.3 0.2 + - - -
236A VAL* 3.3 1.8 + - - +
237A CYS* 2.9 50.1 + - + +
239A ASP 3.1 28.7 - - - -
241A PRO* 3.5 36.6 - - + -
253A VAL* 3.9 19.5 - - + -
254A PHE 2.6 28.8 + - - -
255A PHE* 3.8 24.0 - + - -
256A ARG* 3.0 33.3 + - - -
267A ILE* 3.9 15.3 - - + +
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Residues in contact with ASP 234 (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 ILE* 3.4 14.4 - - - +
170A ASP* 2.7 32.7 - - - +
207A TYR* 3.6 2.1 + - - +
230A ILE 2.9 18.5 + - - +
231A LEU* 3.3 11.2 - - - +
233A TYR* 1.3 75.9 - - - +
235A MET* 1.3 56.5 + - - +
238A GLY* 2.8 30.7 + - - -
239A ASP* 3.4 20.0 - - - -
240A ILE* 3.6 17.0 + - + +
4B ARG* 2.8 27.4 + - - -
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Residues in contact with MET 235 (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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129A LEU* 3.6 25.6 - - + -
133A ILE* 3.9 21.3 - - + +
137A GLY 4.7 0.3 - - - +
138A ALA* 3.7 2.3 - - - -
139A LEU* 2.9 39.4 + - + +
144A ALA* 3.8 34.3 - - + +
147A PHE* 3.8 24.7 - - + +
148A PHE* 4.1 15.3 - - + +
151A VAL* 4.5 2.5 - - + -
231A LEU* 2.9 36.8 + - + +
232A LEU* 3.1 11.0 + - - +
234A ASP* 1.3 79.6 - - - +
236A VAL* 1.3 60.2 + - - +
237A CYS 3.6 0.2 + - - -
238A GLY* 4.7 0.2 - - - -
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Residues in contact with VAL 236 (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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138A ALA* 3.4 14.1 - - - +
139A LEU 4.1 9.2 - - - +
141A GLU* 4.3 15.0 - - + -
144A ALA* 3.6 27.4 - - + -
232A LEU* 3.0 21.7 + - + +
233A TYR* 3.7 4.3 - - - +
235A MET* 1.3 75.5 - - - +
237A CYS* 1.3 62.7 + - - +
257A GLN* 3.8 10.7 - - - +
258A ARG 5.0 1.0 - - - +
259A VAL* 3.8 28.6 - - + +
263A CYS* 4.0 16.6 - - - -
267A ILE* 3.8 21.5 - - + -
289A TRP* 4.6 0.4 - - + -
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Residues in contact with CYS 237 (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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138A ALA* 3.8 6.8 - - - +
233A TYR* 2.9 52.6 + - + +
236A VAL* 1.3 81.1 - - - +
238A GLY* 1.3 59.9 + - - +
239A ASP 3.4 3.8 + - - +
255A PHE* 3.7 24.0 - - - -
256A ARG* 3.8 16.9 - - + +
257A GLN* 3.5 30.8 + - - +
259A VAL* 3.9 9.0 - - - -
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Residues in contact with GLY 238 (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 ILE* 3.5 25.5 - - - +
137A GLY* 4.3 2.3 - - - -
138A ALA* 3.9 17.5 - - - +
234A ASP 2.8 14.9 + - - -
236A VAL 3.8 0.8 - - - -
237A CYS* 1.3 76.7 - - - +
239A ASP* 1.3 61.9 + - - +
4B ARG* 3.5 14.0 + - - -
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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
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Atomic class I II III IV V VI VII VIII
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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