Contacts of the helix formed by residues 169 - 190 (chain H) in PDB entry 2EHO
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 ASP 169 (chain H).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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109H LEU* 3.7 26.9 - - + +
110H HIS* 4.5 0.9 - - - +
114H PRO 3.5 10.8 - - - +
115H HIS* 3.8 2.4 - - - -
116H PHE* 3.2 19.7 + - + -
117H TYR* 3.0 33.6 + - + +
118H GLY 5.1 0.2 + - - -
167H ARG 3.8 2.2 + - - -
168H LEU* 1.3 74.4 - - - +
170H GLU* 1.3 61.4 + - - +
171H MSE 2.5 33.2 + - - +
172H GLU* 2.8 22.2 + - - +
173H ARG* 2.8 26.9 + - - +
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Residues in contact with GLU 170 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14F HIS* 5.0 11.2 + - + +
23H ASP* 5.2 7.0 - - - +
110H HIS* 4.3 8.6 + - - -
114H PRO* 3.1 24.6 + - - +
115H HIS* 3.8 37.7 - - + +
169H ASP* 1.3 80.8 + - - +
171H MSE 1.3 70.1 + - + +
173H ARG* 3.4 26.9 + - - +
174H GLY* 3.3 18.0 + - - -
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Residues in contact with MSE 171 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166G HIS* 3.9 33.1 - - + +
10H SER* 4.1 20.2 - - - +
13H LEU* 3.4 40.4 - - + -
23H ASP* 3.8 29.2 - - + +
115H HIS* 5.2 6.1 - - + -
117H TYR* 4.7 5.4 - - + -
118H GLY 5.5 1.1 - - - +
142H PHE* 5.1 4.5 - - + -
169H ASP* 2.5 17.6 + - - +
170H GLU* 1.3 86.1 - - + +
172H GLU* 1.3 60.5 + - - +
174H GLY* 3.5 1.6 + - - -
175H LEU* 3.1 24.1 + - - +
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Residues in contact with GLU 172 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117H TYR* 2.8 29.4 + - + +
142H PHE* 4.6 9.8 - - + -
145H ARG* 2.5 50.3 + - - +
149H ILE* 4.1 16.7 - - + +
168H LEU* 3.3 20.5 - - + +
169H ASP* 2.8 29.4 + - - +
171H MSE 1.3 77.1 - - - +
173H ARG* 1.3 60.6 + - - +
175H LEU* 3.2 11.0 + - + +
176H PHE* 2.8 29.6 + - - +
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Residues in contact with ARG 173 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27B ASP* 4.9 15.8 + - - -
110H HIS* 3.2 48.5 + - - +
165H VAL* 3.0 40.8 + - + +
166H ALA* 3.3 17.0 + - - +
168H LEU* 3.0 17.8 + - + +
169H ASP 2.8 19.5 + - - +
170H GLU* 3.7 25.7 + - - +
171H MSE 3.3 0.2 - - - -
172H GLU* 1.3 77.2 - - - +
174H GLY* 1.3 57.0 + - - +
176H PHE* 3.1 11.3 + - - +
177H GLN* 2.9 30.3 + - - +
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Residues in contact with GLY 174 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
162G GLN* 5.1 0.9 - - - -
170H GLU 3.3 10.6 + - - -
171H MSE 3.5 2.7 + - - -
173H ARG* 1.3 75.9 - - - +
175H LEU* 1.3 64.7 + - - +
177H GLN* 3.0 19.2 + - - +
178H THR* 2.9 24.6 + - - +
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Residues in contact with LEU 175 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159G PHE* 3.2 51.4 - - + +
162G GLN* 4.2 9.2 - - + +
163G ALA* 4.0 19.1 - - + +
166G HIS* 4.5 7.5 - - + +
142H PHE* 3.7 32.8 - - + -
146H PHE* 5.5 2.9 - - + -
149H ILE* 4.3 14.8 - - + -
171H MSE 3.1 17.6 + - - +
172H GLU* 3.3 8.5 - - + +
174H GLY* 1.3 77.8 - - - +
176H PHE* 1.3 59.2 + - - +
178H THR* 2.8 28.3 - - + +
179H GLY 3.1 7.1 + - - -
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Residues in contact with PHE 176 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149H ILE* 4.0 11.6 - - + +
152H SER* 3.2 26.2 - - - -
153H SER* 3.2 40.0 - - - -
157H TYR* 4.4 9.0 - + - -
161H THR* 3.6 24.7 - - + -
164H LEU* 4.1 5.8 - - + -
165H VAL* 3.7 20.4 - - + -
168H LEU* 4.1 20.0 - - + -
172H GLU 2.8 13.4 + - - +
173H ARG* 3.2 12.8 - - - +
175H LEU* 1.3 76.6 - - - +
177H GLN* 1.3 60.6 + - + +
180H GLN* 2.9 47.0 + - + +
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Residues in contact with GLN 177 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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18F GLU* 3.2 31.7 + - - +
173H ARG* 2.9 11.1 + - - +
174H GLY* 3.0 23.6 + - - +
176H PHE* 1.3 78.6 - - + +
178H THR* 1.3 61.2 + - - +
180H GLN* 3.2 10.4 + - + +
181H LYS* 3.0 41.9 + - + +
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Residues in contact with THR 178 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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158G THR* 3.6 23.7 - - - +
159G PHE* 3.9 10.4 + - + +
162G GLN* 2.9 31.8 + - + +
174H GLY 2.9 13.6 + - - +
175H LEU* 2.8 29.6 - - + +
177H GLN* 1.3 70.4 - - - +
179H GLY* 1.3 65.4 + - - +
181H LYS* 3.0 12.6 + - - +
182H GLY* 3.0 19.2 + - - -
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Residues in contact with GLY 179 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
155G THR 5.4 0.2 - - - +
159G PHE* 3.6 17.4 - - - -
153H SER* 3.4 31.8 - - - +
154H GLN* 4.4 9.4 - - - +
175H LEU 3.1 10.7 + - - -
176H PHE 3.3 0.8 + - - -
178H THR* 1.3 76.9 + - - +
180H GLN* 1.3 60.8 + - - +
182H GLY* 3.1 11.6 + - - -
183H LEU* 3.2 10.0 + - - +
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Residues in contact with GLN 180 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104B PHE* 3.7 36.8 - - + -
152H SER 4.4 1.0 - - - +
153H SER* 2.8 23.8 + - - +
155H ASN 3.6 11.4 - - - +
157H TYR* 3.4 33.8 + - - +
176H PHE* 2.9 39.4 + - + +
177H GLN* 3.2 15.3 - - + +
178H THR 3.1 0.2 - - - -
179H GLY* 1.3 77.5 - - - +
181H LYS* 1.3 61.9 + - + +
183H LEU* 3.3 10.7 + - - +
184H ASN 3.1 15.9 + - - -
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Residues in contact with LYS 181 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104B PHE* 4.9 8.1 - - + -
18F GLU* 5.6 3.7 - - - +
3H GLU* 4.1 29.3 + - - +
177H GLN* 3.0 34.1 + - + +
178H THR* 3.0 12.0 + - - +
180H GLN* 1.3 73.9 - - + +
182H GLY* 1.3 67.6 + - - +
184H ASN* 3.1 9.4 + - - +
185H ASP* 2.8 29.4 + - + +
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Residues in contact with GLY 182 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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155G THR* 3.8 26.6 - - - +
154H GLN* 6.4 0.4 - - - -
178H THR 3.0 12.6 + - - -
179H GLY* 3.1 6.2 + - - -
181H LYS* 1.3 78.8 - - - +
183H LEU* 1.3 59.9 + - - +
185H ASP* 3.8 6.8 - - - +
186H PHE* 3.2 21.5 + - - +
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Residues in contact with LEU 183 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104B PHE* 6.1 2.7 - - + -
129G ARG* 6.1 0.2 - - - +
153H SER 4.5 3.8 - - - +
154H GLN* 3.8 18.8 - - + +
155H ASN* 3.2 35.0 - - - +
156H ALA* 3.8 9.9 - - - +
157H TYR 5.3 0.2 - - - +
179H GLY 3.2 9.7 + - - +
180H GLN* 3.6 13.0 - - - +
181H LYS 3.1 0.6 - - - -
182H GLY* 1.3 75.0 - - - +
184H ASN* 1.3 60.0 + - - +
186H PHE* 3.3 9.8 + - + +
187H GLN* 2.9 64.8 + - + +
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Residues in contact with ASN 184 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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100B ASN* 3.4 20.1 + - - +
101B ALA* 5.1 5.3 - - - +
104B PHE* 3.4 43.3 - - + +
180H GLN 3.1 5.2 + - - +
181H LYS* 3.1 10.7 + - - +
183H LEU* 1.3 77.2 - - - +
185H ASP* 1.3 67.7 + - - +
187H GLN* 3.0 8.3 + - - +
188H CYS* 2.9 44.8 + - - -
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Residues in contact with ASP 185 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1G MSE 5.3 0.7 - - - +
2G ASP* 3.4 24.5 - - - +
3G ALA* 3.2 33.2 + - - +
154G ASN 5.2 4.0 - - - +
155G THR* 5.1 6.4 - - - +
181H LYS 2.8 21.9 + - - +
182H GLY* 3.8 6.8 - - - +
184H ASN* 1.3 78.5 - - - +
186H PHE* 1.3 63.4 + - - +
188H CYS* 3.4 6.1 + - - +
189H TRP* 3.2 19.1 + - - +
193H GLN* 5.2 0.9 + - - -
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Residues in contact with PHE 186 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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3G ALA* 4.7 1.6 - - - -
93G MSE 4.8 5.6 - - + -
121G TRP* 3.3 50.7 - + - -
151G MSE 3.2 33.0 - - + -
155G THR* 4.2 12.3 - - + -
182H GLY 3.2 14.7 + - - +
183H LEU* 3.7 10.1 - - + +
184H ASN 3.2 0.6 - - - -
185H ASP* 1.3 83.7 - - - +
187H GLN* 1.3 64.6 + - + +
189H TRP* 3.2 21.4 + + - +
190H GLU* 3.0 58.9 + - + +
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Residues in contact with GLN 187 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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100B ASN* 4.0 19.0 + - - +
156H ALA* 5.4 8.1 - - - +
183H LEU* 2.9 55.3 + - + +
184H ASN* 3.0 5.0 + - - +
186H PHE* 1.3 77.4 - - + +
188H CYS* 1.3 61.2 + - - +
190H GLU* 3.3 27.5 + - - +
191H LYS* 3.1 22.5 - - - +
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Residues in contact with CYS 188 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100B ASN* 3.4 37.7 - - - +
101B ALA* 4.3 6.1 - - - -
184H ASN* 2.9 30.8 + - - +
185H ASP* 3.7 6.5 - - - +
187H GLN* 1.3 75.9 - - - +
189H TRP* 1.3 59.1 + - - +
191H LYS* 3.2 15.3 + - + +
193H GLN* 2.5 54.7 + - - +
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Residues in contact with TRP 189 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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3G ALA* 3.7 29.8 + - + -
4G ALA* 4.5 4.7 - - + -
7G GLU* 3.2 40.7 + - + +
93G MSE 3.7 31.0 - - + -
94G GLU* 3.7 25.8 - - + -
97G LYS* 3.6 36.7 + - + +
151G MSE 3.6 27.4 - - + -
185H ASP 3.2 11.9 + - - +
186H PHE* 3.4 20.2 - + - +
188H CYS* 1.3 73.8 - - - +
190H GLU* 1.3 80.4 + - + +
191H LYS 2.7 5.8 + - - -
192H GLY* 2.6 28.1 + - - -
193H GLN* 4.1 11.3 - - + +
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Residues in contact with GLU 190 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93G MSE 5.7 4.6 - - + +
97G LYS* 4.6 11.1 - - + +
118G LYS* 5.6 6.2 - - - -
186H PHE* 3.1 38.7 - - + +
187H GLN* 3.3 36.1 + - - +
189H TRP* 1.3 95.3 - - + +
191H LYS* 1.3 55.5 + - + +
192H GLY 3.4 0.7 - - - -
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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