Contacts of the helix formed by residues 236 - 274 (chain D) in PDB entry 2CX9
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 LYS 236 (chain D).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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185D GLN* 4.5 16.8 - - - +
233D GLU* 3.0 48.3 + - + +
234D ARG 3.6 11.2 - - - +
235D GLY* 1.3 87.7 - - - +
237D GLY* 1.3 64.4 + - - +
238D PHE 3.4 2.5 - - - -
239D TYR* 3.4 41.6 + - + +
240D ASP* 3.8 10.2 + - - +
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Residues in contact with GLY 237 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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99D HIS* 4.7 0.3 + - - -
171D MET* 4.4 4.5 - - - +
187D ILE 2.8 16.7 + - - -
188D SER* 4.3 8.7 - - - +
189D ALA* 4.5 8.7 - - - -
231D LEU 5.2 3.1 - - - -
233D GLU 3.8 4.1 + - - -
236D LYS* 1.3 76.8 - - - +
238D PHE* 1.3 64.6 + - - +
240D ASP* 2.9 22.4 + - - +
241D VAL* 2.9 17.4 + - - +
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Residues in contact with PHE 238 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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127D LEU* 4.7 5.4 - - + -
136D ALA* 3.8 18.8 - - + -
137D ALA* 3.6 30.5 - - + -
184D HIS* 3.3 45.9 + - + +
187D ILE* 3.7 34.6 + - + +
236D LYS 3.4 1.0 - - - -
237D GLY* 1.3 74.2 - - - +
239D TYR* 1.3 57.4 + + - +
241D VAL* 2.9 25.2 + - + +
242D LEU* 2.9 61.5 + - + +
245D LEU* 6.0 1.1 - - + -
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Residues in contact with TYR 239 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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184D HIS* 2.8 53.7 + + + -
185D GLN* 3.3 22.0 + - - +
235D GLY 4.2 2.0 - - - -
236D LYS* 3.4 52.0 - - + +
237D GLY 3.1 0.4 - - - -
238D PHE* 1.3 77.5 - - - +
240D ASP* 1.3 64.2 + - - +
242D LEU* 3.6 18.1 + - + +
243D ARG* 3.5 24.8 + - - +
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Residues in contact with ASP 240 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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99D HIS* 3.8 17.2 + - + +
102D LEU* 3.8 12.9 - - + +
103D ALA* 3.5 24.2 - - - +
231D LEU 4.6 0.7 - - - +
232D GLY* 4.2 10.9 - - - -
233D GLU 4.9 1.2 + - - -
236D LYS 4.1 10.8 - - - +
237D GLY* 2.9 12.5 + - - +
239D TYR* 1.3 77.5 - - - +
241D VAL* 1.3 61.9 + - - +
243D ARG* 3.1 23.0 + - - +
244D VAL* 2.8 32.6 + - - +
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Residues in contact with VAL 241 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99D HIS* 4.1 5.1 - - + -
125D TRP* 3.9 9.4 - - + -
127D LEU* 3.9 32.1 - - + -
171D MET* 3.1 41.5 - - + -
237D GLY 2.9 12.0 + - - +
238D PHE* 2.9 29.6 + - + +
240D ASP* 1.3 78.1 - - - +
242D LEU* 1.3 59.9 + - - +
244D VAL* 3.1 9.4 + - - +
245D LEU* 2.9 31.4 + - + +
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Residues in contact with LEU 242 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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184D HIS* 5.8 1.1 - - + -
238D PHE* 2.9 50.4 + - + +
239D TYR* 3.8 19.5 - - + +
240D ASP 3.2 0.2 - - - -
241D VAL* 1.3 76.7 - - - +
243D ARG* 1.3 61.8 + - + +
245D LEU* 3.4 17.4 + - + +
246D ASP* 3.1 29.9 + - - +
249D ARG* 5.7 1.5 + - - +
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Residues in contact with ARG 243 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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102D LEU* 3.6 41.0 + - + +
239D TYR* 3.5 16.4 + - - +
240D ASP* 3.1 21.2 + - - +
242D LEU* 1.3 75.3 - - + +
244D VAL* 1.3 67.5 + - - +
246D ASP* 3.1 21.5 + - - +
247D GLY* 3.2 9.9 + - - -
318D PHE* 4.9 4.9 - - + -
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Residues in contact with VAL 244 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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94D SER 3.6 21.6 - - - +
95D LEU* 3.9 18.4 - - + +
98D GLY 4.6 2.2 - - - -
99D HIS* 3.7 41.3 - - + +
102D LEU* 4.1 8.7 - - + +
125D TRP* 3.8 21.3 - - + -
240D ASP 2.8 17.7 + - - +
241D VAL* 3.1 9.8 + - - +
243D ARG* 1.3 75.3 - - - +
245D LEU* 1.3 57.7 + - - +
247D GLY* 3.2 3.9 + - - -
248D GLY* 2.8 24.4 + - - -
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Residues in contact with LEU 245 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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95D LEU* 4.7 2.7 - - + -
125D TRP* 3.7 27.6 - - + -
127D LEU* 4.6 8.5 - - + -
238D PHE* 6.0 1.3 - - + -
241D VAL* 2.9 34.1 + - + +
242D LEU* 3.7 18.2 - - + +
244D VAL* 1.3 74.5 - - - +
246D ASP* 1.3 66.2 + - - +
248D GLY* 3.5 2.6 - - - +
249D ARG* 2.8 55.3 + - - +
369D GLU* 4.4 31.0 - - + +
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Residues in contact with ASP 246 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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242D LEU* 3.1 16.9 + - - +
243D ARG* 3.1 15.2 + - - +
245D LEU* 1.3 76.7 - - - +
247D GLY* 1.3 63.7 + - - +
249D ARG* 3.5 19.7 + - - +
250D ILE* 3.6 4.2 + - - +
318D PHE* 3.7 23.6 - - + -
319D THR* 2.7 52.7 + - - +
322D ALA* 3.3 25.3 - - + +
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Residues in contact with GLY 247 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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68D THR* 5.9 0.9 - - - +
94D SER* 4.1 7.8 + - - -
243D ARG 3.2 9.5 + - - -
244D VAL 3.6 2.5 - - - -
245D LEU 3.1 0.6 - - - -
246D ASP* 1.3 78.3 - - - +
248D GLY* 1.3 65.5 + - - +
250D ILE* 3.2 16.5 + - - +
251D GLY 3.5 6.6 + - - -
312D LYS* 4.5 17.7 - - - -
318D PHE* 4.0 11.3 - - - -
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Residues in contact with GLY 248 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90D ALA* 5.9 0.3 - - - +
94D SER* 3.5 23.8 + - - -
95D LEU* 4.5 1.3 - - - -
244D VAL 2.8 15.1 + - - -
245D LEU 3.1 1.3 + - - -
247D GLY* 1.3 75.9 - - - +
249D ARG* 1.3 61.6 + - - +
251D GLY* 3.0 4.7 + - - -
252D ILE* 3.0 21.7 + - - +
369D GLU* 3.0 24.1 - - - +
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Residues in contact with ARG 249 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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242D LEU* 6.1 2.0 - - - +
245D LEU* 2.8 44.6 + - - +
246D ASP* 3.8 24.4 + - - +
247D GLY 3.2 0.2 - - - -
248D GLY* 1.3 73.5 - - - +
250D ILE* 1.3 59.7 + - - +
252D ILE* 3.3 2.6 + - - -
253D ALA* 2.9 30.2 + - - +
319D THR* 5.2 0.6 - - - +
322D ALA* 4.0 9.4 - - + +
323D ALA* 4.7 9.7 - - - +
326D LYS* 3.6 27.2 - - + +
369D GLU* 3.1 32.6 + - + +
370D GLY* 4.1 7.9 - - - -
374D ILE* 4.4 10.9 - - - +
375D LEU* 3.5 27.5 - - + +
378D VAL* 4.4 20.8 - - - +
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Residues in contact with ILE 250 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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68D THR* 4.2 17.5 - - + -
72D ALA* 4.4 11.4 - - + -
246D ASP 3.6 10.5 + - - +
247D GLY 3.2 7.5 + - - +
249D ARG* 1.3 75.8 - - - +
251D GLY* 1.3 63.4 + - - +
253D ALA* 3.2 8.1 + - - +
254D ALA* 3.1 21.8 + - - +
305D TYR* 3.9 22.7 - - + +
308D ALA* 3.7 33.7 - - + +
309D ALA* 3.8 14.1 - - + +
312D LYS* 4.2 5.2 - - + -
318D PHE* 4.0 20.2 - - + -
322D ALA* 3.9 13.7 - - + -
325D ALA* 5.7 0.4 - - - -
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Residues in contact with GLY 251 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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71D PHE* 5.1 6.5 - - - -
72D ALA* 5.6 2.9 - - - -
75D VAL* 3.5 20.1 - - - +
90D ALA* 4.7 8.5 - - - -
94D SER* 4.6 9.4 - - - -
247D GLY 3.5 5.3 + - - -
248D GLY 3.0 7.8 + - - -
250D ILE* 1.3 80.3 - - - +
252D ILE* 1.3 63.2 + - - +
254D ALA* 3.3 5.4 + - - +
255D MET* 3.0 18.2 + - - +
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Residues in contact with ILE 252 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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87D LEU* 4.2 23.3 - - + -
90D ALA* 4.6 10.1 - - + -
248D GLY 3.0 13.3 + - - +
249D ARG* 3.8 6.5 - - - +
251D GLY* 1.3 74.9 - - - +
253D ALA* 1.3 66.0 + - - +
255D MET* 3.0 12.7 + - + +
256D ALA* 2.9 22.0 + - - +
326D LYS* 3.9 26.5 - - + -
330D SER* 5.8 0.2 - - - -
365D THR* 4.0 26.5 - - + +
368D GLY* 4.9 4.0 - - - +
369D GLU* 3.4 34.5 - - + +
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Residues in contact with ALA 253 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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249D ARG 2.9 17.8 + - - +
250D ILE* 3.2 6.0 + - - +
252D ILE* 1.3 76.5 - - - +
254D ALA* 1.3 61.9 + - - +
256D ALA* 3.2 6.7 + - - +
257D VAL* 3.0 19.8 + - - +
305D TYR* 3.9 18.4 - - + -
325D ALA* 3.8 11.9 - - + +
326D LYS* 3.7 24.8 - - - +
329D ALA* 3.4 15.2 - - + +
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Residues in contact with ALA 254 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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72D ALA* 3.2 34.8 - - + +
75D VAL* 4.3 1.8 - - + -
76D GLU* 3.3 13.6 - - + +
250D ILE 3.1 10.0 + - - +
251D GLY 3.6 7.6 - - - +
253D ALA* 1.3 75.9 - - - +
255D MET* 1.3 65.8 + - - +
257D VAL* 3.3 0.9 + - - +
258D GLY 2.9 19.6 + - - -
305D TYR* 3.7 27.7 - - + -
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Residues in contact with MET 255 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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75D VAL* 3.9 9.8 - - + +
79D ALA* 3.3 18.7 - - + +
83D GLY 3.6 19.7 - - - +
86D ALA* 3.9 15.9 - - + -
87D LEU* 4.1 29.6 - - + -
90D ALA* 5.5 0.9 - - + -
210D LEU* 3.8 29.6 - - + -
251D GLY 3.0 13.8 + - - +
252D ILE* 3.0 18.4 + - + +
254D ALA* 1.3 77.3 - - - +
256D ALA* 1.3 62.8 + - - +
259D LEU* 3.2 35.1 + - + +
361D ASP 4.4 1.1 - - - +
364D LEU* 5.7 1.1 - - + -
365D THR* 4.2 15.9 - - + -
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Residues in contact with ALA 256 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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252D ILE 2.9 11.4 + - - +
253D ALA* 3.2 9.8 + - - +
255D MET* 1.3 77.0 - - - +
257D VAL* 1.3 63.1 + - - +
259D LEU* 3.1 5.8 + - - +
260D GLY 2.9 20.1 + - - -
329D ALA* 3.7 27.1 - - + +
330D SER* 3.8 11.9 - - - +
333D ALA* 3.1 13.6 - - + +
362D ALA* 5.7 0.7 - - - -
365D THR* 3.9 18.4 - - + +
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Residues in contact with VAL 257 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76D GLU* 3.6 12.8 - - - +
253D ALA 3.0 17.8 + - - +
254D ALA 3.3 7.2 + - - +
256D ALA* 1.3 75.7 - - - +
258D GLY* 1.3 57.1 + - - +
260D GLY* 3.2 0.9 + - - -
261D GLN* 2.8 30.0 + - + +
298D LEU* 4.1 16.3 - - + +
301D ALA* 3.7 29.6 - - + -
302D ARG* 3.5 43.3 - - + +
305D TYR* 4.1 12.3 - - + -
329D ALA* 3.9 4.9 - - + -
333D ALA* 4.9 0.2 - - - -
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Residues in contact with GLY 258 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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76D GLU* 3.4 34.7 - - - +
80D TYR* 3.5 21.6 - - - -
254D ALA 2.9 11.7 + - - -
255D MET 3.8 3.6 - - - -
257D VAL* 1.3 76.8 - - - +
259D LEU* 1.3 61.3 + - - +
261D GLN* 3.4 2.0 + - - -
262D ALA 3.0 18.2 + - - -
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Residues in contact with LEU 259 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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79D ALA* 3.4 21.1 + - + +
83D GLY* 4.3 10.5 - - - +
255D MET* 3.2 41.8 + - + +
256D ALA* 3.1 7.4 + - - +
258D GLY* 1.3 72.2 - - - +
260D GLY* 1.3 66.3 + - - +
262D ALA* 3.3 5.3 + - + +
263D ALA* 3.1 21.8 + - - +
337D CYS* 3.9 4.5 - - - -
358D TYR* 4.2 26.7 - - + +
361D ASP* 3.9 22.2 - - + +
362D ALA* 3.8 35.9 - - + +
365D THR* 4.9 2.0 - - + -
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Residues in contact with GLY 260 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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256D ALA 2.9 14.3 + - - -
257D VAL 3.7 1.8 - - - -
259D LEU* 1.3 76.4 - - - +
261D GLN* 1.3 58.6 + - - +
263D ALA* 3.2 4.0 + - - +
264D LEU* 2.9 29.3 + - - +
298D LEU* 3.5 14.9 - - - +
333D ALA* 4.1 24.1 - - - +
336D ALA* 4.3 4.1 - - - +
337D CYS* 4.2 3.8 - - - -
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Residues in contact with GLN 261 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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76D GLU* 4.7 2.7 - - - +
80D TYR* 3.8 11.4 - - + -
257D VAL 2.8 21.0 + - - +
258D GLY* 3.7 5.4 - - - +
260D GLY* 1.3 71.9 - - - -
262D ALA* 1.3 57.5 + - - +
264D LEU* 3.3 15.4 + - - +
265D ASP* 2.9 62.6 + - - +
295D ALA* 5.8 0.6 + - - +
298D LEU* 3.5 22.8 - - - +
299D GLU* 5.9 2.6 - - - +
302D ARG* 2.9 37.6 - - - +
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Residues in contact with ALA 262 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80D TYR* 3.3 43.6 + - + +
258D GLY 3.0 12.2 + - - +
259D LEU* 3.5 10.3 - - - +
260D GLY 3.2 0.4 - - - -
261D GLN* 1.3 77.0 - - - +
263D ALA* 1.3 61.8 + - - +
265D ASP* 3.4 1.7 + - - +
266D TYR* 3.0 24.8 + - - +
358D TYR* 3.8 23.9 + - + +
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Residues in contact with ALA 263 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
259D LEU 3.1 3.9 + - - +
260D GLY 3.6 6.5 - - - +
262D ALA* 1.3 79.3 - - - +
264D LEU* 1.3 63.5 + - - +
266D TYR* 3.3 3.8 + - - +
267D ALA* 3.0 24.3 + - - +
336D ALA 4.3 0.4 - - - +
337D CYS* 3.7 33.2 - - - +
340D ALA* 3.7 23.7 - - + +
355D VAL* 5.1 0.2 - - - -
358D TYR* 3.6 20.5 - - + -
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Residues in contact with LEU 264 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
383B LEU* 5.3 3.8 - - + -
260D GLY 2.9 16.3 + - - +
261D GLN* 3.6 22.0 - - - +
263D ALA* 1.3 76.1 - - - +
265D ASP* 1.3 56.4 + - - +
267D ALA* 3.2 5.3 + - + +
268D LEU* 2.8 44.5 + - + +
291D LEU* 3.8 39.5 - - + +
294D ALA* 4.3 11.4 - - + -
295D ALA* 3.5 34.1 - - + +
298D LEU* 3.9 12.3 - - + -
336D ALA* 5.3 3.5 + - + +
340D ALA* 5.5 0.7 - - - -
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Residues in contact with ASP 265 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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387B VAL* 6.1 0.3 - - - +
80D TYR* 2.6 36.4 + - - +
261D GLN* 2.9 37.5 + - - +
262D ALA 3.8 2.0 - - - +
264D LEU* 1.3 79.7 - - - +
266D TYR* 1.3 58.4 + - - +
268D LEU* 3.3 16.1 + - - +
269D ALA* 2.9 31.0 + - - +
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Residues in contact with TYR 266 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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262D ALA 3.0 17.5 + - - +
263D ALA 3.6 5.2 - - - +
265D ASP* 1.3 76.8 - - - +
267D ALA* 1.3 58.4 + - - +
269D ALA* 3.2 6.5 + - + +
270D TYR* 2.9 36.2 + + + +
344D LEU* 3.4 30.7 - - + -
353D TYR* 3.1 28.0 - + - -
354D PRO* 3.6 30.7 - - + +
355D VAL* 3.4 21.3 - - + -
358D TYR* 4.3 11.0 - - + +
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Residues in contact with ALA 267 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
263D ALA 3.0 16.6 + - - +
264D LEU* 3.7 5.2 - - - +
266D TYR* 1.3 79.7 - - - +
268D LEU* 1.3 56.7 + - - +
270D TYR* 3.7 6.5 - - - +
271D ALA* 2.8 34.0 + - - +
291D LEU* 4.2 5.2 - - + -
340D ALA* 4.2 16.6 - - + +
343D ILE* 3.9 33.1 - - + +
344D LEU* 4.7 3.1 - - + -
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Residues in contact with LEU 268 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
383B LEU* 3.8 28.7 - - + +
384B LEU* 3.4 26.8 - - + +
387B VAL* 3.6 39.5 - - + +
264D LEU* 2.8 24.9 + - + +
265D ASP* 3.3 20.2 - - - +
266D TYR 3.1 0.2 - - - -
267D ALA* 1.3 78.0 - - - +
269D ALA* 1.3 62.3 + - - +
271D ALA* 3.8 4.0 - - - +
272D LYS* 3.3 19.9 + - - +
291D LEU* 4.1 15.9 - - + +
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Residues in contact with ALA 269 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
387B VAL* 5.3 14.1 - - + +
265D ASP 2.9 16.8 + - - +
266D TYR* 3.7 6.3 - - + +
268D LEU* 1.3 75.0 - - - +
270D TYR* 1.3 67.9 + - - +
272D LYS* 3.4 13.5 + - - +
273D GLY* 3.6 7.1 + - - -
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Residues in contact with TYR 270 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
266D TYR* 2.9 24.4 + + + +
267D ALA 3.7 2.5 - - - +
269D ALA* 1.3 76.4 - - - +
271D ALA* 1.3 66.1 + - - +
273D GLY* 2.9 14.4 + - - -
274D ARG* 2.9 69.6 + - + +
281D ILE* 3.6 18.8 - - + -
343D ILE* 3.9 13.9 - - + -
344D LEU* 3.4 41.8 + - + -
347D TYR* 4.4 12.7 - + + -
353D TYR* 6.2 5.8 - + - -
----------------------------------------------------------
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Residues in contact with ALA 271 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
384B LEU* 5.1 0.2 - - + -
267D ALA 2.8 23.0 + - - +
268D LEU 3.8 4.3 - - - +
270D TYR* 1.3 73.4 - - - +
272D LYS* 1.3 61.9 + - - +
274D ARG 3.2 15.8 - - - +
280D PRO* 3.9 2.1 - - - +
281D ILE* 3.9 15.0 - - + -
282D ALA* 3.6 34.3 + - + +
287D VAL* 4.1 17.9 - - + -
291D LEU* 4.4 7.4 - - + -
343D ILE* 4.7 1.8 - - + -
----------------------------------------------------------
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Residues in contact with LYS 272 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
384B LEU* 2.9 29.8 + - + +
385B GLU* 4.1 8.1 + - - +
387B VAL* 2.5 37.5 + - - +
268D LEU 3.3 10.4 + - - +
269D ALA* 3.7 11.2 - - - +
270D TYR 3.1 0.8 + - - -
271D ALA* 1.3 78.9 - - - +
273D GLY* 1.3 60.7 + - - +
280D PRO* 4.0 15.4 - - - +
282D ALA* 4.7 5.6 - - - -
----------------------------------------------------------
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Residues in contact with GLY 273 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
269D ALA 3.6 4.5 + - - -
270D TYR 2.9 6.6 + - - -
272D LYS* 1.3 80.5 - - - +
274D ARG* 1.3 66.8 + - - +
275D GLU* 3.3 9.5 + - - +
280D PRO* 4.7 3.5 - - - +
----------------------------------------------------------
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Residues in contact with ARG 274 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130C PRO 2.7 29.5 + - - -
131C GLY* 4.1 11.1 + - - -
132C SER 4.1 0.6 - - - +
133C GLY* 3.3 31.9 - - - +
270D TYR* 2.9 62.9 + - + +
271D ALA 3.2 14.6 - - - +
273D GLY* 1.3 75.5 - - - +
275D GLU* 1.3 71.6 + - - +
280D PRO* 3.4 1.7 - - - +
281D ILE* 3.3 21.8 + - + +
347D TYR* 3.7 21.6 + - - -
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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