Contacts of the helix formed by residues 235 - 273 (chain A) in PDB entry 1JQI
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 MET 235 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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106A PHE* 3.6 37.7 - - + -
231A GLY* 4.3 4.3 - - - -
232A GLU* 3.0 47.6 + - + +
233A PRO 3.2 1.2 + - - +
234A GLY* 1.3 76.7 - - - +
236A GLY* 1.3 64.1 + - - +
237A PHE 3.4 2.2 + - - -
238A LYS* 3.4 25.9 + - + +
239A ILE* 3.1 38.4 + - + +
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Residues in contact with GLY 236 (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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174A PHE* 3.3 18.3 - - - -
186A ILE* 2.6 34.7 + - - -
187A SER* 3.8 15.1 - - - +
188A ALA 4.0 4.0 - - - +
232A GLU 4.6 0.2 + - - -
234A GLY 3.2 0.2 - - - -
235A MET* 1.3 71.5 - - - +
237A PHE* 1.3 60.8 + - - +
239A ILE* 3.3 3.8 + - - -
240A ALA* 3.1 19.2 + - - +
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Residues in contact with PHE 237 (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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130A LEU* 6.3 1.6 - - + -
139A ALA* 4.0 13.9 - - + -
140A GLY* 3.7 35.7 - - - -
183A ASN* 3.3 26.9 - - + +
186A ILE* 4.1 13.5 + - + +
234A GLY 4.7 3.2 + - - +
235A MET 3.4 0.6 - - - -
236A GLY* 1.3 75.1 - - - +
238A LYS* 1.3 58.2 + - - +
240A ALA* 3.3 5.8 + - + +
241A MET* 3.0 61.1 + - + +
400A CAA 3.1 74.3 - + - -
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Residues in contact with LYS 238 (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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106A PHE* 5.5 2.9 - - + -
235A MET* 3.4 26.9 + - + +
236A GLY 3.4 0.4 - - - -
237A PHE* 1.3 82.1 - - - +
239A ILE* 1.3 58.6 + - + +
241A MET* 3.5 5.4 + - - +
242A GLN* 3.0 62.4 + - - +
400A CAA 4.1 24.7 - - + +
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Residues in contact with ILE 239 (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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102A PRO* 4.0 9.9 - - + -
106A PHE* 3.7 51.7 - - + -
174A PHE* 4.2 13.7 - - + -
188A ALA* 4.2 11.9 - - + -
230A LEU* 3.6 30.5 - - + +
235A MET* 3.1 33.2 + - + +
236A GLY 3.6 6.5 - - - +
238A LYS* 1.3 75.4 - - - +
240A ALA* 1.3 57.5 + - - +
242A GLN* 4.0 0.9 - - - +
243A THR* 2.6 43.9 + - - +
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Residues in contact with ALA 240 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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128A PHE* 4.3 2.6 - - + -
130A LEU* 4.1 27.1 - - + -
174A PHE* 3.6 26.0 - - + -
236A GLY 3.1 16.2 + - - +
237A PHE* 3.7 7.4 - - + +
239A ILE* 1.3 77.5 - - - +
241A MET* 1.3 62.4 + - + +
243A THR* 3.3 4.1 + - - -
244A LEU* 2.8 36.1 + - - +
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Residues in contact with MET 241 (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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130A LEU* 4.9 0.2 - - + -
139A ALA* 4.2 8.7 - - + -
237A PHE* 3.0 55.0 + - + +
238A LYS 3.7 3.1 - - - +
240A ALA* 1.3 80.8 - - + +
242A GLN* 1.3 65.5 + - - +
244A LEU* 3.1 22.5 + - + +
245A ASP* 3.0 24.9 + - - +
248A ARG* 5.4 2.8 + - - -
400A CAA 3.5 83.1 + - + +
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Residues in contact with GLN 242 (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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105A LYS* 3.7 25.1 + - + +
106A PHE* 2.9 41.6 - - + -
238A LYS* 3.0 40.2 + - - +
239A ILE 4.3 1.8 - - - +
241A MET* 1.3 74.9 - - - +
243A THR* 1.3 61.9 + - - +
245A ASP* 3.3 24.7 + - - +
246A MET* 3.5 14.8 + - - +
317A PHE* 5.1 1.0 - - - -
400A CAA 3.4 22.2 + - + +
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Residues in contact with THR 243 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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97A SER 3.7 19.4 - - - +
98A LEU* 4.0 12.8 - - + +
102A PRO* 3.2 30.4 - - + +
106A PHE* 4.6 2.1 - - - -
128A PHE* 3.7 27.8 - - + -
239A ILE* 2.6 25.8 + - - +
240A ALA 3.5 4.7 - - - -
242A GLN* 1.3 78.8 - - - +
244A LEU* 1.3 57.4 + - - +
246A MET* 3.1 16.1 + - - +
247A GLY* 3.0 22.2 + - - -
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Residues in contact with LEU 244 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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98A LEU* 5.0 3.6 - - + -
128A PHE* 4.2 13.2 - - + -
130A LEU* 4.2 7.6 - - + -
240A ALA 2.8 23.9 + - - +
241A MET* 3.1 26.7 + - + +
243A THR* 1.3 75.5 - - - +
245A ASP* 1.3 59.3 + - - +
247A GLY* 4.2 2.2 - - - +
248A ARG* 2.8 53.4 + - - +
368A GLU* 4.5 16.4 - - + +
400A CAA 3.2 61.9 - - - +
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Residues in contact with ASP 245 (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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241A MET 3.0 15.1 + - - +
242A GLN* 3.5 14.3 - - - +
243A THR 3.2 0.4 - - - -
244A LEU* 1.3 76.8 - - - +
246A MET* 1.3 61.3 + - - +
248A ARG* 3.8 13.0 + - - +
249A ILE* 3.7 2.9 - - - +
317A PHE* 3.6 27.0 - - + -
318A THR* 3.0 38.7 + - - +
321A SER* 2.6 30.2 + - - +
400A CAA 2.7 26.0 + - - -
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Residues in contact with MET 246 (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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59A ASP* 5.4 1.1 - - - +
71A TYR* 3.6 32.0 - - + +
97A SER* 3.7 7.8 + - - +
101A GLY* 4.0 35.7 - - - +
102A PRO* 4.3 1.1 - - + -
105A LYS* 4.9 18.6 - - + +
106A PHE* 6.0 0.7 - - + -
242A GLN 3.5 8.7 + - - +
243A THR* 3.1 26.4 + - - +
244A LEU 3.1 0.4 - - - -
245A ASP* 1.3 76.3 - - - +
247A GLY* 1.3 65.3 + - - +
249A ILE* 3.2 19.9 + - - +
250A GLY 3.5 3.3 + - - -
311A LYS* 4.1 25.6 - - - -
317A PHE* 4.1 19.3 - - + -
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Residues in contact with GLY 247 (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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93A SER* 4.4 1.9 + - - -
97A SER* 3.5 20.1 - - - -
98A LEU* 3.8 9.9 - - - -
243A THR 3.0 10.5 + - - -
244A LEU 3.3 1.5 + - - -
246A MET* 1.3 78.3 - - - +
248A ARG* 1.3 56.6 + - - +
250A GLY* 2.8 18.9 + - - -
251A ILE* 2.9 11.4 + - - +
368A GLU* 3.0 21.1 - - - +
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Residues in contact with ARG 248 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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241A MET* 5.4 2.6 + - - -
244A LEU* 2.8 33.8 + - + +
245A ASP* 4.1 16.4 + - - +
246A MET 3.3 0.2 - - - -
247A GLY* 1.3 75.9 - - - +
249A ILE* 1.3 61.9 + - - +
251A ILE* 4.4 1.8 - - - +
252A ALA* 3.0 23.4 + - - +
318A THR* 5.3 1.4 + - - +
321A SER* 3.3 17.3 - - - +
322A ALA* 4.9 4.6 - - - +
325A LYS* 3.7 26.4 + - + +
368A GLU* 2.9 28.3 + - + +
373A ILE* 4.2 5.6 - - - +
374A GLN* 3.2 28.8 + - - +
377A VAL* 4.3 18.4 - - - +
400A CAA 3.1 47.9 + - - -
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Residues in contact with ILE 249 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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71A TYR* 4.2 23.6 - - + -
74A TYR* 5.3 2.0 - - + -
75A SER* 4.8 4.3 - - - -
245A ASP 3.7 2.5 - - - +
246A MET 3.4 7.4 - - - +
247A GLY 3.1 0.8 - - - -
248A ARG* 1.3 77.1 - - - +
250A GLY* 1.3 61.0 + - - +
252A ALA* 3.4 6.8 + - - +
253A SER* 3.0 30.5 + - - +
304A THR* 4.2 14.2 - - + +
307A ALA* 3.6 39.7 - - + +
308A ALA* 3.8 20.0 - - + +
311A LYS* 4.5 2.0 - - + -
317A PHE* 4.0 22.4 - - + -
321A SER* 3.5 16.8 - - - +
324A ALA* 5.7 1.6 - - + -
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Residues in contact with GLY 250 (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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74A TYR* 4.0 11.9 - - - -
78A LEU* 3.1 30.0 - - - +
93A SER* 3.6 11.4 - - - -
246A MET 3.5 2.8 + - - -
247A GLY 2.8 11.3 + - - -
249A ILE* 1.3 78.3 - - - +
251A ILE* 1.3 58.5 + - - -
253A SER* 3.3 1.9 + - - -
254A GLN* 3.0 23.4 + - - +
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Residues in contact with ILE 251 (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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90A VAL* 4.3 12.1 - - + -
93A SER* 4.4 7.0 - - - +
247A GLY 2.9 6.2 + - - +
248A ARG 4.0 5.2 - - - +
249A ILE 3.4 0.2 - - - -
250A GLY* 1.3 74.6 - - - +
252A ALA* 1.3 66.0 + - - +
254A GLN* 3.3 11.3 + - + +
255A ALA* 3.0 21.1 + - - +
325A LYS* 4.0 24.2 - - + -
329A SER* 5.8 0.9 - - - -
364A THR* 4.3 10.8 - - - +
367A TYR* 3.7 41.5 - - + +
368A GLU* 3.3 45.3 - - + +
400A CAA 5.1 0.2 - - + -
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Residues in contact with ALA 252 (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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248A ARG 3.0 18.3 + - - +
249A ILE 3.6 6.3 - - - +
250A GLY 3.3 0.2 - - - -
251A ILE* 1.3 77.7 - - - +
253A SER* 1.3 57.9 + - - +
255A ALA* 3.1 5.7 + - - +
256A LEU* 3.0 31.8 + - - +
304A THR* 3.6 20.2 - - + +
324A ALA* 3.6 28.7 - - + +
325A LYS* 3.7 4.9 - - - +
328A ALA* 3.5 9.8 - - + +
329A SER* 6.5 0.2 - - - -
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Residues in contact with SER 253 (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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75A SER* 2.7 46.2 + - - -
78A LEU* 3.9 14.6 - - - -
79A GLU* 3.5 13.9 - - - +
249A ILE 3.0 15.3 + - - -
250A GLY* 3.4 9.8 - - - -
252A ALA* 1.3 74.7 - - - +
254A GLN* 1.3 64.9 + - - +
256A LEU* 3.3 12.8 + - - +
257A GLY 3.2 16.5 + - - -
304A THR* 3.6 2.3 - - - +
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Residues in contact with GLN 254 (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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78A LEU* 4.4 4.4 - - + +
82A SER* 3.2 29.7 - - - +
86A ALA* 2.8 33.1 + - - +
89A GLY 5.3 2.5 - - - -
90A VAL* 3.6 15.5 - - - +
93A SER* 6.0 0.7 - - - -
209A ILE* 4.1 6.7 - - - +
250A GLY 3.0 12.6 + - - +
251A ILE* 3.3 13.2 + - + +
253A SER* 1.3 74.1 - - - +
255A ALA* 1.3 63.5 + - - +
257A GLY 3.1 2.1 + - - -
258A ILE* 3.1 30.7 + - + +
363A ILE* 5.5 0.2 - - - -
364A THR* 3.7 14.9 - - - +
367A TYR* 2.5 33.9 + - - -
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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
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251A ILE 3.0 13.2 + - - +
252A ALA* 3.3 10.1 - - - +
254A GLN* 1.3 74.2 - - - +
256A LEU* 1.3 66.0 + - - +
258A ILE* 3.2 6.2 + - - +
259A ALA* 2.9 24.5 + - - +
328A ALA* 3.6 31.4 - - + +
329A SER* 3.8 9.6 - - - +
332A ALA* 3.8 11.1 - - + +
364A THR* 4.4 12.1 - - + -
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Residues in contact with LEU 256 (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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75A SER* 5.1 2.9 - - - +
79A GLU* 4.0 22.3 - - + +
252A ALA 3.0 18.0 + - - +
253A SER* 3.3 10.3 + - - +
255A ALA* 1.3 75.0 - - - +
257A GLY* 1.3 58.2 + - - +
259A ALA* 3.4 2.4 + - - +
260A GLN* 2.8 31.2 + - - +
297A LEU* 3.8 21.4 - - + +
300A ALA* 3.5 33.7 - - + +
301A ARG* 3.6 34.1 - - + +
304A THR* 3.7 21.8 - - + +
305A TRP* 5.3 0.4 - - - +
328A ALA* 4.0 7.9 - - + -
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Residues in contact with GLY 257 (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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79A GLU* 3.4 31.8 - - - +
82A SER* 4.2 0.2 - - - -
83A ARG* 3.3 23.4 - - - +
253A SER 3.2 5.6 + - - -
254A GLN 3.1 7.2 + - - -
255A ALA 3.1 0.8 - - - -
256A LEU* 1.3 76.3 - - - +
258A ILE* 1.3 63.0 + - - +
260A GLN* 3.4 1.3 + - - -
261A ALA* 3.1 18.5 + - - +
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Residues in contact with ILE 258 (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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82A SER 4.5 5.6 - - - +
86A ALA* 3.7 32.1 - - + -
254A GLN* 3.1 24.1 + - + +
255A ALA* 3.2 6.3 + - - +
257A GLY* 1.3 76.1 - - - +
259A ALA* 1.3 64.4 + - - +
261A ALA* 3.3 6.8 + - - +
262A SER* 3.0 27.9 + - - +
332A ALA* 4.7 3.1 - - + -
336A SER* 5.0 1.3 - - - -
357A TYR* 3.6 39.0 - - + +
360A ASP* 3.9 23.3 - - + +
361A ALA* 3.9 14.8 - - + +
364A THR* 4.3 8.5 - - + -
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Residues in contact with ALA 259 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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255A ALA 2.9 17.0 + - - +
256A LEU* 3.6 4.7 - - + +
258A ILE* 1.3 78.4 - - - +
260A GLN* 1.3 56.8 + - - +
262A SER* 3.2 8.5 + - - -
263A LEU* 2.9 26.5 + - - +
297A LEU* 3.9 18.3 - - + +
328A ALA 5.5 0.4 - - - +
331A ALA* 4.8 1.8 - - + -
332A ALA* 4.1 17.4 - - - +
335A ILE* 3.6 27.5 - - + +
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Residues in contact with GLN 260 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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4A VAL* 3.4 29.3 - - - +
5A TYR* 4.5 4.7 - - - -
79A GLU* 4.3 10.7 - - - +
83A ARG* 3.7 22.0 - - - -
256A LEU 2.8 18.9 + - - +
257A GLY* 3.7 6.7 - - - +
259A ALA* 1.3 77.4 - - - +
261A ALA* 1.3 56.9 + - - +
263A LEU* 3.3 10.4 + - - +
264A ASP* 2.9 59.1 + - - +
297A LEU* 3.3 13.7 - - + +
301A ARG* 3.1 22.3 + - - -
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Residues in contact with ALA 261 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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83A ARG* 3.7 28.7 - - + +
257A GLY 3.1 16.3 + - - +
258A ILE* 3.7 5.8 - - - +
260A GLN* 1.3 76.8 - - - +
262A SER* 1.3 61.7 + - - +
264A ASP* 3.5 7.3 + - - +
265A CYS* 3.0 25.5 + - - +
357A TYR* 3.5 32.6 + - + +
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Residues in contact with SER 262 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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258A ILE 3.0 14.9 + - - -
259A ALA* 3.4 9.2 - - - -
260A GLN 3.2 0.2 - - - -
261A ALA* 1.3 77.4 - - - +
263A LEU* 1.3 57.1 + - - +
265A CYS* 3.4 1.9 + - - +
266A ALA* 3.0 29.1 + - - +
335A ILE* 3.9 8.7 - - - -
336A SER* 3.4 28.3 - - - -
339A ALA* 3.6 12.8 - - - +
357A TYR* 3.4 29.8 - - - +
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Residues in contact with LEU 263 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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4A VAL* 5.0 8.3 - - + -
259A ALA 2.9 16.1 + - - +
260A GLN* 3.7 13.9 - - - +
262A SER* 1.3 72.3 - - - +
264A ASP* 1.3 66.2 + - - +
266A ALA* 3.4 0.5 + - - +
267A VAL* 3.0 47.5 + - + +
290A LEU* 4.1 21.5 - - + +
293A MET* 4.2 25.4 - - + -
294A ALA* 4.1 23.8 - - + +
297A LEU* 4.1 20.2 - - + -
335A ILE* 4.2 5.3 - - + +
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Residues in contact with ASP 264 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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4A VAL* 4.7 10.9 - - - +
83A ARG* 2.9 29.1 + - - +
260A GLN* 2.9 45.3 + - - +
261A ALA* 3.6 6.3 - - - +
263A LEU* 1.3 77.3 - - - +
265A CYS* 1.3 63.0 + - - +
267A VAL* 4.0 3.2 - - - +
268A LYS* 3.1 51.1 + - - +
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Residues in contact with CYS 265 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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261A ALA 3.0 17.5 + - - +
262A SER* 3.7 4.3 - - - +
264A ASP* 1.3 75.9 - - - +
266A ALA* 1.3 63.8 + - - +
268A LYS* 3.6 5.8 + - - +
269A TYR* 3.1 27.1 + - - +
339A ALA* 5.5 2.0 - - + -
343A LEU* 4.1 26.0 - - - -
352A MET* 4.4 11.7 - - - -
353A PRO* 4.4 20.4 - - + -
354A ALA* 4.8 5.2 - - - -
357A TYR* 4.2 12.6 - - + +
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Residues in contact with ALA 266 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
262A SER 3.0 18.4 + - - +
263A LEU 3.8 3.8 - - - +
264A ASP 3.3 0.2 - - - -
265A CYS* 1.3 78.4 - - - +
267A VAL* 1.3 62.9 + - - +
269A TYR* 3.9 1.0 - - - +
270A ALA* 3.0 26.7 + - - +
290A LEU* 4.3 5.2 - - + -
293A MET* 4.2 9.4 - - + -
339A ALA* 4.2 14.8 - - - +
342A ILE* 4.0 27.3 - - + +
343A LEU* 4.3 11.4 - - - +
----------------------------------------------------------
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Residues in contact with VAL 267 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
263A LEU* 3.0 33.6 + - + +
264A ASP* 4.0 4.3 - - - +
266A ALA* 1.3 76.2 - - - +
268A LYS* 1.3 66.9 + - + +
270A ALA* 3.3 5.7 + - - +
271A GLU* 3.1 47.6 + - + +
281A THR* 5.8 0.9 - - + -
290A LEU* 3.9 29.2 - - + -
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Residues in contact with LYS 268 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83A ARG* 5.4 4.8 - - - +
264A ASP* 3.1 39.4 + - - +
265A CYS* 4.0 5.6 - - - +
267A VAL* 1.3 80.4 - - + +
269A TYR* 1.3 63.2 + - - +
271A GLU* 3.5 7.1 + - - +
272A ASN* 2.8 34.8 + - - +
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Residues in contact with TYR 269 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
265A CYS 3.1 19.5 + - - +
266A ALA 3.9 0.9 - - - +
268A LYS* 1.3 77.7 - - - +
270A ALA* 1.3 57.9 + - - +
272A ASN* 3.2 4.4 + - + +
273A ARG* 2.8 79.9 + - + +
280A LEU* 4.4 2.0 - - + -
342A ILE* 4.0 9.6 - - + -
343A LEU* 3.6 47.2 + - + -
346A MET* 3.5 26.2 - - + +
352A MET* 4.0 26.9 - - + -
799B FAD 4.9 1.9 + - - -
----------------------------------------------------------
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Residues in contact with ALA 270 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
266A ALA 3.0 18.4 + - - +
267A VAL* 3.3 4.0 + - - +
269A TYR* 1.3 78.5 - - - +
271A GLU* 1.3 59.5 + - - +
272A ASN 3.6 0.2 + - - -
273A ARG 3.6 1.7 - - - +
279A PRO 3.8 0.5 - - - -
280A LEU* 2.9 51.1 + - + +
281A THR* 3.4 21.2 + - + +
286A ILE* 4.4 8.5 - - + -
290A LEU* 5.0 2.7 - - + -
342A ILE* 4.2 11.9 - - + -
----------------------------------------------------------
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Residues in contact with GLU 271 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
267A VAL* 3.1 33.1 + - + +
268A LYS* 4.0 8.1 - - - +
269A TYR 3.2 0.4 - - - -
270A ALA* 1.3 77.0 - - - +
272A ASN* 1.3 64.9 + - - +
274A HIS* 4.7 1.9 + - - -
279A PRO* 3.8 17.3 - - - +
281A THR* 3.7 25.3 + - + +
----------------------------------------------------------
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Residues in contact with ASN 272 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
268A LYS* 2.8 28.5 + - - +
269A TYR* 3.2 5.6 + - + +
271A GLU* 1.3 86.1 - - - +
273A ARG* 1.3 58.9 + - - +
274A HIS* 3.1 20.3 + - - -
----------------------------------------------------------
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Residues in contact with ARG 273 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
269A TYR* 2.8 52.5 + - + +
272A ASN* 1.3 76.9 - - - +
274A HIS* 1.3 71.5 + - - +
279A PRO* 3.3 3.5 - - - +
280A LEU* 3.0 49.4 + - + +
346A MET* 6.2 0.2 - - - +
533B PRO 3.0 27.9 + - - -
534B GLY* 3.6 26.1 + - - -
535B ASN* 3.7 3.4 - - - +
561B TRP* 6.1 0.2 - - - +
799B FAD 2.9 43.4 + - - +
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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