Contacts of the helix formed by residues 206 - 224 (chain A) in PDB entry 1IL0
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 206 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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170A GLN* 3.5 8.8 + - - +
197A VAL* 5.2 2.7 - - + -
198A SER 5.5 0.4 - - - +
199A CYS* 3.9 25.6 - - + -
204A GLY 3.0 0.8 + - - -
205A PHE* 1.3 84.0 - - - +
207A VAL* 1.3 69.9 + - - +
208A ASN 3.4 0.4 - - - -
209A ARG* 3.2 15.6 + - - +
210A LEU* 3.4 18.7 + - + +
221B LEU* 4.3 6.1 - - + -
227B ALA* 3.8 30.5 - - + -
231B ASP* 4.2 25.1 - - + +
232B ILE* 4.1 24.0 - - + +
235B ALA* 3.6 20.9 - - + -
236B MET* 4.6 1.1 - - - -
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Residues in contact with VAL 207 (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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160A PHE* 3.5 44.0 - - + -
168A LEU* 4.2 0.2 - - + -
170A GLN* 3.9 4.8 + - - +
204A GLY 4.0 0.2 + - - -
206A ILE* 1.3 78.3 - - - +
208A ASN* 1.3 55.7 + - - +
210A LEU* 3.3 3.6 + - - +
211A LEU* 2.6 60.8 + - + +
351A CAA 4.9 0.2 - - - -
235B ALA* 3.7 37.2 - - + +
236B MET* 3.8 18.5 - - + +
239B GLY* 4.7 0.2 - - - -
240B ALA* 4.5 8.3 - - + -
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Residues in contact with ASN 208 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137A SER* 3.1 20.7 + - - +
158A HIS* 3.0 31.5 + - - -
170A GLN* 5.4 0.4 - - - +
204A GLY* 3.4 17.7 + - - +
207A VAL* 1.3 73.6 - - - +
209A ARG* 1.3 66.0 + - - +
210A LEU 3.0 2.2 - - - -
211A LEU* 4.1 3.9 - - - +
212A VAL* 2.9 44.3 + - + +
213A PRO* 3.4 0.2 - - - +
261A ILE* 5.4 0.2 - - + -
265A TRP* 3.6 6.0 - - + -
351A CAA 2.9 42.8 + - - +
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Residues in contact with ARG 209 (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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203A PRO* 3.5 34.6 - - - +
204A GLY* 3.6 3.6 + - - -
205A PHE 3.9 8.1 - - - +
206A ILE 3.2 10.4 + - - +
208A ASN* 1.3 78.5 - - - +
210A LEU* 1.3 58.6 + - + +
213A PRO* 3.0 25.9 - - - +
265A TRP* 4.0 13.2 - - - -
272A ASN* 4.5 12.7 - - - +
274A LEU* 3.9 17.5 - - - +
275A HIS* 4.5 14.5 + - - -
217B GLU* 2.9 29.7 + - - +
221B LEU* 4.4 9.9 - - + -
224B ARG* 3.7 36.6 - - - +
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Residues in contact with LEU 210 (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 ILE* 3.4 10.7 + - + +
207A VAL 3.3 6.1 + - - +
208A ASN 3.0 0.2 - - - -
209A ARG* 1.3 84.4 - - + +
211A LEU* 1.3 63.3 + - - +
212A VAL 3.5 0.2 - - - -
213A PRO* 3.6 6.6 - - - +
214A TYR* 3.6 16.6 + - - +
214B TYR* 4.0 26.2 - - + +
217B GLU* 3.5 45.6 - - + +
218B ALA* 3.6 15.0 - - + +
221B LEU* 3.9 20.9 - - + -
232B ILE* 3.9 28.0 - - + -
236B MET* 4.2 14.6 - - + -
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Residues in contact with LEU 211 (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 VAL* 2.6 35.9 + - + +
208A ASN* 4.3 4.3 - - - +
210A LEU* 1.3 73.1 - - - +
212A VAL* 1.3 60.2 + - + +
214A TYR* 3.3 16.0 - - + +
215A LEU* 3.0 43.3 + - + +
249A LEU* 4.0 21.5 - - + -
351A CAA 3.5 36.3 - - + -
214B TYR* 5.6 0.9 - - - -
236B MET* 4.5 6.3 - - + +
240B ALA* 4.7 6.7 - - + -
242B TYR* 3.5 29.4 - - + +
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Residues in contact with VAL 212 (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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208A ASN* 2.9 45.2 + - + +
211A LEU* 1.3 71.3 - - + +
213A PRO* 1.3 63.5 - - + +
215A LEU* 3.0 14.6 + - + +
216A MET* 2.8 30.6 + - + +
258A THR* 5.0 9.9 - - + -
261A ILE* 4.2 17.5 - - + -
262A VAL* 3.8 29.2 - - + -
265A TRP* 3.8 17.3 - - + -
275A HIS* 6.0 0.4 - - - +
351A CAA 5.8 1.8 - - + -
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Residues in contact with PRO 213 (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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208A ASN 3.4 2.0 - - - +
209A ARG* 3.0 31.9 - - - +
210A LEU 3.6 6.5 - - - +
212A VAL* 1.3 94.3 - - + +
214A TYR* 1.3 54.7 + - - +
216A MET* 3.4 9.8 + - + +
217A GLU* 2.8 34.7 + - - +
220A ARG* 4.0 1.2 + - - -
265A TRP* 4.5 1.8 - - + -
274A LEU* 3.8 33.4 - - + +
275A HIS* 4.1 25.1 - - + +
217B GLU* 5.6 4.5 - - + -
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Residues in contact with TYR 214 (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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210A LEU 3.6 13.3 + - - +
211A LEU* 3.3 22.9 - - + +
213A PRO* 1.3 77.4 - - - +
215A LEU* 1.3 89.3 + - + +
217A GLU* 2.8 24.4 + - - +
218A ALA* 2.9 10.7 + - - +
236A MET* 3.5 7.6 - - + +
242A TYR* 3.4 32.7 - + - -
244A MET 5.1 0.2 + - - -
245A GLY 4.9 0.2 - - - -
246A PRO* 2.9 28.6 - - + +
249A LEU* 5.4 1.8 - - + -
210B LEU* 3.9 45.1 - - + -
211B LEU* 5.7 0.7 - - - -
214B TYR* 4.6 17.5 - + + +
242B TYR* 3.9 15.0 - - - -
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Residues in contact with LEU 215 (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 LEU* 3.0 37.3 + - + +
212A VAL* 3.0 13.4 + - + +
214A TYR* 1.3 97.0 - - + +
216A MET* 1.3 63.8 + - + +
218A ALA* 3.2 8.4 + - - +
219A ILE* 3.0 26.2 + - - +
246A PRO* 3.7 28.0 - - + +
249A LEU* 4.0 22.0 - - + -
250A LEU* 4.0 29.3 - - + +
253A VAL* 5.6 5.8 - - + -
258A THR* 5.5 4.3 - - + +
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Residues in contact with MET 216 (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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212A VAL* 2.8 23.2 + - + +
213A PRO* 3.6 5.8 - - + +
215A LEU* 1.3 76.3 - - - +
217A GLU* 1.3 58.0 + - - +
219A ILE* 3.3 13.8 + - + +
220A ARG* 2.9 56.0 + - + +
258A THR* 4.5 6.3 - - + -
262A VAL* 3.9 33.4 - - + -
274A LEU 4.6 3.1 - - - +
276A GLN 3.7 19.7 - - - +
277A PRO* 4.8 0.2 - - + -
278A SER* 3.6 33.2 - - - +
281A LEU* 4.0 17.7 - - + -
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Residues in contact with GLU 217 (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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213A PRO 2.8 22.5 + - - +
214A TYR* 2.8 15.0 + - - +
216A MET* 1.3 76.0 - - - +
218A ALA* 1.3 58.6 + - - +
220A ARG* 2.7 33.3 + - - +
221A LEU* 2.9 29.5 + - - +
224A ARG* 4.6 4.2 + - - -
273A PRO 5.1 1.7 - - - +
274A LEU* 4.6 9.3 - - + +
209B ARG* 2.9 35.0 + - - +
210B LEU* 3.5 17.9 - - + +
213B PRO* 5.6 5.8 - - + -
274B LEU* 3.6 22.5 - - + +
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Residues in contact with ALA 218 (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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214A TYR 2.9 10.0 + - - +
215A LEU 3.2 7.6 + - - +
217A GLU* 1.3 77.0 - - - +
219A ILE* 1.3 63.3 + - + +
221A LEU* 3.2 4.8 + - - +
222A TYR 3.1 16.3 + - - -
232A ILE* 4.2 1.7 - - + +
246A PRO* 3.3 35.2 - - + -
247A PHE* 3.3 20.3 - - + -
250A LEU* 5.7 0.2 - - + -
210B LEU* 3.6 24.1 - - + +
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Residues in contact with ILE 219 (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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215A LEU 3.0 17.6 + - - +
216A MET* 3.5 27.4 - - - +
218A ALA* 1.3 77.0 - - - +
220A ARG* 1.3 58.8 + - + +
222A TYR* 3.1 5.7 + - + +
223A GLU* 3.0 40.2 + - + +
247A PHE* 3.9 11.0 - - + -
250A LEU* 3.6 29.6 - - + -
278A SER* 3.4 27.1 - - - +
280A SER* 4.7 4.3 - - - -
281A LEU* 4.3 15.3 - - + +
298A PHE* 3.6 26.5 - - + -
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Residues in contact with ARG 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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213A PRO 4.0 0.4 + - - -
216A MET* 2.9 53.6 + - + +
217A GLU* 2.7 41.7 + - - +
219A ILE* 1.3 74.7 - - + +
221A LEU* 1.3 59.8 + - - +
223A GLU* 3.7 17.1 - - - +
224A ARG* 2.8 48.9 + - - +
273A PRO 3.4 10.4 + - - -
274A LEU* 2.7 29.0 + - - +
275A HIS 4.1 0.4 - - - -
276A GLN* 3.2 37.0 + - - +
278A SER* 5.9 1.8 - - - -
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Residues in contact with LEU 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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217A GLU 2.9 16.3 + - - +
218A ALA* 3.2 5.8 + - - +
220A ARG* 1.3 76.1 - - - +
222A TYR* 1.3 58.1 + - - +
224A ARG* 3.4 26.3 + - - +
225A GLY 3.5 1.7 + - - -
226A ASP* 3.2 31.9 + - + +
227A ALA* 3.8 21.9 + - + +
232A ILE* 3.6 22.0 - - + -
205B PHE 4.2 13.0 - - - +
206B ILE* 4.1 19.7 - - + +
209B ARG* 4.3 5.2 - - + -
210B LEU* 4.0 27.6 - - + -
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Residues in contact with TYR 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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218A ALA 3.1 3.6 + - - -
219A ILE* 3.1 10.7 + - + +
220A ARG 3.1 0.4 - - - -
221A LEU* 1.3 77.1 - - - +
223A GLU* 1.3 67.1 + - + +
225A GLY* 3.1 17.5 + - - -
227A ALA 3.4 23.2 - - - +
228A SER* 4.0 5.6 - - - -
229A LYS* 3.2 59.8 + - + -
232A ILE* 4.1 2.5 - - + -
247A PHE* 3.5 24.0 - + + -
280A SER* 5.3 8.1 - - - -
298A PHE* 5.5 7.0 - + - -
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Residues in contact with GLU 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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219A ILE* 3.0 20.0 + - + +
220A ARG* 3.2 17.7 + - - +
222A TYR* 1.3 77.2 - - + +
224A ARG* 1.3 62.8 + - - +
225A GLY* 2.9 6.3 + - - -
278A SER* 2.7 28.9 + - - -
279A PRO* 3.4 16.1 - - - +
280A SER* 3.1 33.1 + - - +
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Residues in contact with ARG 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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217A GLU* 4.6 4.8 + - - -
220A ARG* 2.8 37.3 + - - +
221A LEU* 3.4 40.0 - - - +
222A TYR 3.2 0.2 - - - -
223A GLU* 1.3 76.1 - - - +
225A GLY* 1.3 61.2 + - - +
226A ASP* 3.1 25.0 + - - +
209B ARG* 3.7 43.5 - - - +
210B LEU* 5.5 0.4 - - - +
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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