Contacts of the helix formed by residues 164 - 188 (chain A) in PDB entry 5A6C
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 PRO 164 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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152A PHE 6.3 0.2 - - - -
153A GLY* 5.7 5.4 - - - -
163A PHE* 1.3 91.2 - - - +
165A GLU* 1.3 66.9 + - - +
166A GLU* 3.2 25.8 - - - +
167A VAL* 3.4 23.1 + - + +
168A ARG* 3.3 17.2 + - - +
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Residues in contact with GLU 165 (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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163A PHE 3.7 1.3 + - - -
164A PRO* 1.3 73.7 - - - +
166A GLU* 1.3 75.2 + - + +
168A ARG* 3.1 16.0 + - - +
169A ASP* 2.9 46.6 + - - +
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Residues in contact with GLU 166 (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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152A PHE* 3.9 29.8 - - + +
164A PRO* 3.2 24.8 - - - +
165A GLU* 1.3 84.9 + - + +
167A VAL* 1.3 63.4 + - - +
169A ASP* 3.2 6.2 + - - +
170A ALA* 3.0 26.3 + - - +
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Residues in contact with VAL 167 (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 GLY* 3.5 28.9 - - - +
152A PHE* 3.6 20.4 - - + -
153A GLY* 3.6 15.3 - - - +
163A PHE* 5.5 4.3 - - + -
164A PRO* 3.4 28.1 + - + +
165A GLU 3.3 0.8 - - - -
166A GLU* 1.3 79.3 - - - +
168A ARG* 1.3 60.9 + - - +
170A ALA* 3.9 1.2 - - - +
171A LEU* 2.9 48.0 + - + +
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Residues in contact with ARG 168 (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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158A GLN 4.9 4.8 + - - -
163A PHE* 4.6 28.9 - - + +
164A PRO 3.3 9.2 + - - +
165A GLU* 3.1 18.7 + - - +
167A VAL* 1.3 82.3 - - - +
169A ASP* 1.3 69.7 + - - +
171A LEU* 4.0 0.5 - - - +
172A GLN* 2.9 44.2 + - + +
208A LEU* 3.8 46.9 + - + +
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Residues in contact with ASP 169 (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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165A GLU* 2.9 40.0 + - - +
166A GLU* 3.2 6.1 + - - +
168A ARG* 1.3 88.6 - - - +
170A ALA* 1.3 57.3 + - - +
172A GLN* 3.5 5.6 + - - +
173A ALA* 2.9 26.7 + - - +
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Residues in contact with ALA 170 (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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145A TYR* 3.3 37.8 - - + +
148A LYS* 4.4 11.0 - - + -
149A GLY* 3.7 17.5 - - - +
152A PHE* 5.6 1.8 - - + -
166A GLU 3.0 16.6 + - - +
169A ASP* 1.3 75.7 - - - +
171A LEU* 1.3 64.9 + - - +
173A ALA* 3.2 6.0 + - - -
174A ALA* 3.0 18.9 + - - +
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Residues in contact with LEU 171 (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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146A HIS* 4.0 30.7 - - - +
149A GLY* 4.2 9.9 - - - -
150A LYS* 4.3 3.4 - - - +
167A VAL* 2.9 36.9 + - + +
170A ALA* 1.3 76.4 - - - +
172A GLN* 1.3 57.7 + - - +
174A ALA* 3.2 3.4 + - - +
175A VAL* 2.9 22.7 + - - +
204A THR* 3.3 19.6 - - + +
207A LEU* 3.6 43.5 - - + -
208A LEU* 3.7 28.7 - - + +
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Residues in contact with GLN 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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168A ARG* 2.9 34.7 + - + +
169A ASP* 3.7 7.4 - - - +
171A LEU* 1.3 75.1 - - - +
173A ALA* 1.3 64.9 + - - +
175A VAL* 3.1 15.8 + - - +
176A ASP* 3.0 43.7 + - - +
208A LEU* 3.8 16.3 - - - +
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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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145A TYR* 3.6 31.0 - - + -
169A ASP 2.9 15.1 + - - +
170A ALA 3.3 9.2 - - - +
172A GLN* 1.3 76.5 - - - +
174A ALA* 1.3 63.6 + - - +
176A ASP* 3.1 9.9 + - - +
177A PHE* 2.9 33.9 + - + -
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Residues in contact with ALA 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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142A GLY* 3.3 29.6 - - - +
145A TYR* 3.8 3.1 - - + +
146A HIS* 3.6 20.0 - - + +
170A ALA 3.0 8.9 + - - +
171A LEU* 3.4 10.1 - - - +
172A GLN 3.2 0.2 - - - -
173A ALA* 1.3 76.0 - - - +
175A VAL* 1.3 63.9 + - - +
177A PHE* 3.9 0.5 - - - +
178A TYR* 2.8 41.5 + - + -
204A THR* 4.4 3.8 - - + -
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Residues in contact with VAL 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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171A LEU 2.9 9.8 + - - +
172A GLN* 3.1 25.1 + - - +
174A ALA* 1.3 78.0 - - - +
176A ASP* 1.3 59.7 + - - +
178A TYR* 3.4 1.8 + - - +
179A GLU* 2.9 50.2 + - - +
201A LEU* 3.9 17.3 - - + +
204A THR* 3.3 26.5 - - + -
205A HIS* 4.2 18.8 - - + +
208A LEU* 3.9 13.5 - - + -
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Residues in contact with ASP 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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172A GLN* 3.0 33.7 + - - +
173A ALA* 3.5 9.5 - - - +
175A VAL* 1.3 80.2 - - - +
177A PHE* 1.3 63.7 + - + +
179A GLU* 3.2 7.9 + - - +
180A GLU* 3.0 31.0 + - - +
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Residues in contact with PHE 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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119A GLN* 5.0 4.9 - - - -
122A LEU* 4.6 4.3 - - + -
138A LEU* 3.6 32.1 - - + +
141A LEU* 3.5 37.7 - - + -
142A GLY* 3.5 20.6 - - - +
145A TYR* 3.4 36.3 - + - -
173A ALA* 2.9 27.1 + - + +
176A ASP* 1.3 76.7 - - + +
178A TYR* 1.3 64.5 + - - +
180A GLU* 3.4 12.3 + - - +
181A ASN* 3.0 23.0 + - - +
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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
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139A TYR* 4.0 22.4 - + - -
142A GLY* 3.3 11.3 + - - -
143A ASN* 2.6 44.7 + - - -
146A HIS* 3.4 12.2 - + - +
174A ALA* 2.8 38.8 + - + +
175A VAL 4.3 0.2 - - - -
177A PHE* 1.3 76.0 - - - +
179A GLU* 1.3 58.0 + - - +
181A ASN* 3.5 6.4 + - - +
182A LEU* 2.9 28.8 + - - +
197A ALA* 4.4 9.0 - - + +
200A ASN* 3.4 37.5 + - + -
201A LEU* 3.8 24.9 - - + +
204A THR* 3.8 20.2 - - - -
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Residues in contact with GLU 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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175A VAL* 2.9 34.3 + - - +
176A ASP* 3.8 7.8 - - - +
177A PHE 3.1 0.2 - - - -
178A TYR* 1.3 76.0 - - - +
180A GLU* 1.3 64.2 + - - +
182A LEU* 3.2 9.3 + - + +
183A SER* 3.0 24.8 + - - -
201A LEU* 3.8 19.9 - - + +
205A HIS* 4.2 16.8 + - - -
189B GLY 5.3 4.9 - - - +
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Residues in contact with GLU 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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126A ARG* 3.0 29.1 + - - -
138A LEU* 3.6 24.4 - - + +
176A ASP* 3.0 18.4 + - - +
177A PHE* 3.6 16.7 - - - +
179A GLU* 1.3 72.8 - - - +
181A ASN* 1.3 65.1 + - - +
182A LEU 3.2 0.3 + - - -
183A SER* 3.2 9.5 + - - -
184A LEU* 3.0 24.9 + - + +
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Residues in contact with ASN 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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135A ALA* 2.8 32.3 + - - +
138A LEU* 3.9 15.1 - - + +
139A TYR* 3.8 24.0 - - - +
177A PHE 3.0 17.3 + - - +
178A TYR* 3.6 7.9 - - - +
180A GLU* 1.3 75.7 - - - +
182A LEU* 1.3 57.1 + - - +
184A LEU* 3.3 3.9 + - - +
185A VAL* 2.9 44.7 + - - +
193A ALA* 4.3 3.9 - - - +
197A ALA* 3.5 22.3 - - - +
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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 2.9 18.3 + - - +
179A GLU* 3.6 8.3 - - + +
180A GLU 3.1 0.2 - - - -
181A ASN* 1.3 74.0 - - - +
183A SER* 1.3 64.8 + - - +
185A VAL* 3.8 3.9 - - - +
186A THR* 2.8 37.2 + - - +
194A GLN* 3.9 21.8 - - + +
197A ALA* 3.8 21.1 - - + -
198A PHE* 3.4 44.9 - - + -
201A LEU* 4.2 17.5 - - + -
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Residues in contact with SER 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 GLU 3.0 12.9 + - - -
180A GLU* 3.3 12.7 - - - -
182A LEU* 1.3 77.4 - - - +
184A LEU* 1.3 59.6 + - - +
186A THR* 3.2 4.9 + - - -
187A ALA* 3.0 27.4 + - - +
192B ALA* 5.3 5.0 - - - +
228B PHE* 4.3 19.1 - - - -
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Residues in contact with LEU 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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126A ARG* 6.1 0.2 - - - +
131A LYS* 3.2 44.0 - - + +
134A GLU* 3.8 28.9 - - + +
135A ALA* 3.6 22.4 - - + +
138A LEU* 4.7 5.8 - - + -
180A GLU* 3.0 15.1 + - + +
181A ASN* 3.7 6.7 - - - +
183A SER* 1.3 82.4 - - - +
185A VAL* 1.3 59.6 + - - +
187A ALA* 3.4 7.6 + - + +
188A LEU* 3.0 31.8 + - + +
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Residues in contact with VAL 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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135A ALA* 3.9 17.5 - - + -
181A ASN* 2.9 44.9 + - - +
182A LEU* 3.8 10.3 - - - +
184A LEU* 1.3 73.3 - - - +
186A THR* 1.3 65.9 + - - +
188A LEU* 3.9 9.2 - - + +
189A GLY 3.4 0.7 + - - -
190A ASP* 3.3 22.5 + - + +
193A ALA* 3.9 22.4 - - + +
194A GLN* 2.8 41.3 + - + +
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Residues in contact with THR 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* 2.8 29.1 + - - +
183A SER* 3.5 5.4 - - - -
185A VAL* 1.3 77.3 - - - +
187A ALA* 1.3 57.6 + - - +
189A GLY* 2.8 24.9 + - - -
194A GLN* 3.0 21.8 + - - +
198A PHE* 5.8 1.2 - - - -
136B ARG* 5.6 7.9 - - - +
383B ASP* 4.0 6.7 - - - +
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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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131A LYS* 4.6 17.0 + - - +
183A SER 3.0 12.8 + - - +
184A LEU* 3.4 13.0 - - + +
186A THR* 1.3 78.4 - - - +
188A LEU* 1.3 61.0 + - - +
189A GLY 3.3 1.2 + - - -
381B GLU* 4.9 7.4 - - - +
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Residues in contact with LEU 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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131A LYS* 3.6 56.8 - - + +
132A VAL* 3.9 19.3 - - + -
135A ALA* 4.3 10.8 - - + -
184A LEU* 3.0 20.5 + - + +
185A VAL* 4.4 9.0 - - + -
186A THR 3.3 0.4 - - - -
187A ALA* 1.3 73.2 - - - +
189A GLY* 1.3 63.7 + - - +
190A ASP* 3.0 6.9 + - + +
29B LYS* 3.9 45.3 - - + +
381B GLU* 6.0 0.4 - - - -
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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
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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