Contacts of the helix formed by residues 201 - 217 (chain A) in PDB entry 4OWT
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 201 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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161A ASP* 3.9 21.7 + - - -
165A MSE 4.3 0.2 - - - +
197A TRP 4.2 1.5 + - - -
198A VAL 3.2 6.0 + - - +
199A LEU 3.2 0.4 - - - -
200A LYS* 1.3 79.5 - - - +
202A SER* 1.3 63.3 + - - +
203A ILE* 3.5 13.2 - - - +
204A LEU* 3.1 30.2 + - - +
205A ILE* 3.0 27.0 + - - +
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Residues in contact with SER 202 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
199A LEU 5.0 0.6 + - - -
200A LYS 4.1 2.2 + - - -
201A SER* 1.3 71.4 + - - +
203A ILE* 1.3 64.1 + - - +
205A ILE* 3.2 8.3 + - - +
206A ALA 3.1 17.5 + - - -
243A ARG* 5.8 0.2 + - - -
246A GLU* 3.4 29.9 + - - +
249A MSE 3.4 25.9 - - - +
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Residues in contact with ILE 203 (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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161A ASP* 5.4 2.2 - - - +
165A MSE 3.6 14.1 - - + -
201A SER* 3.5 11.0 - - - +
202A SER* 1.3 79.0 - - - +
204A LEU* 1.3 61.1 + - - +
206A ALA 3.4 0.5 + - - -
207A MSE 2.9 40.0 + - + +
249A MSE 3.8 24.9 - - + -
299A LYS* 3.8 30.3 - - + -
300A PHE* 3.8 18.6 - - + -
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Residues in contact with LEU 204 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161A ASP* 4.1 12.8 - - + +
164A CYS* 4.4 7.2 - - + -
165A MSE 3.4 21.3 - - + -
168A MSE 3.9 24.5 - - + -
191A LEU* 4.7 4.9 - - + -
197A TRP* 3.5 39.9 - - + +
198A VAL* 4.2 23.8 - - + +
201A SER* 3.1 24.6 + - - +
203A ILE* 1.3 76.0 - - - +
205A ILE* 1.3 66.0 + - - +
207A MSE 4.5 0.9 - - - +
208A ALA* 2.9 27.9 + - + +
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Residues in contact with ILE 205 (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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198A VAL* 3.7 23.6 - - + +
199A LEU* 4.0 13.9 - - + +
201A SER 3.0 20.0 + - - +
202A SER* 3.4 7.4 - - - +
204A LEU* 1.3 76.2 - - - +
206A ALA* 1.3 57.6 + - - +
208A ALA* 3.8 2.4 - - - +
209A VAL* 3.0 29.6 + - - +
239A LEU* 4.3 21.9 - - + +
243A ARG* 4.0 39.3 - - + +
246A GLU* 4.2 19.5 - - + -
247A CYS* 4.0 22.0 - - - -
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Residues in contact with ALA 206 (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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202A SER 3.1 11.7 + - - +
203A ILE 3.4 3.1 + - - +
204A LEU 3.3 0.2 - - - -
205A ILE* 1.3 81.9 - - - +
207A MSE 1.3 58.0 + - - +
209A VAL* 3.5 3.0 + - - +
210A TYR* 2.9 29.8 + - - +
246A GLU 3.9 7.6 - - - +
247A CYS* 4.7 2.9 - - - +
249A MSE 3.8 20.0 - - + -
250A ILE* 3.5 15.8 - - + +
300A PHE* 3.7 25.1 - - + -
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Residues in contact with MSE 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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165A MSE 4.0 38.1 - - + +
168A MSE 4.1 13.5 - - + -
203A ILE* 2.9 29.0 + - + +
204A LEU 4.0 2.7 - - - +
206A ALA* 1.3 72.6 - - - +
208A ALA* 1.3 58.7 - - - +
210A TYR* 3.5 2.6 + - - +
211A THR* 2.8 38.9 + - - +
299A LYS* 4.0 31.0 - - + +
300A PHE* 3.5 31.9 - - + -
303A CYS* 3.7 28.2 - - + -
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Residues in contact with ALA 208 (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 MSE 3.8 15.4 - - + +
191A LEU* 4.2 18.6 - - + -
198A VAL* 5.6 1.8 - - + -
204A LEU* 2.9 22.2 + - + +
205A ILE* 3.8 4.3 - - - +
207A MSE 1.3 73.4 - - - +
209A VAL* 1.3 61.8 + - - +
212A TYR* 2.9 35.2 + - - +
235A PHE* 4.1 23.9 - - + -
239A LEU* 4.9 1.6 - - + -
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Residues in contact with VAL 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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205A ILE 3.0 21.7 + - - +
206A ALA* 3.8 4.0 - - - +
208A ALA* 1.3 73.7 - - - +
210A TYR* 1.3 59.7 + - - +
213A LEU* 2.9 58.1 + - + +
235A PHE* 5.5 0.2 - - - -
236A CYS* 4.1 15.4 - - - +
239A LEU* 3.8 27.4 - - + -
240A LEU* 4.1 20.0 - - + -
247A CYS* 3.7 22.2 - - - -
250A ILE* 4.5 8.7 - - + -
254A LEU* 4.5 0.7 - - + -
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Residues in contact with TYR 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 ALA 2.9 19.0 + - - +
207A MSE 3.7 4.0 - - - +
209A VAL* 1.3 79.0 - - - +
211A THR* 1.3 63.5 + - - +
213A LEU* 5.0 0.2 - - - -
214A ARG* 3.3 16.5 + - + +
250A ILE* 3.6 35.6 - - + +
253A ASP* 3.9 11.4 - - + +
256A ARG* 3.4 22.9 + - - -
257A LEU* 3.3 38.5 - - + +
300A PHE* 3.3 46.8 + - + -
301A LEU* 3.8 17.7 - - - +
303A CYS* 3.8 11.4 - - - -
304A ARG* 3.6 19.1 - - + -
348A ASP* 5.4 1.9 + - - -
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Residues in contact with THR 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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168A MSE 3.9 34.0 - - + +
171A ILE* 4.8 0.9 - - + -
207A MSE 2.8 24.9 + - - +
208A ALA 3.8 3.4 - - - -
210A TYR* 1.3 79.5 - - - +
212A TYR* 1.3 64.2 + - + +
214A ARG* 3.4 3.5 + - - +
215A LEU* 3.1 40.6 + - + +
303A CYS* 4.1 14.7 - - - +
304A ARG* 3.7 32.7 + - - +
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Residues in contact with TYR 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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168A MSE 4.1 12.3 - - + -
171A ILE* 3.7 8.5 - - + +
184A ALA 2.7 30.1 + - - -
187A VAL* 3.4 11.7 - - + +
188A LEU* 3.1 29.8 + - + -
191A LEU* 4.1 20.4 - - + -
208A ALA* 2.9 26.6 + - - +
211A THR* 1.3 80.5 - - + +
213A LEU* 1.3 64.7 + - - +
214A ARG 3.1 1.1 - - - -
215A LEU* 3.9 12.9 - - + +
216A ILE* 3.0 29.8 + - - +
232A GLU* 3.3 39.0 - - + -
235A PHE* 4.5 10.3 - + + -
236A CYS* 3.6 18.4 - - - -
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Residues in contact with LEU 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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209A VAL* 2.9 36.2 + - + +
212A TYR* 1.3 77.6 - - - +
214A ARG* 1.3 62.6 + - - +
216A ILE* 3.6 15.9 - - + +
217A VAL* 4.3 1.6 - - - +
236A CYS* 3.7 21.1 - - + -
240A LEU* 4.2 2.7 - - + -
254A LEU* 3.6 23.8 - - + -
257A LEU* 4.0 28.3 - - + +
258A LEU* 3.9 14.6 - - + -
261A VAL* 3.7 17.2 - - + +
267A PHE* 3.5 37.9 - - + -
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Residues in contact with ARG 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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173A GLY* 3.7 7.0 - - - -
174A GLY 3.5 12.7 - - - +
210A TYR 3.3 11.8 + - - +
211A THR 3.5 8.5 - - - +
212A TYR 3.1 0.2 - - - -
213A LEU* 1.3 78.8 - - - +
215A LEU* 1.3 65.7 + - + +
216A ILE 3.3 0.5 + - - -
217A VAL* 3.3 20.3 + - - +
218A ASP* 3.1 25.6 + - - -
256A ARG* 6.0 1.3 - - - +
257A LEU* 4.3 20.6 - - + -
260A ASN* 6.1 2.2 - - - +
304A ARG* 3.5 28.5 - - + +
344A SER* 2.9 39.1 + - - -
345A LEU* 3.5 4.0 - - - +
348A ASP* 2.6 37.2 + - - +
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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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171A ILE* 3.6 35.9 - - + -
172A ALA 4.0 11.9 - - - +
173A GLY* 4.4 6.1 - - - -
180A ASN* 5.5 0.4 - - - +
184A ALA* 4.5 2.5 - - + -
211A THR* 3.1 39.1 + - + +
212A TYR* 3.3 25.3 + - + +
214A ARG* 1.3 76.4 - - + +
216A ILE* 1.3 65.7 + - - +
218A ASP* 2.9 20.6 + - - +
219A HIS* 3.4 31.1 + - + +
232A GLU* 4.0 4.5 - - - +
304A ARG* 3.9 17.9 - - - +
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Residues in contact with ILE 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 TYR 3.0 24.0 + - - +
213A LEU* 3.6 13.7 - - - +
214A ARG 3.2 0.2 - - - -
215A LEU* 1.3 75.8 - - - +
217A VAL* 1.3 62.6 + - - +
219A HIS* 3.1 11.5 + - - -
220A HIS* 5.0 0.2 + - - -
229A ARG* 3.5 22.3 + - + -
232A GLU* 3.6 31.8 + - + +
233A VAL* 3.7 34.5 - - + +
236A CYS* 4.3 2.5 - - - -
261A VAL* 3.7 10.5 - - + -
264A ILE* 3.6 30.7 - - + -
267A PHE* 4.0 16.2 - - + -
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Residues in contact with VAL 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 LEU 4.3 2.5 - - - +
214A ARG* 3.5 19.1 - - - +
215A LEU 3.1 0.4 - - - -
216A ILE* 1.3 78.4 - - - +
218A ASP* 1.3 64.8 + - - +
220A HIS* 3.2 24.1 + - - -
260A ASN* 3.8 36.8 - - + +
261A VAL* 3.8 13.5 - - + -
344A SER* 4.3 15.3 - - - -
79C SER* 6.1 1.1 - - - +
80C SER* 4.2 10.4 + - - +
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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