Contacts of the helix formed by residues 166 - 192 (chain A) in PDB entry 3P9K
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 166 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132A VAL* 4.1 6.1 - - - +
162A TYR* 2.9 45.2 + - + +
163A HIS* 3.4 4.6 + - - +
165A THR* 1.3 80.7 - - - +
167A PRO* 1.3 60.2 - - - +
168A ARG* 3.1 17.1 + - - +
169A PHE* 2.8 29.0 + - + +
170A ASN* 2.8 24.4 + - - +
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Residues in contact with PRO 167 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163A HIS 4.9 0.7 - - - +
164A GLY 5.5 2.9 - - - +
165A THR* 3.6 8.1 - - - +
166A ASP* 1.3 86.0 - - - +
168A ARG* 1.3 62.4 + - - +
170A ASN* 3.4 11.1 + - + +
171A ARG* 3.1 22.3 + - - +
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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
----------------------------------------------------------
130A ASP* 2.8 41.0 + - - -
131A LYS* 5.4 3.6 - - - +
132A VAL* 3.5 18.6 - - - +
166A ASP* 3.1 11.6 + - - +
167A PRO* 1.3 79.3 - - - +
169A PHE* 1.3 69.8 + - - +
171A ARG* 3.4 6.1 + - - +
172A VAL* 3.2 34.8 + - + +
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Residues in contact with PHE 169 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127A MET* 4.3 2.5 - - + -
130A ASP* 3.4 35.0 - - + -
132A VAL* 3.8 19.5 - - + -
133A LEU* 3.5 44.4 - - + -
151A PHE* 5.8 1.1 - + - -
162A TYR* 4.2 6.3 - + + -
163A HIS* 3.5 37.7 - + - -
166A ASP* 2.8 31.1 + - + +
168A ARG* 1.3 75.7 - - - +
170A ASN* 1.3 60.3 + - - +
172A VAL* 3.4 16.1 - - + +
173A PHE* 2.8 40.3 + + + +
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Residues in contact with ASN 170 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163A HIS* 3.4 39.9 + - - +
166A ASP 2.8 17.3 + - - +
167A PRO* 3.4 11.3 + - + +
168A ARG 3.3 0.2 - - - -
169A PHE* 1.3 77.3 - - - +
171A ARG* 1.3 58.2 + - - +
173A PHE* 3.7 4.6 - - - +
174A ASN* 3.0 46.4 + - - +
231A HIS* 3.7 10.3 - - - -
232A VAL* 5.2 1.2 - - - +
235A GLU* 2.7 39.0 + - - -
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Residues in contact with ARG 171 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167A PRO 3.1 12.0 + - - +
168A ARG* 3.7 9.4 - - - +
169A PHE 3.1 0.2 - - - -
170A ASN* 1.3 75.9 - - - +
172A VAL* 1.3 62.1 + - - +
174A ASN* 3.2 6.6 + - - +
175A GLU* 2.7 70.7 + - + +
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Residues in contact with VAL 172 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123A ALA 4.6 2.8 - - - +
126A LEU* 4.2 10.1 - - + +
127A MET* 3.6 34.6 - - + +
130A ASP* 4.3 3.6 - - - +
168A ARG* 3.2 35.6 + - + +
169A PHE* 3.1 20.6 + - + +
171A ARG* 1.3 83.2 - - + +
173A PHE* 1.3 63.5 + - - +
175A GLU* 3.8 5.1 - - - +
176A GLY* 3.0 20.3 + - - -
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Residues in contact with PHE 173 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127A MET* 3.7 21.6 - - - +
133A LEU* 5.7 2.0 - - + -
160A PHE* 4.1 8.1 - + - -
163A HIS* 3.4 40.2 - + + +
169A PHE* 2.8 34.6 + + + +
170A ASN* 3.7 5.4 - - - +
172A VAL* 1.3 74.1 - - - +
174A ASN* 1.3 79.1 + - - +
176A GLY* 3.0 12.5 + - - -
177A MET* 3.1 38.8 + - + +
401A SAH 4.0 28.0 - - - -
601A CIY 3.8 31.2 - + - -
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Residues in contact with ASN 174 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
170A ASN* 3.0 44.2 + - - +
171A ARG* 3.8 5.5 - - - +
173A PHE* 1.3 90.4 - - - +
175A GLU* 1.3 61.2 + - + +
177A MET* 3.3 6.4 + - - +
178A LYS* 2.8 30.8 + - - +
207A GLY* 5.4 2.8 - - - -
208A VAL* 4.4 26.2 - - + +
232A VAL* 4.6 18.1 - - - +
235A GLU* 3.8 11.1 + - - +
401A SAH 5.0 3.3 + - - -
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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
----------------------------------------------------------
123A ALA* 4.1 6.5 - - + -
171A ARG* 2.7 66.0 + - + +
172A VAL* 3.8 5.2 - - - +
174A ASN* 1.3 71.9 - - + +
176A GLY* 1.3 66.4 + - - +
178A LYS* 3.0 33.5 + - - +
179A ASN* 2.9 48.0 + - - +
208A VAL* 6.1 1.4 - - - +
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Residues in contact with GLY 176 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123A ALA* 3.8 26.2 - - - +
124A LEU* 3.5 26.4 - - - +
127A MET* 4.7 2.9 - - - -
172A VAL 3.0 14.7 + - - -
173A PHE 3.0 4.2 + - - -
175A GLU* 1.3 76.9 - - - +
177A MET* 1.3 60.1 + - - +
179A ASN* 4.1 1.2 - - - +
180A HIS* 3.4 15.9 + - - +
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Residues in contact with MET 177 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124A LEU* 4.2 6.1 - - + -
127A MET* 3.5 41.3 - - + -
173A PHE* 3.1 37.4 + - + +
174A ASN* 3.7 8.1 - - - +
175A GLU 3.2 0.2 - - - -
176A GLY* 1.3 75.6 - - - +
178A LYS* 1.3 66.4 + - - +
180A HIS* 3.3 4.4 + - - +
181A SER* 2.9 27.0 + - - -
262A LYS* 4.6 0.2 + - - -
263A TRP* 3.8 15.5 - - + -
401A SAH 3.5 27.9 - - + +
601A CIY 3.7 36.6 - - + +
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Residues in contact with LYS 178 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174A ASN 2.8 21.2 + - - +
175A GLU* 3.0 36.7 + - - +
177A MET* 1.3 74.0 - - - +
179A ASN* 1.3 66.6 + - - +
181A SER* 3.2 6.4 + - - -
182A ILE* 2.9 48.7 + - + +
208A VAL* 3.8 24.9 - - + +
210A ALA* 3.8 16.8 - - + -
237A PRO* 6.3 2.6 - - + +
239A PHE* 6.1 2.2 - - + -
401A SAH 5.0 0.9 - - - -
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Residues in contact with ASN 179 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118A GLY 4.2 2.6 - - - +
119A VAL* 3.2 22.7 - - - +
120A SER 3.2 38.4 + - - +
123A ALA* 3.7 19.0 - - + +
124A LEU* 5.8 0.9 - - + +
175A GLU* 2.9 46.8 + - - +
176A GLY 4.1 1.8 - - - +
178A LYS* 1.3 82.3 - - - +
180A HIS* 1.3 65.8 + - - +
182A ILE* 3.4 2.3 + - - +
183A ILE* 3.3 25.8 + - - +
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Residues in contact with HIS 180 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121A MET* 3.9 24.4 - - + -
124A LEU* 3.8 19.7 - - + +
176A GLY 3.4 15.9 + - - +
177A MET 3.3 4.2 + - - +
178A LYS 3.3 0.6 - - - -
179A ASN* 1.3 78.7 - - - +
181A SER* 1.3 61.6 - - - +
183A ILE* 3.1 4.7 + - - +
184A ILE* 3.0 54.3 + - + +
262A LYS* 2.8 30.9 + - - -
263A TRP* 3.4 40.3 - + + -
293A VAL* 6.1 0.4 - - + -
351A ALA 5.6 1.6 + - - -
353A ALA* 5.5 4.3 - - + -
21B LEU* 4.1 11.8 - - + +
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Residues in contact with SER 181 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177A MET 2.9 12.6 + - - -
178A LYS* 3.5 6.7 - - - -
180A HIS* 1.3 77.8 + - - +
182A ILE* 1.3 57.5 + - - +
185A THR* 2.7 37.6 + - - -
210A ALA* 5.2 1.8 - - - -
211A THR* 3.2 26.0 + - - -
262A LYS* 3.2 17.2 + - - +
401A SAH 2.4 34.4 + - - -
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Residues in contact with ILE 182 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117A ASP* 4.7 15.3 - - + +
119A VAL* 3.9 35.0 - - + -
178A LYS* 2.9 43.8 + - + +
179A ASN 3.8 4.7 - - - +
181A SER* 1.3 76.3 - - - +
183A ILE* 1.3 62.0 + - - +
185A THR* 4.3 3.6 - - - -
186A LYS* 3.5 19.2 + - - +
210A ALA* 4.1 20.4 - - + +
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Residues in contact with ILE 183 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111A PHE* 5.7 11.9 - - + -
115A ASN* 5.1 4.3 - - - +
119A VAL* 3.8 16.6 - - + -
120A SER* 3.8 32.5 - - - +
121A MET* 3.8 31.2 - - + +
179A ASN 3.3 14.6 - - - +
180A HIS 3.1 7.5 + - - +
182A ILE* 1.3 77.4 - - - +
184A ILE* 1.3 67.5 + - + +
186A LYS* 3.5 17.9 + - - +
187A LYS* 3.6 10.3 + - + +
350A TYR* 5.7 6.7 - - + -
17B CYS* 4.9 8.1 - - - -
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Residues in contact with ILE 184 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121A MET* 4.7 4.0 - - + -
180A HIS* 3.0 45.6 + - + +
181A SER 4.1 1.6 - - - +
183A ILE* 1.3 83.1 - - + +
185A THR* 1.3 62.0 + - - +
187A LYS* 3.0 7.7 + - + +
188A LEU* 2.8 28.7 + - + +
262A LYS* 4.3 8.1 - - + -
293A VAL* 4.3 16.6 - - + -
349A ILE* 4.5 9.1 - - + +
350A TYR* 4.3 23.6 - - + +
351A ALA* 4.7 13.0 - - + +
353A ALA* 4.0 20.6 - - + -
17B CYS* 5.9 0.2 - - - -
21B LEU* 5.8 0.2 - - + -
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Residues in contact with THR 185 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181A SER* 2.7 30.1 + - - -
182A ILE* 4.3 3.4 - - - -
184A ILE* 1.3 73.7 - - - +
186A LYS* 1.3 62.1 + - - +
188A LEU* 3.4 11.5 - - + +
189A LEU* 2.9 29.6 + - + +
211A THR* 3.4 26.3 + - + +
214A ALA* 3.6 31.6 - - + -
215A ILE* 3.9 22.2 - - + -
262A LYS* 5.3 2.8 - - - +
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Residues in contact with LYS 186 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115A ASN* 5.8 1.4 - - - +
116A GLU* 3.5 23.2 + - - -
117A ASP* 4.1 15.2 + - - +
182A ILE 3.5 11.6 + - - +
183A ILE* 3.5 12.7 + - - +
184A ILE 3.2 0.2 - - - -
185A THR* 1.3 78.4 - - - +
187A LYS* 1.3 63.4 + - + +
189A LEU* 3.4 12.8 + - - +
190A GLU* 3.2 36.5 + - + +
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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
----------------------------------------------------------
183A ILE* 3.6 10.9 + - + +
184A ILE* 3.0 9.6 + - - +
186A LYS* 1.3 79.3 - - + +
188A LEU* 1.3 64.0 + - - +
190A GLU* 3.1 29.4 + - - +
191A LEU* 3.1 35.4 + - + +
349A ILE* 4.0 5.2 - - + -
350A TYR* 3.7 66.8 + - + -
10B ALA* 5.6 6.7 - - - +
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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
----------------------------------------------------------
184A ILE* 2.8 19.7 + - + +
185A THR* 3.4 17.9 - - + +
187A LYS* 1.3 74.9 - - - +
189A LEU* 1.3 57.2 + - + +
192A TYR* 2.8 51.0 + - + +
195A PHE* 3.6 30.5 - - + -
211A THR* 5.8 1.6 - - + -
215A ILE* 4.7 9.6 - - + -
260A LEU* 5.2 3.1 - - + -
291A VAL* 6.0 0.7 - - + -
293A VAL* 4.4 23.1 - - + -
349A ILE* 3.7 37.7 - - + +
355A ALA* 4.1 11.0 - - + -
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Residues in contact with LEU 189 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
185A THR* 2.9 31.9 + - + +
186A LYS* 3.8 8.5 - - - +
187A LYS 3.3 0.4 - - - -
188A LEU* 1.3 76.1 - - + +
190A GLU* 1.3 60.3 + - + +
192A TYR 4.2 9.5 - - - +
193A HIS* 5.8 0.9 - - - -
195A PHE* 4.4 10.3 - - + -
214A ALA* 3.9 15.5 - - + +
215A ILE* 4.1 19.3 - - + -
218A HIS* 3.7 46.9 + - + -
219A TYR* 3.9 31.6 + - + +
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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
----------------------------------------------------------
186A LYS* 3.2 41.2 - - + +
187A LYS* 3.1 38.8 + - - +
189A LEU* 1.3 80.9 - - + +
191A LEU* 1.3 69.8 + - + +
192A TYR 5.3 0.2 - - - -
193A HIS* 4.4 10.5 + - - -
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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
----------------------------------------------------------
187A LYS* 3.1 28.7 + - + +
190A GLU* 1.3 92.0 - - + +
192A TYR* 1.3 59.4 + - - +
193A HIS* 4.0 10.7 - - - -
347A THR* 4.6 11.5 - - + +
348A TYR 4.8 4.5 - - - +
349A ILE* 3.1 43.3 - - + +
350A TYR* 5.4 1.3 - - + -
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Residues in contact with TYR 192 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
188A LEU* 2.8 42.2 + - + +
189A LEU* 4.2 9.7 - - - +
190A GLU 3.8 0.2 - - - -
191A LEU* 1.3 74.9 - - - +
193A HIS* 1.3 68.4 + - - +
194A GLY* 3.4 28.8 - - - -
195A PHE* 3.7 43.2 + + - -
219A TYR* 4.5 6.6 + - - -
289A LYS* 3.9 0.7 + - - -
291A VAL* 3.3 20.4 - - + +
345A LYS* 4.8 7.9 - - - -
347A THR* 4.8 11.7 - - + -
349A ILE* 4.2 5.6 - - + -
355A ALA* 4.2 15.5 - - + -
357A GLU* 2.4 49.5 + - + +
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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
------------------------------------------------------------
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) + - + + + + + -
------------------------------------------------------------
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