Contacts of the helix formed by residues 223 - 261 (chain A) in PDB entry 2DVL
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 ARG 223 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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220A GLU* 3.0 27.9 + - + +
221A GLU 4.4 0.7 - - - +
222A GLY* 1.3 79.2 - - - +
224A GLY* 1.3 64.8 + - - +
225A LEU 3.4 2.5 - - - -
226A ALA* 3.2 34.5 + - - +
227A TYR* 3.3 39.5 + - + +
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Residues in contact with GLY 224 (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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95A MET* 4.5 0.2 - - - +
167A MET* 3.0 20.2 - - - +
174A ILE 2.9 13.2 + - - -
175A SER* 3.9 15.2 - - - +
176A ALA* 3.9 7.4 - - - -
220A GLU 4.1 1.4 + - - -
223A ARG* 1.3 79.8 - - - +
225A LEU* 1.3 59.2 + - - -
227A TYR* 3.2 16.2 + - - +
228A ALA 3.1 14.7 + - - -
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Residues in contact with LEU 225 (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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123A LEU* 4.5 15.9 - - + -
132A ALA* 3.9 23.8 - - + -
133A LYS* 3.6 38.8 - - + +
167A MET* 3.8 6.3 - - + +
174A ILE* 3.8 38.1 + - + +
223A ARG 3.4 0.6 - - - -
224A GLY* 1.3 75.7 - - - +
226A ALA* 1.3 58.6 + - - +
228A ALA* 3.6 1.5 + - + -
229A LEU* 3.0 54.4 + - + +
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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
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99A PHE* 5.3 0.4 - - - -
223A ARG* 3.2 50.1 + - + +
224A GLY 3.1 0.6 - - - -
225A LEU* 1.3 78.0 - - - +
227A TYR* 1.3 66.6 + - + +
229A LEU* 3.6 7.8 + - - +
230A ALA* 3.3 21.3 + - - +
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Residues in contact with TYR 227 (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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94A TYR* 4.5 0.5 - - - -
95A MET* 3.9 17.3 - - + +
99A PHE* 3.4 58.9 - + + -
176A ALA* 4.6 4.3 - - + -
218A LEU* 3.3 27.1 - - + -
219A GLY* 3.4 9.9 - - - -
220A GLU* 2.6 31.9 + - - +
223A ARG* 3.4 41.2 - - + +
224A GLY* 3.2 14.1 + - - +
226A ALA* 1.3 80.0 - - + +
228A ALA* 1.3 58.7 + - - +
230A ALA* 3.0 20.8 - - - +
231A GLY 3.6 3.3 + - - -
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Residues in contact with ALA 228 (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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91A LEU* 3.4 13.8 - - + +
95A MET* 4.3 9.4 - - - +
121A PHE* 3.7 30.1 - - + -
123A LEU* 5.0 3.4 - - + -
167A MET* 3.9 7.9 - - + -
224A GLY 3.1 11.2 + - - +
225A LEU* 3.8 10.5 - - + +
226A ALA 3.2 0.2 - - - -
227A TYR* 1.3 75.6 - - - +
229A LEU* 1.3 63.0 + - + +
230A ALA 2.8 10.3 + - - -
231A GLY 3.0 11.1 + - - -
232A LEU* 3.4 8.2 + - - +
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Residues in contact with LEU 229 (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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123A LEU* 5.8 3.8 - - + -
132A ALA* 5.4 6.3 - - + -
133A LYS* 6.5 1.1 - - - -
225A LEU* 3.0 41.8 + - + +
226A ALA* 4.2 6.5 - - - +
227A TYR 3.5 0.2 - - - -
228A ALA* 1.3 76.6 - - + +
230A ALA* 1.3 60.3 + - - +
232A LEU* 3.3 38.6 - - + +
233A ASP* 4.4 7.6 + - - +
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Residues in contact with ALA 230 (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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94A TYR* 3.3 27.3 + - + +
98A ARG* 4.3 6.2 + - - +
99A PHE* 4.3 10.1 - - + -
226A ALA 3.3 12.5 + - - +
227A TYR* 3.0 18.6 - - - +
228A ALA 2.8 0.8 - - - -
229A LEU* 1.3 79.1 - - - +
231A GLY* 1.3 57.2 + - - +
232A LEU 3.2 2.4 + - - -
233A ASP* 4.3 9.5 + - - +
234A SER* 5.0 1.6 + - - -
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Residues in contact with GLY 231 (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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91A LEU* 3.4 23.2 - - - +
94A TYR* 3.5 26.8 - - - -
227A TYR 3.6 1.6 + - - -
228A ALA 3.0 5.1 + - - -
230A ALA* 1.3 77.4 - - - +
232A LEU* 1.3 58.8 + - - +
233A ASP 3.3 1.6 - - - -
234A SER* 3.2 6.9 + - - -
235A GLY* 2.8 25.5 + - - -
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Residues in contact with LEU 232 (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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91A LEU* 5.0 9.9 - - + -
228A ALA 3.4 6.8 + - - +
229A LEU* 3.3 42.8 - - + +
230A ALA 3.2 0.6 - - - -
231A GLY* 1.3 78.4 - - - +
233A ASP* 1.3 59.7 + - - +
235A GLY* 3.7 1.2 - - - +
236A ARG* 2.9 77.4 + - - +
356A GLU* 4.1 23.6 - - - +
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Residues in contact with ASP 233 (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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229A LEU 4.4 6.4 + - - +
230A ALA 4.3 7.7 + - - +
231A GLY 3.3 0.8 - - - -
232A LEU* 1.3 79.9 - - - +
234A SER* 1.3 61.6 + - - +
236A ARG* 3.6 8.3 + - - +
237A VAL* 3.1 25.3 + - - +
305A PHE* 3.6 26.5 + - + -
306A THR* 2.4 55.6 + - - +
309A ALA* 3.3 14.1 - - + +
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Residues in contact with SER 234 (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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67A TRP* 3.1 18.6 - - - -
94A TYR* 4.0 17.9 - - - -
230A ALA 5.0 1.0 + - - -
231A GLY* 3.2 10.8 + - - -
233A ASP* 1.3 76.9 - - - +
235A GLY* 1.3 65.6 + - - +
237A VAL* 3.1 4.5 + - - +
238A GLY 3.0 17.8 + - - -
299A LYS* 2.8 34.2 + - - +
305A PHE* 3.7 12.6 - - - -
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Residues in contact with GLY 235 (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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67A TRP* 5.2 1.8 - - - -
86A SER* 6.1 0.5 - - - -
90A GLY* 6.3 3.1 - - - -
91A LEU* 6.5 0.2 - - - -
231A GLY 2.8 14.3 + - - -
232A LEU 3.2 1.8 + - - -
234A SER* 1.3 77.6 - - - +
236A ARG* 1.3 56.2 + - - +
238A GLY* 3.1 3.5 + - - -
239A VAL* 2.9 31.4 + - - +
356A GLU* 3.3 21.1 - - - -
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Residues in contact with ARG 236 (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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232A LEU* 2.9 57.8 + - - +
233A ASP* 3.9 14.8 + - - +
235A GLY* 1.3 74.2 - - - +
237A VAL* 1.3 61.0 + - - +
239A VAL 4.4 0.2 - - - +
240A ALA* 2.9 29.3 + - - +
306A THR* 5.4 1.0 - - - +
309A ALA* 4.1 9.4 - - + +
310A SER* 3.6 19.4 + - - +
313A LYS* 3.6 19.7 - - + +
356A GLU* 3.2 36.8 + - + +
357A GLY* 4.1 4.0 - - - -
361A ILE* 4.1 20.8 - - - +
362A GLN* 3.3 22.3 + - - +
365A VAL* 3.8 18.2 - - - +
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Residues in contact with VAL 237 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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67A TRP* 3.8 19.3 - - + -
68A ALA* 5.0 2.0 - - + -
233A ASP 3.1 17.0 - - - +
234A SER* 3.1 7.6 + - - +
236A ARG* 1.3 76.8 - - - +
238A GLY* 1.3 58.5 + - - +
240A ALA* 3.3 8.0 + - - +
241A ALA* 3.0 26.7 + - - +
292A VAL* 4.2 27.2 - - + +
295A ALA* 4.1 15.7 - - + -
296A ALA* 4.6 11.9 - - + +
299A LYS* 5.5 2.0 - - + -
305A PHE* 3.8 18.4 - - + -
309A ALA* 4.0 12.6 - - + -
312A ALA* 5.5 0.9 - - - -
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Residues in contact with GLY 238 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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67A TRP* 3.6 12.9 - - - -
71A LEU* 3.7 21.3 - - - +
86A SER* 5.4 2.0 - - - -
234A SER 3.0 10.1 + - - -
235A GLY* 3.1 4.6 + - - -
237A VAL* 1.3 78.8 - - - +
239A VAL* 1.3 56.7 + - - +
241A ALA* 3.4 5.8 + - - +
242A GLN* 3.0 37.8 + - - +
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Residues in contact with VAL 239 (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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86A SER* 5.4 2.0 - - - +
235A GLY 2.9 20.3 + - - +
236A ARG 3.9 4.0 - - - +
237A VAL 3.3 0.2 - - - -
238A GLY* 1.3 72.6 - - - +
240A ALA* 1.3 56.7 + - - +
242A GLN* 3.0 14.9 + - - +
243A ALA* 2.8 33.3 + - + +
313A LYS* 3.8 26.9 - - + -
317A SER* 6.1 0.4 - - - -
352A THR* 4.6 14.1 - - + +
355A TYR* 3.6 36.3 - - + +
356A GLU* 3.5 22.7 - - + +
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Residues in contact with ALA 240 (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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236A ARG 2.9 18.4 + - - +
237A VAL* 3.4 6.3 - - - +
239A VAL* 1.3 76.9 - - - +
241A ALA* 1.3 62.5 + - - +
243A ALA* 3.1 5.8 + - - +
244A VAL* 3.0 24.8 + - - +
292A VAL* 3.6 20.0 - - + -
312A ALA* 3.6 25.1 - - + +
313A LYS* 3.6 10.3 - - - +
316A ALA* 3.4 7.6 - - + +
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Residues in contact with ALA 241 (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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68A ALA* 3.4 35.9 - - - +
71A LEU* 4.2 5.6 - - + -
72A GLU* 3.5 12.4 - - + -
237A VAL 3.0 13.4 + - - +
238A GLY* 3.5 10.5 - - - +
240A ALA* 1.3 76.3 - - - +
242A GLN* 1.3 61.5 + - - +
244A VAL* 3.2 9.6 + - - +
245A GLY 3.0 17.3 + - - -
292A VAL* 4.0 14.3 - - + +
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Residues in contact with GLN 242 (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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71A LEU* 4.3 13.0 - - + +
75A ALA* 3.4 14.6 - - + +
79A PRO 4.5 0.2 - - - +
82A ALA* 3.2 19.0 - - + +
83A VAL* 3.1 39.2 + - - +
86A SER* 3.1 29.4 + - - -
238A GLY 3.0 28.3 + - - +
239A VAL* 3.0 17.5 + - + +
241A ALA* 1.3 73.6 - - - +
243A ALA* 1.3 65.9 + - - +
245A GLY* 3.0 2.8 + - - -
246A ILE* 2.9 31.4 + - + +
352A THR* 6.1 1.1 - - + -
355A TYR* 3.9 7.9 + - - +
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Residues in contact with ALA 243 (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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239A VAL* 2.8 13.1 + - + +
240A ALA* 3.3 10.5 - - - +
242A GLN* 1.3 75.6 - - - +
244A VAL* 1.3 64.6 + - - +
246A ILE* 3.3 15.0 + - - +
247A ALA* 3.0 18.7 + - - +
316A ALA* 3.6 30.5 - - + +
317A SER* 3.8 9.4 - - - +
320A ALA* 3.6 10.9 - - + +
352A THR* 4.2 11.4 - - - +
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Residues in contact with VAL 244 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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72A GLU* 3.6 27.6 - - + +
240A ALA 3.0 15.1 + - - +
241A ALA* 3.4 8.3 - - - +
242A GLN 3.2 0.2 - - - -
243A ALA* 1.3 75.9 - - - +
245A GLY* 1.3 56.4 + - - +
247A ALA* 3.1 8.8 + - - +
248A ARG* 2.8 27.0 + - - +
285A ILE* 4.2 12.3 - - + +
288A ALA* 3.8 25.8 - - + -
289A ARG* 4.0 24.5 - - + +
292A VAL* 4.0 14.8 - - + -
316A ALA* 4.0 4.9 - - + +
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Residues in contact with GLY 245 (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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72A GLU* 3.3 33.6 - - - +
75A ALA* 4.1 0.2 - - - -
76A ALA* 3.4 18.1 - - - -
241A ALA 3.0 8.6 + - - -
242A GLN 3.0 7.8 + - - -
244A VAL* 1.3 76.4 - - - +
246A ILE* 1.3 55.9 + - - +
248A ARG* 3.1 3.0 + - - +
249A GLY 2.8 26.9 + - - -
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Residues in contact with ILE 246 (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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75A ALA* 4.2 4.4 - - + +
79A PRO* 3.8 30.7 - - + -
197A LEU* 5.9 1.3 - - + -
242A GLN* 2.9 23.2 + - + +
243A ALA* 3.5 7.9 - - - +
245A GLY* 1.3 75.7 - - - +
247A ALA* 1.3 63.5 + - - +
249A GLY 3.4 0.3 + - - -
250A ALA* 3.2 20.6 + - - +
320A ALA* 4.6 1.6 - - + -
324A THR* 4.1 4.9 - - + +
345A TYR* 3.6 45.4 - - + +
348A ASP* 4.4 11.2 - - + +
349A ALA* 4.0 13.0 - - + +
352A THR* 3.8 28.5 - - + -
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Residues in contact with ALA 247 (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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243A ALA 3.0 12.2 + - - +
244A VAL* 3.1 11.6 + - - +
246A ILE* 1.3 76.6 - - - +
248A ARG* 1.3 59.7 + - - +
250A ALA* 3.4 1.9 + - - -
251A PHE* 2.8 30.8 + - - +
285A ILE* 3.8 22.0 - - + -
319A ALA* 4.8 2.9 - - + -
320A ALA* 4.1 13.4 - - - +
323A VAL* 3.5 24.6 - - + +
324A THR* 5.0 1.1 - - - -
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Residues in contact with ARG 248 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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19A ARG* 4.1 11.1 - - - +
69A LEU 5.4 0.6 + - - -
72A GLU* 3.2 31.0 + - - +
73A GLU* 3.0 50.8 + - - +
76A ALA* 3.8 19.6 - - + +
244A VAL 2.8 16.8 + - - +
245A GLY* 3.5 9.0 - - - +
247A ALA* 1.3 69.0 - - - +
249A GLY* 1.3 67.6 + - - +
251A PHE* 3.1 5.0 + - + +
252A GLU* 2.9 59.3 + - + +
285A ILE* 4.0 13.6 - - + +
289A ARG* 3.8 14.8 - - - +
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Residues in contact with GLY 249 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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76A ALA* 4.1 22.8 - - - +
245A GLY 2.8 16.0 + - - -
246A ILE 3.8 1.6 - - - -
247A ALA 3.3 0.2 - - - -
248A ARG* 1.3 78.9 - - - +
250A ALA* 1.3 61.6 - - - +
252A GLU* 3.4 14.6 + - - +
253A ILE* 3.4 17.3 + - - +
345A TYR* 4.1 12.6 - - - -
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Residues in contact with ALA 250 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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246A ILE 3.2 9.4 + - - +
247A ALA 3.9 2.9 - - - +
249A GLY* 1.3 74.4 - - - +
251A PHE* 1.3 64.1 + - - +
253A ILE* 3.3 4.7 + - - +
254A ALA* 3.1 22.0 + - - +
323A VAL* 4.6 1.3 - - + -
324A THR* 3.8 27.1 - - + -
327A ALA* 3.6 24.6 - - + +
342A VAL* 4.2 9.0 - - + +
345A TYR* 4.0 18.7 - - + -
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Residues in contact with PHE 251 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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247A ALA 2.8 22.6 + - - +
248A ARG* 3.5 6.5 - - + +
250A ALA* 1.3 72.8 - - - +
252A GLU* 1.3 69.8 + - + +
254A ALA* 3.3 1.4 + - - +
255A LYS* 2.8 55.8 + - + +
278A ILE* 3.5 36.6 - - + -
281A MET* 3.6 32.8 - - + -
282A HIS* 4.1 21.1 - - + -
285A ILE* 3.5 18.2 - - + -
323A VAL* 4.4 4.1 - - + +
370B LEU* 4.4 10.1 - - + -
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Residues in contact with GLU 252 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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19A ARG* 5.5 5.0 + - - -
76A ALA* 5.5 1.4 - - - +
248A ARG* 2.9 54.6 + - + +
249A GLY* 3.8 8.6 - - - +
251A PHE* 1.3 83.7 - - + +
253A ILE* 1.3 65.7 + - + +
255A LYS* 3.4 5.8 + - - +
256A ALA* 3.0 25.8 + - - +
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Residues in contact with ILE 253 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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23A TYR* 4.3 17.0 - - + +
249A GLY 3.6 13.9 - - - +
250A ALA 3.3 6.6 + - - +
252A GLU* 1.3 77.8 - - + +
254A ALA* 1.3 58.9 + - - +
256A ALA* 3.8 4.8 - - - +
257A TYR* 2.9 28.3 + - + +
331A LEU* 4.1 13.0 - - + -
340A TYR* 3.9 10.5 - - + +
341A ARG* 3.7 30.5 - - + -
342A VAL* 3.8 19.1 - - + -
345A TYR* 4.1 13.2 - - + +
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Residues in contact with ALA 254 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
250A ALA 3.1 16.4 + - - +
251A PHE 3.7 3.1 - - - +
253A ILE* 1.3 75.1 - - - +
255A LYS* 1.3 67.4 + - - +
257A TYR* 3.3 1.7 + - - +
258A ALA* 2.9 26.0 + - - +
278A ILE* 4.1 2.0 - - - -
281A MET* 4.3 12.1 - - + -
327A ALA* 4.0 27.1 - - + +
330A VAL* 3.8 17.0 - - + +
331A LEU* 3.8 12.3 - - + -
342A VAL* 4.9 0.2 - - - +
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Residues in contact with LYS 255 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
251A PHE* 2.8 45.8 + - + +
252A GLU* 3.8 5.2 - - - +
254A ALA* 1.3 77.2 - - - +
256A ALA* 1.3 65.7 - - - +
258A ALA 3.3 3.6 + - - -
259A GLU 3.4 3.3 + - - -
278A ILE* 3.9 13.0 - - + +
370B LEU* 3.1 40.7 + - - -
371B TYR* 2.6 53.4 + - + +
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Residues in contact with ALA 256 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
252A GLU 3.0 17.4 + - - +
253A ILE* 3.8 5.2 - - - +
255A LYS* 1.3 77.7 - - - +
257A TYR* 1.3 53.8 + - - +
259A GLU* 2.8 33.9 + - - +
260A GLU* 3.1 13.3 + - + +
371B TYR* 5.6 0.2 - - - -
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Residues in contact with TYR 257 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
253A ILE* 2.9 20.3 + - + +
254A ALA 3.5 1.6 - - - +
256A ALA* 1.3 75.7 - - - +
258A ALA* 1.3 58.5 + - - +
259A GLU 3.0 0.3 + - - -
260A GLU* 3.1 5.8 + - + +
261A ARG* 2.8 78.8 + - + +
268A LEU* 4.0 3.6 - - + -
330A VAL 3.8 10.1 - - - -
331A LEU* 3.4 59.6 + - + -
334A TYR* 3.4 24.6 - + + -
340A TYR* 4.4 17.7 - + - -
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Residues in contact with ALA 258 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
254A ALA 2.9 14.8 + - - +
256A ALA 3.2 0.2 - - - -
257A TYR* 1.3 75.7 - - - +
259A GLU* 1.3 58.5 + - - +
261A ARG 4.2 0.4 - - - +
267A LYS* 3.8 2.3 - - - +
268A LEU* 3.4 21.4 + - + -
269A LYS* 3.0 38.5 + - + +
274A ILE* 4.1 17.9 - - + -
278A ILE* 4.5 4.3 - - + -
330A VAL* 4.3 5.4 - - + +
371B TYR* 3.4 20.0 - - - +
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Residues in contact with GLU 259 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
255A LYS 3.4 8.2 + - - +
256A ALA* 2.8 17.0 + - - +
258A ALA* 1.3 80.7 - - - +
260A GLU* 1.3 70.2 + - + +
267A LYS* 2.4 69.8 + - - +
269A LYS* 3.6 24.2 - - - +
371B TYR* 3.9 16.6 - - + +
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Residues in contact with GLU 260 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
256A ALA* 3.1 15.0 + - + +
257A TYR* 4.1 8.1 - - + +
259A GLU* 1.3 92.0 - - + +
261A ARG* 1.3 65.6 + - - +
262A GLU* 3.6 13.2 + - - +
267A LYS* 4.8 2.2 + - - +
----------------------------------------------------------
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Residues in contact with ARG 261 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
257A TYR* 2.8 59.9 + - + +
258A ALA 4.2 1.2 - - - +
260A GLU* 1.3 76.1 - - - +
262A GLU* 1.3 71.1 + - - +
263A GLN* 3.6 25.0 + - - +
267A LYS* 3.2 7.4 - - - +
268A LEU* 3.1 45.8 + - + +
334A TYR* 4.0 26.2 + - - -
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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