Contacts of the helix formed by residues 186 - 204 (chain E) in PDB entry 6ACQ
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 VAL 186 (chain E).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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201D ILE* 4.4 12.6 - - + -
207D ALA* 4.0 27.4 - - + -
211D ASP 5.5 0.2 - - - +
212D ILE* 4.1 20.6 - - + +
215D ALA* 3.7 24.5 - - + -
216D MET* 4.4 6.5 - - - -
150E GLU* 2.9 7.8 + - - +
177E VAL* 5.7 0.7 - - + -
179E VAL* 4.1 18.6 - - + -
184E GLY 3.8 0.7 - - - -
185E PHE* 1.3 87.3 - - - +
187E VAL* 1.3 66.7 + - - +
188E ASN 3.6 0.2 - - - -
189E ARG* 3.7 1.4 - - - +
190E ILE* 3.3 33.5 + - + +
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Residues in contact with VAL 187 (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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215D ALA* 3.6 31.6 - - + +
216D MET* 3.9 11.1 - - + +
219D GLY* 4.5 13.9 - - - +
220D ALA 4.8 0.4 - - - +
140E PHE* 3.8 35.2 - - + -
148E LEU* 3.9 5.8 - - + -
150E GLU* 2.9 16.1 + - - +
184E GLY 3.8 0.2 + - - -
186E VAL* 1.3 74.9 - - - +
188E ASN* 1.3 66.4 + - - +
190E ILE* 3.2 2.3 + - - +
191E LEU* 2.8 48.7 + - + +
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Residues in contact with ASN 188 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117E SER* 3.7 30.9 + - - -
138E HIS* 4.5 13.5 - - - -
140E PHE* 5.5 2.3 - - - -
150E GLU* 5.0 0.6 + - - -
184E GLY* 3.4 16.3 + - - +
185E PHE* 5.6 1.2 - - - -
187E VAL* 1.3 84.3 - - - +
189E ARG* 1.3 64.2 + - - +
191E LEU* 4.7 1.5 - - - +
192E ILE* 3.0 37.7 + - - +
193E PRO* 3.2 5.7 - - - +
241E ILE* 3.8 36.5 - - + +
245E LEU* 4.7 0.7 - - - +
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Residues in contact with ARG 189 (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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197D GLU* 2.8 38.4 + - - +
200D GLY 5.2 1.0 - - - -
201D ILE* 3.8 26.6 - - + +
204D GLU* 4.8 14.6 + - - +
206D ILE* 5.6 2.6 - - - +
182E ALA* 5.5 5.1 - - - +
183E PRO* 3.0 37.7 + - - +
184E GLY* 3.1 6.5 + - - +
185E PHE 3.6 21.0 + - - +
186E VAL 3.7 4.3 - - - +
188E ASN* 1.3 80.2 - - - +
190E ILE* 1.3 56.1 + - - +
193E PRO* 3.1 20.3 - - - +
245E LEU* 4.2 13.0 - - + +
249E THR* 3.8 25.5 - - - +
254E TYR* 3.4 21.3 + - - -
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Residues in contact with ILE 190 (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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194D MET* 3.2 37.8 - - + +
197D GLU* 4.0 13.5 - - + -
198D ALA* 3.9 22.2 - - + -
201D ILE* 3.8 23.3 - - + -
212D ILE* 4.5 2.0 - - + -
216D MET* 3.6 35.9 - - + -
226D PRO* 4.3 2.2 - - + -
186E VAL* 3.3 22.2 + - + +
187E VAL 3.2 1.6 + - - -
188E ASN 3.1 0.2 - - - -
189E ARG* 1.3 80.3 - - - +
191E LEU* 1.3 65.6 + - - +
192E ILE 3.6 0.2 - - - -
193E PRO* 3.8 3.4 - - - +
194E MET* 3.7 17.5 + - - +
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Residues in contact with LEU 191 (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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216D MET* 4.4 4.3 - - + -
219D GLY 5.4 1.8 - - - +
220D ALA* 3.9 32.3 - - + -
222D HIS* 4.2 9.0 - - + +
187E VAL* 2.8 33.5 + - + +
188E ASN* 5.7 0.9 - - - +
190E ILE* 1.3 73.6 - - - +
192E ILE* 1.3 73.5 + - + +
194E MET* 3.1 41.5 + - - +
195E ILE* 3.2 8.5 + - + +
229E LEU* 4.0 30.3 - - + -
233E ILE* 4.4 15.7 - - + -
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Residues in contact with ILE 192 (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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188E ASN* 3.0 26.2 + - - +
191E LEU* 1.3 83.7 - - + +
193E PRO* 1.3 65.1 - - + +
195E ILE* 2.9 24.4 + - + +
196E ASN* 2.9 24.1 + - - +
233E ILE* 4.3 17.0 - - + -
238E CYS* 3.6 41.7 - - + +
241E ILE* 3.8 28.3 - - + -
242E MET* 3.7 13.7 - - + -
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Residues in contact with PRO 193 (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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197D GLU* 5.7 3.4 - - + +
253D LYS* 5.5 1.7 + - - -
188E ASN 3.2 14.6 - - - +
189E ARG 3.1 20.2 - - - +
190E ILE 3.8 3.4 - - - +
191E LEU 3.7 1.8 - - - -
192E ILE* 1.3 92.1 - - + +
194E MET* 1.3 57.4 + - - +
196E ASN* 3.6 3.6 + - + +
197E GLU* 3.0 27.0 + - - +
242E MET* 3.8 21.1 - - + -
245E LEU* 3.9 18.8 - - + -
254E TYR* 4.4 12.1 - - + -
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Residues in contact with MET 194 (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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190D ILE* 3.4 29.2 - - + +
194D MET* 2.3 51.6 - - + -
222D HIS* 4.2 9.4 - - + -
190E ILE* 3.7 9.2 + - + +
191E LEU* 3.1 33.1 + - + +
192E ILE 3.0 0.6 - - - -
193E PRO* 1.3 78.0 - - - +
195E ILE* 1.3 65.3 + - - +
197E GLU* 3.3 9.0 + - - +
198E ALA* 3.2 19.9 + - - +
216E MET* 5.7 0.4 - - + -
222E HIS* 4.4 15.7 - - + -
226E PRO* 4.3 10.2 - - + +
229E LEU* 5.6 2.5 - - - -
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Residues in contact with ILE 195 (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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191E LEU* 3.8 7.9 - - + +
192E ILE* 2.9 19.6 + - + +
194E MET* 1.3 76.5 - - + +
196E ASN* 1.3 63.7 + - - +
198E ALA* 3.1 10.6 + - - +
199E VAL* 3.1 27.5 + - + +
226E PRO* 3.6 32.3 - - + +
227E LEU* 5.3 2.9 - - + -
229E LEU* 4.0 20.2 - - + -
230E GLY* 3.9 26.5 - - - +
233E ILE* 4.0 8.1 - - + -
235E LEU* 5.4 4.3 - - + -
238E CYS* 4.0 28.5 - - + -
260E LEU* 6.1 2.9 - - + -
277E PHE* 5.6 0.7 - - + -
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Residues in contact with ASN 196 (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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253D LYS* 4.2 16.8 + - - +
192E ILE 2.9 11.8 + - - +
193E PRO 3.6 8.7 + - - +
194E MET 3.3 0.2 - - - -
195E ILE* 1.3 78.1 - - - +
197E GLU* 1.3 62.1 + - - +
199E VAL* 3.5 10.6 + - - +
200E GLY* 3.2 16.5 + - - -
242E MET* 3.7 25.8 - - + +
253E LYS 5.6 0.4 + - - -
255E ARG 3.2 22.6 + - - -
256E PRO* 3.4 4.4 - - - +
257E HIS* 2.8 32.6 + - - +
260E LEU* 4.1 13.5 - - + +
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Residues in contact with GLU 197 (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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189D ARG* 2.7 55.3 + - + +
190D ILE* 4.0 14.4 - - + +
193D PRO* 5.6 3.1 - - + +
253D LYS* 3.2 23.8 + - - +
254D TYR* 2.7 23.6 + - - -
193E PRO 3.0 13.8 + - - +
194E MET* 3.5 12.1 - - - +
195E ILE 3.1 0.4 - - - -
196E ASN* 1.3 76.7 - - - +
198E ALA* 1.3 64.7 + - - +
200E GLY* 3.0 4.5 + - - -
201E ILE* 3.0 23.2 + - - +
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Residues in contact with ALA 198 (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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190D ILE* 4.0 12.5 - - + +
194E MET 3.2 3.6 + - - +
195E ILE 3.1 10.0 + - - +
197E GLU* 1.3 80.1 - - - +
199E VAL* 1.3 61.7 + - - +
201E ILE* 3.3 6.6 + - - +
202E LEU* 3.1 21.8 + - - +
212E ILE* 3.8 9.1 - - + +
226E PRO* 3.6 36.1 - - + -
227E LEU* 3.7 15.4 - - + +
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Residues in contact with VAL 199 (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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195E ILE* 3.1 23.5 + - + +
196E ASN* 4.0 7.4 - - - +
197E GLU 3.2 0.2 - - - -
198E ALA* 1.3 76.7 - - - +
200E GLY* 1.3 57.6 + - - +
202E LEU* 3.6 6.3 - - + +
203E ALA* 2.9 28.2 + - - +
227E LEU* 4.0 8.3 - - + +
257E HIS* 3.6 29.2 - - + +
259E LEU* 4.1 7.2 - - + +
260E LEU* 4.1 27.4 - - + +
277E PHE* 3.8 31.6 - - + -
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Residues in contact with GLY 200 (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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189D ARG* 6.3 1.3 - - - -
196E ASN 3.2 8.7 + - - -
197E GLU* 3.0 10.9 + - - -
199E VAL* 1.3 79.2 - - - +
201E ILE* 1.3 59.7 + - - +
203E ALA* 3.6 1.7 + - - +
204E GLU* 3.3 31.4 + - - +
257E HIS* 3.4 26.7 + - - -
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Residues in contact with ILE 201 (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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185D PHE 4.3 10.8 - - - +
186D VAL* 4.3 9.6 - - + +
189D ARG* 3.7 33.2 - - + +
190D ILE* 3.9 25.8 - - + -
197E GLU* 3.0 19.9 + - - +
198E ALA* 3.6 6.7 - - - +
199E VAL 3.3 0.2 - - - -
200E GLY* 1.3 75.2 - - - +
202E LEU* 1.3 65.7 + - - +
204E GLU* 3.3 5.9 + - - -
206E ILE* 3.1 49.2 + - + +
207E ALA* 4.2 5.2 - - + +
212E ILE* 3.6 23.1 - - + -
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Residues in contact with LEU 202 (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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198E ALA 3.1 10.7 + - - +
199E VAL* 3.6 7.0 - - - +
201E ILE* 1.3 81.3 - - - +
203E ALA* 1.3 57.5 + - - +
205E GLY* 2.9 20.8 + - - -
207E ALA 3.7 21.4 - - - +
208E SER* 4.2 2.9 - - - -
209E VAL* 3.8 33.2 - - + +
212E ILE* 4.0 5.4 - - + -
227E LEU* 4.5 4.3 - - + -
259E LEU* 4.2 14.4 - - + -
263E TYR* 4.7 7.0 - - - +
277E PHE* 3.8 35.9 - - + -
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Residues in contact with ALA 203 (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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204B GLU* 3.7 29.9 - - + +
199E VAL 2.9 19.0 + - - +
200E GLY 3.8 3.6 - - - +
201E ILE 3.3 0.2 - - - -
202E LEU* 1.3 77.2 - - - +
204E GLU* 1.3 60.1 + - + +
205E GLY 3.2 0.9 + - - -
257E HIS* 3.4 28.9 - - + +
259E LEU* 3.5 21.3 - - + -
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Residues in contact with GLU 204 (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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203B ALA* 3.8 23.1 - - + +
204B GLU* 4.8 11.7 - - - +
257B HIS* 3.9 25.6 + - - -
258B THR* 5.1 8.3 - - - +
182D ALA* 5.7 2.8 - - - +
189D ARG* 4.6 15.4 + - - -
200E GLY 3.3 18.4 + - - +
201E ILE* 3.3 1.7 + - - -
202E LEU 3.1 1.0 - - - -
203E ALA* 1.3 79.4 - - + +
205E GLY* 1.3 61.7 + - - +
206E ILE* 3.2 28.1 + - + +
257E HIS* 5.5 2.5 - - - +
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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