Contacts of the helix formed by residues 196 - 220 (chain B) in PDB entry 6R7X
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 PRO 196 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182B LEU* 4.9 5.2 - - + -
185B THR* 3.3 41.7 - - - +
186B TRP* 4.5 9.0 - - + +
193B LYS* 4.0 3.1 - - - +
194B TYR 3.6 6.3 - - - +
195B GLN* 1.3 86.6 - - + +
197B ILE* 1.3 66.0 + - - +
198B ASP 3.2 3.1 + - - +
199B SER* 3.4 11.6 + - - +
200B ILE* 3.1 29.3 + - + +
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Residues in contact with ILE 197 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
195B GLN* 3.0 21.8 + - + +
196B PRO* 1.3 73.0 - - - +
198B ASP* 1.3 59.5 + - - +
200B ILE* 3.7 8.7 - - + +
201B ARG* 2.9 27.5 + - - +
209B ALA* 3.5 26.9 - - + +
212B PHE* 5.3 0.9 - - + -
213B GLY* 4.1 13.9 - - - +
216B GLU* 4.0 21.1 - - - +
268B MET* 3.9 22.4 - - + -
271B ARG* 5.1 7.2 - - - +
272B TRP* 3.7 19.2 - - + -
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Residues in contact with ASP 198 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
196B PRO 3.2 0.8 - - - -
197B ILE* 1.3 79.1 - - - +
199B SER* 1.3 57.6 + - - +
201B ARG* 3.3 7.9 + - - +
202B GLY* 2.9 23.2 + - - -
271B ARG* 2.9 31.2 + - - +
272B TRP* 2.9 28.8 + - - -
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Residues in contact with SER 199 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181B LYS 5.5 0.2 + - - -
182B LEU* 3.3 27.6 - - - +
185B THR* 5.4 2.6 + - - -
196B PRO* 3.4 15.8 + - - +
198B ASP* 1.3 74.8 - - - +
200B ILE* 1.3 61.1 + - - +
202B GLY* 3.3 3.0 + - - +
203B TYR* 3.0 30.5 + - - +
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Residues in contact with ILE 200 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182B LEU* 4.0 16.4 - - + +
186B TRP* 3.4 47.3 - - + +
195B GLN* 4.0 12.6 - - + -
196B PRO* 3.1 25.8 + - + +
197B ILE* 3.7 8.1 - - + +
199B SER* 1.3 74.9 - - - +
201B ARG* 1.3 56.8 + - - +
204B PHE* 2.9 36.8 + - + +
205B GLY 4.0 0.3 - - - +
208B ILE 4.5 1.1 - - - -
209B ALA* 3.8 25.8 - - - +
212B PHE* 4.3 23.1 - - + -
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Residues in contact with ARG 201 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89B VAL 5.8 0.4 + - - -
90B LYS* 5.1 7.9 - - - +
120B THR* 6.2 1.8 - - - +
122B ALA* 4.8 1.4 - - - +
123B GLU* 3.4 26.7 + - - +
197B ILE 2.9 19.5 + - - +
198B ASP* 3.4 6.7 - - - +
199B SER 3.2 0.2 - - - -
200B ILE* 1.3 77.2 - - - +
202B GLY* 1.3 64.9 + - - +
205B GLY* 2.9 42.8 + - - +
206B GLU* 3.0 29.2 + - + +
209B ALA* 3.7 8.3 - - + -
272B TRP* 3.6 60.9 + - + +
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Residues in contact with GLY 202 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120B THR* 3.8 24.9 + - - +
121B MET 5.1 0.3 + - - -
122B ALA* 3.7 14.8 + - - +
198B ASP 2.9 15.3 + - - -
199B SER* 3.3 4.0 + - - -
201B ARG* 1.3 85.5 - - - +
203B TYR* 1.3 58.4 + - - +
543B ARG* 4.6 0.5 + - - -
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Residues in contact with TYR 203 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121B MET* 6.2 0.2 - - + -
122B ALA* 3.7 4.1 - - - +
174B HIS* 2.8 29.1 + + - -
175B ASP* 3.0 36.6 + - + -
178B ALA* 4.5 16.2 - - + -
179B LEU* 3.6 26.7 - - + +
182B LEU* 4.0 18.2 - - + -
199B SER 3.0 16.8 + - - +
200B ILE 4.2 0.4 - - - +
202B GLY* 1.3 79.3 - - - +
204B PHE* 1.3 88.3 + + + +
205B GLY 3.7 0.9 - - - -
543B ARG* 2.9 52.4 + - - +
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Residues in contact with PHE 204 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174B HIS* 4.3 5.6 - + - -
179B LEU* 4.5 4.0 - - + -
182B LEU* 3.9 5.2 - - + -
186B TRP* 3.6 36.3 - + - -
200B ILE* 2.9 23.8 + - + +
203B TYR* 1.3 110.6 - + + +
205B GLY* 1.3 63.9 + - - +
207B THR 5.0 0.3 + - - -
208B ILE* 3.5 33.9 - - + +
537B MET* 3.3 37.7 - - + -
543B ARG* 4.8 2.5 - - + -
544B PRO* 3.8 40.4 - - + +
545B PHE 5.0 0.5 - - - +
546B SER* 4.4 9.7 - - - -
547B GLU 5.3 0.2 + - - -
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Residues in contact with GLY 205 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122B ALA* 4.2 2.9 - - - +
200B ILE 4.0 0.2 - - - +
201B ARG* 2.9 30.4 + - - +
203B TYR 3.7 1.4 - - - -
204B PHE* 1.3 83.2 - - - +
206B GLU* 1.3 68.4 + - - -
207B THR 3.7 0.4 - - - -
209B ALA* 3.6 7.2 + - - +
546B SER* 3.7 29.1 + - - -
547B GLU 4.7 0.2 - - - -
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Residues in contact with GLU 206 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123B GLU* 5.8 2.3 - - - +
201B ARG* 3.0 37.7 + - + +
205B GLY* 1.3 79.1 - - - -
207B THR* 1.3 61.6 + - - +
208B ILE 3.4 0.7 - - - -
209B ALA* 3.5 4.6 + - - +
210B LEU* 2.9 30.7 + - - +
272B TRP* 3.6 29.0 - - + +
274B THR* 3.6 23.0 - - + +
546B SER* 5.3 2.6 - - - -
547B GLU 3.7 10.1 + - - +
548B PRO* 3.8 17.8 - - - +
549B SER* 4.2 15.7 - - - +
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Residues in contact with THR 207 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
204B PHE 5.0 0.2 + - - -
205B GLY 3.7 0.2 - - - -
206B GLU* 1.3 74.3 - - - +
208B ILE* 1.3 65.5 + - + +
210B LEU* 3.3 6.3 + - + +
211B TYR* 3.0 27.1 + - - +
494B THR* 3.5 28.0 - - + +
498B TYR* 4.7 2.8 + - + +
547B GLU* 2.8 34.3 + - + +
549B SER* 3.2 25.0 + - - +
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Residues in contact with ILE 208 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
200B ILE* 4.5 0.9 - - + -
204B PHE* 3.5 39.0 + - + +
206B GLU 3.4 0.2 - - - -
207B THR* 1.3 79.6 - - + +
209B ALA* 1.3 56.6 + - - +
211B TYR* 3.3 8.5 + - + +
212B PHE* 2.9 59.7 + - + -
491B TYR* 3.6 34.3 - - + +
494B THR* 3.8 10.1 - - + -
537B MET* 3.9 21.1 - - + -
544B PRO* 4.3 13.5 - - + -
545B PHE 6.0 0.9 - - - +
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Residues in contact with ALA 209 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
197B ILE* 3.5 15.8 - - + +
200B ILE* 3.8 13.3 - - + +
201B ARG* 3.7 23.3 - - + +
205B GLY 3.6 18.9 + - - +
206B GLU 3.5 3.4 + - - +
207B THR 3.3 0.6 - - - -
208B ILE* 1.3 76.4 - - - +
210B LEU* 1.3 59.1 + - - +
212B PHE 3.8 0.6 - - - +
213B GLY* 2.9 23.9 + - - -
272B TRP* 3.6 22.0 - - + -
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Residues in contact with LEU 210 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
206B GLU 2.9 15.2 + - - +
207B THR* 3.3 6.2 + - + +
209B ALA* 1.3 74.1 - - - +
211B TYR* 1.3 61.3 + - - +
213B GLY* 3.5 1.1 + - - -
214B PHE* 2.9 29.3 + - - +
261B TRP* 3.8 9.7 - - + -
265B CYS* 4.3 7.6 - - - -
268B MET* 3.9 20.9 - - + -
269B THR* 3.9 13.0 - - + -
272B TRP* 3.7 21.7 - - + -
498B TYR* 3.8 4.8 + - - +
549B SER* 4.1 14.8 - - - +
550B ALA 4.3 1.6 - - - -
551B ASN* 3.4 44.4 - - - +
552B ILE* 4.1 4.5 - - + +
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Residues in contact with TYR 211 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
207B THR 3.0 14.6 + - - +
208B ILE* 3.6 7.2 - - + +
209B ALA 3.3 0.2 - - - -
210B LEU* 1.3 77.1 - - - +
212B PHE* 1.3 89.2 + + - +
214B PHE* 3.2 1.7 + - - +
215B LEU* 2.9 38.9 + - + +
491B TYR* 5.0 2.0 - - - -
494B THR* 4.2 17.9 - - + -
497B ASP* 3.2 41.1 + - + +
498B TYR* 3.3 34.4 + + + +
501B LEU* 4.1 14.0 - - + +
529B GLU* 4.6 1.4 - - - +
533B ASP* 2.3 35.8 + - + -
903B CA 3.4 6.8 - - - -
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Residues in contact with PHE 212 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
186B TRP* 3.6 28.9 - + - -
195B GLN* 3.1 41.7 - - - +
197B ILE* 5.3 2.0 - - + -
200B ILE* 4.3 15.7 - - + -
208B ILE* 2.9 47.2 + - + +
209B ALA 4.1 2.5 - - - +
211B TYR* 1.3 89.6 - + - +
213B GLY* 1.3 57.8 + - - +
215B LEU* 3.8 13.5 - - + +
216B GLU* 2.9 23.2 + - - +
530B VAL 4.1 5.2 - - - -
533B ASP* 3.7 22.4 - - + -
534B ALA* 3.6 25.8 - - - -
537B MET* 3.9 9.0 - - + -
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Residues in contact with GLY 213 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
197B ILE* 4.1 25.4 - - - +
209B ALA 2.9 18.2 + - - -
210B LEU 3.9 1.3 - - - -
212B PHE* 1.3 76.1 - - - +
214B PHE* 1.3 57.3 + - - +
216B GLU* 3.4 5.7 + - - +
217B TYR* 2.9 29.5 + - - +
261B TRP* 3.9 7.5 - - - -
268B MET* 4.5 7.4 - - - +
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Residues in contact with PHE 214 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
210B LEU 2.9 18.5 + - - +
211B TYR 3.2 2.9 + - - +
213B GLY* 1.3 76.1 - - - +
215B LEU* 1.3 57.9 + - - +
217B TYR* 3.7 4.9 - + - +
218B PHE* 2.8 43.4 + + + +
258B LEU* 5.2 7.6 - - + -
261B TRP* 3.5 54.9 - + + -
498B TYR* 3.5 27.8 - + + +
501B LEU* 3.7 23.1 - - + -
552B ILE* 4.6 7.4 - - + -
559B PHE* 3.8 42.0 - + - -
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Residues in contact with LEU 215 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
211B TYR* 2.9 38.7 + - + +
212B PHE* 3.8 15.7 - - + +
214B PHE* 1.3 75.2 - - - +
216B GLU* 1.3 57.0 + - - +
218B PHE* 4.5 1.3 - - + -
219B THR* 2.6 46.0 + - - +
501B LEU* 3.7 37.9 - - + -
526B ASN* 4.1 13.5 - - + +
529B GLU* 4.2 10.5 - - + +
530B VAL* 3.7 38.1 - - + +
533B ASP* 4.2 2.7 - - - +
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Residues in contact with GLU 216 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
193B LYS 5.6 1.1 - - - +
194B TYR* 4.5 8.2 - - - -
195B GLN* 3.3 43.0 + - + +
197B ILE* 4.0 17.4 - - + +
212B PHE 2.9 11.0 + - - +
213B GLY* 3.8 7.6 - - - +
215B LEU* 1.3 77.1 - - - +
217B TYR* 1.3 66.5 + - - +
219B THR* 3.9 5.5 - - - -
220B PHE* 3.2 56.3 + - + -
530B VAL* 5.1 3.8 - - + -
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Residues in contact with TYR 217 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
213B GLY 2.9 17.5 + - - +
214B PHE* 3.7 8.7 - + - +
216B GLU* 1.3 82.3 + - - +
218B PHE* 1.3 63.9 + + - +
220B PHE* 3.2 10.2 + - + +
221B ALA* 3.0 31.4 + - + +
257B ILE* 3.1 50.7 + - + +
260B LEU* 3.2 27.1 - - + +
261B TRP* 3.6 39.3 - + + -
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Residues in contact with PHE 218 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
214B PHE* 2.8 39.5 + + + +
215B LEU* 4.0 5.4 - - - +
217B TYR* 1.3 76.3 - + - +
219B THR* 1.3 63.5 + - - +
221B ALA* 3.8 3.5 - - - +
222B LEU* 3.5 51.0 + - + +
257B ILE* 4.7 14.1 - - + -
258B LEU* 6.1 3.1 - - + -
501B LEU* 4.0 37.0 - - + -
504B GLN* 4.7 4.5 - - + -
505B PHE* 3.6 50.7 - + + -
526B ASN* 4.0 8.0 + - - -
559B PHE* 4.3 9.2 - + - -
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Residues in contact with THR 219 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
215B LEU* 2.6 26.1 + - - +
216B GLU* 3.9 7.0 - - - -
217B TYR 3.2 0.2 - - - -
218B PHE* 1.3 79.3 - - - +
220B PHE* 1.3 63.8 + - + +
221B ALA 3.2 3.5 + - - -
222B LEU* 3.7 7.1 + - - +
223B ILE* 3.3 18.4 + - - +
523B VAL* 4.5 7.7 - - + +
526B ASN* 3.3 34.0 + - + +
527B PHE* 3.6 36.8 - - + -
530B VAL* 4.1 8.8 - - + +
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Residues in contact with PHE 220 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
192B LEU* 3.7 42.6 - - + -
193B LYS 4.6 8.1 - - - -
194B TYR* 3.9 23.8 - + - -
216B GLU* 3.2 44.7 + - + +
217B TYR* 3.2 13.1 + - + +
219B THR* 1.3 79.9 - - + +
221B ALA* 1.3 55.7 + - - +
222B LEU 3.7 0.2 - - - -
223B ILE* 3.6 23.8 - - + +
224B PRO* 4.4 7.8 - - - +
253B TRP* 5.1 2.3 - - - -
527B PHE* 4.5 10.8 - + - -
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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