Contacts of the helix formed by residues 203 - 219 (chain A) in PDB entry 3HEG
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 THR 203 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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142A HIS* 6.1 0.4 - - + -
201A ASN* 3.0 21.5 + - - +
202A GLN* 1.3 75.1 - - + +
204A VAL* 1.3 63.4 + - - +
205A ASP 3.0 1.6 - - - +
206A ILE* 3.7 14.5 - - + +
207A TRP 3.3 14.4 + - - -
293A SER 2.9 22.5 + - - +
296A ARG* 3.2 40.5 + - + +
297A ILE 4.0 16.6 - - - +
298A THR* 4.5 15.0 - - + -
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Residues in contact with VAL 204 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147A ILE* 3.6 25.4 - - + -
149A ARG* 4.6 6.1 - - + -
190A ALA* 4.0 6.3 + - + +
192A GLU* 3.4 28.0 - - + +
193A ILE* 3.8 32.8 - - + +
200A TYR* 4.5 10.5 - - + -
201A ASN* 3.3 22.3 + - - +
202A GLN 3.7 0.7 - - - +
203A THR* 1.3 79.4 + - - +
205A ASP* 1.3 65.8 + - - +
207A TRP* 3.5 11.6 - - - +
208A SER* 3.1 17.0 + - - -
296A ARG* 3.8 7.2 - - - +
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Residues in contact with ASP 205 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138A LEU* 4.1 3.8 - - + +
142A HIS* 2.8 29.1 + - + +
147A ILE* 3.7 4.9 - - - +
148A HIS* 2.8 33.0 + - - +
149A ARG* 2.8 30.4 + - - -
151A LEU* 3.6 14.6 - - + +
202A GLN 3.0 11.7 + - - +
203A THR 3.0 0.4 - - - -
204A VAL* 1.3 79.5 - - - +
206A ILE* 1.3 59.0 + - - +
208A SER* 3.3 10.1 + - - -
209A VAL* 3.1 32.3 + - - +
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Residues in contact with ILE 206 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135A LEU* 3.6 28.3 - - + -
138A LEU* 4.4 5.8 - - + -
142A HIS* 4.8 6.5 - - + -
203A THR* 3.5 21.2 + - + +
205A ASP* 1.3 73.8 - - - +
207A TRP* 1.3 59.0 + - - +
209A VAL* 3.4 4.1 + - - +
210A GLY* 2.8 26.5 + - - -
288A MET* 3.7 35.3 - - + +
296A ARG* 4.5 2.9 - - + -
297A ILE* 3.3 25.8 - - + +
298A THR* 3.8 3.6 - - - +
299A ALA* 3.5 30.5 - - + +
302A ALA* 5.2 0.2 - - + -
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Residues in contact with TRP 207 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187A TRP 5.1 0.4 + - - -
188A TYR 3.4 11.9 - - - -
189A ARG 3.3 11.5 + - - -
190A ALA* 3.3 28.7 - - + -
191A PRO* 3.8 14.1 - - + -
203A THR 3.3 9.0 + - - +
204A VAL 3.5 10.8 - - - +
205A ASP 3.4 0.2 - - - -
206A ILE* 1.3 78.0 - - - +
208A SER* 1.3 57.0 + - - +
210A GLY 3.3 1.0 + - - -
211A CYS* 2.9 40.6 + - - -
223A PHE* 3.6 23.7 - + - -
235A ILE* 3.7 34.9 - - + +
239A VAL* 4.6 8.7 - - + -
288A MET 4.2 7.3 + - - -
289A LEU* 3.3 52.1 - - + +
290A VAL 3.7 10.5 - - - -
291A LEU* 4.4 2.0 - - + -
296A ARG* 3.7 17.7 - - - +
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Residues in contact with SER 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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149A ARG 5.6 2.3 + - - -
151A LEU* 3.6 35.1 + - - +
188A TYR* 3.0 24.3 + - - -
189A ARG* 5.0 0.9 - - - -
190A ALA 5.0 0.2 + - - -
204A VAL 3.1 13.9 + - - -
205A ASP* 3.3 11.9 + - - -
206A ILE 3.3 0.4 - - - -
207A TRP* 1.3 74.0 - - - +
209A VAL* 1.3 57.0 + - - +
211A CYS* 2.9 7.6 + - - +
212A ILE* 2.8 39.4 + - - +
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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
----------------------------------------------------------
131A ILE* 3.8 29.6 - - + +
134A ILE* 3.8 20.2 - - + -
135A LEU* 3.9 11.4 - - + -
138A LEU* 3.5 25.1 - - + -
151A LEU* 4.0 4.5 - - + -
205A ASP 3.1 15.0 + - - +
206A ILE* 3.5 9.0 - - - +
208A SER* 1.3 76.4 - - - +
210A GLY* 1.3 51.2 + - - +
212A ILE* 3.2 10.7 + - + +
213A MET* 2.7 33.6 + - - +
288A MET* 3.9 15.5 - - + -
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Residues in contact with GLY 210 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
206A ILE 2.8 16.7 + - - -
207A TRP 3.5 4.7 - - - -
208A SER 3.3 0.2 - - - -
209A VAL* 1.3 71.6 - - - +
211A CYS* 1.3 56.5 + - - +
213A MET* 4.6 0.2 - - - -
214A ALA* 3.0 28.4 + - - +
285A LEU* 3.2 12.7 - - - +
288A MET* 3.7 20.6 - - - -
289A LEU* 3.9 18.3 - - - +
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Residues in contact with CYS 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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187A TRP 3.9 15.9 - - - +
188A TYR* 3.8 20.9 - - + -
207A TRP* 2.9 49.3 + - - -
208A SER 2.9 8.9 + - - +
210A GLY* 1.3 76.5 - - - +
212A ILE* 1.3 60.2 + - - +
214A ALA* 3.9 2.4 + - - +
215A GLU* 3.3 23.6 + - - +
222A LEU* 4.2 16.4 + - + +
223A PHE* 3.9 17.0 - - - -
289A LEU* 3.9 5.1 - - - +
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Residues in contact with ILE 212 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113A LEU* 3.6 29.2 - - + -
131A ILE* 4.2 15.0 - - + -
134A ILE* 4.4 7.6 - - + -
151A LEU* 4.3 7.9 - - + -
152A LYS* 3.9 19.3 - - - +
153A PRO* 4.2 7.6 - - + -
156A LEU* 3.8 22.0 - - + -
188A TYR* 3.9 20.0 - - + -
208A SER 2.8 26.0 + - - +
209A VAL* 3.6 11.2 - - + +
211A CYS* 1.3 70.7 - - - +
213A MET* 1.3 60.7 + - - +
215A GLU* 3.2 9.8 + - - +
216A LEU* 2.9 28.6 + - + +
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Residues in contact with MET 213 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127A VAL* 4.1 4.0 - - + -
131A ILE* 3.0 56.5 - - + +
209A VAL* 2.7 21.2 + - + +
210A GLY* 3.8 3.8 - - - +
212A ILE* 1.3 72.6 - - - +
214A ALA* 1.3 63.2 + - - +
216A LEU* 3.2 5.1 + - - +
217A LEU* 3.1 34.3 + - + +
281A ALA 4.5 6.3 - - - +
284A LEU* 3.6 29.8 - - + -
285A LEU* 4.2 17.5 - - + -
288A MET* 4.6 4.9 - - + +
307A TYR* 3.7 18.8 - - + -
308A PHE* 3.7 6.5 - - + -
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Residues in contact with ALA 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 GLY 3.0 12.2 + - - +
211A CYS 4.1 0.7 - - - +
213A MET* 1.3 74.3 - - - +
215A GLU* 1.3 58.9 + - - +
217A LEU* 3.0 5.1 + - - +
218A THR* 2.9 34.3 + - - -
220A ARG 4.7 0.4 - - - -
222A LEU* 3.5 29.2 - - + -
274A PHE* 3.4 30.3 - - + -
285A LEU* 3.7 11.7 - - + +
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Residues in contact with GLU 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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114A ASN* 3.9 18.9 + - - +
117A VAL* 5.9 1.8 - - + +
153A PRO* 4.4 6.4 - - - +
188A TYR* 2.8 39.5 + - - -
211A CYS 3.3 9.6 + - - +
212A ILE* 3.2 9.9 + - - +
214A ALA* 1.3 78.2 - - - +
216A LEU* 1.3 60.3 + - + +
219A GLY* 2.9 28.5 + - - -
220A ARG 3.2 28.0 + - - +
221A THR* 4.1 19.8 + - - -
222A LEU* 4.8 0.6 - - - +
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Residues in contact with LEU 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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113A LEU* 3.8 28.0 - - + -
117A VAL* 3.9 17.3 - - + -
122A LEU* 3.6 33.3 - - + +
127A VAL* 4.1 20.4 - - + +
130A LEU* 4.0 29.4 - - + -
131A ILE* 3.8 27.4 - - + -
134A ILE* 5.9 0.2 - - + -
212A ILE* 2.9 22.1 + - + +
213A MET 3.2 7.6 + - - +
215A GLU* 1.3 77.3 - - + +
217A LEU* 1.3 62.8 + - - +
219A GLY* 4.2 3.3 + - - -
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Residues in contact with LEU 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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124A ASP* 4.3 9.2 - - - +
127A VAL* 3.8 27.8 - - + -
213A MET* 3.1 28.7 + - + +
214A ALA* 3.0 7.9 + - - +
216A LEU* 1.3 77.4 - - - +
218A THR* 1.3 64.6 + - - +
219A GLY 3.5 0.2 - - - -
274A PHE* 5.3 2.7 - - + -
275A ILE* 5.6 5.3 - - + +
277A ALA* 4.3 26.7 - - + -
281A ALA* 3.9 21.8 - - + -
282A VAL* 5.9 0.2 - - + -
285A LEU* 4.1 20.6 - - + -
307A TYR* 4.1 9.2 - - - +
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Residues in contact with THR 218 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
214A ALA 2.9 16.6 + - - -
217A LEU* 1.3 80.9 - - - +
219A GLY* 1.3 56.4 + - - +
220A ARG* 3.4 38.9 - - + +
221A THR 5.8 0.2 - - - +
222A LEU* 6.3 1.1 - - + -
273A VAL 5.2 2.1 + - - -
274A PHE* 3.7 25.4 - - + -
275A ILE* 5.4 7.0 - - - +
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Residues in contact with GLY 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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117A VAL* 5.8 8.9 - - - +
118A LYS* 5.6 3.6 + - - -
215A GLU* 2.9 16.5 + - - -
216A LEU 4.2 3.0 + - - -
217A LEU 3.5 1.6 - - - -
218A THR* 1.3 77.4 - - - +
220A ARG* 1.3 63.4 + - - +
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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
------------------------------------------------------------
Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
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