Contacts of the helix formed by residues 175 - 201 (chain A) in PDB entry 2C3E
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 GLY 175 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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131A TYR* 3.1 9.0 - - - -
174A GLN* 1.3 72.3 - - - +
176A PHE* 1.3 65.0 - - - +
177A ASN 3.4 2.5 - - - -
178A VAL* 3.2 16.9 - - - +
179A SER* 2.9 23.9 + - - -
234A ARG* 3.7 16.9 - - - +
237A MET* 4.0 10.3 - - - +
253A THR* 5.8 1.1 - - - -
802A CDL 3.1 10.6 + - - -
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Residues in contact with PHE 176 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124A ALA* 3.9 15.0 - - + -
127A LEU* 3.8 26.5 - - + -
128A CYS* 3.9 13.5 - - - -
131A TYR* 3.2 32.0 + + + -
173A TYR* 3.3 27.4 + + + +
175A GLY* 1.3 74.6 - - - +
177A ASN* 1.3 71.4 + - - +
179A SER* 2.7 19.9 + - - -
180A VAL* 3.0 23.6 + - + +
802A CDL 3.5 69.0 + - + -
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Residues in contact with ASN 177 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
176A PHE* 1.3 80.5 - - - +
178A VAL* 1.3 56.0 + - - +
180A VAL* 2.6 33.2 + - - +
181A GLN* 3.0 18.7 + - - +
253A THR* 4.6 4.5 - - - +
802A CDL 2.7 100.5 + - - +
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Residues in contact with VAL 178 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175A GLY* 3.2 20.6 - - - +
177A ASN* 1.3 77.0 - - - +
179A SER* 1.3 56.6 + - - +
180A VAL 3.2 0.2 - - - -
181A GLN* 3.5 14.2 - - - +
182A GLY* 2.9 24.4 + - - -
230A PHE* 3.7 26.8 - - + +
233A VAL* 3.1 28.5 - - + -
234A ARG* 3.4 26.9 - - + -
237A MET* 5.2 1.8 - - + -
253A THR* 3.6 21.5 + - + +
257A TRP* 4.0 6.1 - - + +
802A CDL 4.8 0.2 + - - -
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Residues in contact with SER 179 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127A LEU* 3.3 21.0 - - - +
131A TYR* 3.6 6.5 - - - -
175A GLY 2.9 13.4 + - - -
176A PHE 2.7 15.1 + - - -
177A ASN 2.9 0.2 + - - -
178A VAL* 1.3 78.1 - - - +
180A VAL* 1.3 57.3 + - - +
182A GLY* 3.8 0.7 - - - -
183A ILE* 3.0 32.8 + - - +
234A ARG* 3.2 35.0 - - - -
401A CXT 4.1 14.4 - - - -
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Residues in contact with VAL 180 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120A GLY* 5.3 4.7 - - - +
124A ALA* 3.9 35.0 - - + +
127A LEU* 4.1 12.8 - - + -
176A PHE* 3.0 23.7 + - + +
177A ASN* 2.6 21.5 + - - +
179A SER* 1.3 71.1 + - - +
181A GLN* 1.3 65.3 + - + +
183A ILE* 3.6 8.4 + - + +
184A ILE* 3.3 31.5 + - + +
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Residues in contact with GLN 181 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177A ASN* 3.0 10.6 + - - +
178A VAL* 3.5 34.1 - - - +
180A VAL* 1.3 78.1 - - + +
182A GLY* 1.3 65.7 + - - +
184A ILE* 3.1 14.3 + - + +
185A ILE* 3.1 26.1 + - + +
230A PHE* 4.0 16.1 - - + -
253A THR* 5.0 1.5 - - - +
257A TRP* 4.8 1.2 + - - -
802A CDL 3.4 85.9 + - + +
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Residues in contact with GLY 182 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
178A VAL 2.9 11.2 + - - -
180A VAL 3.3 0.2 - - - -
181A GLN* 1.3 78.1 - - - +
183A ILE* 1.3 55.8 - - - +
185A ILE* 3.2 5.3 + - - +
186A TYR* 2.8 30.0 + - - +
227A SER* 3.7 2.3 - - - -
230A PHE* 3.7 14.8 - - - -
401A CXT 3.5 31.5 - - - +
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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
----------------------------------------------------------
119A GLY 4.3 19.1 - - - +
120A GLY* 4.7 8.5 - - - +
123A GLY* 4.3 9.4 - - - -
124A ALA 5.1 0.2 - - - +
127A LEU* 4.2 14.1 - - + -
179A SER 3.0 22.0 + - - +
180A VAL* 3.9 8.5 - - + +
181A GLN 3.3 0.8 - - - -
182A GLY* 1.3 74.8 - - - +
184A ILE* 1.3 59.9 + - - +
186A TYR* 3.4 3.9 + - + +
187A ARG* 3.0 29.4 + - + +
401A CXT 3.8 73.6 - - + +
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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
----------------------------------------------------------
116A LEU* 3.8 35.6 - - + +
120A GLY* 4.4 22.2 - - - -
180A VAL* 3.3 27.6 - - + +
181A GLN* 3.1 9.3 + - - +
183A ILE* 1.3 74.2 - - + +
185A ILE* 1.3 63.7 + - + +
187A ARG* 3.4 6.3 + - - +
188A ALA* 2.9 28.3 + - + +
802A CDL 6.5 0.9 - - + -
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Residues in contact with ILE 185 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181A GLN* 3.1 17.9 + - + +
182A GLY* 3.2 8.5 + - - +
184A ILE* 1.3 76.3 - - + +
186A TYR* 1.3 65.1 + - - +
188A ALA* 3.3 7.1 + - + +
189A ALA* 3.0 23.0 + - - +
226A VAL* 3.9 27.6 - - + +
227A SER* 3.7 18.2 - - - -
230A PHE* 3.9 28.3 - - + -
802A CDL 5.3 13.0 - - + -
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Residues in contact with TYR 186 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182A GLY 2.8 17.7 + - - +
183A ILE 3.4 6.1 - - - +
185A ILE* 1.3 76.7 - - - +
187A ARG* 1.3 58.2 + - + +
189A ALA 3.4 0.2 + - - -
190A TYR* 2.7 54.3 + + - +
220A THR* 3.8 23.8 - - - +
223A ALA* 3.6 16.7 - - + +
224A GLY* 3.8 21.3 - - - -
227A SER* 3.6 19.7 - - - +
401A CXT 3.7 83.5 + - + -
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Residues in contact with ARG 187 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91A LYS* 6.1 0.2 - - - +
95A LYS* 5.6 5.5 - - - +
115A ASN* 3.0 47.2 + - - +
116A LEU* 4.1 16.7 - - + +
118A SER* 5.6 1.0 + - - -
119A GLY* 3.6 26.5 - - - +
120A GLY 4.7 0.2 - - - +
183A ILE* 3.0 16.0 + - + +
184A ILE* 3.7 6.1 - - - +
186A TYR* 1.3 83.7 - - + +
188A ALA* 1.3 59.2 + - - +
190A TYR* 4.2 5.4 - - - -
191A PHE* 2.9 58.3 + - + +
401A CXT 3.2 50.6 + - - +
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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
----------------------------------------------------------
112A PHE* 3.5 21.5 - - + -
116A LEU* 3.7 20.3 - - + +
184A ILE* 2.9 18.9 + - + +
185A ILE* 3.3 10.5 + - + +
187A ARG* 1.3 75.9 - - - +
189A ALA* 1.3 54.1 + - - +
192A GLY* 2.7 31.9 + - - -
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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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185A ILE 3.0 16.9 + - - +
186A TYR 3.8 3.1 - - - +
188A ALA* 1.3 76.3 - - - +
190A TYR* 1.3 65.4 + - - +
192A GLY* 4.7 0.4 - - - -
193A VAL* 2.8 37.5 + - + +
223A ALA* 3.8 20.4 - - - +
226A VAL* 4.1 24.5 - - + -
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Residues in contact with TYR 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 TYR* 2.7 39.3 + + + +
187A ARG* 3.8 7.4 - - - +
189A ALA* 1.3 76.0 - - - +
191A PHE* 1.3 82.7 + + + +
194A TYR* 3.2 39.1 + + + +
216A ALA* 4.2 10.4 + - - +
219A VAL* 3.6 17.9 - - + +
220A THR* 3.1 36.3 + - - -
223A ALA* 3.6 20.3 - - + +
401A CXT 4.5 12.8 - - - +
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Residues in contact with PHE 191 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104A ARG* 4.4 21.8 - - - -
111A TYR* 6.2 0.2 - + - -
112A PHE* 4.3 11.2 - - + -
115A ASN* 3.3 26.2 - - - +
116A LEU* 6.1 0.4 - - + -
187A ARG* 2.9 67.3 + - + +
190A TYR* 1.3 93.9 - + + +
192A GLY* 1.3 68.6 + - - +
193A VAL 3.1 1.8 - - - -
194A TYR* 2.8 18.1 + - + +
195A ASP* 2.8 26.2 + - - +
401A CXT 4.0 15.0 - - - -
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Residues in contact with GLY 192 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108A PHE* 6.3 0.7 - - - -
112A PHE* 3.9 10.8 - - - -
188A ALA 2.7 25.2 + - - -
189A ALA* 4.7 0.4 - - - -
191A PHE* 1.3 74.8 - - - +
193A VAL* 1.3 59.8 + - - +
195A ASP* 3.5 7.2 + - - +
196A THR* 3.4 29.2 + - - +
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Residues in contact with VAL 193 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
189A ALA* 2.8 30.7 + - + +
190A TYR 4.2 1.8 - - - +
192A GLY* 1.3 72.8 - - - -
194A TYR* 1.3 58.0 + - - +
196A THR* 3.3 7.7 + - - +
197A ALA* 2.9 32.4 + - + +
219A VAL* 4.0 28.0 - - + +
222A VAL* 4.0 31.2 - - + -
226A VAL* 6.1 0.4 - - + -
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Residues in contact with TYR 194 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
190A TYR* 3.2 31.2 + + + +
191A PHE* 2.8 13.9 + - + +
193A VAL* 1.3 72.2 - - - +
195A ASP* 1.3 62.2 + - - +
197A ALA* 3.9 5.3 - - + +
198A LYS* 3.0 47.7 + - + +
212A SER 5.5 0.3 + - - -
215A ILE* 5.3 7.3 - - + +
216A ALA* 4.5 20.8 - - + +
219A VAL* 3.5 37.7 - - + -
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Residues in contact with ASP 195 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104A ARG* 4.8 14.9 + - - -
108A PHE* 4.0 35.1 - - + -
112A PHE* 4.5 4.0 - - - -
191A PHE* 2.8 34.1 + - - +
192A GLY* 3.9 6.9 + - - +
193A VAL 3.3 0.2 - - - -
194A TYR* 1.3 79.9 - - - +
196A THR* 1.3 67.7 + - + +
197A ALA 3.1 1.3 + - - -
198A LYS* 3.5 14.0 + - - +
199A GLY* 3.7 7.1 + - - -
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Residues in contact with THR 196 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
192A GLY 3.4 14.3 + - - +
193A VAL* 3.3 14.0 + - - +
195A ASP* 1.3 79.2 - - + +
197A ALA* 1.3 64.5 + - - +
199A GLY* 3.5 2.4 + - - -
200A MET* 3.4 19.3 + - - +
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Residues in contact with ALA 197 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
193A VAL* 2.9 24.4 + - + +
194A TYR* 4.1 5.6 - - + +
195A ASP 3.1 0.4 - - - -
196A THR* 1.3 78.4 + - - +
198A LYS* 1.3 62.1 + - - +
199A GLY 2.9 7.3 + - - -
200A MET* 2.9 17.3 + - - +
201A LEU* 3.2 31.5 + - + +
215A ILE* 5.7 2.9 - - + -
219A VAL* 5.2 8.1 - - + -
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Residues in contact with LYS 198 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104A ARG* 4.6 15.9 - - - +
194A TYR* 3.0 38.5 + - + +
195A ASP* 3.5 9.6 + - - +
197A ALA* 1.3 75.8 - - - +
199A GLY* 1.3 56.6 + - - +
201A LEU* 3.3 21.2 - - - +
203A ASP* 4.3 33.0 - - + +
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Residues in contact with GLY 199 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
195A ASP 3.7 5.2 + - - -
196A THR 3.5 6.1 + - - -
197A ALA 2.9 0.8 - - - -
198A LYS* 1.3 78.3 - - - +
200A MET* 1.3 56.2 + - - +
201A LEU 3.0 13.0 + - - +
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Residues in contact with MET 200 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
196A THR 3.4 13.0 + - - +
197A ALA* 2.9 11.1 + - + +
199A GLY* 1.3 74.8 - - - +
201A LEU* 1.3 72.0 + - + +
202A PRO* 4.7 1.0 - - - +
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Residues in contact with LEU 201 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
197A ALA* 3.2 28.0 + - + +
198A LYS* 3.3 17.7 - - - +
199A GLY 3.0 5.4 - - - +
200A MET* 1.3 98.7 - - + +
202A PRO* 1.3 73.9 - - + +
203A ASP* 3.2 8.8 + - - +
215A ILE* 4.0 32.5 - - + -
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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