Contacts of the helix formed by residues 167 - 191 (chain B) in PDB entry 6N1G
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 THR 167 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
162B LEU* 3.4 14.9 - - - +
166B MET* 1.3 77.0 - - - +
168B LEU* 1.3 73.8 + - - +
169B TRP* 3.1 56.8 - - + -
170B ARG* 3.1 20.1 + - + +
171B GLY 3.1 10.2 + - - -
251B GLU* 5.5 6.3 - - - +
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Residues in contact with LEU 168 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
162B LEU* 4.4 0.4 - - - +
167B THR* 1.3 82.8 + - - +
169B TRP* 1.3 68.4 + - + +
171B GLY* 3.1 12.3 + - - -
172B PHE* 3.4 22.1 + - + -
251B GLU* 4.3 9.8 - - + +
252B ASN* 2.8 34.8 - - + +
253B TRP* 4.0 30.1 - - + +
255B TRP* 5.1 10.1 - - + -
256B VAL* 4.5 12.4 - - + +
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Residues in contact with TRP 169 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167B THR* 3.1 39.3 - - + +
168B LEU* 1.3 84.5 - - + +
170B ARG* 1.3 77.9 + - + +
172B PHE* 3.7 12.8 - - - +
173B LEU* 3.6 19.2 + - - +
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Residues in contact with ARG 170 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165B HIS 5.1 0.2 + - - -
166B MET* 3.7 25.7 - - + +
167B THR* 3.1 33.5 + - + +
169B TRP* 1.3 91.1 - - - +
171B GLY* 1.3 63.9 + - - +
173B LEU* 3.6 9.0 + - - +
174B ASN* 3.2 22.5 + - - +
132D SER 3.7 12.7 + - - -
133D LEU* 3.7 15.9 + - - +
135D TYR* 3.3 45.0 - - - +
136D THR* 2.8 31.5 + - - +
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Residues in contact with GLY 171 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
162B LEU* 4.6 0.4 - - - -
166B MET* 4.7 1.0 - - - -
167B THR 3.1 10.7 + - - -
168B LEU 3.1 2.4 + - - -
170B ARG* 1.3 75.2 - - - +
172B PHE* 1.3 53.1 + - - +
174B ASN* 3.1 2.6 + - - +
175B GLU* 2.6 38.8 + - - +
221B THR* 3.7 10.8 - - - -
253B TRP* 3.6 27.4 - - - -
256B VAL* 3.6 7.0 - - - -
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Residues in contact with PHE 172 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168B LEU* 3.4 21.0 + - + -
169B TRP* 3.7 14.8 - - - +
170B ARG 3.3 0.4 - - - -
171B GLY* 1.3 73.6 - - - +
173B LEU* 1.3 66.3 + - - +
175B GLU 2.9 0.9 + - - -
176B ALA* 2.7 28.9 + - + +
255B TRP* 4.2 16.4 - + - -
256B VAL* 3.4 21.9 - - + +
259B VAL* 3.1 36.8 - - + -
260B ALA* 3.8 18.6 - - + -
263B LEU* 4.4 29.4 - - + -
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Residues in contact with LEU 173 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
169B TRP 3.6 9.9 + - - +
170B ARG* 4.0 9.6 - - - +
171B GLY 3.4 0.4 - - - -
172B PHE* 1.3 79.7 - - - +
174B ASN* 1.3 62.0 - - - +
176B ALA* 4.3 2.9 - - - +
177B TRP* 3.1 34.6 + - + +
129D THR* 4.9 8.5 - - + -
132D SER* 5.4 14.8 - - - +
133D LEU* 2.8 36.6 - - + -
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Residues in contact with ASN 174 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166B MET* 5.5 2.0 - - + -
170B ARG 3.2 14.1 + - - +
171B GLY 3.1 6.7 + - - +
172B PHE 3.0 0.6 - - - -
173B LEU* 1.3 78.6 - - - +
175B GLU* 1.3 61.5 + - - +
177B TRP* 4.1 1.2 - - - +
178B LEU* 3.2 37.3 + - - +
217B LEU* 3.4 33.1 - - - +
220B ASN* 3.4 24.4 - - + +
221B THR* 2.5 37.9 + - + +
133D LEU* 3.8 14.9 - - + +
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Residues in contact with GLU 175 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171B GLY 2.6 21.7 + - - +
174B ASN* 1.3 71.0 - - - +
176B ALA* 1.3 60.1 + - - +
178B LEU* 4.9 3.6 - - - +
179B THR* 3.0 41.8 + - - -
221B THR* 2.9 28.0 + - + +
223B TYR* 3.8 2.6 - - - -
224B ALA* 2.8 55.3 + - + +
225B ILE* 3.9 2.8 + - - +
253B TRP* 5.7 0.4 - - + -
256B VAL* 4.3 17.0 - - + +
257B PRO* 5.2 1.6 - - + -
260B ALA* 3.4 20.8 - - + +
261B PRO* 4.0 2.7 - - + +
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Residues in contact with ALA 176 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
172B PHE* 2.7 23.2 + - + +
173B LEU* 4.3 2.9 - - - +
175B GLU* 1.3 72.5 - - - +
177B TRP* 1.3 57.2 + - - +
180B GLY* 3.0 26.0 + - - -
260B ALA* 3.7 15.4 + - + +
263B LEU* 3.9 27.8 - - + +
264B GLY* 3.5 11.8 - - - +
267B LEU* 5.6 4.5 - - + +
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Residues in contact with TRP 177 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
173B LEU* 3.1 25.8 + - + +
174B ASN 4.1 2.2 - - - +
176B ALA* 1.3 77.3 - - - +
178B LEU* 1.3 67.5 + - + +
180B GLY* 4.1 1.6 - - - -
181B MET* 2.9 52.3 + - + +
267B LEU* 5.8 10.3 - - + -
45D TYR* 3.4 38.6 - + - -
49D VAL* 4.0 13.1 - - + +
129D THR* 3.8 20.1 - - + +
133D LEU* 4.1 19.1 - - + -
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Residues in contact with LEU 178 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174B ASN* 3.2 32.0 + - - +
175B GLU* 4.3 4.5 - - - +
176B ALA 3.2 0.4 - - - -
177B TRP* 1.3 80.3 - - + +
179B THR* 1.3 61.0 + - - +
180B GLY 3.1 1.6 - - - -
181B MET* 2.9 24.2 + - - +
182B LEU* 2.9 27.5 + - - +
213B ILE* 3.5 31.9 - - + +
217B LEU* 3.2 61.2 - - + +
221B THR* 5.3 1.6 - - - +
223B TYR* 5.2 7.2 - - + -
225B ILE* 4.4 7.2 - - + -
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Residues in contact with THR 179 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94B ASN* 5.2 2.2 - - - +
96B ALA* 4.6 2.5 - - + -
97B VAL* 6.3 0.2 - - + -
175B GLU* 3.0 22.4 + - - -
176B ALA 4.4 1.6 - - - -
178B LEU* 1.3 77.1 - - - +
180B GLY* 1.3 56.2 + - - +
182B LEU* 3.5 9.2 + - + +
183B GLN* 3.1 25.8 + - - +
225B ILE* 3.4 39.5 + - + +
261B PRO* 3.2 37.7 - - + +
264B GLY* 4.0 0.7 - - - -
265B ALA* 3.7 13.6 - - + +
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Residues in contact with GLY 180 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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176B ALA 3.0 16.1 + - - -
177B TRP 4.4 1.1 - - - -
179B THR* 1.3 75.9 - - - +
181B MET* 1.3 61.5 + - - +
183B GLN* 4.5 0.2 - - - -
184B LEU* 3.3 15.2 + - - +
264B GLY 3.0 22.1 + - - -
267B LEU* 5.6 2.5 - - - -
268B GLY* 3.3 25.7 - - - -
271B ILE* 4.4 5.5 - - - +
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Residues in contact with MET 181 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177B TRP* 2.9 54.2 + - + +
178B LEU* 2.9 20.7 + - - +
180B GLY* 1.3 74.0 - - - +
182B LEU* 1.3 65.3 + - - +
184B LEU* 3.4 9.1 + - - +
185B CYS* 3.3 22.2 + - - +
209B LEU* 4.4 3.3 - - - +
213B ILE* 4.7 8.7 - - + -
271B ILE* 6.0 0.2 - - - -
45D TYR* 5.6 0.7 - - + -
46D VAL* 4.8 12.3 - - + -
49D VAL* 3.5 33.7 - - + -
50D PHE* 3.6 27.4 - - + -
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Residues in contact with LEU 182 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94B ASN* 4.4 2.0 - - - +
97B VAL* 4.2 24.7 - - + -
178B LEU 2.9 11.6 + - - +
179B THR* 3.6 10.1 - - + +
180B GLY 3.4 0.2 - - - -
181B MET* 1.3 75.4 - - - +
183B GLN* 1.3 63.6 + - - +
185B CYS* 3.3 1.7 + - - -
186B LEU* 2.8 40.1 + - + +
206B ILE* 5.7 5.4 - - + -
209B LEU* 3.8 18.8 - - + +
210B VAL* 4.1 26.2 - - + -
213B ILE* 4.2 8.4 - - + +
225B ILE* 3.5 38.6 - - + -
265B ALA* 6.5 0.4 - - + -
403B GOL 5.7 2.0 - - - -
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Residues in contact with GLN 183 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97B VAL* 3.6 21.3 - - - +
100B ALA* 3.5 10.1 - - - +
179B THR 3.1 17.2 + - - +
180B GLY 4.0 5.4 - - - +
181B MET 3.4 0.2 - - - -
182B LEU* 1.3 79.5 - - + +
184B LEU* 1.3 58.0 + - - +
186B LEU* 3.9 16.0 - - - +
187B PHE* 2.8 78.8 + - + -
265B ALA* 3.2 42.0 - - + +
268B GLY 4.2 2.2 - - - -
269B GLY 3.8 3.8 - - - +
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Residues in contact with LEU 184 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
180B GLY 3.3 14.3 + - - +
181B MET* 3.9 8.3 - - - +
182B LEU 3.1 0.8 - - - -
183B GLN* 1.3 78.1 - - - +
185B CYS* 1.3 64.3 + - - +
187B PHE* 4.8 2.9 - - - -
188B ALA* 3.1 23.9 + - - +
268B GLY 4.0 7.0 - - - +
271B ILE* 3.5 36.1 - - + +
272B TYR* 3.9 26.7 - - + +
275B PHE* 6.2 0.2 - - + -
276B ILE* 5.7 0.7 - - + -
42D MET* 5.3 11.2 - - + -
46D VAL* 5.4 9.6 - - + -
84D VAL* 3.4 33.0 - - + -
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Residues in contact with CYS 185 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181B MET 3.3 7.4 + - - +
182B LEU 3.3 1.4 + - - -
184B LEU* 1.3 76.9 - - - +
186B LEU* 1.3 58.1 + - - +
187B PHE 3.0 2.2 - - - -
188B ALA* 2.8 6.1 + - - -
189B ILE* 2.6 48.7 + - + +
209B LEU* 3.4 39.3 - - + -
46D VAL* 6.2 0.7 - - - -
50D PHE* 5.9 0.4 - - - -
80D MET* 4.2 34.8 - - - -
83D HIS* 5.7 2.5 - - - -
84D VAL* 5.2 7.9 - - - -
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Residues in contact with LEU 186 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97B VAL* 3.8 29.8 - - + -
182B LEU* 2.8 25.1 + - + +
183B GLN* 3.7 14.4 - - - +
185B CYS* 1.3 76.5 - - - +
187B PHE* 1.3 56.1 + - + +
189B ILE* 4.2 4.3 - - - -
190B THR* 2.5 39.3 + - + +
206B ILE* 3.3 29.8 - - + -
209B LEU* 4.6 1.7 - - + +
403B GOL 3.2 47.8 - - - +
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Residues in contact with PHE 187 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97B VAL* 5.8 1.6 - - + -
100B ALA* 4.6 13.9 - - + -
101B ASN* 5.0 15.0 - - + -
104B LEU* 3.3 28.0 - - + -
183B GLN* 2.8 52.9 + - + +
184B LEU 4.2 0.4 - - - +
185B CYS 3.0 0.4 - - - -
186B LEU* 1.3 85.6 - - + +
188B ALA* 1.3 58.9 + - - +
189B ILE 3.3 0.4 - - - -
190B THR* 3.5 6.0 + - - -
191B ASP* 2.9 32.4 + - - +
269B GLY* 3.7 12.3 - - - -
272B TYR* 3.7 29.0 - + + -
401B GOL 3.8 23.1 - - - +
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Residues in contact with ALA 188 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
184B LEU 3.1 19.4 + - - +
185B CYS* 2.8 8.4 + - - +
187B PHE* 1.3 77.9 - - - +
189B ILE* 1.3 59.7 + - - +
191B ASP* 3.8 13.1 + - - +
194B ASN* 4.2 10.1 + - - +
272B TYR* 3.5 22.8 - - + +
83D HIS* 2.9 25.6 + - + -
84D VAL* 4.1 18.6 - - + -
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Residues in contact with ILE 189 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
185B CYS* 2.6 40.9 + - + +
186B LEU 4.8 1.6 - - - +
188B ALA* 1.3 72.1 - - - +
190B THR* 1.3 64.1 + - + +
191B ASP 3.2 3.9 + - - +
197B ALA* 5.8 2.8 - - - +
198B LEU* 4.1 6.9 + - + +
202B GLU* 3.1 46.9 - - + +
205B VAL* 3.5 34.3 - - + +
206B ILE* 3.9 23.3 - - + +
209B LEU* 5.2 0.4 - - + -
80D MET* 5.1 0.2 - - - -
83D HIS* 2.9 33.2 + - + +
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Residues in contact with THR 190 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
186B LEU* 2.5 37.0 + - + +
187B PHE* 3.5 11.1 + - - -
189B ILE* 1.3 76.1 - - - +
191B ASP* 1.3 59.1 + - - +
192B GLN* 3.1 17.4 + - - +
202B GLU* 3.4 25.9 - - + +
206B ILE* 5.0 5.4 - - + -
403B GOL 6.3 0.7 - - - -
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Residues in contact with ASP 191 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187B PHE 2.9 19.8 + - - +
188B ALA 3.9 8.7 - - - +
189B ILE 3.2 3.9 - - - +
190B THR* 1.3 73.6 - - - +
192B GLN* 1.3 61.1 + - - +
193B GLU* 2.5 42.7 + - - +
194B ASN* 3.6 22.1 + - + +
195B ASN 4.8 1.9 - - - +
197B ALA* 5.1 3.2 - - - +
272B TYR* 2.7 31.8 + - + +
280B ILE* 3.7 18.5 - - - +
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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