Contacts of the helix formed by residues 179 - 206 (chain C) in PDB entry 3H90
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 179 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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104C HIS* 4.4 19.4 + - + +
110C PRO* 5.8 4.2 - - - +
111C MET 6.0 0.2 + - - -
112C THR* 4.2 19.1 + - - -
161C ASN* 5.3 3.9 + - - +
164C ILE* 3.4 29.3 - - - +
178C ALA* 1.3 78.4 - - - +
180C ALA* 1.3 57.4 + - - +
182C PHE* 2.8 11.9 + - + +
183C ALA* 2.8 40.4 + - + -
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Residues in contact with ALA 180 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101C GLY 3.7 18.7 - - - +
104C HIS* 3.8 23.4 - - - +
105C LEU* 3.8 25.6 - - + -
106C ILE* 5.8 0.7 - - + -
178C ALA* 3.2 9.9 - - + +
179C ASP* 1.3 77.5 - - - +
181C LEU* 1.3 56.5 + - - +
183C ALA* 4.7 4.0 - - - +
184C LEU* 2.9 36.0 + - - +
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Residues in contact with LEU 181 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177C ARG* 4.3 29.2 - - + +
178C ALA 4.1 8.5 + - - +
179C ASP 3.0 1.0 + - - -
180C ALA* 1.3 78.6 - - - +
182C PHE* 1.3 76.9 + - + +
184C LEU* 4.3 5.3 - - - +
185C GLY* 3.3 20.4 + - - -
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Residues in contact with PHE 182 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161C ASN* 3.2 38.1 - - - +
163C ALA* 5.1 12.8 - - + -
178C ALA 5.5 2.9 - - - -
179C ASP* 2.8 9.5 + - - +
181C LEU* 1.3 96.3 - - + +
183C ALA* 1.3 59.0 + - - +
184C LEU 3.1 1.3 - - - -
185C GLY* 3.0 2.4 + - - -
186C ILE* 2.9 43.7 + - + +
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Residues in contact with ALA 183 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97C LEU* 3.0 39.7 - - + +
100C THR* 5.7 1.3 - - + -
101C GLY* 4.4 6.1 - - - +
104C HIS* 4.9 8.1 - - + +
179C ASP* 2.8 32.4 + - + +
180C ALA* 4.5 2.7 - - - +
182C PHE* 1.3 71.7 - - - +
184C LEU* 1.3 58.1 + - - +
186C ILE* 4.4 8.9 - - - +
187C GLY 3.7 10.9 + - - -
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Residues in contact with LEU 184 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97C LEU 4.5 1.6 - - - -
98C PHE* 3.8 23.0 - - + -
101C GLY* 3.8 21.7 - - - +
102C ILE* 3.5 33.0 - - + +
105C LEU* 5.7 2.7 - - + -
180C ALA 2.9 20.8 + - - +
181C LEU* 4.7 5.2 - - - +
183C ALA* 1.3 76.3 - - - +
185C GLY* 1.3 65.6 + - - +
187C GLY* 3.2 10.7 + - - -
188C ILE* 3.2 35.7 + - + +
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Residues in contact with GLY 185 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181C LEU 3.3 12.5 + - - -
182C PHE* 3.0 6.9 + - - -
184C LEU* 1.3 78.3 - - - +
186C ILE* 1.3 63.2 + - - +
188C ILE* 3.4 17.0 + - - +
189C TYR* 3.4 21.1 + - - +
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Residues in contact with ILE 186 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97C LEU* 4.7 15.3 - - + -
156C SER* 4.6 5.8 - - - +
159C MET* 3.6 58.1 - - + +
161C ASN* 5.4 7.2 - - - +
182C PHE* 2.9 32.7 + - + +
183C ALA* 4.5 7.6 - - - +
185C GLY* 1.3 74.3 - - - +
187C GLY* 1.3 58.7 + - - +
189C TYR* 3.2 6.2 + - - -
190C ILE* 2.9 47.3 + - + +
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Residues in contact with GLY 187 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94C ALA* 3.5 25.0 - - - +
97C LEU* 4.7 4.0 - - - +
98C PHE* 4.1 13.0 - - - +
183C ALA 3.7 9.5 + - - -
184C LEU 3.2 9.1 + - - -
186C ILE* 1.3 80.3 - - - +
188C ILE* 1.3 59.4 + - - +
191C LEU* 3.2 26.7 + - - +
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Residues in contact with ILE 188 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98C PHE* 3.7 22.0 - - + -
184C LEU* 3.2 38.3 + - + +
185C GLY* 3.4 11.9 + - - +
186C ILE 3.3 0.4 - - - -
187C GLY* 1.3 74.1 - - - +
189C TYR* 1.3 63.3 + - - +
191C LEU* 3.9 9.2 - - + +
192C TYR* 3.1 24.1 + - + +
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Residues in contact with TYR 189 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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152C LEU* 5.8 0.9 - - + -
155C GLN* 6.1 1.0 - - + -
159C MET* 4.0 22.2 - - + -
185C GLY 3.4 9.4 + - - +
186C ILE* 3.2 7.3 + - - +
188C ILE* 1.3 80.0 - - - +
190C ILE* 1.3 78.7 + - + +
192C TYR* 3.3 13.4 + + - +
193C SER* 2.7 48.8 + - - -
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Residues in contact with ILE 190 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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90C ILE* 4.0 22.9 - - + +
94C ALA* 4.0 13.2 - - + -
152C LEU* 4.0 21.8 - - + +
155C GLN* 4.8 3.8 - - + -
156C SER* 3.2 35.9 - - - +
159C MET* 4.7 5.4 - - + -
186C ILE* 2.9 33.6 + - + +
187C GLY* 5.2 0.2 - - - -
189C TYR* 1.3 95.6 - - + +
191C LEU* 1.3 61.4 + - - +
193C SER* 3.9 1.8 - - - -
194C ALA* 2.8 28.8 + - - +
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Residues in contact with LEU 191 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91C SER* 3.4 36.5 + - - +
94C ALA* 3.5 12.4 - - + +
95C LEU* 4.4 24.5 - - + -
98C PHE* 6.2 4.7 - - + -
187C GLY 3.2 22.5 + - - +
188C ILE* 3.9 8.7 - - + +
190C ILE* 1.3 75.4 - - - +
192C TYR* 1.3 58.9 + - - +
194C ALA* 3.3 3.0 + - - +
195C LEU* 2.8 50.3 + - + +
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Residues in contact with TYR 192 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
188C ILE* 3.1 17.4 + - + +
189C TYR* 3.4 14.6 - + - +
191C LEU* 1.3 83.8 - - + +
193C SER* 1.3 61.1 + - - +
195C LEU* 3.3 10.4 + - + +
196C ARG* 3.0 56.7 + - + +
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Residues in contact with SER 193 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152C LEU* 3.7 23.1 - - - +
189C TYR* 2.7 36.5 + - - -
190C ILE* 3.6 12.3 - - - -
191C LEU 3.2 0.4 - - - -
192C TYR* 1.3 81.9 - - - +
194C ALA* 1.3 55.9 + - - +
196C ARG* 3.9 4.1 - - - +
197C MET* 3.1 26.0 + - - +
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Residues in contact with ALA 194 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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87C SER* 3.5 29.7 - - - +
90C ILE* 3.8 8.1 - - + -
91C SER* 3.7 17.0 - - - +
152C LEU* 3.4 19.2 - - + +
190C ILE 2.8 21.3 + - - +
191C LEU 3.9 2.5 - - - +
193C SER* 1.3 71.6 - - - +
195C LEU* 1.3 60.2 + - - +
197C MET* 3.3 3.4 - - - +
198C GLY* 2.9 25.3 + - - -
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Residues in contact with LEU 195 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91C SER* 4.2 10.7 + - - +
191C LEU* 2.8 45.2 + - + +
192C TYR* 3.3 10.1 + - + +
194C ALA* 1.3 77.0 - - - +
196C ARG* 1.3 57.5 + - - +
198C GLY* 4.0 0.7 - - - -
199C TYR* 3.1 27.6 + - + +
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Residues in contact with ARG 196 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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192C TYR* 3.0 44.4 + - + +
193C SER* 3.9 6.5 - - - +
195C LEU* 1.3 73.4 - - - +
197C MET* 1.3 66.0 + - - +
199C TYR* 3.2 43.4 + - - +
200C GLU* 3.1 41.5 + - - +
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Residues in contact with MET 197 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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83C ALA* 4.2 8.7 - - + +
87C SER* 4.0 14.8 - - - -
90C ILE* 6.4 0.4 - - + -
145C GLN* 3.4 41.1 - - - +
148C ARG* 3.6 34.5 - - - +
149C ALA* 3.7 30.1 - - + -
152C LEU* 4.2 13.2 - - + -
193C SER 3.1 19.6 + - - +
194C ALA* 3.3 7.6 - - - +
196C ARG* 1.3 74.2 - - - +
198C GLY* 1.3 61.8 + - - +
200C GLU* 3.2 13.0 + - - +
201C ALA* 3.2 15.9 + - - +
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Residues in contact with GLY 198 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84C LEU* 4.3 4.3 - - - -
87C SER* 3.2 24.7 - - - -
194C ALA 2.9 12.9 + - - -
195C LEU 4.0 1.3 - - - -
197C MET* 1.3 73.0 - - - +
199C TYR* 1.3 61.1 + - - +
201C ALA* 2.8 24.7 + - - +
202C VAL* 3.0 20.5 + - - +
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Residues in contact with TYR 199 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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195C LEU* 3.1 15.6 + - + +
196C ARG* 3.2 43.3 + - - +
198C GLY* 1.3 74.9 - - - +
200C GLU* 1.3 65.8 + - + +
202C VAL* 3.7 12.8 + - + +
203C GLN* 3.1 59.9 + - + +
208C ARG* 4.0 12.5 + - - -
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Residues in contact with GLU 200 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145C GLN* 3.7 4.7 - - - +
148C ARG* 2.9 40.0 + - - +
196C ARG* 3.1 37.6 + - + +
197C MET* 3.5 9.3 - - - +
198C GLY 3.1 0.2 - - - -
199C TYR* 1.3 83.2 - - + +
201C ALA* 1.3 56.3 + - - +
203C GLN* 3.2 8.1 + - - +
204C SER* 2.7 31.8 + - - -
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Residues in contact with ALA 201 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80C SER* 3.5 23.2 - - - +
83C ALA* 3.9 9.2 - - + -
84C LEU* 3.7 19.7 - - + +
145C GLN* 3.6 11.6 + - - +
197C MET 3.2 10.9 + - - +
198C GLY* 2.8 11.9 + - - +
200C GLU* 1.3 72.4 - - - +
202C VAL* 1.3 61.8 + - - +
203C GLN 3.0 4.3 - - - -
204C SER* 3.0 6.4 + - - -
205C LEU* 3.0 26.7 + - - +
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Residues in contact with VAL 202 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81A LEU* 3.9 18.6 - - + -
84C LEU* 3.8 23.3 - - + -
198C GLY 3.0 19.2 + - - +
199C TYR* 3.8 15.0 - - + +
201C ALA* 1.3 74.2 - - - +
203C GLN* 1.3 62.6 + - - +
205C LEU* 3.4 12.2 - - - +
206C LEU* 2.7 49.3 + - + +
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Residues in contact with GLN 203 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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62A TYR* 5.4 0.8 + - - -
71A HIS* 2.7 36.6 + - - -
199C TYR* 3.1 54.3 + - + +
200C GLU* 3.4 10.1 - - - +
201C ALA 3.0 0.4 - - - -
202C VAL* 1.3 84.9 - - - +
204C SER* 1.3 55.0 + - - +
206C LEU* 2.9 27.2 - - - +
208C ARG* 2.9 57.7 + - - +
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Residues in contact with SER 204 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77C LYS* 3.5 21.9 - - - +
80C SER* 3.7 14.4 - - - -
145C GLN* 2.7 18.6 + - - -
200C GLU 2.7 16.8 + - - -
201C ALA 3.1 4.0 + - - -
203C GLN* 1.3 71.0 - - - +
205C LEU* 1.3 59.6 + - - +
206C LEU 3.0 13.8 - - - +
207C ASP* 3.9 2.4 - - - +
208C ARG* 4.9 3.4 - - - +
238C GLN* 4.4 15.2 - - - +
239C SER* 6.3 0.2 - - - -
240C GLY 6.2 0.9 - - - -
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Residues in contact with LEU 205 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77A LYS* 3.5 31.8 + - - +
81A LEU* 3.8 27.1 - - + -
205A LEU* 4.4 10.9 - - + +
77C LYS* 4.0 21.2 + - + +
80C SER* 3.8 25.8 - - - +
81C LEU* 3.5 36.1 - - + -
84C LEU* 4.0 20.9 - - + -
201C ALA 3.0 16.2 + - - +
202C VAL* 3.2 9.8 + - - +
204C SER* 1.3 75.9 - - - +
206C LEU* 1.3 64.3 + - - +
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Residues in contact with LEU 206 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62A TYR* 4.2 22.2 - - + +
71A HIS* 4.1 17.9 - - + +
75A HIS* 5.0 8.1 - - - +
77A LYS* 4.1 6.7 - - + -
78A ALA* 3.9 26.2 - - + +
81A LEU* 3.5 25.8 - - + -
202C VAL* 2.7 28.3 + - + +
203C GLN* 2.9 41.4 - - - +
204C SER 3.0 10.0 - - - -
205C LEU* 1.3 70.6 - - - +
207C ASP* 1.3 62.1 + - - +
208C ARG 2.8 8.5 + - - -
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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