Contacts of the helix formed by residues 237 - 267 (chain A) in PDB entry 3U1K
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 LEU 237 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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236A ILE* 1.3 74.9 - - - +
238A GLN* 1.3 67.1 + - - +
239A GLN* 4.2 9.6 - - + +
240A ASP* 3.1 29.7 + - - +
241A PHE* 2.9 21.7 + - - +
552A LYS* 4.0 18.2 - - + +
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Residues in contact with GLN 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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236A ILE 3.6 1.8 + - - -
237A LEU* 1.3 73.6 - - - +
239A GLN* 1.3 58.3 + - - +
241A PHE* 3.3 1.2 + - - +
242A CYS* 2.8 52.3 + - - -
552A LYS 5.2 2.4 + - - -
553A GLY* 5.3 0.6 - - - -
554A ILE* 3.8 17.1 - - + +
572A MET 5.2 1.2 + - - -
575A ILE* 3.9 18.1 - - + +
576A GLN* 2.8 39.2 + - - +
579A SER* 3.6 22.9 + - - -
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Residues in contact with GLN 239 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
237A LEU* 3.1 8.2 - - + +
238A GLN* 1.3 81.0 - - - +
240A ASP* 1.3 67.2 + - - +
242A CYS* 3.6 5.7 + - - +
243A HIS* 3.1 28.8 + - + +
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Residues in contact with ASP 240 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
195A ILE* 4.4 7.9 - - + +
200A TYR* 3.3 26.2 + - - +
236A ILE* 4.3 14.2 - - + +
237A LEU* 3.1 33.7 + - + +
239A GLN* 1.3 88.0 + - - +
241A PHE* 1.3 65.2 + - - +
243A HIS 3.2 0.7 + - - -
244A ALA* 2.9 23.4 + - - +
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Residues in contact with PHE 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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214A LEU* 4.1 12.1 - - + -
216A LEU* 4.8 4.4 - - + +
231A ALA* 3.6 26.9 - - + -
233A ALA* 4.6 3.4 - - + -
236A ILE* 3.6 22.2 - - + +
237A LEU 2.9 11.5 + - - +
238A GLN 3.5 8.1 - - - +
240A ASP* 1.3 76.7 - - - +
242A CYS* 1.3 62.8 + - - +
244A ALA* 3.2 15.9 + - - +
245A ILE* 3.2 32.0 + - + +
547A ILE* 4.8 1.8 - - + -
554A ILE* 3.7 41.7 - - + -
556A ALA 6.0 0.4 - - - -
557A LEU* 3.5 40.4 - - + -
575A ILE* 4.0 10.8 - - + -
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Residues in contact with CYS 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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238A GLN* 2.8 46.2 + - - +
239A GLN* 3.9 6.1 - - - +
241A PHE* 1.3 70.3 - - - +
243A HIS* 1.3 65.3 + - - +
245A ILE* 3.4 7.0 + - - +
246A LYS* 3.3 28.5 + - - +
572A MET* 3.6 34.1 - - - +
575A ILE* 4.0 23.6 - - - -
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Residues in contact with HIS 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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200A TYR* 3.1 43.9 - + - +
239A GLN* 3.1 20.2 + - + +
240A ASP 3.2 0.2 + - - -
242A CYS* 1.3 73.4 - - - +
244A ALA* 1.3 67.0 + - - +
246A LYS* 3.2 17.4 + - + +
247A VAL* 3.0 45.8 + - + +
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Residues in contact with ALA 244 (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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193A ILE* 3.9 15.3 - - + +
200A TYR* 3.9 13.8 - - + -
214A LEU* 3.4 32.1 - - + -
216A LEU* 3.8 11.1 - - + +
240A ASP 2.9 11.8 + - - +
241A PHE 3.3 10.1 - - - +
243A HIS* 1.3 76.7 - - - +
245A ILE* 1.3 58.3 + - - +
247A VAL* 3.3 3.9 + - - +
248A GLY* 2.8 27.7 + - - -
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Residues in contact with ILE 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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216A LEU* 4.0 19.7 - - + -
218A VAL* 4.8 2.0 - - - +
226A ILE* 3.7 29.4 - - + -
229A LEU* 4.1 25.1 - - + -
241A PHE* 3.2 27.5 + - + +
242A CYS* 3.6 7.0 - - - +
243A HIS 3.2 0.2 - - - -
244A ALA* 1.3 77.1 - - - +
246A LYS* 1.3 57.3 + - - +
248A GLY* 3.3 1.2 + - - -
249A VAL* 2.9 37.1 + - + +
557A LEU* 4.8 0.4 - - + -
568A ILE* 5.3 2.0 - - + -
571A VAL* 4.1 0.4 - - + -
572A MET* 3.8 16.8 - - + -
575A ILE* 3.6 30.7 - - + -
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Residues in contact with LYS 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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242A CYS* 3.3 12.4 + - - +
243A HIS* 3.2 21.0 + - + +
245A ILE* 1.3 73.2 - - - +
247A VAL* 1.3 66.8 + - - +
249A VAL* 3.5 6.9 + - - +
250A LYS* 3.1 22.2 + - - +
568A ILE* 4.1 29.8 - - + +
572A MET* 3.9 26.3 - - - +
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Residues in contact with VAL 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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193A ILE* 3.9 11.4 - - + -
200A TYR* 5.0 15.3 - - + -
243A HIS* 3.0 44.8 + - + +
244A ALA* 3.7 7.0 - - - +
246A LYS* 1.3 76.1 - - + +
248A GLY* 1.3 63.9 - - - +
250A LYS* 3.2 20.9 + - + +
251A TYR* 3.2 39.5 + - + -
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Residues in contact with GLY 248 (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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191A VAL* 3.6 9.5 - - - +
193A ILE* 3.6 23.6 - - - -
218A VAL* 4.0 12.3 - - - -
244A ALA 2.8 13.2 + - - -
245A ILE 3.7 1.6 - - - -
247A VAL* 1.3 75.9 - - - +
249A VAL* 1.3 63.7 + - - +
251A TYR* 3.1 6.2 + - - +
252A THR* 3.1 23.2 + - - +
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Residues in contact with VAL 249 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
218A VAL* 4.1 11.9 - - + -
220A GLY* 5.6 0.2 - - - -
224A SER* 3.9 42.8 - - - +
225A GLN 5.3 1.8 - - - +
226A ILE* 3.7 33.0 - - + -
245A ILE* 2.9 23.4 + - + +
246A LYS 3.8 4.3 - - - +
248A GLY* 1.3 76.4 - - - +
250A LYS* 1.3 65.6 + - - +
252A THR* 2.7 28.3 + - - +
253A GLN* 3.2 6.7 + - - +
568A ILE* 4.1 14.4 - - + -
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Residues in contact with LYS 250 (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 SER* 5.8 0.2 - - - -
246A LYS 3.1 14.6 + - - +
247A VAL* 3.2 17.9 + - + +
249A VAL* 1.3 75.8 - - - +
251A TYR* 1.3 89.9 + - + +
253A GLN* 3.1 24.1 + - - +
254A GLN* 3.4 28.3 + - - +
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Residues in contact with TYR 251 (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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51A LEU* 2.5 33.4 + - - +
52A GLY 4.2 2.1 + - - -
191A VAL* 3.8 19.1 - - + -
193A ILE* 4.1 3.1 - - + -
202A VAL* 3.5 35.0 - - + +
247A VAL* 3.2 41.3 + - + +
248A GLY 3.1 7.0 + - - +
250A LYS* 1.3 105.1 + - - +
252A THR* 1.3 65.4 + - - +
254A GLN* 3.1 31.6 + - - +
255A ILE* 3.2 16.0 + - + +
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Residues in contact with THR 252 (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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189A GLY* 3.1 35.2 - - - +
190A ALA* 3.9 3.8 - - - +
191A VAL 4.1 4.3 - - - +
218A VAL* 3.5 24.0 - - + +
220A GLY* 3.6 15.7 - - - +
248A GLY 3.1 13.8 + - - +
249A VAL* 2.7 20.7 + - - -
251A TYR* 1.3 77.6 - - - +
253A GLN* 1.3 71.1 + - - +
255A ILE* 3.2 7.4 + - - +
256A ILE* 2.9 31.4 + - - +
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Residues in contact with GLN 253 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
220A GLY 4.4 0.2 - - - -
221A ALA 3.0 21.1 + - - +
222A PRO* 3.8 2.6 - - - +
223A LYS* 3.3 10.4 + - - -
224A SER* 2.7 46.3 + - - +
249A VAL* 3.3 13.1 + - - +
250A LYS* 3.1 11.0 + - - +
251A TYR 3.1 0.6 - - - -
252A THR* 1.3 96.9 + - - +
254A GLN* 1.3 64.2 + - + +
256A ILE* 3.4 12.6 + - - +
257A GLN* 3.1 22.5 + - - +
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Residues in contact with GLN 254 (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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49A VAL* 4.0 16.9 - - + +
50A ASP 3.2 24.7 + - - -
51A LEU 4.1 1.8 + - - -
52A GLY 5.0 0.6 - - - +
250A LYS* 3.4 37.6 + - + +
251A TYR* 3.1 26.5 + - - +
253A GLN* 1.3 78.3 - - + +
255A ILE* 1.3 61.8 + - - +
257A GLN* 3.2 22.2 + - - +
258A GLY 3.2 9.5 + - - -
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Residues in contact with ILE 255 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49A VAL* 4.2 16.7 - - + +
56A LEU* 3.7 29.6 - - + -
58A ILE* 4.4 5.8 - - + -
171A ASN* 3.4 21.3 - - - +
189A GLY* 4.1 4.9 - - - -
190A ALA 3.5 27.8 - - - +
191A VAL* 3.8 16.6 - - + -
203A ASN* 5.6 2.0 - - - +
251A TYR 3.2 10.0 + - - +
252A THR 3.2 7.4 + - - +
254A GLN* 1.3 76.3 - - + +
256A ILE* 1.3 64.6 + - - +
258A GLY* 3.2 3.1 + - - -
259A ILE* 3.0 37.0 + - + +
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Residues in contact with ILE 256 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187A PRO* 3.6 24.7 - - + +
188A VAL 3.9 1.8 - - - -
189A GLY 3.6 14.1 - - - +
220A GLY 3.4 13.0 - - - +
221A ALA 3.4 36.1 - - - +
222A PRO* 3.6 7.9 - - + -
252A THR 2.9 15.3 + - - +
253A GLN* 3.6 20.9 - - - +
254A GLN 3.3 0.2 - - - -
255A ILE* 1.3 77.0 - - - +
257A GLN* 1.3 56.4 + - - +
259A ILE* 3.1 7.0 + - - +
260A GLN* 2.8 53.7 + - - +
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Residues in contact with GLN 257 (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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253A GLN 3.1 13.3 + - - +
254A GLN* 3.2 17.9 + - - +
256A ILE* 1.3 77.4 - - - +
258A GLY* 1.3 63.1 + - - +
260A GLN* 3.3 15.7 + - - +
261A GLN* 3.1 20.4 + - - +
602B GLU* 5.6 6.2 + - - +
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Residues in contact with GLY 258 (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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47A VAL* 3.7 28.0 - - - +
49A VAL* 4.2 17.3 - - - -
58A ILE* 5.5 0.2 - - - -
254A GLN 3.2 5.7 + - - -
255A ILE 3.2 6.7 + - - -
257A GLN* 1.3 79.2 - - - +
259A ILE* 1.3 61.7 + - - +
261A GLN* 3.2 8.1 + - - +
262A LEU 3.2 16.1 + - - -
602B GLU* 5.8 2.0 - - - -
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Residues in contact with ILE 259 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58A ILE* 4.2 15.0 - - + -
171A ASN* 4.7 1.8 - - - +
174A SER* 3.5 10.8 - - - +
175A VAL* 4.0 26.9 - - + -
178A SER* 4.0 18.4 - - - +
179A LEU* 6.0 0.4 - - + -
187A PRO* 3.7 23.3 - - + -
188A VAL 3.3 26.2 - - - +
255A ILE* 3.0 30.1 + - + +
256A ILE 3.1 5.8 + - - +
258A GLY* 1.3 75.5 - - - +
260A GLN* 1.3 57.6 + - - +
262A LEU* 3.1 11.8 + - + +
263A VAL* 2.9 27.3 + - + +
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Residues in contact with GLN 260 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187A PRO* 4.0 20.7 - - + +
222A PRO* 4.6 11.5 - - - +
256A ILE* 2.8 37.5 + - - +
257A GLN* 3.7 16.3 - - - +
259A ILE* 1.3 77.2 - - - +
261A GLN* 1.3 60.5 + - - +
263A VAL* 3.4 9.6 + - - +
264A LYS* 3.0 23.6 + - - +
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Residues in contact with GLN 261 (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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47A VAL* 4.9 7.0 - - + -
257A GLN 3.1 11.8 + - - +
258A GLY* 3.4 13.0 - - - +
259A ILE 3.2 0.2 - - - -
260A GLN* 1.3 76.1 - - - +
262A LEU* 1.3 64.0 + - + +
264A LYS* 3.1 34.9 + - - +
265A GLU* 2.5 63.8 + - - +
600B ARG 4.0 4.8 + - - -
602B GLU* 3.9 49.3 - - - +
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Residues in contact with LEU 262 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45A SER* 3.8 14.8 + - - -
46A ALA* 3.7 38.1 - - - +
47A VAL* 4.0 13.7 - - + -
58A ILE* 3.3 36.8 - - + +
59A SER* 4.8 2.7 - - - +
60A SER* 5.8 0.2 - - - -
175A VAL* 4.2 13.2 - - + -
179A LEU* 3.9 17.0 - - + -
258A GLY 3.2 5.4 + - - +
259A ILE* 3.1 14.1 + - + +
261A GLN* 1.3 79.8 - - + +
263A VAL* 1.3 61.1 + - - +
265A GLU* 3.3 9.9 + - - +
266A THR* 2.9 29.6 + - - -
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Residues in contact with VAL 263 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
178A SER* 3.8 33.9 - - - +
179A LEU* 3.7 16.8 - - + -
187A PRO* 5.1 3.8 - - + -
259A ILE* 2.9 20.2 + - + +
260A GLN* 3.7 10.3 - - - +
261A GLN 3.2 0.2 - - - -
262A LEU* 1.3 74.8 - - - +
264A LYS* 1.3 64.1 + - - +
266A THR* 3.3 1.9 + - - -
267A GLY* 3.2 18.7 + - - -
268A VAL* 3.9 22.0 + - + +
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Residues in contact with LYS 264 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
260A GLN 3.0 15.8 + - - +
261A GLN* 3.2 36.5 + - - +
263A VAL* 1.3 80.4 - - - +
265A GLU* 1.3 61.1 + - - +
266A THR 3.5 0.2 + - - -
267A GLY* 3.6 2.1 + - - -
598B ALA* 3.3 18.7 - - - +
599B SER* 3.1 38.9 + - - +
600B ARG 5.2 0.2 - - - -
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Residues in contact with GLU 265 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43A MET* 3.8 2.5 - - - +
45A SER* 4.4 7.9 - - - +
46A ALA 5.1 5.7 + - - +
261A GLN* 2.5 54.3 + - - +
262A LEU* 3.8 9.6 - - - +
263A VAL 3.3 0.2 - - - -
264A LYS* 1.3 76.1 - - - +
266A THR* 1.3 60.7 + - - +
375B ASP* 5.2 1.0 - - - +
597B ARG* 3.1 49.8 + - + +
598B ALA 2.7 25.3 + - - -
599B SER* 3.6 14.1 - - - +
600B ARG 4.4 0.7 - - - +
601B LYS* 3.8 17.1 - - - +
602B GLU* 4.0 2.6 + - - +
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Residues in contact with THR 266 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43A MET* 3.5 19.9 + - + +
45A SER* 4.1 8.8 + - - -
179A LEU* 3.5 27.9 - - + +
262A LEU 2.9 19.9 + - - -
263A VAL 3.8 4.5 - - - -
264A LYS 3.3 0.2 - - - -
265A GLU* 1.3 78.6 - - - +
267A GLY* 1.3 62.5 + - - +
268A VAL* 3.9 16.2 - - + -
595B LYS* 3.1 22.8 + - - -
598B ALA* 4.2 0.4 - - - -
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Residues in contact with GLY 267 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
263A VAL 3.2 8.2 + - - -
264A LYS 3.6 2.2 + - - -
265A GLU 3.3 3.4 - - - -
266A THR* 1.3 82.0 - - - +
268A VAL* 1.3 63.0 + - - +
269A THR* 3.7 5.5 + - - -
595B LYS* 3.2 15.9 + - - -
598B ALA* 3.7 17.9 - - - -
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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).
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