Contacts of the helix formed by residues 311 - 339 (chain A) in PDB entry 3QER
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 311 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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306A ASP 6.0 0.4 - - - -
307A GLY* 5.7 0.4 - - - -
308A PRO* 3.0 29.4 + - + +
310A SER* 1.3 85.3 + - - +
312A LEU* 1.3 54.4 + - - +
313A ARG 3.4 2.2 - - - -
314A GLU* 3.2 25.0 - - + +
315A SER* 2.7 39.7 + - - +
820A ASP* 4.2 19.1 + - - -
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Residues in contact with LEU 312 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
305A TYR* 3.8 51.8 - - + -
306A ASP 4.4 8.1 - - - +
308A PRO 3.3 9.1 + - - +
309A ILE* 3.2 20.6 + - + +
311A LYS* 1.3 74.7 - - - +
313A ARG* 1.3 58.4 + - - +
315A SER* 3.6 4.0 - - - +
316A ASN* 2.7 57.6 + - + +
319A ARG* 4.7 5.4 - - + -
320A TYR* 3.9 31.6 - - + +
323A TYR* 4.9 8.7 - - + -
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Residues in contact with ARG 313 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118A THR* 3.6 19.2 + - + +
134A ASP* 3.3 34.5 + - - +
151A LEU 2.9 28.9 + - - -
152A LEU 3.2 22.8 + - - -
154A SER* 3.7 21.9 + - - -
156A TYR* 4.1 6.1 + - - +
157A GLY* 2.8 32.7 + - - +
159A VAL* 3.6 16.1 - - + +
309A ILE 4.4 1.0 + - - -
310A SER 5.3 0.4 - - - +
311A LYS 3.4 0.4 - - - -
312A LEU* 1.3 78.1 - - - +
314A GLU* 1.3 59.7 + - - +
317A HIS* 3.0 40.6 + - + +
320A TYR* 3.6 34.0 - - + -
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Residues in contact with GLU 314 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118A THR* 5.2 3.3 - - + +
156A TYR* 4.0 24.8 - - - +
157A GLY* 5.4 3.6 - - - -
159A VAL* 4.7 11.8 - - - +
310A SER 3.7 15.3 - - - +
311A LYS* 3.2 34.2 - - + +
313A ARG* 1.3 81.3 - - - +
315A SER* 1.3 62.2 + - - +
317A HIS* 4.9 0.7 + - - +
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Residues in contact with SER 315 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
306A ASP 4.8 6.2 + - - -
311A LYS* 2.7 26.7 + - - +
312A LEU* 3.5 10.0 + - - +
314A GLU* 1.3 80.4 - - - +
316A ASN* 1.3 66.3 + - - +
317A HIS 4.0 0.2 - - - -
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Residues in contact with ASN 316 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
312A LEU* 2.7 33.2 + - + +
315A SER* 1.3 77.1 + - - +
317A HIS* 1.3 65.2 + - - +
318A GLN* 3.5 11.4 - - - +
319A ARG* 3.1 39.1 + - - +
320A TYR 2.9 18.2 + - - -
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Residues in contact with HIS 317 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150A ASP* 2.8 44.0 + - - -
152A LEU* 4.0 1.1 - - + -
159A VAL* 3.5 30.8 - - + +
160A GLU 2.8 29.2 + - - +
161A GLU 4.4 0.8 - - - -
162A TRP* 3.9 10.4 + - + -
313A ARG* 3.0 34.5 + - + +
314A GLU 4.9 0.8 + - - +
315A SER 4.0 0.6 - - - -
316A ASN* 1.3 73.0 - - - +
318A GLN* 1.3 64.7 + - - +
320A TYR* 3.2 7.2 + + - +
321A ILE* 3.1 36.8 + - + +
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Residues in contact with GLN 318 (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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161A GLU 4.6 1.9 - - - +
162A TRP* 3.4 30.1 - - - +
163A SER* 2.8 50.5 + - - -
166A ILE* 3.9 23.9 - - + +
167A ALA 3.4 7.9 - - - +
176A ASP* 3.0 25.3 + - - +
316A ASN* 3.2 9.4 - - - +
317A HIS* 1.3 83.9 + - - +
319A ARG* 1.3 60.4 + - - +
322A SER* 3.2 19.2 + - - -
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Residues in contact with ARG 319 (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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171A GLN* 3.8 22.4 + - - +
174A GLY* 4.7 5.1 + - - -
175A GLY 2.8 29.1 + - - -
176A ASP* 3.2 19.1 + - - +
304A LYS* 3.1 35.1 + - - +
305A TYR* 4.1 14.2 - - + +
312A LEU* 4.7 3.6 - - + -
316A ASN* 3.1 30.9 + - + +
318A GLN* 1.3 78.0 - - - +
320A TYR* 1.3 57.0 + - - +
322A SER* 3.2 1.2 + - - -
323A TYR* 2.8 64.5 + - + +
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Residues in contact with TYR 320 (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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116A GLU* 3.2 30.2 + - + +
117A VAL 3.7 1.9 + - - -
118A THR* 3.2 18.4 + - - -
134A ASP* 2.6 32.3 + - - -
135A ALA* 4.5 4.7 - - + -
309A ILE* 4.1 23.5 - - + +
312A LEU* 3.9 21.9 - - + +
313A ARG* 3.6 47.3 - - + -
316A ASN 2.9 13.1 + - - +
317A HIS* 3.3 14.4 - + - +
319A ARG* 1.3 76.2 - - - +
321A ILE* 1.3 73.3 + - + +
323A TYR* 3.6 2.7 + - - +
324A ASN* 3.2 21.1 + - - +
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Residues in contact with ILE 321 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134A ASP 4.5 0.9 - - - +
135A ALA* 3.7 27.4 - - + -
148A VAL* 3.9 25.6 - - + -
149A PHE 5.3 0.4 - - - +
150A ASP* 3.3 28.0 - - + +
162A TRP* 3.5 34.1 - - + -
188A TYR* 4.7 1.6 - - + -
317A HIS* 3.1 31.7 + - + +
320A TYR* 1.3 80.7 - - + +
322A SER* 1.3 66.3 + - - +
323A TYR 3.2 0.2 - - - -
324A ASN* 3.2 6.3 + - + +
325A ILE* 3.0 25.2 + - + +
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Residues in contact with SER 322 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
162A TRP* 2.8 22.8 + - - +
167A ALA* 3.4 8.5 - - - +
176A ASP* 2.7 45.3 + - - -
178A VAL* 3.8 9.6 - - - +
318A GLN 3.2 2.0 + - - -
319A ARG 3.2 5.0 + - - -
321A ILE* 1.3 78.3 - - - +
323A TYR* 1.3 60.5 + - - +
325A ILE* 3.3 6.7 + - - +
326A ILE* 2.9 33.1 + - - +
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Residues in contact with TYR 323 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116A GLU* 5.0 0.4 - - - -
171A GLN* 3.0 31.0 + - - -
176A ASP* 4.3 10.1 - - + -
303A LEU* 3.5 47.9 - - + +
304A LYS 2.6 35.9 + - - -
305A TYR* 4.0 15.7 - + - -
312A LEU* 4.9 4.7 - - + -
319A ARG* 2.8 48.9 + - + +
320A TYR* 4.0 5.6 - - - +
322A SER* 1.3 74.5 - - - +
324A ASN* 1.3 60.1 + - - +
326A ILE* 4.1 6.4 - - + +
327A ALA* 3.0 30.8 + - - +
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Residues in contact with ASN 324 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114A ASP* 3.5 30.1 + - - +
115A ILE 4.1 0.2 - - - -
116A GLU* 3.1 41.4 + - + +
135A ALA* 3.9 9.8 - - + +
136A ILE 3.6 4.2 - - - -
137A THR* 2.7 31.6 + - - +
148A VAL* 5.1 1.9 - - - +
320A TYR 3.2 13.0 + - - +
321A ILE* 3.2 12.4 + - - +
323A TYR* 1.3 76.9 - - - +
325A ILE* 1.3 60.9 + - - +
327A ALA* 3.6 3.4 - - - +
328A VAL* 3.4 22.2 + - - +
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Residues in contact with ILE 325 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137A THR* 3.6 22.3 - - + +
146A PHE* 4.6 10.3 - - + -
148A VAL* 3.7 22.2 - - + -
162A TRP* 3.7 33.9 - - + -
178A VAL* 4.6 5.6 - - + -
182A ILE* 3.8 24.9 - - + -
186A ILE* 4.2 16.2 - - + -
321A ILE* 3.0 28.2 + - + +
322A SER* 3.5 7.2 - - - +
324A ASN* 1.3 72.7 - - - +
326A ILE* 1.3 67.2 + - + +
328A VAL* 3.2 6.9 + - - +
329A TYR* 3.1 18.2 + - - +
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Residues in contact with ILE 326 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
176A ASP 3.7 23.3 - - - +
177A GLU 4.1 3.8 - - - +
178A VAL* 3.9 25.6 - - + -
179A PRO* 4.1 18.2 - - + -
182A ILE* 5.4 0.4 - - + -
303A LEU* 4.1 16.6 - - + -
322A SER* 2.9 24.1 + - - +
323A TYR* 4.1 19.3 - - + +
324A ASN 3.5 0.2 - - - -
325A ILE* 1.3 72.3 - - - +
327A ALA* 1.3 56.7 + - - +
329A TYR* 3.2 10.2 + - + +
330A ARG* 2.8 53.6 + - + +
333A GLN* 5.7 0.4 - - - +
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Residues in contact with ALA 327 (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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114A ASP* 4.5 15.9 - - - +
116A GLU* 5.6 1.3 - - - +
290A LEU* 3.3 34.9 - - + +
303A LEU* 5.0 5.8 - - + +
323A TYR 3.0 19.3 + - - +
324A ASN* 3.6 8.1 - - - +
325A ILE 3.2 0.2 - - - -
326A ILE* 1.3 77.9 - - - +
328A VAL* 1.3 63.3 + - + +
330A ARG* 3.5 9.6 + - - +
331A VAL* 3.6 6.4 + - - +
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Residues in contact with VAL 328 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112A ASN* 3.5 29.2 - - + +
113A PHE 4.1 1.6 - - - -
114A ASP* 3.9 22.7 - - + +
137A THR* 3.5 32.3 - - + +
139A TYR* 3.9 17.5 - - + -
146A PHE* 4.2 8.3 - - + -
324A ASN 3.4 13.0 + - - +
325A ILE 3.2 8.9 + - - +
327A ALA* 1.3 74.9 - - - +
329A TYR* 1.3 64.3 + - - +
331A VAL* 3.3 17.0 + - - +
332A LEU* 3.5 12.2 + - + +
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Residues in contact with TYR 329 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146A PHE* 3.8 20.6 - + + -
179A PRO* 3.7 27.4 - - + -
181A GLU* 2.5 38.1 + - - +
182A ILE* 3.6 32.8 - - + -
325A ILE 3.1 11.9 + - - +
326A ILE* 3.5 9.9 - - + +
328A VAL* 1.3 77.5 - - - +
330A ARG* 1.3 56.2 + - - +
332A LEU* 3.1 14.8 + - + -
333A GLN* 2.9 64.5 + - + +
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Residues in contact with ARG 330 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
290A LEU* 4.5 8.0 - - + -
291A ASP* 3.5 18.4 + - - +
294A SER* 3.5 34.3 - - - +
298A LEU* 4.0 2.8 - - + +
300A VAL* 3.6 25.0 + - + +
301A GLY 2.6 30.1 + - - +
302A LYS* 4.6 0.2 - - - +
303A LEU* 3.4 38.7 - - - +
326A ILE* 2.8 35.0 + - + +
327A ALA* 3.8 8.5 - - - +
328A VAL 3.3 0.6 - - - -
329A TYR* 1.3 71.8 - - - +
331A VAL* 1.3 57.4 + - - +
333A GLN* 3.2 22.3 + - - +
334A ILE* 2.9 35.1 + - - +
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Residues in contact with VAL 331 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112A ASN* 3.7 18.2 - - + +
215A GLY* 4.4 7.0 - - - -
216A TRP* 4.1 21.5 - - + +
273A TYR* 3.7 38.5 - - + -
290A LEU* 4.0 21.3 - - + -
327A ALA 3.7 14.1 - - - +
328A VAL* 3.3 9.1 + - - +
329A TYR 3.2 0.6 - - - -
330A ARG* 1.3 73.6 - - - +
332A LEU* 1.3 60.8 + - - +
334A ILE* 3.3 8.4 + - - +
335A ASP* 2.9 27.3 + - + +
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Residues in contact with LEU 332 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112A ASN* 3.6 31.0 - - - +
139A TYR* 3.7 46.2 - - + -
146A PHE* 3.8 25.1 - - + -
328A VAL 3.5 10.9 + - - +
329A TYR* 3.1 15.3 + - + +
331A VAL* 1.3 76.5 - - - +
333A GLN* 1.3 58.1 + - - +
335A ASP* 3.3 7.6 + - + +
336A ALA* 2.9 30.0 + - - +
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Residues in contact with GLN 333 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
179A PRO* 5.4 2.2 - - - +
181A GLU* 4.4 2.9 - - - +
298A LEU* 3.7 29.1 - - + +
300A VAL* 5.5 8.0 - - - +
326A ILE* 5.7 0.8 - - - +
329A TYR* 2.9 56.7 + - + +
330A ARG* 3.2 35.2 + - - +
332A LEU* 1.3 72.7 - - - +
334A ILE* 1.3 66.4 + - - +
336A ALA* 3.4 8.2 + - - +
337A LYS* 3.3 16.8 + - - +
547A ARG* 5.1 1.6 + - - -
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Residues in contact with ILE 334 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
216A TRP* 5.0 4.7 - - + -
273A TYR* 3.8 22.9 - - + +
277A TYR* 4.6 7.4 - - + -
290A LEU* 4.1 15.7 - - + -
293A ILE* 4.1 18.4 - - + -
294A SER* 3.8 20.6 - - - +
297A GLU* 4.1 20.0 - - + -
298A LEU* 3.9 17.9 - - + -
330A ARG 2.9 21.8 + - - +
331A VAL* 3.6 7.0 - - + +
333A GLN* 1.3 76.2 - - - +
335A ASP* 1.3 57.4 + - - +
337A LYS* 3.2 5.2 + - - +
338A ARG* 2.8 38.8 + - + +
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Residues in contact with ASP 335 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
273A TYR* 2.8 30.5 + - + +
331A VAL* 2.9 17.3 + - + +
332A LEU* 3.8 8.7 - - + +
333A GLN 3.3 0.2 - - - -
334A ILE* 1.3 74.4 - - - +
336A ALA* 1.3 61.6 + - - +
339A GLN* 2.7 29.9 + - - +
340A PHE 3.0 6.3 + - - -
341A ILE* 3.0 46.3 + - + +
342A ASN 4.9 0.7 + - - -
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Residues in contact with ALA 336 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
332A LEU 2.9 17.4 + - - +
333A GLN* 3.6 9.2 - - - +
334A ILE 3.3 0.2 - - - -
335A ASP* 1.3 77.2 + - - +
337A LYS* 1.3 61.1 + - - +
339A GLN* 3.7 16.6 - - - +
547A ARG* 4.6 8.5 + - - +
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Residues in contact with LYS 337 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
296A PHE* 4.8 3.4 + - - -
297A GLU* 2.9 60.5 + - + +
298A LEU* 4.6 2.2 - - + -
333A GLN 3.3 8.3 + - - +
334A ILE* 3.2 7.5 + - - +
335A ASP 3.1 0.4 - - - -
336A ALA* 1.3 81.5 - - - +
338A ARG* 1.3 68.1 + - + +
339A GLN* 3.9 8.3 - - - +
547A ARG* 3.5 48.5 - - - +
550A VAL* 3.5 41.0 - - + +
551A ALA 4.5 3.1 + - - -
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Residues in contact with ARG 338 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
273A TYR* 4.1 2.0 - - - +
277A TYR* 4.6 1.2 - - + -
280A PHE 4.9 0.6 + - - -
281A SER* 3.3 33.0 + - - +
283A THR* 3.8 21.6 - - - +
296A PHE* 4.4 4.6 - - - -
297A GLU* 2.7 43.7 + - - +
334A ILE* 2.8 26.1 + - + +
337A LYS* 1.3 78.4 - - + +
339A GLN* 1.3 72.4 + - - +
340A PHE* 3.4 35.1 - - + -
550A VAL* 4.1 18.7 - - - +
551A ALA* 5.2 0.3 - - - -
553A MET* 5.6 7.7 - - - +
554A THR* 2.7 33.4 + - - +
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Residues in contact with GLN 339 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
335A ASP* 2.7 31.1 + - - +
336A ALA* 3.7 17.1 - - - +
337A LYS 3.9 3.0 - - - +
338A ARG* 1.3 76.5 - - - +
340A PHE* 1.3 58.5 + - - +
341A ILE 3.4 2.0 - - - -
342A ASN* 3.6 24.5 + - + +
343A LEU* 3.1 25.6 + - - +
547A ARG 5.4 0.2 - - - +
551A ALA* 3.4 35.8 + - - +
554A THR* 3.9 5.2 - - + +
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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