Contacts of the helix formed by residues 196 - 220 (chain A) 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 A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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182A LEU* 4.9 4.5 - - + -
185A THR* 3.3 42.2 - - - +
186A TRP* 4.5 7.9 - - + +
193A LYS* 4.0 3.1 - - - +
194A TYR 3.6 6.3 - - - +
195A GLN* 1.3 88.2 - - + +
197A ILE* 1.3 63.9 + - - +
198A ASP 3.2 3.3 + - - -
199A SER* 3.4 11.8 + - - +
200A ILE* 3.1 29.9 + - + +
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Residues in contact with ILE 197 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
195A GLN* 3.0 22.3 + - + +
196A PRO* 1.3 72.9 - - - +
198A ASP* 1.3 58.0 + - - +
200A ILE* 3.7 8.9 - - + +
201A ARG* 2.9 27.9 + - - +
209A ALA* 3.5 27.0 - - + +
212A PHE 5.4 0.9 - - - -
213A GLY* 4.1 13.7 - - - +
216A GLU* 4.0 21.1 - - - +
268A MET* 3.9 22.4 - - - -
271A ARG* 5.1 6.7 - - - +
272A TRP* 3.7 19.2 - - + -
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Residues in contact with ASP 198 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
196A PRO* 3.2 0.8 - - - +
197A ILE* 1.3 79.6 - - - +
199A SER* 1.3 57.6 + - - +
201A ARG* 3.3 7.5 + - - +
202A GLY* 2.9 23.6 + - - -
271A ARG* 2.9 31.8 + - - +
272A TRP* 2.9 28.2 + - - -
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Residues in contact with SER 199 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181A LYS 5.5 0.3 + - - -
182A LEU* 3.3 26.8 - - - +
185A THR* 5.4 2.4 + - - -
196A PRO* 3.4 16.2 + - - +
198A ASP* 1.3 75.0 - - - +
200A ILE* 1.3 60.9 + - - +
202A GLY* 3.3 2.2 + - - +
203A TYR* 3.0 30.5 + - - +
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Residues in contact with ILE 200 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182A LEU* 4.1 17.5 - - + -
186A TRP* 3.4 46.9 - - + +
195A GLN* 4.0 13.5 - - + -
196A PRO* 3.1 25.6 + - + +
197A ILE* 3.7 8.1 - - - +
199A SER* 1.3 75.6 - - - +
201A ARG* 1.3 57.1 + - - +
204A PHE* 2.9 36.3 + - + +
205A GLY 4.0 0.5 - - - +
208A ILE 4.5 0.7 - - - -
209A ALA* 3.8 25.6 - - - +
212A PHE* 4.3 22.7 - - + -
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Residues in contact with ARG 201 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90A LYS* 5.1 8.1 - - - +
120A THR* 6.2 1.8 - - - +
122A ALA* 4.8 1.2 - - - +
123A GLU* 3.4 25.2 + - - +
197A ILE 2.9 19.8 + - - +
198A ASP* 3.4 8.3 - - - +
199A SER 3.2 0.2 - - - -
200A ILE* 1.3 76.4 - - - +
202A GLY* 1.3 65.9 + - - +
205A GLY* 2.9 42.9 + - - +
206A GLU* 3.0 29.4 + - + +
209A ALA* 3.7 8.7 - - + +
272A TRP* 3.6 62.3 + - + +
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Residues in contact with GLY 202 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120A THR* 3.8 25.9 + - - -
121A MET 5.1 0.3 + - - -
122A ALA* 3.7 15.4 + - - +
198A ASP 2.9 14.8 + - - -
199A SER* 3.3 4.4 + - - -
201A ARG* 1.3 85.0 - - - +
203A TYR* 1.3 60.0 + - - +
543A ARG* 4.6 0.5 + - - -
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Residues in contact with TYR 203 (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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121A MET* 6.2 0.7 - - + -
122A ALA* 3.7 3.4 - - - +
174A HIS* 2.8 29.2 + + - -
175A ASP* 3.0 37.5 + - + -
178A ALA* 4.5 16.2 - - + +
179A LEU* 3.6 26.9 - - + +
182A LEU* 4.0 17.3 - - + -
199A SER* 3.0 15.9 + - - +
200A ILE 4.2 1.3 - - - +
202A GLY* 1.3 81.3 - - - +
204A PHE* 1.3 88.9 + + + +
205A GLY 3.7 1.3 - - - -
543A ARG* 2.9 52.4 + - - +
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Residues in contact with PHE 204 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174A HIS* 4.3 4.9 - + - -
179A LEU* 4.5 3.8 - - + -
182A LEU* 3.9 5.2 - - + -
186A TRP* 3.6 35.9 - + - -
200A ILE* 2.9 24.7 + - + +
203A TYR* 1.3 110.1 - + + +
205A GLY* 1.3 63.2 + - - +
207A THR 5.0 0.2 + - - -
208A ILE* 3.5 35.2 - - + +
537A MET* 3.3 37.2 - - + -
543A ARG* 4.8 3.4 - - + +
544A PRO* 3.8 39.5 - - + +
545A PHE 5.0 0.7 - - - +
546A SER* 4.4 9.7 - - - -
547A GLU 5.3 0.3 + - - -
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Residues in contact with GLY 205 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122A ALA* 4.2 3.6 - - - +
200A ILE 4.0 0.2 - - - +
201A ARG* 2.9 29.7 + - - +
203A TYR 3.7 1.6 - - - -
204A PHE* 1.3 82.9 - - - +
206A GLU* 1.3 68.8 + - - -
207A THR 3.7 0.7 - - - -
209A ALA* 3.6 7.5 + - - +
546A SER* 3.7 28.9 + - - -
547A GLU 4.7 0.2 - - - -
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Residues in contact with GLU 206 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123A GLU* 5.8 2.1 - - - +
201A ARG* 3.0 38.3 + - + +
205A GLY* 1.3 77.5 - - - -
207A THR* 1.3 61.1 + - - +
208A ILE 3.4 0.7 - - - -
209A ALA* 3.8 5.1 - - - +
210A LEU* 2.9 30.5 + - - +
272A TRP* 3.6 29.8 - - + +
274A THR* 3.6 23.2 - - + +
546A SER* 5.3 2.4 - - - -
547A GLU 3.8 9.7 + - - +
548A PRO* 3.8 18.5 - - - +
549A SER* 4.2 15.0 - - - +
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Residues in contact with THR 207 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
204A PHE 5.0 0.2 + - - -
205A GLY* 3.7 0.6 - - - -
206A GLU* 1.3 74.0 - - - +
208A ILE* 1.3 65.1 + - + +
210A LEU* 3.3 6.8 + - + +
211A TYR* 3.0 27.7 + - - +
494A THR* 3.5 28.3 - - + +
498A TYR* 4.7 2.6 + - + +
547A GLU* 2.8 36.2 + - + +
549A SER* 3.2 23.9 + - - +
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Residues in contact with ILE 208 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
200A ILE* 4.5 1.1 - - + -
204A PHE* 3.5 37.4 + - + +
206A GLU 3.4 0.2 - - - -
207A THR* 1.3 79.6 - - + +
209A ALA* 1.3 58.2 + - - +
211A TYR* 3.3 8.3 + - + +
212A PHE* 2.9 59.2 + - + -
491A TYR* 3.6 34.3 - - + +
494A THR* 3.8 10.8 - - + -
537A MET* 3.9 20.6 - - + -
544A PRO* 4.3 12.8 - - + -
545A PHE 6.0 1.1 - - - +
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Residues in contact with ALA 209 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
197A ILE* 3.5 16.3 - - + +
200A ILE* 3.8 10.4 - - + +
201A ARG* 3.7 24.0 - - + +
205A GLY 3.6 17.9 + - - +
206A GLU 3.5 3.2 + - - +
207A THR 3.3 0.6 - - - -
208A ILE* 1.3 77.4 - - - +
210A LEU* 1.3 59.4 + - - +
212A PHE* 3.8 0.6 - - - +
213A GLY* 2.9 24.8 + - - -
268A MET* 5.2 0.2 - - - +
272A TRP* 3.6 21.3 - - + -
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Residues in contact with LEU 210 (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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206A GLU 2.9 16.9 + - - +
207A THR* 3.3 5.8 + - - +
209A ALA* 1.3 71.8 - - - +
211A TYR* 1.3 61.1 + - - +
213A GLY* 4.5 0.9 - - - +
214A PHE* 2.9 29.6 + - - +
261A TRP* 3.8 10.8 - - + -
265A CYS* 4.3 8.3 - - - -
268A MET* 3.9 20.4 - - + -
269A THR* 3.9 12.1 - - + -
272A TRP* 3.7 22.4 - - + -
498A TYR* 3.8 5.1 + - - +
549A SER* 4.1 15.0 - - - +
550A ALA 4.3 1.3 - - - -
551A ASN* 3.4 44.9 - - - +
552A ILE* 4.1 4.5 - - + +
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Residues in contact with TYR 211 (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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207A THR 3.0 14.2 + - - +
208A ILE* 3.6 6.5 - - + +
209A ALA 3.3 0.2 - - - -
210A LEU* 1.3 77.9 - - - +
212A PHE* 1.3 89.5 + + - +
214A PHE* 3.2 1.9 + - - +
215A LEU* 2.9 38.9 + - + +
491A TYR* 5.0 3.6 - - - -
494A THR* 4.2 18.2 - - + -
497A ASP* 3.2 41.3 + - + +
498A TYR* 3.3 34.9 + + + +
501A LEU* 4.1 14.7 - - + +
529A GLU* 4.6 1.4 - - - +
533A ASP* 2.3 34.0 + - + -
702A CA 3.4 7.1 - - - -
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Residues in contact with PHE 212 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
186A TRP* 3.6 28.0 - + - -
195A GLN* 3.1 39.2 - - - +
197A ILE* 5.3 2.0 - - + -
200A ILE* 4.3 15.9 - - + -
208A ILE* 2.9 47.6 + - + +
209A ALA 4.1 2.9 - - - +
211A TYR* 1.3 88.3 - + - +
213A GLY* 1.3 58.8 + - - +
215A LEU* 3.4 14.3 + - + +
216A GLU* 2.9 23.2 + - - +
530A VAL 4.1 5.6 - - - -
533A ASP* 3.7 22.4 - - + -
534A ALA 3.6 25.1 - - - -
537A MET* 3.9 8.5 - - + -
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Residues in contact with GLY 213 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
197A ILE* 4.1 25.7 - - - +
209A ALA 2.9 17.7 + - - -
210A LEU 3.8 1.1 - - - -
212A PHE* 1.3 76.0 - - - +
214A PHE* 1.3 57.6 + - - +
216A GLU* 3.4 5.2 + - - +
217A TYR* 2.9 28.9 + - - +
261A TRP* 3.9 7.4 - - - -
268A MET* 4.5 7.6 - - - -
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Residues in contact with PHE 214 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
210A LEU 2.9 18.6 + - - +
211A TYR 3.6 3.6 - - - +
213A GLY* 1.3 76.0 - - - +
215A LEU* 1.3 57.9 + - - +
217A TYR* 3.4 4.1 + + - +
218A PHE* 2.8 43.6 + + + +
258A LEU* 5.2 8.1 - - + -
261A TRP* 3.5 56.0 - + + -
498A TYR* 3.5 28.5 - + + +
501A LEU* 3.7 23.3 - - + -
552A ILE* 4.6 7.6 - - + -
559A PHE* 3.8 42.2 - + - -
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Residues in contact with LEU 215 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
211A TYR* 2.9 38.8 + - + +
212A PHE* 3.8 15.0 - - + +
213A GLY 3.3 0.2 - - - -
214A PHE* 1.3 75.8 - - - +
216A GLU* 1.3 55.3 + - - +
218A PHE* 3.8 1.2 - - + +
219A THR* 2.6 45.4 + - - +
501A LEU* 3.7 38.4 - - + -
526A ASN* 4.1 13.7 - - + +
529A GLU* 4.2 9.9 - - + +
530A VAL* 3.7 38.6 - - + +
533A ASP* 4.2 3.1 - - - +
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Residues in contact with GLU 216 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
193A LYS 5.6 0.9 - - - +
194A TYR* 4.5 8.7 - - - -
195A GLN* 3.3 44.6 + - + +
197A ILE* 4.0 17.3 - - + +
212A PHE 2.9 11.6 + - - +
213A GLY* 3.8 7.6 - - - +
215A LEU* 1.3 76.4 - - - +
217A TYR* 1.3 65.8 + - - +
219A THR* 3.7 5.4 + - - -
220A PHE* 3.2 55.9 + - + -
530A VAL* 5.1 4.0 - - - -
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Residues in contact with TYR 217 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
213A GLY 2.9 18.4 + - - +
214A PHE* 3.7 8.3 - + - +
216A GLU* 1.3 82.3 + - - +
218A PHE* 1.3 62.8 + + + +
220A PHE* 3.2 8.9 + - + -
221A ALA* 3.0 31.2 + - + +
257A ILE* 3.1 49.9 + - + +
260A LEU* 3.2 27.4 - - + +
261A TRP* 3.6 38.1 - + + -
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Residues in contact with PHE 218 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
214A PHE* 2.8 39.2 + + + +
215A LEU* 4.0 5.2 - - - +
217A TYR* 1.3 77.7 - + - +
219A THR* 1.3 64.0 + - - +
221A ALA* 3.8 3.1 - - + -
222A LEU* 3.5 50.5 + - + +
257A ILE* 4.7 13.5 - - + -
258A LEU* 6.1 3.6 - - + -
501A LEU* 4.0 37.7 - - + -
504A GLN* 4.7 4.0 - - + -
505A PHE* 3.6 50.7 - + + -
526A ASN* 4.0 8.5 - - - -
559A PHE* 4.3 9.0 - + - -
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Residues in contact with THR 219 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
215A LEU* 2.6 25.2 + - - +
216A GLU* 3.9 7.4 - - - -
217A TYR 3.2 0.2 - - - -
218A PHE* 1.3 78.9 - - - +
220A PHE* 1.3 62.8 + - + +
221A ALA 3.2 4.1 + - - -
222A LEU* 3.7 6.7 + - - +
223A ILE* 3.3 18.4 + - - +
523A VAL* 4.5 7.9 - - + +
526A ASN* 3.3 34.3 + - + +
527A PHE* 3.6 37.5 - - + -
530A VAL* 4.1 8.5 - - + +
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Residues in contact with PHE 220 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
192A LEU* 3.7 43.3 - - + -
193A LYS 4.6 8.3 - - - -
194A TYR* 3.9 24.9 - + - -
216A GLU* 3.2 42.8 + - + +
217A TYR* 3.2 11.6 + - + +
219A THR* 1.3 80.5 - - + +
221A ALA* 1.3 57.0 + - - +
222A LEU 3.7 0.2 - - - -
223A ILE* 3.6 25.6 - - + +
224A PRO* 4.4 7.4 - - - +
253A TRP* 5.1 2.6 - - - -
527A PHE* 4.5 11.2 - + - -
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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