Contacts of the helix formed by residues 238 - 280 (chain B) in PDB entry 1NKP
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 SER 238 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
237B ALA* 1.3 77.8 - - - +
239B ARG* 1.3 60.3 + - - +
240B ALA* 3.4 9.2 + - - +
241B GLN* 2.9 35.6 + - - +
242B ILE* 3.0 26.4 + - - +
107F G 4.2 32.2 + - - -
108F C 3.2 14.8 - - - -
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Residues in contact with ARG 239 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
917A LEU* 4.1 16.6 - - + -
215B ARG* 5.1 2.4 + - - +
218B ILE* 4.1 10.9 - - - +
219B LYS* 3.5 37.2 - - - +
222B PHE* 3.6 53.2 - - + +
238B SER* 1.3 71.0 - - - +
240B ALA* 1.3 65.3 + - - +
242B ILE* 3.3 7.9 + - + +
243B LEU* 3.1 28.8 + - - +
108F C 3.1 40.0 + - - +
109F A 3.2 29.1 + - - -
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Residues in contact with ALA 240 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
916A GLU* 6.3 0.9 - - + -
917A LEU* 3.9 20.8 - - + +
920A SER* 4.7 7.6 - - - +
238B SER* 3.2 9.0 + - - +
239B ARG* 1.3 79.9 - - - +
241B GLN* 1.3 57.8 + - + +
243B LEU* 3.4 3.3 + - - +
244B ASP* 2.9 41.2 + - - +
108F C 4.8 0.8 + - - -
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Residues in contact with GLN 241 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
232B LEU* 4.9 0.7 - - - -
236B LYS 4.4 2.5 - - - +
237B ALA* 3.2 17.9 - - + -
238B SER* 2.9 38.0 + - - +
240B ALA* 1.3 79.5 - - + +
242B ILE* 1.3 57.9 + - - +
244B ASP* 3.8 6.2 - - - +
245B LYS* 2.8 49.5 + - + +
107F G 5.5 2.8 + - - -
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Residues in contact with ILE 242 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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222B PHE* 4.1 29.2 - - + +
225B LEU* 3.9 22.2 - - + -
226B ARG* 4.1 33.7 - - + +
232B LEU* 3.6 26.9 - - + +
237B ALA* 4.1 18.2 - - + +
238B SER 3.0 16.9 + - - +
239B ARG* 3.7 10.5 - - + +
240B ALA 3.2 0.6 - - - -
241B GLN* 1.3 76.3 - - - +
243B LEU* 1.3 57.1 + - - +
245B LYS* 4.0 0.3 - - - -
246B ALA* 3.0 28.2 + - - +
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Residues in contact with LEU 243 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
917A LEU* 3.9 10.5 - - + -
920A SER* 3.8 30.5 - - - +
921A PHE* 3.7 49.4 - - + +
924A LEU* 3.6 25.4 - - + +
943A LEU* 3.9 7.6 - - + -
222B PHE* 3.9 17.0 - - + -
225B LEU* 4.4 1.8 - - + -
239B ARG 3.1 20.5 + - - +
240B ALA 3.8 2.5 - - - +
242B ILE* 1.3 74.8 - - - +
244B ASP* 1.3 59.8 + - - +
246B ALA* 3.3 6.4 + - - +
247B THR* 3.0 33.1 + - - -
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Residues in contact with ASP 244 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
920A SER* 3.0 28.7 + - - +
923A ALA* 5.7 2.3 - - - +
240B ALA* 2.9 27.1 + - - +
241B GLN* 3.8 5.9 - - - +
243B LEU* 1.3 76.3 - - - +
245B LYS* 1.3 60.7 + - + +
247B THR* 3.4 7.6 + - - -
248B GLU* 3.0 28.1 + - - +
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Residues in contact with LYS 245 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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229B VAL* 4.7 3.1 - - + -
231B SER* 5.6 9.2 - - - -
232B LEU* 4.1 31.4 - - + -
241B GLN* 2.8 35.7 + - + +
244B ASP* 1.3 71.8 - - + +
246B ALA* 1.3 62.0 + - - +
248B GLU* 3.1 32.7 + - - +
249B TYR* 2.9 31.1 + - - +
783E GLY 6.3 0.8 - - - -
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Residues in contact with ALA 246 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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924A LEU* 4.2 11.0 - - + -
950A ILE* 4.4 4.2 - - + +
225B LEU* 3.9 31.9 - - + -
229B VAL* 3.8 16.1 - - + +
242B ILE 3.0 20.3 + - - +
243B LEU 3.3 5.1 + - - +
245B LYS* 1.3 76.1 - - - +
247B THR* 1.3 58.2 + - - +
249B TYR* 3.4 2.1 + - - +
250B ILE* 3.0 35.6 + - - +
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Residues in contact with THR 247 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
920A SER 4.6 0.5 + - - -
923A ALA* 3.9 24.4 - - + +
924A LEU* 3.2 32.4 + - - +
927A GLN* 4.1 11.2 - - + +
243B LEU 3.0 14.6 + - - -
244B ASP* 3.5 10.7 - - - -
246B ALA* 1.3 77.1 - - - +
248B GLU* 1.3 64.0 + - - +
250B ILE* 3.2 14.2 + - - +
251B GLN* 3.2 29.4 + - - +
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Residues in contact with GLU 248 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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231B SER* 5.5 4.7 + - - -
244B ASP 3.0 11.5 + - - +
245B LYS* 3.1 49.7 + - - +
247B THR* 1.3 76.4 - - - +
249B TYR* 1.3 64.6 + - + +
251B GLN* 3.3 15.2 + - - +
252B TYR* 3.0 28.8 + - - +
255B ARG* 5.5 0.3 + - - -
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Residues in contact with TYR 249 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
950A ILE* 3.7 31.6 - - + -
953A VAL* 5.9 0.4 - - + -
954A GLN* 3.1 20.8 + - + +
229B VAL* 4.1 20.9 - - + -
230B PRO* 3.5 31.0 - - + +
231B SER 6.1 0.7 - - - -
245B LYS 2.9 19.1 + - - +
246B ALA 3.7 3.1 - - - +
248B GLU* 1.3 81.1 - - + +
250B ILE* 1.3 58.5 + - - +
252B TYR* 3.7 17.2 - + - +
253B MET* 2.9 69.9 + - + +
579D GLU* 4.5 11.3 + - + -
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Residues in contact with ILE 250 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
924A LEU* 3.9 23.8 - - + -
927A GLN* 3.5 20.0 - - + +
928A ILE* 4.8 4.7 - - + -
946A ALA 4.6 3.6 - - - +
949A TYR* 3.5 25.4 - - + -
950A ILE* 3.8 31.9 - - + -
953A VAL* 5.8 2.3 - - + +
246B ALA 3.0 20.7 + - - +
247B THR 3.2 5.1 + - - +
249B TYR* 1.3 74.5 - - + +
251B GLN* 1.3 66.5 + - - +
253B MET* 4.0 4.3 - - - +
254B ARG* 3.1 47.4 + - - +
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Residues in contact with GLN 251 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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927A GLN* 3.6 28.4 + - - +
247B THR* 3.2 30.3 + - - +
248B GLU* 3.7 14.5 - - - +
250B ILE* 1.3 76.7 - - - +
252B TYR* 1.3 64.7 + - - +
254B ARG* 3.2 11.5 + - - +
255B ARG* 3.2 29.7 + - - +
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Residues in contact with TYR 252 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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248B GLU 3.0 18.2 + - - +
249B TYR* 3.7 14.8 - + - +
251B GLN* 1.3 76.9 - - - +
253B MET* 1.3 84.7 + - + +
255B ARG* 3.0 50.0 - - - +
256B LYS* 3.0 57.1 + - + +
575D LYS* 4.7 12.6 + - - +
578D LEU* 5.9 1.0 - - - +
579D GLU* 3.8 26.1 + - + +
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Residues in contact with MET 253 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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953A VAL* 3.3 41.5 - - + +
954A GLN* 4.4 8.3 - - + -
957A GLU* 4.1 27.6 - - + +
249B TYR* 2.9 60.2 + - + +
250B ILE* 4.0 5.2 - - - +
251B GLN 3.3 0.2 - - - -
252B TYR* 1.3 93.5 - - - +
254B ARG* 1.3 60.9 + - - +
256B LYS* 3.5 14.7 - - + +
257B ASN* 2.9 37.0 + - - +
579D GLU* 4.9 2.2 - - - +
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Residues in contact with ARG 254 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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927A GLN* 2.4 47.8 + - - +
929A PRO* 4.9 2.8 - - - +
949A TYR* 2.9 32.7 + - - +
953A VAL* 4.9 5.3 - - + +
250B ILE* 3.1 42.2 + - - +
251B GLN* 3.2 8.2 + - - +
253B MET* 1.3 77.8 - - - +
255B ARG* 1.3 56.9 + - - +
257B ASN* 4.1 4.6 - - - +
258B HIS* 3.3 24.6 + - - +
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Residues in contact with ARG 255 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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248B GLU 5.5 0.4 + - - -
251B GLN* 3.2 13.6 + - - +
252B TYR* 3.0 61.7 - - + +
254B ARG* 1.3 75.7 - - - +
256B LYS* 1.3 63.1 + - - +
258B HIS* 3.9 7.2 - - - +
259B THR* 3.0 26.7 + - - -
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Residues in contact with LYS 256 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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957A GLU* 2.9 30.5 + - - +
252B TYR* 3.0 45.7 + - + +
253B MET* 3.2 13.1 + - - +
255B ARG* 1.3 78.6 - - + +
257B ASN* 1.3 61.4 + - - +
259B THR* 3.3 8.0 + - - +
260B HIS* 3.1 34.4 + - + -
575D LYS* 4.2 30.8 - - - +
576D HIS* 5.5 0.4 - - - +
579D GLU* 2.7 29.9 + - - -
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Residues in contact with ASN 257 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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953A VAL* 3.2 42.2 + - - +
956A GLU* 4.0 15.5 + - + +
957A GLU* 3.3 33.5 - - - +
960A LEU* 3.6 19.2 - - + +
253B MET* 2.9 15.8 + - - +
254B ARG* 4.6 3.5 - - - +
256B LYS* 1.3 75.1 - - - +
258B HIS* 1.3 60.3 + - - +
260B HIS* 2.9 9.5 + - - +
261B GLN* 2.8 28.8 + - - +
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Residues in contact with HIS 258 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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254B ARG 3.3 20.2 + - - +
255B ARG* 3.9 8.3 - - - +
256B LYS 3.3 0.6 - - - -
257B ASN* 1.3 77.8 - - - +
259B THR* 1.3 59.6 + - - +
261B GLN* 3.4 8.6 + - + +
262B GLN* 3.0 43.0 + - + +
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Residues in contact with THR 259 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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255B ARG 3.0 13.7 + - - -
256B LYS* 3.3 10.9 + - - -
257B ASN 3.1 0.6 - - - -
258B HIS* 1.3 77.2 - - - +
260B HIS* 1.3 65.9 + - - +
262B GLN* 3.3 17.9 + - + +
263B ASP* 3.0 43.0 + - - +
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Residues in contact with HIS 260 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
957A GLU* 4.1 23.7 + - + +
960A LEU* 3.6 24.1 + - + +
961A ILE* 4.3 28.0 - - + +
964A GLU* 3.5 21.2 + - - +
256B LYS* 3.1 27.5 + - + -
257B ASN* 2.9 24.1 + - - +
259B THR* 1.3 77.6 - - - +
261B GLN* 1.3 58.9 + - - +
263B ASP* 3.3 9.5 + - - +
264B ILE* 3.0 32.3 + - - +
571D ARG* 6.3 0.9 - - - -
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Residues in contact with GLN 261 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
959A LYS* 5.5 0.2 + - - -
960A LEU* 3.5 26.3 - - + +
963A GLU* 4.7 2.8 + - - +
257B ASN 2.8 11.0 + - - +
258B HIS* 3.7 12.6 - - + +
260B HIS* 1.3 76.9 - - - +
262B GLN* 1.3 57.3 + - - +
264B ILE* 3.1 19.8 + - - +
265B ASP* 2.8 68.3 + - - +
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Residues in contact with GLN 262 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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258B HIS* 3.0 32.0 + - + +
259B THR* 3.3 22.2 + - - +
261B GLN* 1.3 78.9 - - - +
263B ASP* 1.3 64.1 + - - +
265B ASP* 3.7 7.0 + - - +
266B ASP* 3.4 20.1 + - - +
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Residues in contact with ASP 263 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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964A GLU* 4.0 24.2 - - - +
968A ARG* 5.4 4.0 - - - +
259B THR* 3.0 30.6 + - - +
260B HIS* 3.3 9.6 + - - +
261B GLN 3.2 0.2 - - - -
262B GLN* 1.3 81.0 + - - +
264B ILE* 1.3 63.7 + - - +
266B ASP* 3.4 6.7 + - - +
267B LEU* 3.2 28.1 + - - +
571D ARG* 5.5 5.4 + - - -
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Residues in contact with ILE 264 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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960A LEU* 3.4 40.4 - - + +
963A GLU* 3.1 34.3 - - + +
964A GLU* 4.0 20.9 - - + +
967A LEU* 3.4 21.6 - - + +
260B HIS* 3.0 18.6 + - + +
261B GLN* 3.1 21.7 + - - +
263B ASP* 1.3 74.7 - - - +
265B ASP* 1.3 61.1 + - - +
267B LEU* 3.2 4.4 + - - -
268B LYS* 2.8 34.2 + - + +
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Residues in contact with ASP 265 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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261B GLN* 2.8 53.3 + - - +
262B GLN* 4.2 6.9 + - - +
264B ILE* 1.3 72.5 - - - +
266B ASP* 1.3 60.8 + - - +
268B LYS* 3.1 14.2 - - + +
269B ARG* 2.9 43.8 + - - +
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Residues in contact with ASP 266 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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262B GLN 3.4 12.6 + - - +
263B ASP* 3.6 11.2 - - - +
264B ILE 3.2 0.6 - - - -
265B ASP* 1.3 75.6 - - - +
267B LEU* 1.3 66.8 + - - +
269B ARG* 3.0 18.5 + - - +
270B GLN* 2.6 51.0 + - - +
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Residues in contact with LEU 267 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
964A GLU* 3.8 21.5 - - + -
967A LEU* 3.8 26.2 - - + +
968A ARG* 3.8 40.4 - - + +
971A ARG* 3.5 41.5 - - + +
263B ASP 3.2 14.4 + - - +
264B ILE 3.2 6.9 + - - +
266B ASP* 1.3 79.8 - - - +
268B LYS* 1.3 56.7 + - - +
270B GLN* 3.1 10.5 + - - +
271B ASN* 2.9 36.3 + - - -
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Residues in contact with LYS 268 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
963A GLU* 3.9 18.4 + - - +
967A LEU* 3.6 34.9 - - + +
264B ILE* 2.8 27.1 + - + +
265B ASP* 3.1 23.1 - - + +
266B ASP 3.0 0.2 - - - -
267B LEU* 1.3 78.2 - - - +
269B ARG* 1.3 60.3 + - + +
271B ASN* 4.1 4.3 - - + +
272B ALA* 3.2 24.4 + - - +
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Residues in contact with ARG 269 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
265B ASP* 2.9 26.6 + - - +
266B ASP* 3.0 17.0 + - - +
268B LYS* 1.3 77.4 - - + +
270B GLN* 1.3 62.5 + - + +
272B ALA* 3.9 5.6 - - - +
273B LEU* 3.4 30.0 + - + +
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Residues in contact with GLN 270 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
971A ARG* 3.0 46.9 + - + +
975A LYS* 5.6 2.3 + - - -
266B ASP* 2.6 40.8 + - - +
267B LEU* 3.1 15.7 + - - +
269B ARG* 1.3 77.3 - - + +
271B ASN* 1.3 64.8 + - - +
273B LEU* 3.3 9.0 + - - +
274B LEU* 3.1 30.3 + - + +
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Residues in contact with ASN 271 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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967A LEU* 3.3 36.8 + - - +
970A ARG* 3.3 28.6 - - + +
971A ARG* 3.1 33.2 - - - +
974A LEU* 4.6 3.0 - - + +
267B LEU* 2.9 22.4 + - - +
268B LYS* 4.2 4.0 - - + +
270B GLN* 1.3 73.9 - - - +
272B ALA* 1.3 57.4 + - - +
274B LEU* 3.5 7.2 + - - +
275B GLU* 2.9 44.6 + - - +
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Residues in contact with ALA 272 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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268B LYS 3.2 18.4 + - - +
269B ARG* 3.9 7.0 - - - +
270B GLN 3.2 0.4 - - - -
271B ASN* 1.3 78.5 - - - +
273B LEU* 1.3 62.9 + - + +
275B GLU* 3.4 15.2 - - - +
276B GLN* 3.1 18.9 + - - +
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Residues in contact with LEU 273 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
269B ARG* 3.4 16.5 + - + +
270B GLN* 3.3 10.4 + - - +
272B ALA* 1.3 77.1 - - + +
274B LEU* 1.3 59.4 - - + +
276B GLN* 2.8 47.7 + - - +
277B GLN* 3.0 14.2 + - - +
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Residues in contact with LEU 274 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
971A ARG* 3.8 30.7 - - + +
974A LEU* 3.7 30.7 - - + -
975A LYS* 4.1 17.9 - - + -
978A LEU* 4.0 15.7 - - + -
270B GLN* 3.1 19.0 + - + +
271B ASN* 3.7 9.0 - - - +
273B LEU* 1.3 76.6 - - + +
275B GLU* 1.3 58.3 + - - +
277B GLN* 3.1 24.4 + - - +
278B VAL* 2.9 33.8 + - - +
----------------------------------------------------------
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Residues in contact with GLU 275 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
970A ARG* 2.9 39.1 + - - +
974A LEU* 4.1 14.1 - - + -
271B ASN* 2.9 30.4 + - - +
272B ALA* 3.4 11.9 + - - +
274B LEU* 1.3 76.1 - - - +
276B GLN* 1.3 62.5 + - - +
278B VAL* 3.7 4.0 + - - +
279B ARG* 3.1 30.6 + - - +
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Residues in contact with GLN 276 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
272B ALA 3.1 11.3 + - - +
273B LEU* 2.8 33.9 + - - +
275B GLU* 1.3 76.9 - - - +
277B GLN* 1.3 63.9 + - - +
279B ARG* 3.0 9.3 - - + +
280B ALA* 3.0 25.5 + - + +
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Residues in contact with GLN 277 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
978A LEU* 3.7 22.7 - - + +
273B LEU* 3.0 13.6 + - - +
274B LEU* 3.1 39.2 + - - +
276B GLN* 1.3 76.1 - - + +
278B VAL* 1.3 67.6 + - - +
279B ARG 2.9 2.6 + - - -
280B ALA* 3.0 17.0 + - - +
281B LEU* 3.1 19.1 - - + +
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Residues in contact with VAL 278 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
974A LEU* 4.0 26.7 - - + +
977A LYS* 3.7 31.0 - - + -
978A LEU* 3.4 26.4 - - + +
981A LEU* 3.9 12.3 - - + +
274B LEU 2.9 23.3 + - - +
275B GLU* 4.0 6.5 - - - +
277B GLN* 1.3 71.8 - - - +
279B ARG* 1.3 77.1 + - - +
281B LEU 3.2 13.5 - - - +
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Residues in contact with ARG 279 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
275B GLU* 3.1 17.2 + - - +
276B GLN* 3.0 13.8 + - - +
278B VAL* 1.3 93.8 + - - +
280B ALA* 1.3 53.3 + - + +
281B LEU 2.8 17.3 + - - +
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Residues in contact with ALA 280 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
984A CYS* 4.4 6.0 - - - -
276B GLN* 3.0 15.8 + - + +
277B GLN* 3.2 5.6 - - - +
279B ARG* 1.3 75.9 - - + +
281B LEU* 1.3 70.3 - - - +
284B CYS* 5.4 2.2 - - - -
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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