Contacts of the helix formed by residues 169 - 191 (chain L) 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 L).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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109L LEU* 3.5 32.8 - - + +
110L HIS* 4.5 0.2 - - - +
114L PRO* 3.1 10.0 - - - +
115L HIS* 3.3 3.8 - - - -
116L PHE* 2.8 29.9 + - + +
117L TYR* 3.6 18.3 + - - -
118L GLY 5.1 0.3 + - - -
168L LEU* 1.3 75.9 - - - +
170L GLU* 1.3 59.7 + - - +
171L MSE 2.6 31.4 + - - +
172L GLU* 2.8 22.3 + - - +
173L ARG* 2.8 27.8 + - - +
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Residues in contact with GLU 170 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14J HIS* 4.6 21.3 + - + -
23L ASP* 6.1 0.7 - - - +
110L HIS* 4.7 5.2 - - - -
114L PRO* 2.5 39.8 + - - +
115L HIS* 3.9 32.1 - - + +
169L ASP* 1.3 73.4 - - - +
171L MSE 1.3 60.4 + - - +
173L ARG* 3.4 25.2 + - - +
174L GLY* 3.1 18.5 + - - -
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Residues in contact with MSE 171 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166K HIS* 3.5 38.7 - - + +
170K LEU* 4.4 8.3 - - + -
13L LEU* 3.2 37.5 - - + -
117L TYR* 3.7 40.6 - - + -
142L PHE* 4.5 20.6 - - + -
169L ASP* 2.6 17.1 + - - +
170L GLU* 1.3 72.9 - - - +
172L GLU* 1.3 62.2 + - - +
174L GLY* 3.5 2.5 + - - -
175L LEU* 3.1 23.6 + - - +
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Residues in contact with GLU 172 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109L LEU* 3.4 1.6 - - - +
117L TYR* 2.5 43.4 + - + +
142L PHE* 4.8 7.3 - - + -
145L ARG* 2.7 42.8 + - - +
149L ILE* 3.5 23.0 - - + +
168L LEU* 3.4 15.3 - - + -
169L ASP* 2.8 25.0 + - - +
171L MSE 1.3 77.1 - - - +
173L ARG* 1.3 60.0 + - - +
175L LEU* 3.1 8.3 + - - +
176L PHE* 2.8 30.3 + - - +
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Residues in contact with ARG 173 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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110L HIS* 3.1 37.6 + - - -
165L VAL* 3.0 38.6 + - + +
166L ALA* 3.3 18.4 + - - +
168L LEU* 3.4 20.8 + - + +
169L ASP 2.8 19.3 + - - +
170L GLU* 3.7 26.2 + - - +
172L GLU* 1.3 75.5 - - - +
174L GLY* 1.3 58.4 + - - +
176L PHE* 3.3 10.6 + - - +
177L GLN* 2.9 31.5 + - - +
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Residues in contact with GLY 174 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
162K GLN* 4.3 3.8 - - - -
170L GLU 3.1 14.9 + - - -
171L MSE 3.5 3.3 + - - -
172L GLU 3.1 0.2 - - - -
173L ARG* 1.3 77.1 - - - +
175L LEU* 1.3 62.2 + - - +
177L GLN* 2.9 21.5 + - - +
178L THR* 3.0 15.1 + - - -
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Residues in contact with LEU 175 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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159K PHE* 3.1 47.0 - - + +
162K GLN* 3.2 41.8 + - + +
163K ALA* 3.9 13.9 - - + +
166K HIS* 3.9 12.3 - - + +
142L PHE* 3.7 34.1 - - + -
146L PHE* 5.0 3.4 - - + -
149L ILE* 4.7 9.2 - - + -
171L MSE 3.1 13.1 + - - +
172L GLU* 3.1 10.4 + - - +
174L GLY* 1.3 74.3 - - - +
176L PHE* 1.3 63.5 + - - +
178L THR* 3.0 12.0 + - - -
179L GLY 3.1 2.1 + - - -
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Residues in contact with PHE 176 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149L ILE* 4.3 7.8 - - + +
152L SER* 3.3 33.0 - - - -
153L SER* 3.4 24.5 + - - +
157L TYR* 4.2 17.0 - + - -
161L THR* 4.9 3.6 - - + -
164L LEU* 5.4 0.4 - - + -
165L VAL* 3.6 35.4 - - + -
168L LEU* 4.2 15.7 - - + -
172L GLU 2.8 16.6 + - - +
173L ARG* 3.5 9.6 - - - +
175L LEU* 1.3 77.4 - - - +
177L GLN* 1.3 61.4 + - + +
179L GLY 3.4 0.5 + - - -
180L GLN* 2.9 64.8 + - + +
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Residues in contact with GLN 177 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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18J GLU* 5.1 10.3 + - - +
173L ARG* 2.9 15.6 + - - +
174L GLY* 2.9 16.2 + - - +
176L PHE* 1.3 84.3 - - + +
178L THR* 1.3 54.4 + - - +
180L GLN* 3.4 6.8 + - + +
181L LYS* 3.0 26.9 + - - +
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Residues in contact with THR 178 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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158K THR* 3.3 35.8 - - + -
159K PHE* 3.8 18.1 - - - +
162K GLN* 2.8 30.5 + - - +
174L GLY 3.0 7.0 + - - -
175L LEU 3.0 10.3 + - - -
177L GLN* 1.3 73.6 - - - +
179L GLY* 1.3 66.4 + - - +
180L GLN 3.0 1.6 - - - -
181L LYS* 3.0 17.8 + - + +
182L GLY* 3.0 11.8 + - - -
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Residues in contact with GLY 179 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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159K PHE* 3.2 29.0 - - - -
153L SER* 3.9 14.6 - - - -
154L GLN* 3.9 14.4 + - - +
175L LEU 3.1 8.9 + - - -
176L PHE 3.8 0.7 - - - -
178L THR* 1.3 80.3 - - - +
180L GLN* 1.3 56.3 + - - +
181L LYS 3.2 0.2 - - - -
182L GLY* 3.7 2.5 + - - -
183L LEU* 3.2 24.8 + - - +
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Residues in contact with GLN 180 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152L SER 3.8 0.8 + - - -
153L SER* 3.0 28.5 + - - +
155L ASN 4.0 7.5 - - - +
156L ALA* 5.3 0.2 - - - -
157L TYR* 3.5 30.5 + - + +
176L PHE* 2.9 47.9 + - + +
177L GLN* 3.5 10.8 - - + +
178L THR 3.0 0.2 - - - -
179L GLY* 1.3 77.9 - - - +
181L LYS* 1.3 62.6 + - - +
183L LEU* 3.5 10.1 - - - +
184L ASN* 3.3 25.6 + - - +
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Residues in contact with LYS 181 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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18J GLU* 5.1 8.5 + - - -
3L GLU 5.5 9.7 + - - +
177L GLN 3.0 12.8 + - - +
178L THR* 3.0 12.2 + - + +
180L GLN* 1.3 76.1 - - - +
182L GLY* 1.3 66.5 + - - +
183L LEU 3.0 1.1 - - - -
184L ASN* 2.9 7.0 + - + +
185L ASP* 2.8 25.9 + - + +
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Residues in contact with GLY 182 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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155K THR* 3.7 28.0 - - - +
158K THR* 6.5 1.1 - - - -
178L THR 3.0 13.6 + - - -
179L GLY* 4.2 2.7 - - - -
180L GLN 3.5 0.2 - - - -
181L LYS* 1.3 76.2 - - - +
183L LEU* 1.3 62.0 + - - +
185L ASP* 3.5 7.9 + - - +
186L PHE* 3.2 22.0 + - - +
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Residues in contact with LEU 183 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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155K THR* 5.7 1.3 - - - -
153L SER 5.0 1.3 - - - +
154L GLN* 3.1 37.0 - - + +
155L ASN 5.3 3.1 - - - +
156L ALA* 5.5 4.5 - - - +
179L GLY 3.2 18.6 + - - +
180L GLN* 3.5 13.0 - - + +
181L LYS 3.0 0.4 - - - -
182L GLY* 1.3 78.3 - - - +
184L ASN* 1.3 74.7 + - - +
186L PHE* 3.3 11.6 + - + +
187L GLN* 3.1 52.8 + - + +
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Residues in contact with ASN 184 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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180L GLN* 3.3 14.9 + - - +
181L LYS* 2.9 10.1 + - + +
183L LEU* 1.3 94.7 - - - +
185L ASP* 1.3 67.9 + - - +
186L PHE 2.9 1.7 + - - -
187L GLN* 3.7 11.7 - - - +
188L CYS* 2.8 30.8 + - + +
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Residues in contact with ASP 185 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2K ASP* 3.2 18.7 - - - +
3K ALA* 3.2 33.0 + - - +
181L LYS* 2.8 22.2 + - + +
182L GLY* 3.8 9.6 - - - +
184L ASN* 1.3 71.9 - - - +
186L PHE* 1.3 62.1 + - - +
188L CYS* 4.0 5.3 - - - +
189L TRP* 3.2 23.4 + - - +
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Residues in contact with PHE 186 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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93K MSE 4.4 8.7 - - + -
118K LYS* 5.7 0.7 - - - -
121K TRP* 3.2 63.3 - + - -
151K MSE 3.3 28.5 - - + -
155K THR* 4.2 8.3 - - + -
182L GLY 3.2 10.9 + - - +
183L LEU* 3.3 15.5 - - + +
184L ASN 2.9 1.2 + - - -
185L ASP* 1.3 76.0 - - - +
187L GLN* 1.3 63.8 + - + +
189L TRP* 2.8 28.8 + + - +
190L GLU* 2.7 61.7 + - + +
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Residues in contact with GLN 187 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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156L ALA* 5.4 8.1 - - - +
183L LEU* 3.1 42.6 + - + +
184L ASN* 3.7 13.1 - - - +
186L PHE* 1.3 87.7 - - + +
188L CYS* 1.3 56.1 + - - +
190L GLU* 4.0 15.5 - - - +
191L LYS* 2.8 39.5 + - + +
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Residues in contact with CYS 188 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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184L ASN* 2.8 24.0 + - + +
185L ASP* 4.0 5.8 - - - +
187L GLN* 1.3 74.2 - - - +
189L TRP* 1.3 60.7 + - - +
191L LYS* 4.5 12.8 - - - +
192L GLY* 3.3 22.5 + - - +
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Residues in contact with TRP 189 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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3K ALA* 4.0 26.0 + - + -
4K ALA* 4.5 5.6 - - + -
7K GLU* 2.5 34.6 + - + +
93K MSE 3.9 32.8 - - + -
94K GLU* 4.1 21.5 - - + -
97K LYS* 3.3 42.0 + - + +
151K MSE 4.3 12.1 - - + -
185L ASP 3.2 18.6 + - - +
186L PHE* 2.8 36.0 + + - +
188L CYS* 1.3 77.8 - - - +
190L GLU* 1.3 92.5 + - + +
192L GLY 3.4 13.5 - - - +
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Residues in contact with GLU 190 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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97K LYS* 3.9 17.5 - - + +
101K ASN* 4.7 5.2 + - - -
114K ARG* 4.4 16.9 + - - +
118K LYS* 3.5 26.6 + - - -
186L PHE* 2.7 48.0 + - + +
187L GLN* 3.7 13.7 - - - +
189L TRP* 1.3 93.4 - - + +
191L LYS* 1.3 67.7 + - - +
192L GLY 3.2 2.6 + - - -
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Residues in contact with LYS 191 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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114K ARG* 5.7 5.2 - - - +
187L GLN* 2.8 29.0 + - + +
188L CYS* 4.5 12.6 - - - +
190L GLU* 1.3 80.7 - - - +
192L GLY* 1.3 65.6 + - - +
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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
------------------------------------------------------------
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