Contacts of the helix formed by residues 157 - 180 (chain A) in PDB entry 6DWM
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 CYS 157 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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146A SER 3.7 13.2 - - - +
147A ILE* 3.3 17.7 - - - +
148A ALA 3.2 17.7 - - - +
149A SER* 4.2 2.5 - - - +
150A ASP* 4.0 6.3 - - - +
156A SER* 1.3 78.1 - - - +
158A TYR* 1.3 67.7 + - - +
159A LEU* 4.4 1.8 - - - -
160A GLU* 3.5 17.6 + - - -
161A GLU* 3.1 22.3 + - - +
359A LEU* 3.9 21.8 - - - -
465A TRP* 4.9 5.2 - - - -
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Residues in contact with TYR 158 (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 SER 3.8 22.2 - - - -
145A PHE* 3.5 44.1 - + + +
146A SER 3.6 4.2 + - - +
148A ALA* 3.2 25.8 + - + -
149A SER 3.9 14.4 - - - -
150A ASP* 3.9 25.0 - - - +
151A PRO* 3.1 25.1 - - + +
157A CYS* 1.3 74.5 - - - +
159A LEU* 1.3 65.6 + - - +
161A GLU* 3.1 4.7 + - - +
162A HIS* 3.0 44.8 + + - +
278A ILE 5.4 1.7 + - - -
279A ARG 5.4 4.3 + - - -
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Residues in contact with LEU 159 (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 SER* 3.0 25.0 + - - +
147A ILE* 6.3 0.2 - - + -
157A CYS* 4.4 4.0 - - - -
158A TYR* 1.3 75.8 - - - +
160A GLU* 1.3 59.5 + - - +
162A HIS* 3.2 5.9 + - - -
163A VAL* 2.9 44.0 + - + +
197A VAL* 3.8 25.4 - - + -
201A ILE* 4.1 13.9 - - + -
359A LEU* 5.0 3.1 - - + -
462A ILE* 4.0 32.3 - - + +
465A TRP* 3.7 40.6 - - + -
466A GLU* 4.1 8.1 - - + +
469A LEU* 5.8 0.4 - - + -
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Residues in contact with GLU 160 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156A SER* 3.6 18.3 - - - -
157A CYS* 3.5 13.9 + - - +
158A TYR 3.3 0.6 - - - -
159A LEU* 1.3 78.2 - - - +
161A GLU* 1.3 61.4 + - - +
163A VAL* 4.3 0.3 - - - +
164A SER* 2.8 38.0 + - - +
357A PRO 4.3 1.3 - - - +
358A ARG* 3.0 58.2 + - - +
359A LEU* 3.7 35.2 + - + +
360A SER 5.3 0.2 + - - -
469A LEU* 3.8 20.4 - - + +
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Residues in contact with GLU 161 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150A ASP* 4.2 17.3 - - - +
152A ALA* 5.5 2.6 - - - +
153A SER* 3.4 23.5 + - - -
156A SER* 2.8 25.5 + - - -
157A CYS 3.1 14.0 + - - +
158A TYR 3.1 8.0 + - - +
160A GLU* 1.3 79.3 - - - +
162A HIS* 1.3 67.0 + - + +
164A SER* 3.7 5.2 - - - -
165A LYS* 3.2 21.1 + - - +
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Residues in contact with HIS 162 (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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150A ASP* 5.2 2.9 - - - -
158A TYR* 3.0 44.4 + + + +
159A LEU* 3.8 4.0 - - - +
161A GLU* 1.3 82.1 - - + +
163A VAL* 1.3 65.4 + - - +
165A LYS* 3.2 6.9 + - - +
166A GLU* 3.1 28.3 + - + +
197A VAL* 4.1 21.5 - - + -
200A ALA* 4.0 28.0 + - + +
201A ILE* 3.9 27.6 - - + +
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Residues in contact with VAL 163 (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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159A LEU* 2.9 36.1 + - + +
162A HIS* 1.3 75.7 - - - +
164A SER* 1.3 57.1 + - - +
167A ALA* 2.9 27.4 + - - +
197A VAL* 4.0 13.7 - - + -
466A GLU* 4.0 25.4 - - + -
469A LEU* 3.6 37.7 - - + -
470A PHE* 3.6 30.9 - - + +
473A ILE* 4.8 2.0 - - + -
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Residues in contact with SER 164 (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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160A GLU* 2.8 30.7 + - - +
161A GLU* 3.7 6.7 - - - -
163A VAL* 1.3 74.7 - - - +
165A LYS* 1.3 65.0 + - - +
167A ALA* 3.4 2.4 + - - +
168A GLU* 3.3 28.7 + - - +
356A ARG* 3.4 31.9 + - - +
357A PRO 5.3 1.0 + - - -
469A LEU* 4.9 1.7 - - - +
473A ILE* 4.1 15.8 - - - +
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Residues in contact with LYS 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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161A GLU 3.2 10.3 + - - +
162A HIS* 3.2 9.8 + - - +
164A SER* 1.3 80.4 - - - +
166A GLU* 1.3 66.5 + - + +
168A GLU* 3.2 8.2 + - - +
169A VAL* 3.2 28.5 + - + +
206A ARG* 3.6 35.4 - - - +
210C ASN* 5.8 7.3 - - - +
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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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162A HIS* 3.1 17.2 + - + +
165A LYS* 1.3 79.4 - - + +
167A ALA* 1.3 60.4 + - - +
169A VAL* 3.8 5.4 - - - +
170A LEU* 2.8 31.9 + - - +
193A SER* 3.7 31.0 + - - +
196A ASN* 3.2 29.1 + - + +
197A VAL* 3.9 9.0 - - + +
206A ARG* 2.6 47.1 + - - +
209A HIS* 4.8 0.7 + - - -
470A PHE* 4.1 13.2 - - + -
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Residues in contact with ALA 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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163A VAL* 2.9 20.3 + - + +
164A SER 3.7 4.5 - - - +
165A LYS 3.3 0.2 - - - -
166A GLU* 1.3 77.0 - - - +
168A GLU* 1.3 56.1 + - - +
170A LEU* 3.4 5.0 + - - +
171A ILE* 3.0 35.5 + - - +
470A PHE* 4.0 14.3 - - + -
473A ILE* 3.6 35.4 - - + -
474A LEU* 4.0 9.2 - - + +
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Residues in contact with GLU 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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164A SER 3.3 14.5 + - - +
165A LYS* 3.2 8.5 + - - +
166A GLU 3.2 0.6 - - - -
167A ALA* 1.3 75.9 - - - +
169A VAL* 1.3 67.5 + - + +
171A ILE* 3.0 7.6 + - - +
172A SER* 3.0 26.4 + - - +
356A ARG* 3.0 23.9 - - - +
473A ILE* 4.5 4.4 - - - +
477A ARG* 2.6 45.1 + - - -
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Residues in contact with VAL 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 LYS* 3.2 25.8 + - + +
166A GLU* 4.0 6.3 - - - +
168A GLU* 1.3 76.0 - - + +
170A LEU* 1.3 57.4 + - - +
172A SER* 3.8 7.1 - - - -
173A THR* 2.8 38.7 + - - +
206A ARG* 3.8 33.2 - - - +
209A HIS* 3.8 20.2 - - + -
208C ASP* 5.3 10.3 - - - +
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Residues in contact with LEU 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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166A GLU 2.8 19.2 + - - +
167A ALA 3.6 5.2 - - - +
168A GLU 3.1 0.2 - - - -
169A VAL* 1.3 77.6 - - - +
171A ILE* 1.3 61.9 + - - +
173A THR* 3.4 3.7 + - - -
174A LEU* 3.1 44.6 + - + +
189A TYR* 3.8 27.6 - - + +
190A VAL* 4.4 18.4 - - + +
193A SER* 3.5 27.3 + - - +
209A HIS* 4.2 5.8 - - + -
326A ILE* 6.4 0.9 - - + -
470A PHE* 4.5 11.9 - - + -
474A LEU* 3.9 29.4 - - + -
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Residues in contact with ILE 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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167A ALA 3.0 16.9 + - - +
168A GLU* 3.0 8.6 + - - +
170A LEU* 1.3 74.4 - - - +
172A SER* 1.3 66.7 + - - +
174A LEU* 3.2 7.9 + - + +
175A GLN* 3.0 41.5 + - + +
473A ILE* 4.3 14.4 - - + +
474A LEU* 4.0 24.7 - - + -
477A ARG* 3.7 47.3 - - + +
478A VAL* 4.3 21.3 - - + -
508A MET* 4.1 1.9 - - + +
510A LEU* 5.2 0.2 - - + -
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Residues in contact with SER 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 GLU* 3.0 16.1 + - - +
169A VAL* 3.8 7.5 - - - -
171A ILE* 1.3 77.4 - - - +
173A THR* 1.3 64.5 + - - +
175A GLN* 3.2 27.1 + - - +
176A GLU* 3.2 25.7 + - - +
208C ASP* 5.1 15.2 - - - +
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Residues in contact with THR 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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169A VAL* 2.8 29.2 + - - +
170A LEU* 3.7 7.2 - - - -
171A ILE 3.3 0.2 - - - -
172A SER* 1.3 77.6 - - - +
174A LEU* 1.3 60.6 + - - +
176A GLU* 3.5 15.6 + - - +
177A LEU* 3.5 22.5 + - + +
189A TYR* 3.7 36.6 - - + -
209A HIS* 3.9 27.0 - - + +
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Residues in contact with LEU 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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170A LEU* 3.1 36.8 + - + +
171A ILE* 3.8 1.6 - - - +
173A THR* 1.3 76.2 - - - +
175A GLN* 1.3 64.4 + - - +
177A LEU* 3.3 13.8 + - + +
178A MET* 3.2 25.5 + - - +
184A PHE* 3.3 39.1 - - + -
186A PRO* 5.5 1.3 - - + -
189A TYR* 4.7 14.8 - - + -
190A VAL* 6.2 2.0 - - + -
474A LEU* 5.3 2.0 - - + -
480A PHE* 3.9 23.1 - - + -
508A MET* 3.5 30.7 - - - -
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Residues in contact with GLN 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 ILE* 3.0 23.7 + - - +
172A SER* 3.6 27.5 + - - +
174A LEU* 1.3 76.8 - - - +
176A GLU* 1.3 61.8 + - + +
178A MET* 3.2 15.5 + - - +
179A ALA* 3.2 13.7 + - - +
508A MET* 3.6 17.9 - - + -
510A LEU* 3.4 34.2 - - + +
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Residues in contact with GLU 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 SER* 3.2 23.3 + - - +
173A THR* 3.7 13.8 + - - +
174A LEU 3.3 0.2 - - - -
175A GLN* 1.3 76.7 - - + +
177A LEU* 1.3 61.9 + - + +
179A ALA* 3.2 6.9 + - - +
180A GLY* 3.2 18.0 + - - -
181A PRO* 4.7 0.5 - - - +
205C ARG* 4.0 23.6 + - - +
206C ARG 5.6 3.3 - - - +
207C TYR* 4.3 9.8 - - + -
211C HIS* 2.8 44.0 + - - -
213C GLU* 5.4 0.3 - - - +
268C GLU* 5.4 0.3 - - - +
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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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173A THR* 3.5 17.4 + - + +
174A LEU* 3.3 16.0 + - + +
175A GLN 3.3 0.4 - - - -
176A GLU* 1.3 78.7 - - + +
178A MET* 1.3 59.7 + - - +
181A PRO* 3.2 25.2 - - + +
182A GLY* 2.8 24.0 + - - -
183A HIS 4.0 7.5 + - - +
184A PHE* 3.7 28.0 - - + -
189A TYR* 3.3 55.2 - - + +
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Residues in contact with MET 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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174A LEU 3.2 14.5 + - - +
175A GLN* 3.2 10.1 + - - +
177A LEU* 1.3 76.8 - - - +
179A ALA* 1.3 60.9 + - - +
182A GLY* 3.2 44.1 + - - +
184A PHE* 4.1 9.4 - - + -
507A GLN* 3.9 16.2 - - + +
508A MET* 3.3 51.6 - - + +
509A GLN* 3.7 18.8 - - - +
272C THR* 5.7 3.6 - - - +
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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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175A GLN 3.2 10.7 + - - +
176A GLU* 3.2 6.7 + - - +
178A MET* 1.3 79.7 - - - +
180A GLY* 1.3 59.6 + - - +
205C ARG* 3.1 34.0 + - + +
268C GLU* 4.1 17.7 - - - +
272C THR* 4.6 9.7 + - - +
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Residues in contact with GLY 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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176A GLU 3.2 11.3 + - - -
177A LEU 3.4 0.8 + - - -
178A MET 4.7 0.2 - - - +
179A ALA* 1.3 80.2 - - - +
181A PRO* 1.3 74.0 - - - +
182A GLY* 3.1 1.3 + - - -
268C GLU* 3.4 33.9 + - - +
271C LYS* 4.2 14.6 - - - +
272C THR* 5.4 2.1 - - - +
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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