Contacts of the helix formed by residues 299 - 329 (chain F) in PDB entry 2ZXX
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 THR 299 (chain F).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150B GLU* 3.4 20.3 + - - +
297F GLN* 3.4 24.3 + - + +
298F LEU* 1.3 75.3 - - - +
300F ALA* 1.3 67.6 + - - +
301F THR* 2.9 13.5 + - - -
302F CYS* 3.0 20.1 + - - -
303F LEU* 2.9 25.1 + - - +
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Residues in contact with ALA 300 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143B GLU* 4.3 3.4 - - - +
146B GLN* 3.7 19.3 - - + +
147B TYR* 3.5 34.1 - - + +
150B GLU* 3.1 17.4 + - - +
299F THR* 1.3 70.4 - - - +
301F THR* 1.3 62.9 + - - +
303F LEU* 3.3 11.9 - - - +
304F LEU* 3.1 26.2 + - - +
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Residues in contact with THR 301 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147B TYR* 3.4 33.6 + - + -
150B GLU* 2.6 30.6 + - - +
151B VAL* 5.0 2.0 - - + +
154B ARG* 5.5 8.4 + - - +
299F THR* 2.9 7.0 + - - -
300F ALA* 1.3 76.8 - - - +
302F CYS* 1.3 58.8 + - - +
304F LEU* 3.3 5.2 + - - +
305F GLN* 2.8 48.4 + - - +
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Residues in contact with CYS 302 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
288F LEU* 4.7 11.9 - - + -
297F GLN 4.5 4.9 - - - -
298F LEU* 4.1 10.3 - - - -
299F THR* 3.0 33.5 + - - -
301F THR* 1.3 71.1 - - - +
303F LEU* 1.3 60.0 + - - +
304F LEU 3.0 1.6 - - - -
305F GLN* 3.6 21.5 - - - +
306F ARG* 2.6 51.7 + - + +
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Residues in contact with LEU 303 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143B GLU* 3.7 24.5 - - - +
210F PHE* 5.6 0.2 - - - -
211F ARG* 5.6 1.1 - - - +
214F ASP* 4.0 24.3 - - + +
215F THR* 4.4 16.2 - - + +
218F SER* 3.7 30.1 - - - +
298F LEU* 3.9 11.2 - - + +
299F THR 2.9 17.5 + - - +
300F ALA* 3.3 11.7 - - - +
302F CYS* 1.3 75.4 - - - +
304F LEU* 1.3 58.2 + - + +
306F ARG* 3.9 4.0 - - - +
307F ARG* 3.2 35.7 + - + +
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Residues in contact with LEU 304 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143B GLU* 4.5 21.3 - - + +
144B HIS* 3.6 46.2 - - + +
147B TYR* 4.3 26.5 - - + -
300F ALA 3.1 14.5 + - - +
301F THR* 3.4 11.7 - - - +
302F CYS 3.0 0.4 - - - -
303F LEU* 1.3 78.6 - - + +
305F GLN* 1.3 59.5 + - + +
307F ARG* 3.2 21.0 - - + +
308F GLN* 2.9 48.3 + - + +
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Residues in contact with GLN 305 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147B TYR* 5.9 1.3 - - + -
301F THR* 2.8 36.5 - - + +
302F CYS* 2.9 25.2 + - + +
304F LEU* 1.3 72.1 - - + +
306F ARG* 1.3 68.7 + - - +
307F ARG 3.0 1.3 - - - -
308F GLN* 3.0 15.4 + - - +
309F VAL* 2.9 32.7 + - + +
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Residues in contact with ARG 306 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
210F PHE* 4.0 11.5 - - + -
214F ASP* 3.1 35.3 + - - +
256F TYR* 3.7 22.3 + - - +
259F SER* 2.8 39.2 + - - +
260F TYR* 3.3 17.8 - - - -
286F PRO* 4.3 7.9 - - - +
287F LEU 3.3 25.3 + - - +
288F LEU* 4.4 3.0 - - - +
298F LEU* 3.7 24.2 - - - +
302F CYS* 2.6 35.9 + - + +
303F LEU 3.9 3.4 - - - +
305F GLN* 1.3 74.4 - - + +
307F ARG* 1.3 62.3 + - - +
309F VAL* 3.2 2.4 + - - +
310F PHE* 2.9 23.9 + - - +
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Residues in contact with ARG 307 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140B GLU* 3.6 28.5 + - - +
143B GLU* 2.3 48.9 + - - +
144B HIS* 4.7 7.7 + - - -
207F VAL* 5.9 7.0 - - + +
210F PHE* 4.2 12.3 - - + -
211F ARG* 3.6 44.8 + - + +
303F LEU* 3.2 25.4 + - + +
304F LEU* 3.2 22.6 - - + +
305F GLN 3.0 0.6 - - - -
306F ARG* 1.3 77.5 - - - +
308F GLN* 1.3 62.6 + - - +
310F PHE* 3.1 4.7 + - - +
311F ARG* 3.0 22.5 + - - +
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Residues in contact with GLN 308 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
304F LEU* 2.9 34.2 + - + +
305F GLN* 3.0 12.2 + - - +
307F ARG* 1.3 73.9 - - + +
309F VAL* 1.3 54.9 + - + +
311F ARG* 3.3 5.0 + - - +
312F GLN* 2.7 48.8 + - + +
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Residues in contact with VAL 309 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
256F TYR* 3.7 33.2 - - + +
305F GLN* 2.9 27.2 + - + +
306F ARG 3.6 4.7 - - - +
308F GLN* 1.3 77.6 - - + +
310F PHE* 1.3 58.0 + - - +
312F GLN* 3.2 5.9 + - - +
313F ASN* 2.9 45.4 + - - +
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Residues in contact with PHE 310 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
206F LEU* 3.6 31.2 - - + -
207F VAL* 3.7 15.5 - - + -
210F PHE* 3.7 44.9 - + + -
252F ILE* 4.0 22.0 - - + -
255F VAL* 3.3 35.2 - - + +
256F TYR* 4.0 16.6 - - + -
306F ARG 2.9 13.0 + - - +
307F ARG* 3.1 8.2 + - + +
309F VAL* 1.3 74.3 - - - +
311F ARG* 1.3 71.1 - - - +
313F ASN* 3.4 4.2 + - - +
314F LEU* 3.4 35.5 + - + +
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Residues in contact with ARG 311 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
196F GLY 4.8 2.0 + - - -
197F LEU* 2.6 40.4 + - - +
198F VAL* 4.4 1.8 - - - +
199F LEU* 3.0 31.7 - - + +
207F VAL* 4.9 14.8 - - + +
307F ARG 3.0 12.4 + - - +
308F GLN* 3.4 10.3 - - - +
310F PHE* 1.3 77.8 - - - +
312F GLN* 1.3 77.0 + - - +
314F LEU* 2.8 20.3 + - - +
315F VAL* 2.9 29.5 + - + +
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Residues in contact with GLN 312 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
197F LEU* 5.6 1.7 - - - +
308F GLN* 2.7 45.2 + - - +
309F VAL* 3.7 8.1 - - + +
311F ARG* 1.3 87.4 + - - +
313F ASN* 1.3 62.0 + - - +
315F VAL* 3.4 22.1 - - + +
316F GLU* 2.8 40.7 + - - +
319F LYS* 5.8 0.3 + - - -
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Residues in contact with ASN 313 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
255F VAL* 3.1 31.4 - - + +
256F TYR* 4.3 9.0 - - - +
257F PRO* 5.5 1.0 - - - +
309F VAL* 2.9 41.7 + - - +
310F PHE* 4.0 4.4 - - - +
311F ARG 3.0 0.4 + - - -
312F GLN* 1.3 77.1 - - - +
314F LEU* 1.3 59.3 + - - +
316F GLU* 3.7 7.0 + - - +
317F ARG* 3.2 35.4 + - - +
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Residues in contact with LEU 314 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
199F LEU* 3.4 28.0 - - + -
203F TYR* 3.7 32.1 - - + +
206F LEU* 4.7 4.0 - - + -
207F VAL* 3.9 4.5 - - + -
255F VAL* 3.7 25.8 - - + -
310F PHE* 3.4 44.7 + - + +
311F ARG 2.8 7.2 + - - +
313F ASN* 1.3 76.2 - - - +
315F VAL* 1.3 66.4 + - - +
316F GLU 3.1 1.1 - - - -
317F ARG* 2.8 23.9 + - - +
318F VAL* 3.0 17.7 + - - +
355F ILE* 5.0 2.9 - - + -
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Residues in contact with VAL 315 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
197F LEU* 4.2 25.4 - - + +
199F LEU* 4.7 6.8 - - + +
311F ARG* 2.9 57.7 + - + +
312F GLN* 3.4 22.0 - - + +
314F LEU* 1.3 73.8 - - - +
316F GLU* 1.3 59.6 - - - +
318F VAL* 3.1 10.1 + - - +
319F LYS* 2.9 42.9 + - + +
343F TRP* 4.2 8.6 - - + -
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Residues in contact with GLU 316 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
312F GLN* 2.8 27.3 + - - +
313F ASN* 3.9 7.6 - - - +
315F VAL* 1.3 71.7 - - - +
317F ARG* 1.3 67.2 + - - +
319F LYS* 3.4 29.3 + - - +
320F GLU* 3.1 25.1 + - - +
337F ASP* 4.0 20.3 - - - +
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Residues in contact with ARG 317 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
203F TYR* 4.0 21.1 - - + +
254F THR* 4.0 27.3 + - - +
255F VAL* 3.7 38.3 + - - +
313F ASN* 3.2 23.9 + - - +
314F LEU* 2.8 23.2 + - - +
316F GLU* 1.3 75.8 - - - +
318F VAL* 1.3 62.1 + - - +
320F GLU* 3.2 22.0 - - - +
321F GLN* 3.5 10.9 + - - +
353F PRO* 6.6 0.2 - - + -
355F ILE* 4.4 14.2 - - + +
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Residues in contact with VAL 318 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
198F VAL 5.0 2.2 - - - +
199F LEU* 5.0 3.6 - - - -
200F PRO* 3.9 16.8 - - + -
203F TYR* 3.8 25.8 - - + -
314F LEU 3.0 16.5 + - - +
315F VAL* 3.1 9.2 + - - +
317F ARG* 1.3 73.0 - - - +
319F LYS* 1.3 67.7 + - - +
320F GLU 2.8 2.7 + - - -
321F GLN* 2.8 19.2 + - - +
322F HIS* 2.8 10.4 + - - +
343F TRP* 3.3 37.9 - - + -
347F PHE* 4.1 14.8 - - + -
349F VAL* 5.5 2.0 - - + -
352F VAL* 4.9 9.4 - - + -
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Residues in contact with LYS 319 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
197F LEU* 4.5 12.2 - - - +
312F GLN* 5.8 0.6 + - - -
315F VAL* 2.9 31.1 + - + +
316F GLU* 3.4 34.8 + - - +
318F VAL* 1.3 74.4 - - - +
320F GLU* 1.3 56.3 - - - +
322F HIS* 3.1 10.1 - - - +
323F LYS* 2.9 29.5 + - - +
337F ASP* 2.9 53.5 + - + +
338F ASP* 5.1 2.6 + - - +
340F LEU* 4.3 27.1 + - + +
343F TRP* 3.9 6.4 - - + -
----------------------------------------------------------
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Residues in contact with GLU 320 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
316F GLU* 3.1 11.9 + - - +
317F ARG* 3.2 15.5 - - - +
318F VAL 2.8 4.6 + - - -
319F LYS* 1.3 75.9 - - - +
321F GLN* 1.3 67.3 + - + +
323F LYS* 3.1 24.3 + - + +
324F VAL* 3.3 15.9 + - + +
337F ASP* 5.9 2.0 - - - -
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Residues in contact with GLN 321 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
317F ARG 3.5 9.3 + - - +
318F VAL 2.8 9.8 + - - +
320F GLU* 1.3 77.5 - - - +
322F HIS* 1.3 66.8 + - - +
324F VAL* 3.2 19.5 + - - +
325F PHE* 3.1 21.0 + - - +
347F PHE* 3.8 14.8 - - + -
351F GLU* 5.3 8.4 + - - +
352F VAL* 4.0 22.4 - - + -
353F PRO* 4.1 25.1 - - + +
----------------------------------------------------------
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Residues in contact with HIS 322 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
85E LEU* 4.7 1.8 - - + -
318F VAL 2.8 10.8 + - - +
319F LYS* 3.1 15.3 - - - +
321F GLN* 1.3 76.9 - - - +
323F LYS* 1.3 64.5 + - - +
325F PHE* 2.8 14.7 + - - +
326F LEU* 2.9 42.4 + - + +
340F LEU* 3.3 34.5 - - + +
342F ARG 4.4 0.2 - - - -
343F TRP* 3.5 13.4 - + + -
344F HIS* 2.9 33.6 + - - +
347F PHE* 3.5 42.2 - + + -
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Residues in contact with LYS 323 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
319F LYS 2.9 15.2 + - - +
320F GLU* 3.3 14.8 - - + +
322F HIS* 1.3 73.7 + - - +
324F VAL* 1.3 59.2 + - + +
326F LEU* 3.3 11.1 + - - +
327F ALA* 2.8 27.4 + - + +
333F MSE 4.8 0.5 - - - +
334F ALA* 6.2 7.9 - - + -
335F VAL 6.0 1.3 - - - +
337F ASP* 4.3 25.7 + - - +
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Residues in contact with VAL 324 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
320F GLU* 3.4 19.7 - - + +
321F GLN* 3.2 20.8 + - - +
322F HIS 3.1 0.4 - - - -
323F LYS* 1.3 78.5 - - + +
325F PHE* 1.3 59.7 + - - +
327F ALA* 3.0 25.2 - - + +
328F SER* 3.3 9.2 + - - -
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Residues in contact with PHE 325 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
321F GLN 3.1 10.9 + - - +
322F HIS* 2.8 8.4 + + - +
324F VAL* 1.3 73.5 - - - +
326F LEU* 1.3 68.3 + - + +
327F ALA 3.1 1.8 - - - -
328F SER* 2.4 42.2 + - - -
329F LEU* 3.3 35.6 + - + +
344F HIS* 3.5 26.7 - + + -
346F ARG* 3.4 27.8 - - + -
347F PHE* 3.7 38.4 - + + -
----------------------------------------------------------
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Residues in contact with LEU 326 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
85E LEU* 4.8 6.7 - - + -
322F HIS* 2.9 43.8 + - + +
323F LYS* 3.5 12.1 - - - +
325F PHE* 1.3 92.0 - - + +
327F ALA* 1.3 61.5 + - - +
328F SER 3.3 0.3 + - - -
329F LEU* 3.7 19.7 + - + +
333F MSE 3.0 52.7 + - + +
334F ALA* 5.0 0.4 - - - -
335F VAL* 3.8 32.3 - - + +
344F HIS* 3.9 13.9 - - + -
----------------------------------------------------------
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Residues in contact with ALA 327 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
323F LYS* 2.8 13.5 + - + +
324F VAL* 3.0 21.1 - - + +
325F PHE 3.1 0.2 - - - -
326F LEU* 1.3 77.5 - - - +
328F SER* 1.3 58.2 + - - +
332F PRO* 4.1 20.6 - - - +
333F MSE 3.8 6.0 + - - +
----------------------------------------------------------
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Residues in contact with SER 328 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
324F VAL 3.3 6.7 + - - -
325F PHE* 2.4 49.1 + - - -
327F ALA* 1.3 72.9 - - - +
329F LEU* 1.3 66.5 + - - +
330F ASN* 3.7 1.4 + - - +
----------------------------------------------------------
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Residues in contact with LEU 329 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79E THR* 4.7 7.9 - - + -
325F PHE* 3.5 42.2 - - + +
326F LEU* 4.0 34.1 - - + +
327F ALA 3.6 1.0 - - - -
328F SER* 1.3 82.0 + - - +
330F ASN* 1.3 68.6 + - - +
331F PRO* 3.1 7.8 - - + +
332F PRO* 3.1 18.9 - - - +
333F MSE 4.3 13.9 - - - -
344F HIS* 4.1 16.6 - - + +
346F ARG* 3.7 25.1 - - - +
----------------------------------------------------------
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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