Contacts of the helix formed by residues 156 - 183 (chain P) in PDB entry 1OCR
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 ARG 156 (chain P).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154P GLY 3.3 2.0 + - - -
155P ASP* 1.3 72.4 + - - +
157P LYS* 1.3 64.2 + - - +
159P MET* 3.5 1.6 + - - +
160P LEU* 3.0 41.2 + - + +
222P GLN* 2.8 36.6 + - - +
223P LEU* 2.7 38.6 + - - +
225P PHE* 3.4 36.8 - - - +
4S GLY 3.3 17.5 + - - +
5S GLY* 3.9 18.3 + - - -
6S VAL* 3.5 18.5 - - + +
1W PHE* 4.4 12.7 - - - +
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Residues in contact with LYS 157 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2E HIS* 5.9 2.4 - - - -
155P ASP* 3.4 5.8 + - - +
156P ARG* 1.3 79.1 - - - +
158P HIS* 1.3 89.5 + - + +
160P LEU* 3.3 7.8 + - - +
161P GLN* 2.9 38.7 + - - +
1S ALA* 4.8 11.1 - - - +
2S SER 5.1 7.1 + - - +
3S GLY* 6.5 0.4 - - - -
4S GLY 4.7 1.4 + - - -
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Residues in contact with HIS 158 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146P TRP* 4.0 17.6 + + + +
150P SER* 3.5 18.2 - - - +
155P ASP* 2.8 25.8 + - - -
157P LYS* 1.3 104.4 + - - +
159P MET* 1.3 60.7 + - - +
161P GLN* 3.6 20.3 + - - +
162P ALA* 2.8 33.8 + - - +
1S ALA* 3.2 34.4 + - + +
2S SER* 4.9 1.1 - - - -
17T ARG* 3.8 24.8 + - - -
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Residues in contact with MET 159 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147P ALA* 3.5 23.1 - - - +
150P SER* 3.5 10.9 - - - -
151P LEU* 3.7 37.5 - - + +
155P ASP 3.0 19.3 + - - +
156P ARG 3.8 4.0 - - - +
158P HIS* 1.3 75.7 - - - +
160P LEU* 1.3 61.0 + - - +
162P ALA* 3.9 1.0 - - - +
163P LEU* 2.9 44.3 + - + +
222P GLN* 3.8 39.3 - - + +
227P PHE* 4.2 5.6 - - + -
235P PHE* 4.0 25.1 - - + -
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Residues in contact with LEU 160 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156P ARG* 3.0 53.5 + - + +
157P LYS* 3.5 7.0 - - - +
158P HIS 3.2 0.2 - - - -
159P MET* 1.3 81.4 - - - +
161P GLN* 1.3 57.9 + - - +
163P LEU* 4.3 0.9 - - - -
164P PHE* 3.0 28.9 + - - +
219P PHE* 3.4 40.3 - - + +
222P GLN* 3.3 32.5 - - + -
223P LEU* 4.3 18.2 - - + +
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Residues in contact with GLN 161 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146P TRP* 3.6 24.1 - - + -
157P LYS* 2.9 26.5 + - + +
158P HIS* 3.2 24.2 + - - +
160P LEU* 1.3 73.9 - - - +
162P ALA* 1.3 65.8 + - - +
164P PHE* 3.1 17.7 + - + +
165P ILE* 3.1 24.4 + - + +
17T ARG* 4.6 6.1 - - - +
21T PHE* 3.8 17.2 - - - -
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Residues in contact with ALA 162 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143P SER* 3.6 4.1 - - - +
146P TRP* 3.4 40.2 - - + -
147P ALA* 3.5 26.5 - - + +
158P HIS 2.8 20.4 + - - +
161P GLN* 1.3 73.9 - - - +
163P LEU* 1.3 61.6 + - - +
165P ILE* 3.4 4.7 + - - +
166P THR* 3.0 27.1 + - - -
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Residues in contact with LEU 163 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144P ILE* 5.4 1.6 - - + -
147P ALA* 4.0 5.1 - - + +
159P MET* 2.9 34.3 + - + +
160P LEU* 3.8 5.6 - - + +
162P ALA* 1.3 77.1 - - - +
164P PHE* 1.3 63.7 + - - +
166P THR* 3.4 8.2 + - + -
167P ILE* 3.1 36.3 + - + +
215P LEU* 4.1 23.3 - - + +
218P CYS* 4.1 7.6 - - + +
219P PHE* 3.3 47.6 - - + +
235P PHE* 4.3 18.6 - - + -
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Residues in contact with PHE 164 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160P LEU 3.0 19.0 + - - +
161P GLN* 3.1 10.5 + - + +
163P LEU* 1.3 75.1 - - - +
165P ILE* 1.3 72.6 + - + +
167P ILE* 3.2 11.3 + - + +
168P THR* 2.9 52.4 + - + +
219P PHE* 4.3 20.2 - + + -
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Residues in contact with ILE 165 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143P SER* 3.9 17.5 - - - +
146P TRP* 3.9 16.4 - - + -
161P GLN* 3.1 16.2 + - + +
162P ALA 3.7 6.1 - - - +
164P PHE* 1.3 83.2 - - + +
166P THR* 1.3 63.9 + - - +
168P THR* 3.2 9.0 + - - +
169P LEU* 2.9 37.2 + - + +
20T THR* 4.7 2.9 - - + -
21T PHE* 3.8 35.4 - - + -
25T LEU* 4.7 16.6 - - + -
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Residues in contact with THR 166 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140P SER* 3.9 13.4 - - - +
143P SER* 2.7 23.1 + - - -
144P ILE* 3.2 22.8 + - + -
162P ALA 3.0 12.9 + - - -
163P LEU* 3.5 12.7 - - + -
165P ILE* 1.3 75.3 - - - +
167P ILE* 1.3 63.6 + - - +
169P LEU* 3.2 4.3 + - - +
170P GLY* 3.0 18.9 + - - -
215P LEU* 3.7 24.5 - - + -
242P TRP* 3.9 20.9 - - - +
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Residues in contact with ILE 167 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163P LEU* 3.1 18.0 + - + +
164P PHE* 3.2 12.3 + - + +
166P THR* 1.3 74.9 - - - +
168P THR* 1.3 69.2 + - + +
170P GLY* 3.0 3.6 + - - -
171P VAL* 2.9 30.5 + - + +
212P SER* 5.0 7.1 + - - +
215P LEU* 3.8 42.6 - - + +
216P ILE* 3.8 35.0 - - + -
219P PHE* 4.2 17.0 - - + -
242P TRP* 6.3 0.4 - - - -
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Residues in contact with THR 168 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
164P PHE* 2.9 50.5 + - + +
165P ILE* 3.2 10.7 + - - +
167P ILE* 1.3 77.6 - - + +
169P LEU* 1.3 58.2 + - - +
171P VAL* 3.2 9.4 + - - +
172P TYR* 2.7 36.9 + - - +
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Residues in contact with LEU 169 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136P VAL* 3.1 35.1 - - + +
137P LEU* 5.5 0.2 - - - -
139P ALA* 3.9 14.6 - - + +
140P SER* 3.7 35.9 - - - +
143P SER* 4.3 0.2 - - - +
165P ILE* 2.9 33.2 + - + +
166P THR 3.5 8.5 - - - +
167P ILE 3.1 0.2 - - - -
168P THR* 1.3 80.8 + - - +
170P GLY* 1.3 61.6 + - - +
172P TYR* 3.3 13.8 + - + +
173P PHE 3.0 18.0 + - - -
25T LEU* 4.4 16.2 - - + -
28T VAL* 4.8 8.3 - - + -
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Residues in contact with GLY 170 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137P LEU* 4.9 1.3 - - - -
166P THR 3.0 7.8 + - - -
167P ILE* 3.0 7.0 + - - -
169P LEU* 1.3 74.2 - - - +
171P VAL* 1.3 66.0 + - - +
173P PHE* 3.2 8.6 + - - +
174P THR* 3.2 23.8 + - - -
208P VAL* 4.2 3.0 - - - +
212P SER* 4.3 7.4 - - - -
242P TRP* 3.8 30.9 - - - -
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Residues in contact with VAL 171 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167P ILE* 2.9 27.9 + - + +
168P THR* 3.6 10.8 - - - +
170P GLY* 1.3 76.4 - - - +
172P TYR* 1.3 64.2 + - - +
174P THR* 3.0 19.6 + - - -
175P LEU* 3.0 31.3 + - + +
212P SER* 5.2 9.6 - - - +
216P ILE* 5.7 4.9 - - + -
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Residues in contact with TYR 172 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132P LEU* 3.9 9.5 - - + +
136P VAL* 3.5 35.4 - - + -
168P THR 2.7 22.2 + - - +
169P LEU* 3.4 14.1 - - + +
171P VAL* 1.3 74.6 - - - +
173P PHE* 1.3 61.3 + - - +
175P LEU* 3.3 14.9 + - + +
176P LEU* 3.0 48.9 + - + +
28T VAL* 4.1 13.0 - - + -
32T THR* 3.2 27.0 + - - +
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Residues in contact with PHE 173 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133P ASN* 3.6 46.4 - - + +
136P VAL* 4.1 4.9 - - + +
137P LEU* 3.5 35.9 - - + -
169P LEU 3.0 14.2 + - - +
170P GLY 3.5 7.2 - - - +
171P VAL 3.2 0.2 - - - -
172P TYR* 1.3 76.5 - - - +
174P THR* 1.3 63.8 + - - +
176P LEU* 3.3 4.3 + - - +
177P GLN* 2.8 43.8 + - + +
204P HIS* 3.7 22.2 - + - -
205P GLY* 5.1 4.7 - - - -
208P VAL* 3.9 28.5 - - + -
249P TRP* 3.8 20.9 - + - -
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Residues in contact with THR 174 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
170P GLY 3.2 10.6 + - - -
171P VAL* 3.0 14.2 + - - -
173P PHE* 1.3 84.6 - - - +
175P LEU* 1.3 62.2 + - + +
177P GLN* 3.3 3.9 + - - +
178P ALA* 2.8 31.6 + - + +
205P GLY 5.3 0.3 + - - -
208P VAL* 3.9 15.2 - - - +
209P ILE* 4.4 28.3 - - + +
212P SER* 5.2 1.6 + - - -
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Residues in contact with LEU 175 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171P VAL* 3.0 29.8 + - + +
172P TYR* 3.6 15.9 - - + +
174P THR* 1.3 81.5 - - + +
176P LEU* 1.3 61.9 + - + +
178P ALA* 3.1 8.2 + - + +
179P SER* 2.9 24.0 + - - -
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Residues in contact with LEU 176 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129P VAL* 4.5 13.1 - - + +
132P LEU* 3.6 33.7 - - + -
133P ASN* 3.2 25.1 - - - +
136P VAL* 4.3 9.9 - - + -
172P TYR* 3.0 50.3 + - + +
173P PHE* 3.7 1.3 - - - +
175P LEU* 1.3 75.0 - - + +
177P GLN* 1.3 63.4 + - - +
179P SER* 3.2 10.2 + - - +
180P GLU* 2.9 27.7 + - - +
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Residues in contact with GLN 177 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133P ASN* 3.5 15.8 + - - +
173P PHE* 2.8 36.2 + - + +
174P THR* 3.7 4.9 - - - +
176P LEU* 1.3 73.7 - - - +
178P ALA* 1.3 62.6 + - - +
180P GLU* 3.2 15.2 + - - +
181P TYR* 3.0 43.5 + - + +
201P THR* 4.2 17.3 + - - +
204P HIS* 5.7 0.8 + - - -
205P GLY* 5.6 5.6 - - - -
249P TRP* 3.5 21.2 - - - -
257P TYR* 3.3 23.9 + - - -
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Residues in contact with ALA 178 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174P THR* 2.8 21.2 + - + +
175P LEU* 3.5 9.6 - - + +
177P GLN* 1.3 78.3 - - - +
179P SER* 1.3 62.3 + - - +
181P TYR* 3.2 10.8 + - - +
182P TYR* 3.1 20.8 + - - +
70T PHE* 4.5 15.8 - - + -
----------------------------------------------------------
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Residues in contact with SER 179 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129P VAL* 5.9 1.6 - - - +
175P LEU 2.9 11.9 + - - -
176P LEU* 3.2 13.7 + - - +
178P ALA* 1.3 76.5 - - - +
180P GLU* 1.3 70.8 + - - +
182P TYR* 3.0 8.7 + - - +
183P GLU* 2.9 32.8 + - - +
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Residues in contact with GLU 180 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124P LEU* 3.6 35.8 - - + +
129P VAL* 3.5 41.6 - - + +
130P PRO* 4.0 8.2 - - + +
133P ASN* 5.2 0.2 - - - +
176P LEU 2.9 16.3 + - - +
177P GLN* 3.5 21.3 - - - +
179P SER* 1.3 80.8 + - - +
181P TYR* 1.3 66.3 + - + +
183P GLU* 3.7 11.6 - - - +
184P ALA* 2.9 27.4 + - - +
42T ARG* 4.9 5.4 + - - -
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Residues in contact with TYR 181 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177P GLN* 3.0 37.4 + - + +
178P ALA* 3.4 12.8 - - - +
179P SER 3.2 0.2 - - - -
180P GLU* 1.3 79.3 - - + +
182P TYR* 1.3 65.7 + - - +
184P ALA* 3.5 13.7 + - - +
186P PHE 5.4 0.5 - - - +
197P PHE* 4.4 8.1 - + - -
198P PHE* 3.6 40.6 + + + -
201P THR* 2.6 34.2 + - - -
202P GLY* 3.0 26.1 + - - -
70T PHE* 4.3 41.8 - + + +
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Residues in contact with TYR 182 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
178P ALA 3.1 8.5 + - - +
179P SER* 3.0 11.3 + - - +
181P TYR* 1.3 82.3 - - - +
183P GLU* 1.3 74.9 + - - +
184P ALA 4.0 2.8 - - - +
70T PHE* 3.9 28.9 - + + +
71T HIS 3.4 20.0 - - - -
72T ASN* 3.1 54.3 + - + +
73T PRO* 3.9 10.4 - - - +
----------------------------------------------------------
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Residues in contact with GLU 183 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124P LEU* 5.4 0.7 - - + -
179P SER* 2.9 28.3 + - - +
180P GLU* 3.9 12.1 - - - +
182P TYR* 1.3 91.9 - - + +
184P ALA* 1.3 66.2 + - - +
185P PRO* 3.3 1.7 - - - +
41T HIS* 3.4 30.0 - - - -
42T ARG* 3.2 39.1 + - - +
72T ASN* 4.1 10.6 + - - +
74T ARG* 4.3 2.3 + - - -
75T VAL* 3.7 8.7 - - - +
----------------------------------------------------------
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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