Contacts of the helix formed by residues 254 - 307 (chain A) in PDB entry 1JNM
Residue contacts within the protein are
derived with the CSU software (Sobolev V., Sorokine A.,
Prilusky J., Abola E.E. and Edelman M. (1999) Automated
analysis of interatomic contacts in proteins.
Bioinformatics, 15, 327-332). A
short description of the analytical approach
is given at the end of the page.
Note:
Non-standard 3 letter residue
codes indicate a heterogroup. To identify
and analyse, use LPC software
Legend:
Dist - nearest distance (Å) between atoms of two residues
Surf - contact surface area (Å2) between two residues
HB - hydrophilic-hydrophilic contact (hydrogen bond)
Arom - aromatic-aromatic contact
Phob - hydrophobic-hydrophobic contact
DC - hydrophobic-hydrophilic contact (destabilizing contact)
+/- - indicates presence/absence of a specific contacts
* - indicates residues forming contacts by their side chain
(including CA atoms)
Residues in contact with LYS 254 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
255A ALA* 1.3 69.5 + - + +
256A GLU* 3.1 35.9 - - + +
257A ARG* 2.8 41.7 + - + +
258A LYS* 3.2 9.5 + - - +
303D T 5.9 0.6 + - - -
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Residues in contact with ALA 255 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
254A LYS* 1.3 73.0 - - + +
256A GLU* 1.3 67.5 - - - +
258A LYS* 3.2 18.0 + - - +
259A ARG* 3.2 22.7 + - - +
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Residues in contact with GLU 256 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
254A LYS* 2.9 31.2 + - + +
255A ALA* 1.3 75.3 - - - +
257A ARG* 1.3 51.5 + - - +
259A ARG* 2.8 56.3 + - - +
260A MET* 2.6 50.4 + - + +
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Residues in contact with ARG 257 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
254A LYS* 2.8 38.4 + - + +
256A GLU* 1.3 72.9 - - - +
258A LYS* 1.3 65.2 + - - +
260A MET* 3.1 25.0 + - - +
261A ARG* 3.0 41.1 + - - +
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Residues in contact with LYS 258 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
254A LYS 3.2 8.9 + - - +
255A ALA* 3.4 15.5 - - - +
256A GLU 3.2 0.4 - - - -
257A ARG* 1.3 77.3 - - - +
259A ARG* 1.3 58.1 + - - +
261A ARG* 3.4 25.4 + - - +
262A ASN* 3.0 30.4 + - + +
214C A 5.7 2.0 + - - -
215C T 4.9 20.3 + - - +
303D T 6.5 1.1 - - + -
304D C 4.7 14.1 - - - +
305D G 5.7 6.1 - - - -
306D A 6.1 2.0 - - - +
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Residues in contact with ARG 259 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
255A ALA* 3.2 16.5 + - - +
256A GLU* 2.8 49.3 + - - +
258A LYS* 1.3 78.4 - - - +
260A MET* 1.3 64.0 + - - +
262A ASN* 4.0 7.6 - - + +
263A ARG* 3.1 22.0 + - - +
212C T 3.6 46.1 + - + +
213C C 3.2 31.5 + - - +
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Residues in contact with MET 260 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
256A GLU* 2.6 72.2 + - + +
257A ARG* 3.1 30.6 + - - +
259A ARG* 1.3 77.4 - - + +
261A ARG* 1.3 65.8 + - + +
263A ARG* 3.1 32.2 + - - +
264A ILE* 3.4 11.1 + - + +
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Residues in contact with ARG 261 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
257A ARG* 3.0 36.3 + - + +
258A LYS* 3.7 20.9 - - - +
260A MET* 1.3 79.2 - - + +
262A ASN* 1.3 61.8 + - - +
264A ILE* 3.0 15.4 + - + +
265A ALA* 2.9 22.4 + - - +
304D C 2.9 46.4 + - - +
305D G 3.0 35.0 + - - +
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Residues in contact with ASN 262 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
258A LYS* 3.0 19.4 + - + +
259A ARG* 4.0 9.7 - - + +
260A MET 3.3 0.2 - - - -
261A ARG* 1.3 76.2 - - - +
263A ARG* 1.3 56.6 + - - +
265A ALA* 3.8 4.9 - - - +
266A ALA* 3.0 25.8 + - - +
212C T 3.1 26.7 - - + +
213C C 3.2 18.6 + - - -
214C A 3.8 8.3 - - - +
306D A 4.0 10.5 + - - +
307D T 2.8 33.7 + - - +
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Residues in contact with ARG 263 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
259A ARG 3.1 11.2 + - - +
260A MET* 3.1 23.9 + - - +
261A ARG 3.0 0.4 - - - -
262A ASN* 1.3 75.7 - - - +
264A ILE* 1.3 65.8 + - + +
266A ALA* 3.3 10.9 + - - +
267A SER* 3.3 11.1 + - - -
270A ARG* 4.9 0.3 + - - -
211C G 2.9 62.5 + - + +
212C T 3.8 26.9 + - - +
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Residues in contact with ILE 264 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
260A MET 3.4 10.0 + - - +
261A ARG* 3.0 14.6 + - + +
263A ARG* 1.3 77.5 - - + +
265A ALA* 1.3 59.2 + - - +
267A SER* 2.7 36.6 + - - -
268A LYS* 3.2 32.6 + - + +
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Residues in contact with ALA 265 (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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261A ARG 2.9 15.4 + - - +
262A ASN* 3.7 12.3 - - - +
264A ILE* 1.3 78.7 - - - +
266A ALA* 1.3 57.3 + - - +
268A LYS* 3.3 7.7 + - - +
269A SER* 3.0 27.9 + - - -
305D G 4.6 4.9 - - + -
306D A 3.8 31.2 + - + +
307D T 3.9 16.1 - - + +
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Residues in contact with ALA 266 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
262A ASN 3.0 17.4 + - - +
263A ARG 3.6 5.8 - - - +
264A ILE 3.0 0.4 - - - -
265A ALA* 1.3 76.3 - - - +
267A SER* 1.3 57.6 + - - +
269A SER* 3.7 2.9 - - - -
270A ARG* 3.0 47.2 + - - +
211C G 4.5 2.5 - - + +
212C T 3.6 28.9 - - + +
307D T 4.0 12.1 - - + +
308D G 5.7 0.2 - - - +
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Residues in contact with SER 267 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
263A ARG 3.3 8.3 + - - -
264A ILE* 2.7 22.6 + - - -
266A ALA* 1.3 75.0 - - - +
268A LYS* 1.3 57.1 + - - -
270A ARG* 3.6 21.7 + - - +
271A LYS* 3.0 27.8 + - - +
210C C 5.4 1.2 + - - -
211C G 5.5 2.9 - - - -
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Residues in contact with LYS 268 (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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264A ILE* 3.2 35.8 + - + +
265A ALA* 3.6 10.3 - - - +
266A ALA 3.3 0.2 - - - -
267A SER* 1.3 75.2 - - - +
269A SER* 1.3 54.9 + - - +
271A LYS* 2.7 19.7 + - - +
272A ARG* 2.7 46.5 + - - +
306D A 4.9 22.3 + - - +
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Residues in contact with SER 269 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
265A ALA 3.0 14.6 + - - -
266A ALA* 3.7 7.9 - - - -
268A LYS* 1.3 79.8 - - - +
270A ARG* 1.3 63.3 + - - +
272A ARG* 3.2 4.4 + - - +
273A LYS* 3.0 22.7 + - - +
306D A 5.0 1.1 - - - -
307D T 3.4 60.2 + - - +
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Residues in contact with ARG 270 (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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263A ARG 4.9 0.4 + - - -
266A ALA* 3.0 28.3 + - - +
267A SER* 3.9 21.7 + - - +
269A SER* 1.3 75.7 - - - +
271A LYS* 1.3 62.0 + - - +
273A LYS* 3.5 10.6 + - + +
274A LEU* 3.2 28.9 + - + +
209C A 4.2 6.7 - - - +
210C C 3.1 84.1 + - - +
211C G 3.8 20.3 + - - -
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Residues in contact with LYS 271 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
267A SER 3.0 15.4 + - - +
268A LYS* 2.7 23.1 + - - +
270A ARG* 1.3 79.3 - - - +
272A ARG* 1.3 62.1 + - - +
274A LEU* 3.1 13.8 + - + +
275A GLU* 2.8 65.1 + - + +
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Residues in contact with ARG 272 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
268A LYS* 2.7 31.8 + - + +
269A SER 3.8 4.0 - - - +
271A LYS* 1.3 79.8 - - - +
273A LYS* 1.3 58.8 + - - +
275A GLU* 3.8 17.5 - - - +
276A ARG* 2.9 28.9 + - - +
279A ARG* 4.2 5.6 + - - +
306D A 5.2 3.3 - - - -
307D T 3.7 35.3 + - - -
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Residues in contact with LYS 273 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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269A SER 3.0 16.1 + - - +
270A ARG* 3.8 11.0 - - + +
271A LYS 3.3 0.2 - - - -
272A ARG* 1.3 75.1 - - - +
274A LEU* 1.3 66.0 + - + +
276A ARG* 3.7 18.6 - - - +
277A ILE* 3.0 36.7 + - + +
273B LYS* 3.2 41.7 - - - +
274B LEU* 5.2 10.3 - - - +
277B ILE* 4.0 17.3 - - - +
308D G 4.9 13.5 + - - +
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Residues in contact with LEU 274 (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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270A ARG* 3.2 17.8 + - + +
271A LYS* 3.1 15.0 + - + +
272A ARG 3.1 0.4 - - - -
273A LYS* 1.3 78.9 - - + +
275A GLU* 1.3 59.0 + - + +
277A ILE* 3.1 15.2 + - + +
278A ALA* 2.9 27.6 + - - +
273B LYS* 6.1 3.4 - - - +
209C A 4.4 21.1 - - - +
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Residues in contact with GLU 275 (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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271A LYS* 2.8 52.3 + - + +
272A ARG* 3.8 17.3 - - - +
274A LEU* 1.3 76.3 - - + +
276A ARG* 1.3 63.3 + - - +
278A ALA* 3.1 9.7 + - - +
279A ARG* 2.9 43.7 + - - +
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Residues in contact with ARG 276 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
272A ARG 2.9 19.0 + - - +
273A LYS* 3.7 19.0 - - - +
275A GLU* 1.3 77.2 - - - +
277A ILE* 1.3 74.6 + - - +
279A ARG* 3.1 25.9 + - - +
280A LEU* 3.1 30.8 + - + +
277B ILE* 3.8 23.8 - - - +
281B GLU* 2.4 32.9 + - - -
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Residues in contact with ILE 277 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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273A LYS* 3.0 27.2 + - + +
274A LEU* 3.6 13.2 - - + +
276A ARG* 1.3 85.6 - - - +
278A ALA* 1.3 63.7 + - - +
280A LEU* 3.2 9.2 + - + +
281A GLU* 3.0 40.3 + - - +
273B LYS* 4.0 17.3 - - - +
276B ARG* 4.4 17.7 - - - +
277B ILE* 3.3 37.7 - - + -
280B LEU* 4.2 11.9 - - + -
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Residues in contact with ALA 278 (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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274A LEU 2.9 13.5 + - - +
275A GLU* 3.1 12.5 + - - +
277A ILE* 1.3 78.7 - - - +
279A ARG* 1.3 56.7 + - - +
281A GLU* 3.2 11.0 + - - +
282A GLU* 2.9 29.3 + - - +
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Residues in contact with ARG 279 (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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272A ARG* 4.2 7.3 + - - +
275A GLU* 2.9 35.6 + - - +
276A ARG* 3.1 36.7 + - - +
278A ALA* 1.3 72.9 - - - +
280A LEU* 1.3 61.4 + - + +
282A GLU* 3.0 7.5 + - - +
283A LYS* 2.8 31.6 + - - +
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Residues in contact with LEU 280 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
276A ARG* 3.1 33.4 + - + +
277A ILE* 3.6 10.3 - - - +
279A ARG* 1.3 76.6 - - + +
281A GLU* 1.3 64.8 + - - +
283A LYS* 3.2 7.4 + - + +
284A VAL* 3.0 27.9 + - - +
277B ILE* 4.2 12.3 - - + -
280B LEU* 4.1 22.2 - - + -
281B GLU* 3.7 39.5 - - + +
284B VAL* 4.2 17.6 - - + +
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Residues in contact with GLU 281 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
277A ILE* 3.0 27.0 + - - +
278A ALA* 3.6 10.6 - - - +
279A ARG 3.1 0.2 - - - -
280A LEU* 1.3 78.5 - - - +
282A GLU* 1.3 61.6 + - - +
284A VAL* 3.4 8.3 + - + +
285A LYS* 3.2 20.4 + - - +
276B ARG* 3.1 26.9 + - - -
280B LEU* 3.4 27.1 - - + +
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Residues in contact with GLU 282 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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278A ALA 2.9 17.6 + - - +
279A ARG* 3.6 7.0 - - - +
281A GLU* 1.3 74.1 - - - +
283A LYS* 1.3 60.8 + - - +
285A LYS* 3.2 29.4 + - - +
286A THR* 2.9 43.3 + - + +
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Residues in contact with LYS 283 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
279A ARG 2.8 17.1 + - - +
280A LEU* 3.2 8.0 + - + +
282A GLU* 1.3 74.8 - - - +
284A VAL* 1.3 66.2 + - - +
286A THR* 2.9 10.5 + - - +
287A LEU* 2.8 61.6 + - + +
290A GLN* 5.9 2.2 - - - +
284B VAL* 4.2 15.0 - - + -
288B LYS* 4.0 19.4 - - - +
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Residues in contact with VAL 284 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
280A LEU 3.0 19.1 + - - +
281A GLU* 3.6 7.4 - - - +
282A GLU 3.3 0.2 - - - -
283A LYS* 1.3 75.9 - - - +
285A LYS* 1.3 63.7 + - - +
287A LEU* 4.7 0.7 - - - -
288A LYS* 3.0 51.8 + - + +
280B LEU* 4.1 23.3 - - + +
283B LYS* 4.0 18.2 - - + -
284B VAL* 3.7 20.4 - - + +
287B LEU* 3.9 15.2 - - + +
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Residues in contact with LYS 285 (chain A).
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----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
281A GLU 3.2 10.7 + - - +
282A GLU* 3.3 32.5 + - - +
283A LYS 3.1 0.4 - - - -
284A VAL* 1.3 82.8 - - - +
286A THR* 1.3 62.3 + - + +
288A LYS* 3.3 9.7 + - - +
289A ALA* 3.2 18.7 + - - +
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Residues in contact with THR 286 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
282A GLU* 2.9 35.0 + - + +
283A LYS* 2.9 28.2 + - - +
285A LYS* 1.3 73.3 - - + +
287A LEU* 1.3 67.7 + - - +
289A ALA* 3.0 8.9 + - - +
290A GLN* 2.9 31.8 + - - +
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Residues in contact with LEU 287 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
283A LYS* 2.8 62.7 + - + +
284A VAL* 4.0 3.1 - - - +
286A THR* 1.3 74.3 + - - +
288A LYS* 1.3 58.2 + - - +
290A GLN* 3.4 14.1 + - - +
291A ASN* 2.8 31.8 + - - +
284B VAL* 3.8 31.4 - - + +
287B LEU* 4.0 19.5 - - + +
288B LYS* 4.0 18.4 - - + -
291B ASN* 3.8 23.3 - - - +
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Residues in contact with LYS 288 (chain A).
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----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
284A VAL* 3.0 46.3 + - + +
285A LYS* 3.5 8.3 - - - +
286A THR 3.1 0.4 - - - -
287A LEU* 1.3 77.5 - - - +
289A ALA* 1.3 62.4 + - - +
291A ASN* 3.2 10.0 - - - +
292A SER* 3.1 21.5 + - - -
283B LYS* 4.2 18.5 - - - +
287B LEU* 3.9 15.0 - - + -
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Residues in contact with ALA 289 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
285A LYS 3.2 8.7 + - - +
286A THR* 3.0 12.9 + - - +
288A LYS* 1.3 76.0 - - - +
290A GLN* 1.3 67.5 + - + +
292A SER* 3.0 16.8 + - - -
293A GLU* 3.0 18.3 + - + +
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Residues in contact with GLN 290 (chain A).
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----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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283A LYS* 5.9 2.2 - - - +
286A THR* 2.9 18.8 + - - +
287A LEU* 3.7 17.3 - - - +
289A ALA* 1.3 75.7 - - - +
291A ASN* 1.3 65.7 + - - +
293A GLU* 3.0 10.6 + - - +
294A LEU* 2.9 32.0 + - + +
291B ASN* 2.8 32.7 + - - +
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Residues in contact with ASN 291 (chain A).
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----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
287A LEU 2.8 13.1 + - - +
288A LYS* 3.2 13.9 - - - +
290A GLN* 1.3 76.4 - - - +
292A SER* 1.3 57.6 + - - +
294A LEU* 3.5 0.8 + - - -
295A ALA* 2.9 29.6 + - - +
287B LEU* 3.7 19.1 + - - +
290B GLN* 3.2 29.2 + - - -
291B ASN* 2.4 51.6 + - - +
294B LEU* 3.6 19.1 - - - +
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Residues in contact with SER 292 (chain A).
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----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
288A LYS 3.1 9.0 + - - -
289A ALA* 3.0 12.6 + - - -
291A ASN* 1.3 76.6 - - - +
293A GLU* 1.3 69.2 + - - +
295A ALA* 3.0 7.3 + - - +
296A SER* 2.9 27.5 + - - -
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Residues in contact with GLU 293 (chain A).
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----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
289A ALA* 3.0 16.9 + - + +
290A GLN* 3.0 10.9 + - - +
292A SER* 1.3 80.6 - - - +
294A LEU* 1.3 59.9 + - + +
296A SER* 3.2 8.3 + - - -
297A THR* 2.7 36.6 + - - +
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Residues in contact with LEU 294 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
290A GLN* 2.9 23.3 + - + +
291A ASN* 3.9 1.8 - - - +
293A GLU* 1.3 78.2 - - + +
295A ALA* 1.3 62.4 + - - +
297A THR* 3.7 10.8 - - + +
298A ALA* 3.0 22.7 + - - +
291B ASN* 3.8 47.3 - - + +
294B LEU* 3.9 20.0 - - + +
295B ALA* 4.2 22.2 - - + -
298B ALA* 5.3 6.6 - - + +
302B ARG* 6.4 0.2 - - - +
----------------------------------------------------------
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Residues in contact with ALA 295 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
291A ASN 2.9 18.8 + - - +
292A SER* 3.0 8.5 + - - +
294A LEU* 1.3 77.0 - - - +
296A SER* 1.3 62.2 + - - +
298A ALA* 3.3 15.3 + - - +
299A ASN* 3.1 19.9 + - - +
302A ARG* 4.4 0.3 + - - -
294B LEU* 4.3 20.4 - - + +
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Residues in contact with SER 296 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
292A SER 2.9 17.1 + - - -
293A GLU* 3.2 14.6 + - - -
295A ALA* 1.3 73.2 - - - +
297A THR* 1.3 67.4 + - - +
299A ASN* 3.0 13.4 + - - +
300A MET* 2.9 34.2 + - - +
----------------------------------------------------------
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Residues in contact with THR 297 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
293A GLU* 2.7 26.2 + - - +
294A LEU* 3.7 12.1 - - + +
296A SER* 1.3 73.6 + - - +
298A ALA* 1.3 64.8 + - - +
300A MET* 3.0 14.4 + - + +
301A LEU* 2.9 37.0 + - + +
298B ALA* 4.8 5.6 - - + -
302B ARG* 4.1 15.0 - - - +
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Residues in contact with ALA 298 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
294A LEU 3.0 14.2 + - - +
295A ALA* 3.4 11.0 - - - +
296A SER 3.1 0.2 - - - -
297A THR* 1.3 79.4 - - - +
299A ASN* 1.3 57.0 + - - +
301A LEU* 2.8 12.6 + - - +
302A ARG* 2.8 52.0 + - - +
294B LEU* 5.3 5.2 - - + +
297B THR* 4.6 9.6 - - + -
298B ALA* 5.0 6.1 - - + -
301B LEU* 3.7 11.0 - - + +
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Residues in contact with ASN 299 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
295A ALA* 3.1 23.6 + - - +
296A SER* 3.0 11.0 + - - +
298A ALA* 1.3 71.9 - - - +
300A MET* 1.3 60.8 + - + +
302A ARG* 2.9 34.5 + - - +
303A GLU* 2.8 28.8 + - - +
----------------------------------------------------------
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Residues in contact with MET 300 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
296A SER* 2.9 27.4 + - - +
297A THR* 3.0 18.6 + - + +
299A ASN* 1.3 76.2 - - + +
301A LEU* 1.3 57.7 + - + +
303A GLU* 2.9 14.8 - - + +
304A GLN* 2.8 26.9 + - - +
----------------------------------------------------------
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Residues in contact with LEU 301 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
297A THR* 2.9 22.0 + - + +
298A ALA* 2.8 10.1 + - - +
300A MET* 1.3 76.9 - - + +
302A ARG* 1.3 58.9 + - - +
304A GLN* 3.6 31.6 - - - +
305A VAL* 2.8 26.9 + - - +
298B ALA* 3.9 14.4 - - + +
301B LEU* 4.1 14.5 - - + +
302B ARG* 3.7 60.3 - - + +
305B VAL* 4.5 3.9 - - + +
----------------------------------------------------------
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Residues in contact with ARG 302 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
295A ALA 4.4 0.2 + - - -
298A ALA* 2.8 26.7 + - - +
299A ASN* 2.9 53.9 + - + +
301A LEU* 1.3 73.7 - - - +
303A GLU* 1.3 57.3 + - - +
305A VAL* 3.0 15.9 - - + +
306A ALA* 2.7 34.9 + - - +
297B THR* 4.0 17.2 - - - +
301B LEU* 3.8 22.5 - - + +
----------------------------------------------------------
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Residues in contact with GLU 303 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
299A ASN 2.8 13.6 + - - +
300A MET* 2.9 22.6 - - + +
302A ARG* 1.3 75.8 - - - +
304A GLN* 1.3 56.2 + - - +
306A ALA* 2.9 11.9 + - - +
307A GLN* 2.9 65.5 + - - +
----------------------------------------------------------
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Residues in contact with GLN 304 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
300A MET* 2.8 16.2 + - - +
301A LEU* 3.6 23.2 - - - +
302A ARG 3.2 0.2 - - - -
303A GLU* 1.3 79.5 - - - +
305A VAL* 1.3 57.3 + - - +
307A GLN* 3.7 20.9 + - - +
308A LEU* 2.8 34.6 - - + +
305B VAL* 3.2 33.7 - - + +
309B LYS* 5.4 6.1 - - - +
----------------------------------------------------------
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Residues in contact with VAL 305 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
301A LEU 2.8 14.2 + - - +
302A ARG* 3.0 26.2 + - + +
304A GLN* 1.3 75.0 - - - +
306A ALA* 1.3 63.1 + - + +
308A LEU 3.7 2.9 + - - -
309A LYS* 3.8 12.1 - - - -
301B LEU* 4.4 8.7 - - + +
304B GLN* 3.7 49.6 - - + +
305B VAL* 4.1 7.0 - - + +
308B LEU* 3.2 41.0 - - + +
----------------------------------------------------------
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Residues in contact with ALA 306 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
302A ARG 2.7 11.9 + - - +
303A GLU* 3.2 15.5 - - - +
305A VAL* 1.3 77.9 - - + +
307A GLN* 1.3 54.4 + - - +
308A LEU 2.8 14.6 + - - -
309A LYS* 3.2 25.5 + - - +
----------------------------------------------------------
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Residues in contact with GLN 307 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
303A GLU* 2.9 49.1 + - - +
304A GLN* 3.8 22.6 - - - +
306A ALA* 1.3 75.4 - - - +
308A LEU* 1.3 64.0 + - + +
309A LYS 3.3 4.5 + - - -
----------------------------------------------------------
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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