Contacts of the helix formed by residues 171 - 191 (chain A) in PDB entry 4LOU
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 171 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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170A GLY* 1.3 71.5 - - - +
172A GLU* 1.3 66.3 - - - +
174A ARG* 2.7 41.3 + - - +
175A HIS* 2.9 42.4 + - + +
212A LEU* 5.0 10.1 - - + -
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Residues in contact with GLU 172 (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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31A THR* 4.4 8.7 + - - -
32A PRO* 3.2 37.6 - - - +
35A ILE* 3.7 10.0 - - + +
170A GLY* 5.2 2.5 - - - -
171A ASP* 1.3 77.6 - - - +
173A ALA* 1.3 55.6 + - - +
175A HIS* 3.7 0.4 - - - -
176A THR* 2.6 43.5 + - - +
212A LEU* 3.1 56.3 - - + +
214A SER* 4.4 7.2 - - - +
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Residues in contact with ALA 173 (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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35A ILE* 3.4 28.1 - - + +
163A LEU* 3.9 16.4 - - + +
168A LEU* 4.2 13.2 - - + +
169A LYS 4.1 20.6 - - - +
170A GLY* 4.3 1.8 - - - +
171A ASP 3.4 0.2 - - - -
172A GLU* 1.3 77.8 - - - +
174A ARG* 1.3 56.8 + - - +
176A THR* 4.5 2.0 - - - -
177A LEU* 2.9 38.2 + - + +
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Residues in contact with ARG 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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115A ALA 5.4 1.3 + - - +
118A ASP* 2.6 44.6 + - - -
160A ARG* 4.6 21.1 - - - +
163A LEU* 4.0 26.3 - - + +
168A LEU 6.0 0.2 - - - +
170A GLY 3.7 13.8 + - - +
171A ASP* 2.7 34.9 + - - +
173A ALA* 1.3 79.0 - - - +
175A HIS* 1.3 78.0 + - + +
177A LEU* 4.7 0.3 - - - +
178A LEU* 3.1 29.7 + - + +
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Residues in contact with HIS 175 (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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115A ALA 4.8 1.1 - - - -
116A LEU* 3.4 42.5 + - + +
118A ASP* 3.3 22.4 + - - -
171A ASP* 2.9 31.0 + - + +
172A GLU* 3.8 2.5 - - - +
174A ARG* 1.3 97.8 + - + +
176A THR* 1.3 55.1 + - - +
178A LEU* 3.2 3.7 + - + +
179A ALA* 2.8 37.5 + - - +
206A PRO* 5.9 0.2 - - + -
209A ARG* 5.3 4.9 - - - -
211A THR* 4.1 21.6 - - + +
212A LEU 5.0 3.6 + - - -
213A ILE* 4.3 16.8 - - + +
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Residues in contact with THR 176 (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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35A ILE* 3.6 27.4 - - + -
172A GLU* 2.6 28.1 + - - +
173A ALA 4.2 0.2 - - - -
175A HIS* 1.3 71.7 - - - +
177A LEU* 1.3 56.0 + - + +
179A ALA* 2.8 6.8 + - - +
180A THR* 2.8 46.4 + - + +
212A LEU 3.3 6.6 + - - -
213A ILE* 3.4 9.1 - - - +
214A SER* 3.1 28.9 + - - +
217A ALA* 3.9 15.0 - - + -
218A VAL* 5.1 0.4 - - + -
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Residues in contact with LEU 177 (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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35A ILE* 4.1 7.9 - - + +
38A MET* 3.5 24.9 - - + +
39A ALA* 3.5 35.9 - - + +
42A VAL* 4.2 5.9 - - + +
159A GLY* 3.3 33.3 - - - +
162A VAL* 3.9 21.1 - - + -
163A LEU* 4.4 8.1 - - + -
168A LEU* 4.0 15.0 - - + -
173A ALA* 2.9 26.8 + - + +
174A ARG 4.7 0.4 - - - +
176A THR* 1.3 77.9 - - + +
178A LEU* 1.3 61.9 + - - +
180A THR* 3.6 9.4 - - + +
181A GLY* 3.4 8.8 + - - -
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Residues in contact with LEU 178 (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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112A ILE* 4.1 17.0 - - + +
115A ALA* 3.4 35.0 - - + +
116A LEU* 3.7 24.7 - - + -
122A VAL* 4.6 13.0 - - + -
156A GLY* 3.3 35.0 - - - +
159A GLY* 4.8 2.2 - - - -
160A ARG* 5.1 5.2 - - + +
174A ARG* 3.1 25.3 + - + +
175A HIS* 3.4 5.2 - - + +
176A THR 3.1 0.8 - - - -
177A LEU* 1.3 77.6 - - - +
179A ALA* 1.3 63.3 + - - +
181A GLY* 3.0 12.5 + - - -
182A ALA* 3.2 10.9 + - - +
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Residues in contact with ALA 179 (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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116A LEU* 4.4 9.0 - - + -
175A HIS 2.8 20.0 + - - +
176A THR 2.8 3.3 + - - +
178A LEU* 1.3 75.6 - - - +
180A THR* 1.3 57.3 + - - +
181A GLY 3.2 0.2 + - - -
182A ALA* 3.3 3.3 + - - +
183A ALA* 2.9 30.3 + - - +
200A ILE* 3.6 22.9 - - + +
213A ILE* 3.7 33.7 - - + -
218A VAL* 4.5 1.3 - - + -
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Residues in contact with THR 180 (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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39A ALA* 4.0 14.5 + - + -
42A VAL* 4.2 5.8 - - + +
176A THR* 2.8 44.5 + - + +
177A LEU* 3.6 19.3 - - + +
179A ALA* 1.3 71.1 - - - +
181A GLY* 1.3 60.0 + - - +
184A ALA* 3.0 28.0 + - - +
217A ALA 4.2 0.6 + - - -
218A VAL* 3.5 31.8 - - + +
221A GLY* 3.6 21.8 - - - -
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Residues in contact with GLY 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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42A VAL* 3.6 15.9 - - - +
46A VAL* 3.8 4.3 - - - +
155A GLY* 3.1 37.1 - - - -
177A LEU 3.4 6.7 + - - -
178A LEU 3.0 7.7 + - - -
180A THR* 1.3 77.5 - - - +
182A ALA* 1.3 63.9 + - - +
185A GLY 3.1 15.9 + - - -
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Residues in contact with ALA 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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112A ILE* 4.0 12.6 - - + -
152A VAL* 3.4 31.0 - - + +
156A GLY 3.7 1.6 - - - +
178A LEU 3.2 7.2 + - - +
179A ALA* 3.3 6.7 + - - +
181A GLY* 1.3 73.7 - - - +
183A ALA* 1.3 64.9 + - - +
185A GLY 3.0 1.4 + - - -
186A LEU* 2.9 19.9 + - - +
199A PHE* 6.0 1.3 - - - -
200A ILE* 4.2 2.5 - - + -
204A MET* 3.5 32.8 - - + -
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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 ALA 2.9 16.6 + - - +
180A THR 4.3 0.7 - - - +
182A ALA* 1.3 77.7 - - - +
184A ALA* 1.3 63.7 + - - +
185A GLY 3.0 0.5 + - - -
186A LEU* 3.1 4.7 + - - +
187A ALA* 2.9 23.6 + - - +
196A GLY* 3.7 21.1 - - - +
199A PHE* 6.0 0.7 - - - -
200A ILE* 3.4 22.5 - - + +
218A VAL* 3.5 20.0 - - + -
222A VAL* 3.9 7.4 - - + +
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Residues in contact with ALA 184 (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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43A GLY* 4.2 9.2 - - - -
46A VAL* 3.7 7.6 - - + +
180A THR 3.0 21.6 + - - +
181A GLY* 4.2 2.7 - - - +
183A ALA* 1.3 75.9 - - - +
185A GLY* 1.3 55.8 + - - +
187A ALA* 3.8 3.3 - - - +
188A ALA* 3.2 14.0 + - - +
221A GLY 4.0 3.4 - - - -
222A VAL* 3.9 22.9 - - - +
225A SER* 2.7 42.7 + - - -
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Residues in contact with GLY 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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46A VAL* 3.5 17.3 - - - -
151A THR* 3.4 25.9 + - - +
152A VAL* 3.9 6.3 - - - -
181A GLY 3.1 6.3 + - - -
182A ALA 3.0 7.7 + - - -
183A ALA 3.0 1.2 - - - -
184A ALA* 1.3 77.4 - - - +
186A LEU* 1.3 62.8 + - - +
188A ALA* 4.7 1.1 - - - -
189A ALA* 3.3 22.3 + - - +
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Residues in contact with LEU 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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109A ILE* 5.7 2.5 - - + -
148A GLN* 3.9 13.5 - - + -
152A VAL* 3.4 22.6 - - + +
182A ALA 2.9 8.2 + - - +
183A ALA 3.1 7.2 + - - +
185A GLY* 1.3 74.7 - - - +
187A ALA* 1.3 67.8 + - - +
189A ALA* 3.4 3.0 + - - +
190A PHE* 3.1 50.6 + - + +
192A ALA* 4.9 1.3 - - + +
195A ALA* 4.5 8.1 - - + +
196A GLY* 4.1 13.9 - - - +
199A PHE* 3.7 39.0 - - + -
357A PHE* 4.4 19.7 - - + -
407A THR* 5.0 1.6 - - + -
411A LEU* 5.7 1.1 - - + -
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Residues in contact with ALA 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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183A ALA 2.9 16.6 + - - +
184A ALA* 3.8 5.8 - - - +
186A LEU* 1.3 77.6 - - - +
188A ALA* 1.3 57.9 + - - +
191A ASN* 2.8 27.5 + - - -
192A ALA 3.1 27.6 + - - +
193A PRO* 4.0 9.2 - - + +
196A GLY* 4.4 0.8 - - - -
222A VAL* 4.1 14.6 - - + -
225A SER* 4.7 0.4 - - - +
226A THR* 3.8 19.2 + - - +
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Residues in contact with ALA 188 (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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47A GLY* 4.3 2.5 - - - -
50A ALA* 3.7 24.9 - - + -
184A ALA 3.2 7.7 + - - +
185A GLY 4.7 0.4 - - - +
187A ALA* 1.3 78.0 - - - +
189A ALA* 1.3 64.8 - - - +
190A PHE 3.2 0.9 + - - -
191A ASN* 3.3 6.6 + - - +
225A SER* 3.2 24.4 + - - +
226A THR* 4.7 2.2 + - - +
229A TYR* 3.5 45.2 - - + -
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Residues in contact with ALA 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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50A ALA* 4.6 3.8 - - - +
147A ARG* 4.6 10.0 - - + +
148A GLN* 3.5 27.8 + - + +
151A THR* 3.4 20.2 - - + +
185A GLY 3.3 19.7 + - - +
186A LEU* 3.4 5.4 + - - +
188A ALA* 1.3 79.4 - - - +
190A PHE* 1.3 57.2 + - - +
229A TYR* 5.1 4.6 + - - -
238A LEU* 3.7 15.2 - - - +
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Residues in contact with PHE 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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148A GLN* 3.2 48.2 - - + -
186A LEU* 3.1 36.4 + - + +
189A ALA* 1.3 76.2 - - - +
191A ASN* 1.3 68.8 + - - +
192A ALA* 3.3 20.6 + - + +
229A TYR* 5.5 0.2 - - - -
238A LEU* 3.9 16.6 - - + +
317A PHE* 3.4 29.2 - + - -
357A PHE* 3.8 23.8 - + + -
358A ALA 4.8 1.1 - - - -
361A LEU* 4.1 8.3 - - + -
411A LEU* 4.0 14.4 - - + -
415A MET* 3.5 32.4 - - + +
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Residues in contact with ASN 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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187A ALA 2.8 8.9 + - - -
188A ALA 3.3 8.2 + - - -
190A PHE* 1.3 79.5 - - - +
192A ALA* 1.3 55.9 + - - +
193A PRO* 3.4 9.9 - - - +
226A THR* 3.8 9.4 - - - +
229A TYR* 3.7 28.0 + - + +
230A ARG* 2.4 47.0 + - - +
233A ASN 5.4 3.0 + - - -
237A ALA* 6.2 2.0 - - - +
238A LEU* 5.4 3.4 - - + -
414A GLU* 5.0 2.8 - - - +
419B TYR* 4.1 8.7 + - - -
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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
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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