Contacts of the helix formed by residues 205 - 235 (chain A) in PDB entry 5OC9
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 GLY 205 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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122A ALA* 4.8 2.0 - - - +
200A ILE 3.6 0.6 + - - +
201A ARG* 2.9 22.0 + - - -
203A TYR 3.8 0.6 - - - -
204A PHE* 1.3 79.8 - - - +
206A GLU* 1.3 67.2 + - - -
207A THR 3.4 2.7 - - - -
208A ILE 3.8 0.8 + - - -
209A ALA* 3.2 26.7 + - - +
546A SER* 3.7 17.3 - - - -
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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* 5.4 1.6 - - - +
201A ARG* 2.8 37.7 + - - +
205A GLY* 1.3 75.3 - - - -
207A THR* 1.4 56.6 + - - +
209A ALA* 4.6 0.2 - - - -
210A LEU* 3.0 33.7 + - - +
272A TRP* 3.6 28.8 - - + +
274A THR* 3.7 19.3 - - + -
546A SER* 5.4 2.4 - - - -
547A GLU 3.5 4.4 + - - +
548A PRO* 3.5 22.7 - - + +
549A SER* 3.4 26.0 - - - +
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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
----------------------------------------------------------
205A GLY 3.4 0.8 - - - -
206A GLU* 1.4 73.2 - - - +
208A ILE* 1.4 70.2 + - + +
210A LEU* 3.5 5.3 + - - +
211A TYR* 3.2 20.4 + - - +
494A THR* 3.9 24.9 - - + +
498A TYR* 4.4 3.6 + - + -
547A GLU* 2.7 39.0 + - + +
549A SER* 2.7 24.2 + - - +
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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* 4.0 5.4 - - + -
204A PHE* 3.5 43.7 - - + +
205A GLY* 3.8 1.9 + - - +
207A THR* 1.4 79.8 - - + +
209A ALA* 1.4 65.9 + - - +
211A TYR* 3.1 16.2 + - + +
212A PHE* 3.1 37.9 + - + -
491A TYR* 4.6 12.6 - - + -
494A THR* 4.7 5.6 - - + -
537A MET* 3.9 24.0 - - + -
544A PRO* 4.0 23.6 - - + -
545A PHE 4.9 7.6 - - - +
546A SER* 5.3 0.9 - - - -
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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* 3.4 18.2 - - - +
200A ILE* 3.8 11.6 - - - +
201A ARG* 3.6 27.1 - - - +
205A GLY 3.2 19.6 + - - +
206A GLU 4.1 0.2 - - - +
208A ILE* 1.4 75.8 - - - +
210A LEU* 1.4 51.8 + - - +
212A PHE* 3.4 2.3 + - - +
213A GLY 2.8 28.2 + - - -
272A TRP* 3.6 19.1 - - + -
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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
----------------------------------------------------------
206A GLU 3.0 20.7 + - - +
207A THR* 3.7 6.3 - - - +
208A ILE 3.2 0.2 - - - -
209A ALA* 1.4 70.9 - - - +
211A TYR* 1.4 60.6 + - - +
213A GLY* 3.3 0.7 + - - +
214A PHE* 2.9 30.5 + - - +
261A TRP* 3.7 20.6 - - + -
265A CYS* 3.6 26.7 - - - -
268A MET* 3.8 12.1 - - + -
269A THR* 4.3 4.3 - - + -
272A TRP* 4.1 12.0 - - + -
498A TYR* 3.6 7.5 + - - +
549A SER* 3.6 28.5 - - - +
550A ALA 4.3 2.0 - - - -
551A ASN 3.6 31.2 - - - +
552A ILE* 4.4 1.1 - - + -
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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
----------------------------------------------------------
207A THR 3.2 10.6 + - - +
208A ILE* 3.1 9.8 + - + +
210A LEU* 1.4 76.8 - - - +
212A PHE* 1.3 80.4 + + - +
214A PHE* 3.2 1.9 + - - +
215A LEU* 2.8 49.9 + - + +
491A TYR* 5.3 3.4 - - - -
494A THR* 4.3 9.6 - - + -
497A ASP* 3.4 43.9 + - + -
498A TYR* 3.3 39.4 + + + +
501A LEU* 3.8 18.2 - - + +
529A GLU* 4.3 2.9 - - - +
533A ASP* 2.7 28.3 + - - -
702A CA 3.5 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
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186A TRP* 3.5 32.5 - + - -
195A GLN* 3.1 43.6 + - - +
197A ILE* 3.4 3.5 - - - +
200A ILE* 4.1 13.7 - - + -
208A ILE* 3.1 45.3 + - + +
209A ALA* 4.0 4.0 - - - +
211A TYR* 1.3 88.5 - + - +
213A GLY* 1.3 56.7 + - - +
215A LEU* 3.9 17.7 - - + -
216A GLU* 3.2 14.4 + - - +
530A VAL 4.0 8.1 - - - -
533A ASP* 3.7 41.7 - - + -
534A ALA 4.0 4.9 - - - -
537A MET* 3.9 9.4 - - + -
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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* 3.6 19.5 - - - +
209A ALA 2.8 17.4 + - - -
210A LEU* 3.6 3.4 - - - -
212A PHE* 1.3 76.6 - - - +
214A PHE* 1.4 58.8 + - - +
216A GLU* 3.8 4.2 + - - +
217A TYR* 3.2 26.5 + - - +
261A TRP* 3.8 9.5 - - - -
268A MET* 4.9 6.3 - - - -
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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 16.8 + - - +
211A TYR 3.7 2.9 - - - +
213A GLY* 1.4 73.4 - - - +
215A LEU* 1.4 54.2 + - - +
217A TYR* 3.3 8.6 + + - +
218A PHE* 2.8 47.6 + + + +
258A LEU* 5.2 7.2 - - + -
261A TRP* 3.6 54.8 - + + -
498A TYR* 3.9 26.5 - + + -
501A LEU* 3.9 18.8 - - + -
552A ILE* 4.3 10.5 - - + -
559A PHE* 3.6 47.1 - + - -
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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
----------------------------------------------------------
195A GLN* 4.6 2.0 - - - +
211A TYR* 2.8 31.1 + - + +
212A PHE* 3.9 22.4 - - + +
213A GLY 3.4 0.2 - - - -
214A PHE* 1.4 75.7 - - - +
216A GLU* 1.4 53.7 + - - +
218A PHE* 3.9 1.0 - - - +
219A THR* 2.7 43.9 + - - +
501A LEU* 3.7 38.8 - - + -
526A ASN* 4.1 13.5 - - + +
529A GLU* 4.2 15.5 - - + +
530A VAL* 3.8 36.1 - - + +
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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 4.6 0.7 - - - +
194A TYR* 3.4 25.8 - - - +
195A GLN* 3.0 49.9 + - + +
197A ILE* 3.9 14.4 - - - +
212A PHE 3.2 16.2 + - - +
213A GLY* 3.9 4.3 - - - +
215A LEU* 1.4 77.8 - - - +
217A TYR* 1.4 61.1 + - - +
219A THR* 3.7 5.8 + - - -
220A PHE* 3.3 47.8 + - + -
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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
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213A GLY 3.2 16.9 + - - +
214A PHE* 3.6 10.1 - + - +
216A GLU* 1.4 76.2 - - - +
218A PHE* 1.3 59.0 + + - +
220A PHE* 3.2 13.3 + + + +
221A ALA* 2.8 44.4 + - + +
257A ILE* 2.7 45.3 + - + +
260A LEU* 3.2 25.1 - - + +
261A TRP* 3.6 40.6 - + + -
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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 42.9 + + + +
215A LEU* 3.9 3.6 - - - +
217A TYR* 1.3 72.3 - + - +
219A THR* 1.4 58.9 + - - +
221A ALA* 3.3 6.4 + - + +
222A LEU* 2.9 60.4 + - + +
257A ILE* 4.6 14.4 - - + -
258A LEU* 6.4 0.2 - - + -
501A LEU* 3.3 43.7 - - + -
504A GLN* 3.6 13.0 - - + -
505A PHE* 3.5 41.1 - + + -
526A ASN* 4.0 9.0 - - - -
559A PHE* 4.2 5.2 - + - -
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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* 2.7 25.8 + - - +
216A GLU* 3.8 8.0 - - - -
218A PHE* 1.4 76.5 - - - +
220A PHE* 1.4 67.9 + - + +
222A LEU* 3.4 5.4 + - - +
223A ILE* 3.4 20.9 + - + +
523A VAL* 4.0 20.4 - - + +
526A ASN* 3.3 42.2 + - + +
527A PHE* 4.1 20.0 - - + -
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Residues in contact with PHE 220 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
192A LEU* 5.8 8.7 - - + -
193A LYS 5.3 7.0 - - - -
194A TYR* 3.8 26.5 - + - -
216A GLU* 3.3 47.3 + - + -
217A TYR* 3.2 12.8 + + + +
219A THR* 1.4 79.0 - - + +
221A ALA* 1.3 65.1 + - - +
223A ILE* 3.2 38.6 + - + +
224A PRO* 3.4 6.1 - - - +
527A PHE* 5.9 4.3 - + - -
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Residues in contact with ALA 221 (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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217A TYR* 2.8 27.8 + - + +
218A PHE* 3.5 12.1 - - + +
220A PHE* 1.3 75.3 - - - +
222A LEU* 1.3 52.9 + - - +
224A PRO* 3.1 15.4 - - - +
253A TRP* 2.7 26.3 + - - -
257A ILE* 3.8 37.0 - - + -
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Residues in contact with LEU 222 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
218A PHE* 2.9 52.3 + - + +
219A THR* 3.7 2.2 - - - +
220A PHE 3.3 0.4 - - - -
221A ALA* 1.3 73.7 - - - +
223A ILE* 1.4 60.7 + - - +
224A PRO 3.5 0.2 - - - -
225A MET* 3.2 7.6 + - - +
226A ALA* 2.9 26.2 + - - +
253A TRP* 3.9 15.9 - - + -
508A VAL* 3.8 39.7 - - + -
519A ALA* 3.9 6.9 - - + +
522A ALA* 3.9 16.2 - - + -
523A VAL* 3.5 15.3 - - + -
526A ASN* 3.6 19.1 - - - +
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Residues in contact with ILE 223 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
219A THR* 3.4 9.9 - - + +
220A PHE* 3.2 42.1 + - + +
222A LEU* 1.4 74.5 - - - +
224A PRO* 1.4 64.9 - - + +
226A ALA* 3.0 8.6 + - + +
227A VAL* 3.0 31.6 + - + +
523A VAL* 4.1 17.5 - - + -
527A PHE* 5.0 10.5 - - + -
704A 79M 3.9 18.4 - - + -
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Residues in contact with PRO 224 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
220A PHE 3.4 9.4 - - - +
221A ALA* 3.1 27.1 - - - +
223A ILE* 1.4 81.1 - - + +
225A MET* 1.4 50.4 + - - +
227A VAL* 3.1 3.5 + - - +
228A ILE* 2.8 41.1 + - + +
249A PHE* 3.9 21.3 - - + -
253A TRP* 5.0 6.3 - - + -
704A 79M 3.9 30.1 - - + -
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Residues in contact with MET 225 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
222A LEU 3.2 11.1 + - - +
224A PRO* 1.4 77.7 - - - +
226A ALA* 1.3 56.9 + - - +
228A ILE* 4.1 2.0 - - - +
229A GLY* 3.1 23.6 + - - -
246A PHE* 4.0 22.3 - - + -
249A PHE* 3.9 25.4 - - + -
250A ASN* 3.7 35.9 - - - +
253A TRP* 3.5 35.2 - - + -
508A VAL* 3.8 12.8 - - + -
512A SER* 3.4 27.8 - - - +
516A PRO 4.6 1.6 - - - +
519A ALA* 3.6 16.0 - - + +
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Residues in contact with ALA 226 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
222A LEU 2.9 12.8 + - - +
223A ILE* 3.0 9.8 + - - +
225A MET* 1.3 75.8 - - - +
227A VAL* 1.4 59.6 + - + +
229A GLY 4.0 0.3 - - - -
230A LEU* 3.2 33.3 + - - +
516A PRO 5.3 1.0 - - - +
519A ALA* 3.5 11.6 - - - +
520A ALA* 3.8 30.5 - - + +
523A VAL* 4.1 9.6 - - + -
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Residues in contact with VAL 227 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
223A ILE* 3.0 23.4 + - + +
224A PRO 3.8 4.7 - - - +
226A ALA* 1.4 76.6 - - + +
228A ILE* 1.4 62.4 + - - +
230A LEU* 3.5 10.2 + - + +
231A PRO* 3.2 19.6 - - - +
704A 79M 3.7 49.2 - - + +
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Residues in contact with ILE 228 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
224A PRO* 2.8 25.2 + - + +
225A MET 4.5 0.7 - - - +
227A VAL* 1.4 71.1 - - - +
229A GLY* 1.3 57.2 + - - +
231A PRO* 3.2 12.3 - - - +
232A TYR* 3.1 26.2 - - + -
245A ILE* 6.2 1.6 - - + -
246A PHE* 3.6 31.0 - - + -
249A PHE* 3.7 33.4 - - + -
704A 79M 3.7 62.9 - - + +
705A 79M 6.5 1.8 - - + -
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Residues in contact with GLY 229 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
225A MET 3.1 16.2 + - - -
226A ALA 4.0 0.2 - - - -
228A ILE* 1.3 76.9 - - - +
230A LEU* 1.3 62.8 + - - +
231A PRO 3.6 0.4 - - - -
232A TYR* 3.3 10.2 + - - -
233A TYR* 3.6 1.7 + - - +
246A PHE* 3.7 17.0 - - - -
516A PRO* 3.2 42.5 - - - +
517A LEU* 5.3 0.2 - - - -
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Residues in contact with LEU 230 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
226A ALA 3.2 20.7 + - - +
227A VAL* 3.6 9.9 - - + +
228A ILE 3.4 0.2 - - - -
229A GLY* 1.3 76.1 - - - +
231A PRO* 1.4 68.4 - - + +
232A TYR 3.2 1.0 + - - -
233A TYR* 3.3 6.2 + - - +
234A LEU* 3.3 42.3 + - + +
517A LEU* 4.0 22.7 - - + -
520A ALA* 4.4 11.2 - - + -
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Residues in contact with PRO 231 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
227A VAL 3.2 19.1 - - - +
228A ILE 3.2 13.7 - - - +
230A LEU* 1.4 85.9 - - + +
232A TYR* 1.4 55.1 + - - +
233A TYR 3.3 0.2 - - - -
234A LEU* 3.9 6.9 - - + -
235A PHE* 3.1 57.8 + - + +
237A TRP* 3.7 29.1 - - + -
704A 79M 4.2 13.9 - - + -
----------------------------------------------------------
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Residues in contact with TYR 232 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
228A ILE* 3.1 34.7 - - + +
229A GLY* 3.3 12.3 + - - +
230A LEU 3.2 0.6 - - - -
231A PRO* 1.4 76.0 - - - +
233A TYR* 1.3 56.4 + - - +
236A VAL* 3.4 5.4 - - - -
237A TRP* 3.1 70.0 + + + +
242A LYS* 2.7 46.1 + - + +
243A TYR* 4.3 13.8 + + + -
245A ILE* 4.2 4.9 - - - +
246A PHE* 3.7 28.9 + + + +
516A PRO* 3.7 19.3 - - + +
704A 79M 4.1 17.5 - - + +
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Residues in contact with TYR 233 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
229A GLY 3.6 0.8 + - - -
230A LEU 3.3 6.6 + - - +
231A PRO 3.3 0.4 - - - -
232A TYR* 1.3 78.8 - - - +
234A LEU* 1.4 84.5 + - + +
235A PHE 3.4 0.2 - - - -
236A VAL* 3.4 19.2 + - - +
516A PRO* 4.1 17.7 - - + +
517A LEU* 3.6 48.0 - - + -
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Residues in contact with LEU 234 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
230A LEU* 3.3 45.0 + - + +
231A PRO* 4.2 7.9 - - + -
233A TYR* 1.4 97.1 - - + +
235A PHE* 1.3 76.5 + - + +
236A VAL* 4.5 3.8 - - - +
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Residues in contact with PHE 235 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
231A PRO* 3.1 42.4 + - + +
234A LEU* 1.3 90.3 - - + +
236A VAL* 1.4 72.5 + - - +
237A TRP* 3.5 30.5 - + - +
----------------------------------------------------------
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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