Contacts of the helix formed by residues 173 - 195 (chain A) in PDB entry 3EHN
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 173 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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156A PRO* 4.3 3.6 - - - -
172A ASP* 1.3 74.4 - - - +
174A GLN* 1.3 65.5 + - - +
175A GLU* 3.5 9.5 + - - +
176A VAL* 2.9 30.1 + - - +
177A VAL* 2.8 22.7 + - - +
522A LEU* 4.0 33.5 - - - +
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Residues in contact with GLN 174 (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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151A THR* 2.7 42.4 + - - +
152A ASP* 3.8 2.8 + - - +
155A GLY* 3.8 13.4 - - - -
156A PRO* 4.2 6.5 - - + +
172A ASP 3.9 1.2 + - - -
173A SER* 1.3 73.2 - - - +
175A GLU* 1.3 56.7 + - - +
177A VAL* 3.6 8.9 + - - +
178A TYR* 2.9 45.4 + - + -
522A LEU 5.1 2.6 + - - -
533A LEU* 3.1 17.2 - - - +
534A TRP* 3.1 39.1 + - + +
535A TRP* 3.2 27.5 - - - +
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Residues in contact with GLU 175 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
173A SER* 2.9 10.0 + - - +
174A GLN* 1.3 76.3 - - - +
176A VAL* 1.3 69.9 + - + +
178A TYR* 3.2 3.1 + - - +
179A ARG* 2.9 56.5 + - - +
233A ASP* 4.6 1.9 - - - +
534A TRP* 3.7 49.9 + - + +
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Residues in contact with VAL 176 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160A ASN* 3.4 27.6 - - - +
172A ASP* 3.9 11.9 - - + +
173A SER* 2.9 24.0 + - - +
175A GLU* 1.3 79.4 - - + +
177A VAL* 1.3 54.8 + - - +
179A ARG* 3.1 9.4 + - + +
180A SER* 2.8 42.0 + - - +
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Residues in contact with VAL 177 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151A THR* 4.1 17.7 - - + +
157A ILE* 3.8 42.2 - - + +
159A TYR* 4.3 14.8 - - + -
172A ASP* 4.0 16.2 - - + +
173A SER 2.8 23.9 + - - +
174A GLN* 3.6 11.0 - - - +
176A VAL* 1.3 77.3 - - - +
178A TYR* 1.3 59.2 + - + +
180A SER* 3.8 1.9 - - - -
181A MET* 2.8 46.8 + - + +
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Residues in contact with TYR 178 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148A LEU* 3.9 12.8 - - + +
151A THR* 4.0 11.4 - - + -
152A ASP* 2.4 32.0 + - - -
174A GLN* 2.9 46.7 + - + +
175A GLU 3.2 4.2 + - - +
177A VAL* 1.3 82.8 - - + +
179A ARG* 1.3 63.8 + - - +
181A MET* 3.7 4.5 - - - +
182A LEU* 3.0 29.7 + - - +
225A ILE* 3.2 32.9 - - + +
228A ARG* 3.1 33.0 + - + -
229A VAL* 3.6 14.6 - - + -
236A LEU* 5.3 2.0 - - + -
534A TRP* 3.9 16.2 - + + -
535A TRP* 3.2 11.1 + + - -
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Residues in contact with ARG 179 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175A GLU* 2.9 49.1 + - - +
176A VAL* 3.6 7.6 - - - +
178A TYR* 1.3 74.9 - - - +
180A SER* 1.3 65.0 + - - +
182A LEU* 3.2 11.1 + - - +
183A ALA* 3.1 21.3 + - - +
233A ASP* 2.8 30.1 + - - -
236A LEU* 4.0 33.7 - - + +
240A TYR* 4.5 2.6 + - - -
534A TRP* 6.0 0.2 - - - -
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Residues in contact with SER 180 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159A TYR* 3.5 25.4 - - - -
160A ASN* 3.2 26.5 + - - -
176A VAL* 2.8 26.6 + - - +
177A VAL 3.8 0.2 - - - -
179A ARG* 1.3 73.1 - - - +
181A MET* 1.3 63.3 + - - +
183A ALA* 3.1 6.6 + - - +
184A ASP* 2.9 29.5 + - - +
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Residues in contact with MET 181 (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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144A ASN* 3.8 38.6 - - + +
147A TRP* 4.2 9.4 - - + -
148A LEU* 3.9 33.7 - - + +
159A TYR* 3.4 43.6 - - + +
177A VAL* 2.8 33.8 + - + +
178A TYR* 3.7 6.5 - - - +
180A SER* 1.3 72.0 - - - +
182A LEU* 1.3 65.4 + - - +
184A ASP* 3.2 1.0 + - - +
185A LEU* 2.8 31.6 + - + +
221A LEU* 4.9 0.9 - - - -
225A ILE* 4.0 17.7 - - + -
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Residues in contact with LEU 182 (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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178A TYR* 3.0 21.2 + - + +
179A ARG* 3.4 7.2 - - - +
181A MET* 1.3 77.5 - - - +
183A ALA* 1.3 64.1 + - - +
185A LEU* 3.2 4.9 + - + +
186A SER* 3.0 23.0 + - - -
222A MET* 4.1 16.2 - - + +
225A ILE* 3.6 37.0 - - + -
226A VAL* 4.3 6.7 - - + -
229A VAL* 5.4 2.9 - - + -
236A LEU* 3.7 29.8 - - + +
240A TYR* 3.5 48.1 - - + -
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Residues in contact with ALA 183 (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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179A ARG 3.1 9.6 + - - +
180A SER* 3.6 9.6 - - - +
182A LEU* 1.3 78.0 - - - +
184A ASP* 1.3 63.1 + - - +
186A SER* 3.4 6.5 + - - -
187A LYS* 3.0 27.3 + - - +
240A TYR* 3.7 16.9 + - - +
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Residues in contact with ASP 184 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137A GLU* 4.6 0.3 - - - +
140A ASN* 6.5 0.9 - - + -
143A ARG* 4.8 3.1 + - - +
144A ASN* 4.5 7.6 - - - +
159A TYR* 2.7 39.0 + - - +
160A ASN* 5.4 0.3 - - - +
180A SER* 2.9 18.0 + - - +
181A MET 3.7 1.3 - - - +
183A ALA* 1.3 80.4 - - - +
185A LEU* 1.3 65.4 + - - +
187A LYS* 3.1 13.4 + - + +
188A SER* 3.0 26.6 + - - +
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Residues in contact with LEU 185 (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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141A ILE* 4.7 13.2 - - + -
144A ASN* 4.1 20.0 - - + +
181A MET* 2.8 20.5 + - + +
182A LEU* 3.7 6.5 - - - +
184A ASP* 1.3 76.2 - - - +
186A SER* 1.3 63.7 + - - +
188A SER* 3.0 7.1 + - - -
189A VAL* 3.0 26.9 + - - +
218A ALA* 4.2 32.1 - - + +
221A LEU* 4.0 20.2 - - + -
222A MET* 3.8 21.1 - - + +
225A ILE* 3.5 32.3 - - + -
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Residues in contact with SER 186 (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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182A LEU 3.0 13.9 + - - -
183A ALA* 3.4 13.2 - - - -
185A LEU* 1.3 78.1 - - - +
187A LYS* 1.3 59.5 + - - +
189A VAL* 3.5 5.0 + - - +
190A GLU* 3.2 36.9 + - - +
222A MET* 3.6 15.3 - - - +
240A TYR* 4.3 7.9 - - - -
243A LYS* 3.7 27.0 + - - +
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Residues in contact with LYS 187 (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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137A GLU* 4.2 20.3 + - - +
183A ALA 3.0 14.6 + - - +
184A ASP* 3.1 17.0 + - - +
186A SER* 1.3 77.1 - - - +
188A SER* 1.3 61.7 + - - +
190A GLU* 3.6 13.1 + - - +
191A LEU* 3.5 20.7 + - - +
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Residues in contact with SER 188 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137A GLU* 2.8 34.9 + - - -
140A ASN* 4.5 6.2 - - - +
141A ILE* 3.8 29.3 + - - +
144A ASN* 5.4 1.6 + - - -
184A ASP* 3.0 14.4 + - - +
185A LEU* 3.0 10.3 + - - +
187A LYS* 1.3 74.2 - - - +
189A VAL* 1.3 60.1 + - - +
191A LEU* 3.5 1.9 + - - +
192A LEU* 2.9 36.0 + - - +
218A ALA* 5.3 0.2 - - - -
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Residues in contact with VAL 189 (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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185A LEU 3.0 18.8 - - - +
186A SER* 3.7 7.0 - - - +
187A LYS 3.3 0.2 - - - -
188A SER* 1.3 75.3 - - - +
190A GLU* 1.3 67.2 + - + +
192A LEU* 4.2 4.0 - - - +
193A ASN* 3.0 48.2 + - - +
215A VAL* 3.7 11.7 - - + +
218A ALA* 3.9 22.9 - - + -
219A ASN* 3.8 20.9 - - - +
222A MET* 4.1 6.1 - - + -
249A ASN* 3.5 22.2 - - + +
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Residues in contact with GLU 190 (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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186A SER* 3.2 25.2 + - - +
187A LYS* 3.9 14.2 - - - +
188A SER 3.3 0.4 - - - -
189A VAL* 1.3 80.0 - - + +
191A LEU* 1.3 62.4 + - - +
193A ASN* 3.4 8.9 + - - +
194A THR* 3.2 19.9 - - - +
249A ASN* 6.1 2.9 - - - +
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Residues in contact with LEU 191 (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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130A PRO 5.0 0.7 - - - +
133A GLN* 3.8 48.7 - - + +
134A ALA* 4.0 13.7 - - - -
137A GLU* 3.8 17.9 - - + +
187A LYS* 3.5 13.3 + - - +
188A SER 4.1 1.3 - - - +
189A VAL 3.4 0.2 - - - -
190A GLU* 1.3 78.6 - - - +
192A LEU* 1.3 69.5 + - + +
194A THR* 2.7 31.1 + - - +
195A ILE* 3.6 9.5 + - + +
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Residues in contact with LEU 192 (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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134A ALA* 3.9 35.7 - - + +
137A GLU* 4.2 9.4 - - + -
138A ILE* 3.8 20.6 - - + -
141A ILE* 3.6 31.0 - - + -
188A SER 2.9 18.5 + - - +
189A VAL* 4.2 0.4 - - - +
191A LEU* 1.3 79.1 - - + +
193A ASN* 1.3 61.0 + - - +
194A THR 3.2 0.2 - - - -
195A ILE* 3.2 14.2 + - + +
211A VAL* 3.3 35.4 - - + +
212A GLN* 4.9 0.7 - - - +
214A TRP* 4.3 11.7 - - + -
215A VAL* 3.7 20.1 - - + +
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Residues in contact with ASN 193 (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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189A VAL* 3.0 31.4 + - - +
190A GLU* 3.7 7.3 - - - +
191A LEU 3.1 0.4 - - - -
192A LEU* 1.3 77.1 - - - +
194A THR* 1.3 62.5 + - + +
195A ILE 3.2 3.3 + - - +
212A GLN* 5.4 6.7 - - - +
215A VAL* 3.8 16.5 - - - +
248A LYS 4.6 4.4 + - - +
249A ASN* 3.2 38.4 + - - +
250A GLY* 4.5 4.2 + - - -
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Residues in contact with THR 194 (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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190A GLU 3.2 19.5 - - - +
191A LEU* 2.7 21.6 + - - +
193A ASN* 1.3 80.0 - - + +
195A ILE* 1.3 66.8 + - - +
196A SER* 3.7 6.1 + - - -
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Residues in contact with ILE 195 (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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130A PRO* 4.0 22.7 - - + +
134A ALA* 4.0 14.4 - - + -
191A LEU* 3.9 18.2 - - + +
192A LEU* 3.2 17.8 + - - +
193A ASN 4.3 3.8 - - - +
194A THR* 1.3 82.9 - - - +
196A SER* 1.3 62.7 + - - +
197A TYR* 3.1 57.4 - - + +
199A VAL* 4.1 6.1 - - + -
211A VAL* 3.9 19.9 - - + +
212A GLN* 3.9 13.0 - - - +
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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