Contacts of the helix formed by residues 186 - 204 (chain B) 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 B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150B GLU* 3.0 9.8 + - - +
177B VAL* 5.6 0.9 - - + -
179B VAL* 4.1 15.3 - - + -
184B GLY 3.7 0.4 - - - -
185B PHE* 1.3 87.4 - - - +
187B VAL* 1.3 71.2 + - - +
188B ASN 3.5 0.9 - - - -
189B ARG* 3.4 2.9 + - - +
190B ILE* 3.2 38.1 + - + +
201C ILE* 4.1 12.8 - - + -
207C ALA* 4.0 26.9 - - + -
211C ASP 5.5 0.7 - - - +
212C ILE* 4.1 19.1 - - + +
215C ALA* 3.9 21.8 - - + -
216C MET* 4.6 1.3 - - - -
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Residues in contact with VAL 187 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138B HIS* 6.3 0.4 - - + -
140B PHE* 3.8 35.2 - - + -
148B LEU* 3.9 3.8 - - + -
150B GLU* 3.0 21.4 + - - +
184B GLY 3.8 0.4 + - - -
186B VAL* 1.3 76.0 - - - +
188B ASN* 1.3 59.1 + - - +
190B ILE* 3.1 1.7 + - - +
191B LEU* 2.7 57.5 + - + +
215C ALA* 3.6 30.3 - - + +
216C MET* 3.8 12.3 - - - +
219C GLY* 4.3 12.8 - - - +
220C ALA 4.7 0.4 - - - +
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Residues in contact with ASN 188 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117B SER* 4.2 23.8 + - - -
138B HIS* 4.4 12.8 - - - -
140B PHE* 5.8 2.2 - - - -
150B GLU* 5.3 0.4 + - - -
184B GLY* 3.5 18.4 + - - +
185B PHE* 5.8 1.2 - - - -
187B VAL* 1.3 86.4 - - - +
189B ARG* 1.3 63.1 + - - +
191B LEU* 4.3 4.5 - - - +
192B ILE* 3.0 42.7 + - + +
193B PRO* 3.3 5.4 - - - +
241B ILE* 3.6 32.6 - - + +
245B LEU* 4.6 1.9 - - - +
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Residues in contact with ARG 189 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182B ALA* 5.3 2.2 - - - +
183B PRO* 3.2 44.4 + - - +
184B GLY* 3.2 9.4 + - - +
185B PHE 3.5 19.3 - - - +
186B VAL 3.5 4.5 - - - +
187B VAL 3.2 0.4 - - - -
188B ASN* 1.3 77.7 - - - +
190B ILE* 1.3 57.6 + - - +
193B PRO* 3.1 22.5 - - - +
245B LEU* 3.8 14.3 - - - +
249B THR* 4.0 12.7 - - - +
254B TYR* 2.5 37.3 + - - -
197C GLU* 2.7 26.9 + - + +
201C ILE* 3.6 25.5 - - + +
204C GLU* 5.4 5.1 + - - -
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Residues in contact with ILE 190 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
186B VAL* 3.2 17.5 + - + +
187B VAL 3.1 5.9 + - - +
189B ARG* 1.3 76.7 - - - +
191B LEU* 1.3 66.0 + - - +
192B ILE 3.6 0.2 - - - -
193B PRO* 3.7 8.2 - - - +
194B MET* 3.7 12.1 + - - +
194C MET* 3.5 39.7 - - + +
197C GLU* 4.0 15.8 - - + +
198C ALA* 4.0 22.9 - - + +
201C ILE* 3.9 18.8 - - + -
212C ILE* 4.3 2.5 - - + -
216C MET* 3.6 37.5 - - + -
226C PRO* 4.2 2.9 - - + -
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Residues in contact with LEU 191 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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187B VAL* 2.7 34.4 + - + +
188B ASN* 4.4 4.3 - - - +
190B ILE* 1.3 77.1 - - - +
192B ILE* 1.3 66.8 + - + +
194B MET* 2.9 45.8 - - + +
195B ILE* 3.4 6.5 + - + +
229B LEU* 4.0 27.1 - - + -
233B ILE* 4.7 12.6 - - + -
216C MET* 4.2 6.7 - - + -
219C GLY 5.3 1.6 - - - +
220C ALA* 4.1 29.8 - - + -
222C HIS* 4.4 5.4 - - - +
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Residues in contact with ILE 192 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
188B ASN* 3.0 30.9 + - - +
191B LEU* 1.3 74.9 - - + +
193B PRO* 1.3 70.6 - - + +
194B MET 3.1 1.8 - - - -
195B ILE* 3.1 8.5 + - + +
196B ASN* 2.9 24.1 + - - +
233B ILE* 4.3 20.2 - - + -
238B CYS* 3.5 51.4 - - + +
241B ILE* 3.7 28.9 - - + -
242B MET* 3.8 13.0 - - + -
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Residues in contact with PRO 193 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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188B ASN 3.3 5.8 - - - +
189B ARG 3.1 28.5 - - - +
190B ILE* 3.7 4.9 - - - +
191B LEU 3.6 2.2 - - - -
192B ILE* 1.3 90.0 - - + +
194B MET* 1.3 55.4 + - - +
196B ASN* 3.6 5.3 + - + +
197B GLU* 2.7 35.3 + - - +
242B MET* 3.8 25.1 - - + -
245B LEU* 4.0 9.4 - - + -
254B TYR* 4.5 12.3 - - + -
197C GLU* 5.4 3.8 - - + +
253C LYS* 5.9 0.2 + - - -
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Residues in contact with MET 194 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
190B ILE* 3.7 8.7 + - + +
191B LEU* 2.9 35.4 + - + +
193B PRO* 1.3 77.2 - - - +
195B ILE* 1.3 63.2 + - - +
197B GLU* 3.2 6.1 + - - +
198B ALA* 3.1 21.0 + - - +
216B MET* 5.4 0.9 - - - -
222B HIS* 4.3 15.3 - - + -
226B PRO* 4.3 11.8 - - + +
229B LEU* 5.6 3.4 - - - -
190C ILE* 3.1 31.3 - - + +
194C MET* 2.2 55.4 - - + -
222C HIS* 3.9 15.3 - - + -
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Residues in contact with ILE 195 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
191B LEU* 3.4 8.7 + - + +
192B ILE* 3.1 15.5 + - + +
194B MET* 1.3 77.3 - - + +
196B ASN* 1.3 62.0 - - - +
198B ALA* 3.0 14.4 + - - +
199B VAL* 3.0 24.1 + - + +
226B PRO* 3.7 30.3 - - + +
227B LEU* 5.0 3.4 - - + -
229B LEU* 4.0 20.2 - - + -
230B GLY* 3.8 30.1 - - - +
233B ILE* 4.1 9.4 - - + -
235B LEU* 5.2 5.6 - - + -
238B CYS* 3.8 25.6 - - + -
260B LEU* 6.1 3.4 - - + -
277B PHE* 5.6 0.4 - - + -
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Residues in contact with ASN 196 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
192B ILE* 2.9 15.2 + - + +
193B PRO* 3.6 5.7 + - - +
195B ILE* 1.3 74.4 - - - +
197B GLU* 1.3 66.4 + - - +
199B VAL* 3.3 17.2 + - - +
200B GLY* 3.4 9.5 + - - -
242B MET* 3.6 27.0 - - + +
253B LYS 5.5 0.6 + - - -
255B ARG 3.3 20.2 + - - -
256B PRO* 3.4 4.5 - - - +
257B HIS* 2.8 34.3 + - - +
260B LEU* 3.8 13.4 - - + +
253C LYS* 4.3 15.0 - - - +
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Residues in contact with GLU 197 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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193B PRO 2.7 21.7 + - - +
194B MET* 3.5 8.5 - - - +
195B ILE 3.2 0.2 - - - -
196B ASN* 1.3 74.1 - - - +
198B ALA* 1.3 63.1 + - - +
200B GLY* 3.1 11.5 + - - -
201B ILE* 3.2 14.0 + - - +
189C ARG* 2.9 49.5 + - - +
190C ILE* 4.3 9.0 - - + +
193C PRO* 5.4 3.9 - - + +
253C LYS* 3.1 31.6 + - - +
254C TYR* 2.6 30.6 + - - -
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Residues in contact with ALA 198 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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194B MET 3.1 6.2 + - - +
195B ILE 3.0 11.7 + - - +
197B GLU* 1.3 78.8 - - - +
199B VAL* 1.3 62.4 + - - +
201B ILE* 3.2 7.3 + - - +
202B LEU* 3.0 21.5 + - - +
212B ILE* 4.0 10.0 - - + +
226B PRO* 3.7 34.5 - - + -
227B LEU* 3.7 12.1 - - + -
190C ILE* 3.9 13.0 - - + +
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Residues in contact with VAL 199 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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195B ILE* 3.0 23.6 - - + +
196B ASN* 3.7 9.9 - - - +
197B GLU 3.3 0.4 - - - -
198B ALA* 1.3 75.0 - - - +
200B GLY* 1.3 58.5 + - - +
202B LEU* 3.4 8.1 + - - +
203B ALA* 2.8 27.9 + - - +
227B LEU* 4.2 7.2 - - + -
257B HIS* 3.5 29.8 - - + +
259B LEU* 4.1 7.2 - - + +
260B LEU* 4.0 27.4 - - + +
277B PHE* 4.0 28.0 - - + -
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Residues in contact with GLY 200 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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196B ASN 3.4 8.1 + - - -
197B GLU* 3.1 8.4 + - - -
199B VAL* 1.3 75.9 - - - +
201B ILE* 1.3 63.9 + - - +
203B ALA* 3.2 2.3 + - - +
204B GLU* 2.9 35.2 + - - +
257B HIS* 3.4 27.3 + - - -
189C ARG* 5.3 1.1 - - - -
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Residues in contact with ILE 201 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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197B GLU 3.2 13.3 + - - +
198B ALA* 3.5 6.7 - - - +
200B GLY* 1.3 74.1 - - - +
202B LEU* 1.3 67.0 + - - +
203B ALA 3.3 0.3 + - - -
204B GLU* 3.3 6.8 + - - -
206B ILE* 3.1 56.6 + - + +
207B ALA 4.2 1.3 - - - +
212B ILE* 4.0 18.6 - - + -
185C PHE 4.2 3.8 - - - +
186C VAL* 4.1 16.8 - - + +
189C ARG* 4.0 34.7 - - + +
190C ILE* 3.9 33.7 - - + -
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Residues in contact with LEU 202 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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198B ALA 3.0 13.3 + - - +
199B VAL* 3.4 8.3 - - - +
201B ILE* 1.3 75.7 - - - +
203B ALA* 1.3 57.7 - - - +
205B GLY* 2.9 22.2 + - - -
207B ALA 3.8 16.3 - - - +
208B SER* 4.3 1.8 - - - -
209B VAL* 3.9 30.3 - - + +
212B ILE* 3.8 10.9 - - + +
227B LEU* 4.5 7.6 - - + -
259B LEU* 4.1 15.3 - - + -
263B TYR* 4.4 6.1 - - - +
277B PHE* 3.7 35.7 - - + -
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Residues in contact with ALA 203 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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199B VAL 2.8 21.3 + - - +
200B GLY 3.6 3.6 - - - +
201B ILE 3.2 0.8 - - - -
202B LEU* 1.3 74.0 - - - +
204B GLU* 1.3 57.9 + - + +
205B GLY 3.2 2.6 + - - -
257B HIS* 3.5 28.7 - - + +
259B LEU* 3.7 19.5 - - + -
204E GLU* 3.8 28.7 - - + +
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Residues in contact with GLU 204 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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200B GLY* 2.9 21.3 + - - +
201B ILE* 3.3 4.5 + - - +
202B LEU 3.3 0.6 - - - -
203B ALA* 1.3 76.4 - - + +
205B GLY* 1.3 63.3 + - - +
206B ILE* 3.2 22.5 - - + +
257B HIS* 5.8 2.9 - - - +
189C ARG* 4.1 20.1 + - - -
203E ALA* 3.7 25.4 - - + +
204E GLU* 4.8 10.6 - - + +
257E HIS* 4.4 19.8 + - - -
258E THR* 5.2 7.3 - - - +
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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
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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