Contacts of the helix formed by residues 267 - 293 (chain E) in PDB entry 1K7L
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 GLU 267 (chain E).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
265E ASN 3.2 5.3 + - - -
266E LYS* 1.3 77.0 - - + +
268E ALA* 1.3 66.4 + - - +
269E GLU* 4.3 11.0 - - + +
270E VAL* 3.1 38.0 + - + +
271E ARG* 3.1 8.3 + - - +
348E ARG* 2.8 30.2 + - - +
451E GLU* 2.8 9.2 - - - +
453E ASP* 2.4 29.6 - - - +
469E YT3 2.6 9.7 - - - -
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Residues in contact with ALA 268 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
244E MET* 3.4 42.4 - - + -
247E LEU* 3.6 11.7 - - + -
266E LYS 3.3 1.8 + - - -
267E GLU* 1.3 72.1 - - - +
269E GLU* 1.3 55.2 + - - +
271E ARG* 2.7 44.7 + - - +
272E ILE* 2.7 23.9 + - + +
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Residues in contact with GLU 269 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
244E MET* 4.1 7.3 - - - +
267E GLU* 4.3 7.6 - - + +
268E ALA* 1.3 88.4 + - - +
270E VAL* 1.3 57.3 + - + +
272E ILE* 4.3 11.0 - - - +
273E PHE* 3.0 27.2 + - - +
347E LEU* 3.6 13.6 - - + +
348E ARG* 3.0 59.4 + - + +
351E PHE* 3.5 38.8 - - + -
501E 544 3.7 3.8 - - - -
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Residues in contact with VAL 270 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
263E ILE* 6.4 0.4 - - + -
266E LYS* 5.1 13.2 - - + -
267E GLU* 3.1 29.3 + - + +
268E ALA 3.0 0.8 - - - -
269E GLU* 1.3 77.6 - - + +
271E ARG* 1.3 62.8 + - + +
273E PHE* 3.4 8.8 + - - +
274E HIS* 3.0 25.4 + - + +
351E PHE* 4.9 1.3 - - + -
451E GLU* 3.2 39.5 - - + +
453E ASP* 3.8 28.3 - - + +
454E ALA* 3.9 9.6 - - + +
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Residues in contact with ARG 271 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
244E MET* 4.7 5.1 - - - -
247E LEU* 4.0 8.3 - - + +
248E CYS* 4.1 15.6 - - - -
251E GLU* 2.4 48.3 + - - +
258E LEU* 4.0 10.7 + - + +
263E ILE* 3.0 38.6 - - + +
264E GLN 3.2 22.5 + - - -
265E ASN* 5.2 4.2 + - - +
266E LYS* 2.8 18.2 + - + +
267E GLU 3.1 8.0 + - - +
268E ALA* 2.7 37.9 + - - +
270E VAL* 1.3 71.0 - - + +
272E ILE* 1.3 65.4 + - + +
274E HIS* 3.1 17.0 + - - +
275E CYS* 3.1 18.8 + - - -
501E 544 5.6 0.7 - - - -
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Residues in contact with ILE 272 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
247E LEU* 4.0 33.0 - - + -
268E ALA 2.7 19.3 + - - +
269E GLU 3.9 3.4 - - - +
271E ARG* 1.3 75.0 - - + +
273E PHE* 1.3 63.0 + - - +
275E CYS* 3.2 3.5 + - - +
276E CYS* 3.0 27.9 + - - -
339E ILE* 4.9 3.8 - - + -
343E PHE* 4.2 12.8 - - + -
344E LEU* 4.8 4.7 - - + -
347E LEU* 4.1 32.1 - - + -
501E 544 3.9 53.8 - - + +
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Residues in contact with PHE 273 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
269E GLU 3.0 19.2 + - - +
270E VAL* 3.5 9.9 - - - +
271E ARG 3.2 0.2 - - - -
272E ILE* 1.3 76.2 - - - +
274E HIS* 1.3 64.4 + - - +
276E CYS 3.5 0.2 + - - -
277E GLN* 3.4 38.0 + - - +
351E PHE* 3.9 19.3 - + + -
444E VAL* 4.8 13.7 - - + -
447E ILE* 3.8 26.2 - - + -
448E LYS* 6.1 1.3 - - + -
454E ALA* 3.9 22.2 - - + -
455E ALA 3.7 10.3 - - - -
456E LEU* 3.7 17.9 - - + -
501E 544 3.5 50.7 - + + +
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Residues in contact with HIS 274 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
257E LYS* 5.5 6.8 - - + +
258E LEU* 4.0 27.9 - - + +
263E ILE* 6.0 3.4 - - + +
270E VAL* 3.0 14.7 + - + +
271E ARG* 3.1 12.7 + - - +
273E PHE* 1.3 82.1 - - - +
275E CYS* 1.3 64.9 + - - +
277E GLN* 3.1 29.2 + - - +
278E CYS* 3.3 30.8 + - - -
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Residues in contact with CYS 275 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
255E VAL* 4.2 7.0 - - - -
258E LEU* 3.6 27.4 - - - -
271E ARG 3.1 9.2 + - - -
272E ILE 3.2 7.6 + - - +
274E HIS* 1.3 79.1 - - - +
276E CYS* 1.3 63.4 + - - +
278E CYS* 3.3 18.6 + - - +
279E THR* 3.4 15.4 + - - -
501E 544 3.4 53.8 + - + -
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Residues in contact with CYS 276 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
272E ILE* 3.0 20.0 + - - +
273E PHE 3.9 0.2 - - - +
274E HIS 3.2 0.2 - - - -
275E CYS* 1.3 76.7 - - - +
277E GLN* 1.3 62.8 + - - +
279E THR* 3.3 3.7 + - - -
280E SER* 3.1 17.1 + - - -
501E 544 3.1 112.3 - - + +
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Residues in contact with GLN 277 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
273E PHE* 3.4 17.3 + - + +
274E HIS* 3.1 21.5 + - - +
276E CYS* 1.3 75.8 - - - +
278E CYS* 1.3 60.0 + - - +
280E SER* 3.0 4.1 + - - -
281E VAL* 2.7 38.2 + - - +
455E ALA 2.4 31.7 - - - +
456E LEU* 2.9 10.2 - - + -
457E HIS* 3.0 38.4 + - - +
460E LEU* 3.9 15.5 - - + +
501E 544 3.8 15.4 - - + +
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Residues in contact with CYS 278 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
274E HIS* 3.3 38.9 + - - -
275E CYS* 3.6 11.7 - - - +
276E CYS 3.3 0.2 - - - -
277E GLN* 1.3 81.9 - - - +
279E THR* 1.3 63.6 + - - +
281E VAL* 3.1 8.3 + - - +
282E GLU* 2.9 31.2 + - - +
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Residues in contact with THR 279 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
275E CYS 3.4 10.3 + - - -
276E CYS 3.3 9.6 + - - -
277E GLN 3.2 0.2 - - - -
278E CYS* 1.3 78.1 - - - +
280E SER* 1.3 50.4 + - - +
282E GLU* 3.1 14.2 + - + +
283E THR* 2.7 49.8 + - - +
317E ILE* 5.9 1.6 - - + -
321E LEU* 4.9 10.5 - - + -
501E 544 3.9 32.6 + - + +
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Residues in contact with SER 280 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
276E CYS 3.1 12.4 + - - -
277E GLN 3.0 7.7 + - - -
279E THR* 1.3 74.7 - - - +
281E VAL* 1.3 67.5 + - - +
283E THR* 3.9 3.3 - - - -
284E VAL* 2.8 31.4 + - - +
314E TYR* 4.1 3.4 - - - -
317E ILE* 4.3 14.1 - - - +
460E LEU* 3.7 14.8 - - - -
501E 544 2.9 42.1 + - - +
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Residues in contact with VAL 281 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
277E GLN* 2.7 21.9 + - - +
278E CYS* 3.6 10.1 - - - +
280E SER* 1.3 71.4 - - - +
282E GLU* 1.3 59.7 + - + +
284E VAL* 3.5 2.6 + - - +
285E THR* 2.8 38.6 + - - +
457E HIS* 3.6 51.1 - - + +
459E LEU* 4.4 12.8 - - + +
460E LEU* 4.2 13.4 - - + +
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Residues in contact with GLU 282 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
219E ASN* 5.5 2.1 - - - +
278E CYS* 2.9 18.0 + - - +
279E THR* 3.2 15.4 + - + +
281E VAL* 1.3 77.5 - - + +
283E THR* 1.3 66.9 + - - +
285E THR* 3.0 9.9 + - - -
286E GLU* 2.9 40.1 + - + +
334E TYR* 2.9 39.5 + - - -
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Residues in contact with THR 283 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
218E PHE* 4.5 7.0 - - + -
279E THR* 2.7 37.2 + - - +
280E SER* 3.9 3.3 - - - -
282E GLU* 1.3 72.0 - - - +
284E VAL* 1.3 54.0 + - - +
286E GLU* 3.0 13.0 + - - +
287E LEU* 2.7 41.2 + - + +
317E ILE* 3.6 32.1 - - + +
320E MET* 4.0 23.1 - - + -
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Residues in contact with VAL 284 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
280E SER 2.8 28.2 + - - +
281E VAL 3.7 4.3 - - - +
283E THR* 1.3 71.8 - - - +
285E THR* 1.3 56.8 - - - +
287E LEU* 3.6 1.4 - - - +
288E THR* 2.8 40.2 + - - +
309E LEU* 6.0 1.1 - - + -
313E VAL* 3.4 41.2 - - + +
314E TYR* 5.6 0.4 - - + -
317E ILE* 4.1 8.1 - - + -
459E LEU* 4.0 22.7 - - + -
460E LEU* 4.2 8.7 - - + -
463E ILE* 4.0 19.5 - - + -
690F LEU* 5.1 5.6 - - + -
693F LEU* 5.0 2.2 - - + -
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Residues in contact with THR 285 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
281E VAL* 2.8 26.1 + - - +
282E GLU* 3.0 12.1 + - - -
284E VAL* 1.3 74.6 - - - +
286E GLU* 1.3 67.0 + - + +
288E THR* 3.3 8.2 + - - -
289E GLU* 3.3 25.2 + - + +
459E LEU* 4.6 1.2 - - - +
693F LEU* 4.5 29.8 - - + +
697F GLY 5.6 4.5 - - - +
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Residues in contact with GLU 286 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
217E ASN* 3.2 31.7 - - - +
218E PHE* 3.4 25.6 - - + -
219E ASN* 3.8 23.0 + - - +
282E GLU* 2.9 30.8 + - + +
283E THR* 3.7 15.7 + - - +
285E THR* 1.3 77.5 - - + +
287E LEU* 1.3 57.1 + - - +
289E GLU* 3.2 8.7 + - - +
290E PHE* 2.8 29.1 + - - +
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Residues in contact with LEU 287 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
218E PHE* 3.4 25.1 - - + -
283E THR* 2.7 22.8 + - + +
284E VAL* 3.6 5.4 - - - +
286E GLU* 1.3 74.7 - - - +
288E THR* 1.3 56.1 + - - +
290E PHE* 3.5 4.9 - - + +
291E ALA* 2.9 31.4 + - - +
309E LEU* 4.0 7.8 - - + +
313E VAL* 3.3 47.1 - - + +
316E ALA* 3.8 10.3 - - + -
317E ILE* 4.2 7.2 - - + -
320E MET* 3.6 18.4 - - + -
379E VAL* 4.0 18.8 - - + -
383E ILE* 4.2 11.7 - - + +
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Residues in contact with THR 288 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
284E VAL* 2.8 24.2 + - - +
285E THR* 3.6 8.8 - - - -
286E GLU 3.2 0.2 - - - -
287E LEU* 1.3 72.5 - - - +
289E GLU* 1.3 67.3 + - - +
291E ALA* 3.6 2.1 + - - +
292E LYS* 3.1 26.7 + - - +
309E LEU* 3.9 18.3 - - + +
690F LEU* 4.3 9.9 - - + +
693F LEU* 3.8 33.7 - - + +
694F LEU* 3.5 29.2 - - + +
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Residues in contact with GLU 289 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
217E ASN* 3.1 26.4 - - - +
285E THR* 3.3 13.3 + - + +
286E GLU* 3.2 8.7 + - - +
288E THR* 1.3 79.8 - - - +
290E PHE* 1.3 66.0 + - - +
292E LYS* 3.1 40.6 + - - +
293E ALA* 3.2 12.1 + - - +
693F LEU 4.3 3.1 - - - +
696F GLU 4.2 6.8 - - - +
697F GLY* 4.2 16.4 - - - -
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Residues in contact with PHE 290 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
210E ILE* 3.2 36.8 - - + -
213E ALA* 3.7 9.1 - - + +
214E TYR* 3.6 32.1 - + + -
217E ASN* 3.8 10.9 - - + -
218E PHE* 3.9 17.5 - + + -
286E GLU 2.8 17.5 + - - +
287E LEU* 3.5 3.6 - - + +
289E GLU* 1.3 77.5 - - - +
291E ALA* 1.3 63.4 + - - +
293E ALA* 3.0 18.0 + - - +
294E ILE* 3.4 21.9 + - + +
376E SER 3.7 19.3 - - - -
379E VAL* 3.8 27.4 - - + -
380E ALA* 4.2 8.1 - - + -
383E ILE* 4.3 10.5 - - + -
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Residues in contact with ALA 291 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
287E LEU 2.9 21.1 + - - +
288E THR 3.9 4.5 - - - +
290E PHE* 1.3 74.7 - - - +
292E LYS* 1.3 60.3 + - - +
294E ILE* 3.1 21.1 + - + +
297E PHE* 3.0 55.2 - - + +
309E LEU* 4.3 6.1 - - + -
383E ILE* 4.2 15.7 - - + -
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Residues in contact with LYS 292 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
288E THR* 3.1 17.5 + - - +
289E GLU* 3.1 26.8 + - - +
291E ALA* 1.3 76.3 - - - +
293E ALA* 1.3 58.3 + - - +
294E ILE 3.3 4.1 + - - +
297E PHE* 4.1 7.0 - - + -
298E ALA* 4.1 24.5 - - + +
305E GLN* 4.7 11.9 - - - +
693F LEU 2.7 23.9 + - - -
694F LEU* 2.8 46.0 + - + +
695F GLN 4.3 0.4 + - - -
696F GLU 2.7 25.6 + - - +
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Residues in contact with ALA 293 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
209E ARG* 3.0 44.5 + - - +
210E ILE* 5.5 0.6 - - - +
213E ALA* 3.6 23.7 - - + +
217E ASN* 4.8 3.1 - - - +
289E GLU 3.2 8.7 + - - +
290E PHE* 3.0 13.7 + - - +
292E LYS* 1.3 76.9 - - - +
294E ILE* 1.3 60.6 + - - +
295E PRO* 3.3 5.6 - - - +
----------------------------------------------------------
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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