Contacts of the helix formed by residues 212 - 245 (chain A) in PDB entry 3KHU
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 ASN 212 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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182A GLY 3.4 10.5 - - - +
183A ASP* 5.7 0.9 - - - -
184A GLU* 5.6 7.4 - - + +
211A THR* 1.3 87.8 + - - +
213A THR* 1.3 64.3 + - - +
214A TRP* 2.8 20.7 + - + +
215A SER* 2.8 29.8 + - - -
216A SER* 3.1 7.4 + - - -
245B GLY 2.9 24.3 + - - -
246B ALA* 4.2 0.2 - - - +
247B ASP* 4.2 5.5 - - - +
250B GLU* 2.9 18.9 + - - +
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Residues in contact with THR 213 (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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137A ALA* 3.4 33.2 - - + -
156A VAL 4.5 5.8 + - - +
157A LEU 4.9 0.9 - - - -
158A SER* 4.0 20.6 - - - +
181A GLY* 4.0 8.3 - - - -
182A GLY* 3.4 25.8 + - - -
183A ASP* 3.8 11.7 + - - +
212A ASN* 1.3 74.8 + - - +
214A TRP* 1.3 69.3 + - + +
216A SER* 3.3 3.3 + - - -
217A GLU* 3.1 25.7 + - - +
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Residues in contact with TRP 214 (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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134A VAL* 4.2 22.3 - - + +
135A ARG* 4.8 12.8 - - + +
138A GLU* 4.3 25.3 + - + +
183A ASP* 5.5 7.4 - - - -
212A ASN* 2.8 21.6 + - + +
213A THR* 1.3 84.5 - - + +
215A SER* 1.4 62.3 + - - +
217A GLU* 3.3 11.5 + - - +
218A LEU* 2.9 26.2 + - - +
244B THR* 3.4 25.1 + - - +
245B GLY* 3.9 14.6 - - - -
246B ALA* 3.5 18.4 - - + +
465B LYS* 6.2 0.9 - - - -
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Residues in contact with SER 215 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
211A THR* 3.7 5.8 - - - -
212A ASN* 2.8 17.7 + - - -
214A TRP* 1.4 72.6 - - - +
216A SER* 1.3 55.2 + - - +
218A LEU 3.8 0.2 - - - -
219A SER* 2.6 39.0 + - - -
246B ALA* 3.6 9.6 - - - +
247B ASP 2.8 25.8 + - - -
250B GLU* 2.7 40.6 + - - +
251B VAL* 3.8 7.3 - - - +
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Residues in contact with SER 216 (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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158A SER* 2.7 23.9 + - - -
160A PRO* 3.2 25.8 - - - +
179A LEU* 3.6 14.7 - - - +
181A GLY* 3.6 16.6 + - - -
211A THR* 3.4 16.4 + - - -
212A ASN 3.1 4.9 + - - -
213A THR 3.5 7.2 - - - -
215A SER* 1.3 77.5 - - - +
217A GLU* 1.3 67.0 + - - +
219A SER* 3.3 10.4 + - - -
220A LYS 3.4 8.0 + - - -
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Residues in contact with GLU 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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128A GLU* 2.7 30.6 - - - +
132A VAL* 3.9 15.9 - - + +
133A PRO 4.0 4.9 - - - -
134A VAL* 3.5 15.6 - - - +
135A ARG* 2.9 30.0 + - - -
136A ALA* 3.6 2.8 - - - +
137A ALA* 2.9 28.6 + - - +
158A SER* 4.0 7.2 - - - +
160A PRO* 5.0 2.7 - - - -
213A THR* 3.1 17.5 + - - +
214A TRP* 3.8 8.9 - - - +
216A SER* 1.3 81.0 - - - +
218A LEU* 1.3 63.8 + - - +
220A LYS* 3.4 11.1 + - - +
221A LEU* 3.7 14.4 + - - +
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Residues in contact with LEU 218 (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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134A VAL* 3.8 20.8 - - + +
214A TRP 2.9 16.8 + - - +
215A SER 3.9 2.5 - - - +
217A GLU* 1.3 74.0 - - - +
219A SER* 1.3 67.3 + - - +
220A LYS 3.3 0.3 + - - -
221A LEU* 3.3 4.1 + - + +
222A ALA* 2.9 26.4 + - + +
284A LEU* 3.9 27.8 - - + -
287A LEU* 4.7 0.7 - - + -
237B ILE* 4.2 13.5 - - + -
240B LEU* 4.3 24.0 - - + -
241B CYS* 4.1 16.4 - - - +
244B THR* 4.7 4.7 - - + +
246B ALA* 3.7 22.7 - - + -
251B VAL* 4.3 8.7 - - + -
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Residues in contact with SER 219 (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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162A PHE* 5.4 1.8 - - - -
177A ARG* 5.5 0.6 + - - -
179A LEU* 3.7 9.9 - - - +
211A THR* 5.7 0.5 - - - +
215A SER 2.6 25.6 + - - -
216A SER* 3.7 5.1 - - - -
217A GLU 3.3 0.2 - - - -
218A LEU* 1.3 76.0 - - - +
220A LYS* 1.3 57.9 + - - +
222A ALA* 4.0 0.4 - - - +
223A ALA* 2.8 33.3 + - - +
250B GLU 4.4 0.5 + - - -
251B VAL* 3.4 27.4 - - - +
254B ALA* 3.4 31.7 - - - +
255B ILE* 4.4 3.1 - - - +
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Residues in contact with LYS 220 (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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131A THR* 3.6 35.7 - - + +
160A PRO* 3.9 24.0 - - + -
161A GLN* 2.9 26.9 + - - +
162A PHE* 3.6 26.4 - - + -
179A LEU* 4.9 0.6 - - - +
216A SER 3.4 2.9 + - - +
217A GLU* 3.4 9.5 + - - +
218A LEU 3.2 1.0 - - - -
219A SER* 1.3 81.3 - - - +
221A LEU* 1.3 65.2 + - + +
223A ALA* 3.8 1.4 - - - +
224A ASN* 3.3 30.0 + - - +
280A ASP* 4.5 0.9 - - - +
501A UPG 2.8 51.4 + - - -
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Residues in contact with LEU 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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131A THR* 4.0 17.0 - - + -
132A VAL 4.3 12.1 - - - +
134A VAL* 4.1 25.8 - - + +
217A GLU 3.7 8.5 + - - +
218A LEU* 3.3 6.1 + - + +
220A LYS* 1.3 76.4 - - + +
222A ALA* 1.3 59.8 + - - +
224A ASN* 3.2 5.4 + - - +
225A ALA* 2.8 27.9 + - - +
280A ASP* 3.8 43.8 - - + +
283A ASN* 3.6 24.9 - - + +
284A LEU* 4.4 27.5 - - + +
287A LEU* 5.1 1.8 - - + -
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Residues in contact with ALA 222 (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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218A LEU* 2.9 20.4 + - + +
219A SER 4.0 2.2 - - - +
221A LEU* 1.3 74.0 - - - +
223A ALA* 1.3 56.0 + - - +
225A ALA* 2.9 8.4 + - - -
226A PHE* 2.7 41.5 + - + -
284A LEU* 4.7 4.9 - - + -
237B ILE* 4.1 25.4 - - + -
251B VAL* 4.3 7.4 - - + -
255B ILE* 4.0 18.8 - - + -
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Residues in contact with ALA 223 (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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162A PHE* 4.6 8.1 - - + -
177A ARG* 4.0 24.0 - - - +
219A SER 2.8 22.7 + - - +
220A LYS 3.8 3.8 - - - +
222A ALA* 1.3 72.6 - - - +
224A ASN* 1.3 67.2 + - - +
226A PHE* 3.2 3.2 + - - +
227A LEU* 3.0 28.4 + - + +
255B ILE* 4.1 10.9 - - + +
258B ASP* 5.3 2.9 - - - +
261B ILE* 3.6 16.3 - - + +
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Residues in contact with ASN 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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162A PHE* 5.9 0.5 - - - -
220A LYS* 3.3 16.8 + - - +
221A LEU 3.2 8.4 + - - +
222A ALA 3.2 0.4 - - - -
223A ALA* 1.3 80.8 - - - +
225A ALA* 1.3 62.5 + - - +
227A LEU* 3.2 9.8 + - - +
228A ALA* 2.8 26.7 + - - +
276A CYS* 3.9 5.3 - - - +
277A PHE* 3.5 30.2 - - + -
280A ASP* 2.7 35.4 + - + +
281A VAL* 4.9 2.2 - - + -
501A UPG 2.9 33.8 + - - -
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Residues in contact with ALA 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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221A LEU 2.8 14.2 + - - +
222A ALA* 2.9 8.5 + - - +
224A ASN* 1.3 75.6 - - - +
226A PHE* 1.3 57.2 + - - +
228A ALA* 3.3 1.7 + - - +
229A GLN* 2.8 30.8 + - - +
281A VAL* 3.9 22.1 - - + +
284A LEU* 3.9 19.3 - - + -
300A TRP* 3.6 30.4 - - + -
303A VAL* 4.6 1.0 - - - +
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Residues in contact with PHE 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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222A ALA* 2.7 27.6 + - + +
223A ALA 3.6 7.0 - - - +
225A ALA* 1.3 72.7 - - - +
227A LEU* 1.3 63.7 + - - +
229A GLN* 3.3 13.8 + - - +
230A ARG* 3.1 27.5 + - + +
300A TRP* 3.9 22.4 - + - -
230B ARG* 4.3 12.8 - - + -
233B SER* 3.5 26.9 - - - -
234B ILE* 3.7 16.2 - - + -
237B ILE* 4.3 11.0 - - + -
255B ILE* 3.8 24.9 - - + -
261B ILE* 3.9 30.7 - - + -
266B LEU* 3.5 26.0 - - + -
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Residues in contact with LEU 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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223A ALA* 3.0 21.2 + - + +
224A ASN* 3.7 22.0 - - - +
226A PHE* 1.3 76.2 - - - +
228A ALA* 1.3 64.4 + - - +
230A ARG* 3.2 17.6 + - - +
231A ILE* 3.4 14.4 + - - +
265A PHE* 3.8 25.7 - - + -
277A PHE* 3.8 20.2 - - + -
501A UPG 4.5 2.5 - - - +
258B ASP* 3.9 5.8 - - - +
260B ARG* 3.6 47.6 - - + +
261B ILE* 3.6 23.3 - - + -
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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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224A ASN 2.8 16.7 + - - +
225A ALA 3.8 1.8 - - - +
227A LEU* 1.3 76.9 - - - +
229A GLN* 1.3 57.4 + - - +
231A ILE* 3.1 7.6 + - - +
232A SER* 2.9 29.8 + - - -
272A PHE* 4.0 15.1 - - + -
277A PHE* 3.9 29.5 - - + -
281A VAL* 4.3 7.0 - - + -
303A VAL* 3.7 19.5 - - + -
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Residues in contact with GLN 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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225A ALA 2.8 18.3 + - - +
226A PHE* 3.4 13.6 + - - +
227A LEU 3.2 0.2 - - - -
228A ALA* 1.3 74.5 - - - +
230A ARG* 1.3 56.4 + - + +
232A SER 4.4 0.2 - - - +
233A SER* 2.7 39.3 + - - -
299A TYR* 3.6 0.9 + - - -
300A TRP* 3.5 13.0 - - + -
303A VAL* 3.8 15.2 - - + +
229B GLN* 3.6 28.9 + - - +
230B ARG* 5.4 2.2 - - - +
233B SER* 2.7 34.8 + - - -
299B TYR* 3.2 8.4 + - - +
601B EDO 2.8 26.8 + - - +
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Residues in contact with ARG 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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226A PHE* 3.1 16.2 + - + +
227A LEU* 3.2 12.7 + - - +
229A GLN* 1.3 75.7 - - + +
231A ILE* 1.3 63.4 + - - +
233A SER* 3.6 6.0 - - - -
234A ILE* 3.0 24.8 + - - +
261A ILE* 2.9 37.5 + - - +
262A GLY 3.1 17.6 + - - -
264A LYS 2.8 29.5 + - - -
265A PHE* 3.4 19.3 + - + +
266A LEU* 3.9 15.5 - - + +
226B PHE* 4.4 11.2 - - + -
229B GLN* 5.5 0.7 - - - -
230B ARG* 3.6 21.0 - - - +
260B ARG 3.5 18.4 + - - -
261B ILE* 4.2 9.1 + - - +
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Residues in contact with ILE 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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227A LEU 3.4 7.8 + - - +
228A ALA* 3.1 5.9 + - - +
230A ARG* 1.3 77.2 - - - +
232A SER* 1.3 58.1 + - - +
234A ILE* 3.2 8.7 + - - +
235A ASN* 2.8 47.7 + - - +
265A PHE* 3.8 20.4 - - + +
267A LYS 4.6 3.1 - - - +
269A SER* 4.2 1.6 - - - +
272A PHE* 3.9 19.1 - - + -
277A PHE* 3.9 15.0 - - + -
501A UPG 3.4 68.2 - - + +
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Residues in contact with SER 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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228A ALA 2.9 13.8 + - - -
229A GLN 3.9 0.4 - - - -
231A ILE* 1.3 76.5 - - - +
233A SER* 1.3 58.3 + - - +
235A ASN* 3.3 5.1 + - - +
236A SER* 2.8 27.7 + - - -
272A PHE* 3.6 13.7 - - - -
303A VAL* 2.8 32.4 + - - -
306A MET* 3.4 22.1 - - - +
307A ASN* 3.8 8.5 + - - +
299B TYR* 3.6 15.3 - - - -
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Residues in contact with SER 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 GLN 2.7 18.9 + - - -
230A ARG 3.6 2.2 - - - -
231A ILE 3.2 0.2 - - - -
232A SER* 1.3 72.1 - - - +
234A ILE* 1.3 63.2 + - - +
236A SER* 2.6 21.2 + - - -
237A ILE* 3.0 9.7 + - - +
226B PHE* 3.5 24.9 - - - -
229B GLN* 2.7 29.3 + - - -
299B TYR* 2.6 27.6 + - - -
300B TRP* 3.9 6.9 - - - -
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Residues in contact with ILE 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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230A ARG 3.0 15.2 + - - +
231A ILE* 3.4 13.2 - - - +
233A SER* 1.3 75.7 - - - +
235A ASN* 1.3 60.8 + - - +
237A ILE* 3.1 11.4 + - + +
238A SER* 2.8 27.4 + - - -
248A VAL* 3.8 19.3 - - + +
252A ALA* 3.9 26.2 - - + +
255A ILE* 4.1 19.1 - - + -
266A LEU* 3.7 35.7 - - + +
267A LYS 4.1 1.6 - - - -
268A ALA* 3.9 24.7 - - + +
226B PHE* 3.9 7.5 - - + -
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Residues in contact with ASN 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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231A ILE* 2.8 37.4 + - - +
232A SER* 3.7 7.4 - - - +
234A ILE* 1.3 75.8 - - - +
236A SER* 1.3 63.5 + - - +
238A SER* 2.6 24.5 + - - -
239A ALA* 3.3 4.7 + - - +
268A ALA* 3.2 9.2 - - - +
269A SER* 2.8 47.0 + - - +
271A GLY* 4.2 7.3 - - - -
306A MET* 4.7 4.4 - - + +
307A ASN* 4.5 5.0 + - - +
310A GLN* 3.4 30.6 + - + +
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Residues in contact with SER 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 SER 2.8 18.0 + - - -
233A SER* 2.6 18.7 + - - -
235A ASN* 1.3 73.3 - - - +
237A ILE* 1.3 61.0 + - - +
239A ALA* 3.2 14.8 + - - +
240A LEU* 3.4 7.8 + - - +
306A MET* 3.7 30.5 - - - -
296B VAL* 3.8 23.9 - - - +
299B TYR* 4.2 4.3 - - - -
300B TRP* 3.0 26.1 + - - -
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Residues in contact with ILE 237 (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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233A SER 3.0 12.9 + - - +
234A ILE* 3.4 13.5 - - + +
236A SER* 1.3 85.4 + - - +
238A SER* 1.3 66.0 + - - +
240A LEU* 3.0 13.2 + - + +
241A CYS* 2.8 32.3 + - - -
248A VAL* 4.4 4.9 - - + -
251A VAL* 3.8 28.3 - - + -
255A ILE* 5.2 0.2 - - + -
218B LEU* 4.3 16.6 - - + -
222B ALA* 4.2 18.8 - - + -
226B PHE* 4.3 16.6 - - + -
284B LEU* 4.9 7.2 - - + -
296B VAL* 5.8 0.4 - - + -
300B TRP* 4.3 14.8 - - + +
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Residues in contact with SER 238 (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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234A ILE 2.8 12.5 + - - -
235A ASN* 2.6 22.1 + - - -
237A ILE* 1.3 76.6 - - - +
239A ALA* 1.3 61.5 + - - +
241A CYS* 3.3 1.1 + - - -
242A GLU* 3.1 26.7 + - - +
248A VAL* 3.8 17.0 - - - +
268A ALA* 4.3 7.6 - - - -
310A GLN* 3.2 13.5 + - - -
313A ARG* 3.1 14.5 + - - -
462A ILE 4.6 0.4 - - - -
463A GLY* 3.4 24.4 - - - -
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Residues in contact with ALA 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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235A ASN 3.3 2.9 + - - +
236A SER 3.2 10.6 + - - +
237A ILE 3.1 0.8 - - - -
238A SER* 1.3 79.4 + - - +
240A LEU* 1.3 63.8 + - - +
242A GLU* 3.2 5.7 + - - +
243A ALA* 3.1 22.0 + - - +
309A TYR* 4.0 16.6 - - + +
313A ARG* 3.5 34.1 - - - +
293B LEU* 4.1 9.8 - - + +
296B VAL* 4.1 12.1 - - + -
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Residues in contact with LEU 240 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
236A SER 3.4 7.4 + - - +
237A ILE* 3.2 16.8 - - + +
239A ALA* 1.3 80.3 - - - +
241A CYS* 1.3 58.7 + - - +
243A ALA* 3.2 2.8 + - - +
244A THR* 2.9 35.9 + - + +
218B LEU* 4.4 23.6 - - + -
284B LEU* 4.7 5.8 - - + -
287B LEU* 4.2 21.1 - - + -
288B CYS* 3.1 37.9 - - + -
291B LEU* 4.2 14.8 - - + -
293B LEU* 3.9 14.1 - - + +
296B VAL* 4.4 4.7 - - + -
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Residues in contact with CYS 241 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
237A ILE* 2.8 27.8 + - - -
238A SER 3.4 9.0 - - - +
240A LEU* 1.3 74.2 - - - +
242A GLU* 1.3 64.8 + - - +
244A THR* 3.7 5.4 - - - -
245A GLY* 3.0 23.7 + - - -
246A ALA* 3.2 32.0 - - - +
247A ASP 3.6 5.6 - - - -
248A VAL* 3.5 30.1 - - - +
251A VAL* 4.1 1.8 - - - -
463A GLY 3.7 12.8 - - - +
465A LYS* 4.1 3.3 - - - +
218B LEU* 4.1 3.6 - - - -
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Residues in contact with GLU 242 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
238A SER 3.1 10.2 + - - +
239A ALA* 3.2 6.2 + - - +
241A CYS* 1.3 75.2 - - - +
243A ALA* 1.3 59.7 + - - +
313A ARG* 2.6 41.8 + - - -
317A ARG* 3.3 26.5 + - - +
462A ILE* 3.4 2.6 - - - -
463A GLY 2.8 28.4 + - - +
464A LYS 3.6 16.4 - - - +
465A LYS* 3.4 32.2 - - - +
466A VAL 4.9 0.3 + - - -
----------------------------------------------------------
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Residues in contact with ALA 243 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
239A ALA 3.1 11.6 + - - +
240A LEU 3.6 7.9 - - - +
241A CYS 3.1 0.4 - - - -
242A GLU* 1.3 79.3 - - - +
244A THR* 1.3 58.2 + - - +
465A LYS* 4.8 7.9 + - - +
291B LEU* 4.4 26.1 - - + +
293B LEU* 4.1 20.6 - - + -
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Residues in contact with THR 244 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
240A LEU* 2.9 25.6 + - + +
241A CYS* 3.5 1.0 + - - -
243A ALA* 1.3 78.3 - - - +
245A GLY* 1.3 59.0 + - - +
246A ALA* 3.2 20.3 + - - +
465A LYS* 4.4 9.5 + - - +
134B VAL* 4.4 17.9 - - + -
135B ARG* 6.0 3.8 - - + -
214B TRP* 3.6 33.7 + - - -
218B LEU* 4.7 2.9 - - + +
287B LEU* 5.0 2.5 - - + -
291B LEU* 3.6 28.9 - - + -
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Residues in contact with GLY 245 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
241A CYS 3.0 8.2 + - - -
244A THR* 1.3 77.1 - - - +
246A ALA* 1.3 64.4 + - - +
247A ASP* 5.0 0.5 - - - +
465A LYS* 3.9 23.1 - - - +
212B ASN* 2.9 22.1 + - - -
214B TRP* 4.1 14.9 - - - -
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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