Contacts of the helix formed by residues 196 - 219 (chain B) in PDB entry 1T33
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 ASP 196 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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111B THR 5.5 2.0 - - - -
194B GLN* 4.7 0.6 - - + +
195B PHE* 1.3 77.7 - - - +
197B GLU* 1.3 65.0 + - - +
198B GLU* 2.7 34.1 + - - +
199B LYS* 2.8 40.9 + - - +
200B ALA* 3.0 25.0 + - - +
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Residues in contact with GLU 197 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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108B MET* 5.0 14.2 - - - +
196B ASP* 1.3 76.7 + - - +
198B GLU* 1.3 56.9 + - - +
200B ALA* 3.5 4.9 + - - +
201B GLU* 3.1 27.1 + - - +
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Residues in contact with GLU 198 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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196B ASP* 2.7 37.5 + - - +
197B GLU* 1.3 74.5 - - + +
199B LYS* 1.3 71.5 + - + +
201B GLU* 3.2 21.6 - - - +
202B LEU* 3.2 13.4 + - - +
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Residues in contact with LYS 199 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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192B TRP* 3.4 65.7 - - + +
193B PRO* 4.5 6.9 - - - +
194B GLN 3.2 27.6 - - - +
195B PHE* 3.9 4.9 - - + -
196B ASP* 2.8 38.4 + - - +
198B GLU* 1.3 84.4 + - + +
200B ALA* 1.3 66.4 + - - +
202B LEU* 3.1 7.8 + - - +
203B ILE* 3.1 26.8 + - - +
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Residues in contact with ALA 200 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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107B ILE* 3.7 5.5 - - + +
108B MET* 3.8 20.9 - - + +
111B THR* 3.6 29.8 - - + +
195B PHE* 5.4 0.6 - - - +
196B ASP 3.0 18.2 + - - +
197B GLU* 3.8 5.8 - - - +
199B LYS* 1.3 76.7 - - - +
201B GLU* 1.3 57.4 + - - +
203B ILE* 3.5 14.9 + - - +
204B TYR* 3.0 27.7 + - - +
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Residues in contact with GLU 201 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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104B LYS* 4.0 18.4 + - - -
108B MET* 4.8 4.1 - - - +
197B GLU 3.1 13.9 + - - +
198B GLU* 3.2 15.3 - - - +
199B LYS 3.1 0.2 - - - -
200B ALA* 1.3 75.5 - - - +
202B LEU* 1.3 60.2 + - + +
204B TYR* 3.2 13.6 + - - +
205B GLN* 2.8 59.2 + - - +
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Residues in contact with LEU 202 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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163A THR* 4.6 8.5 - - + -
164A ARG* 4.6 24.5 - - + -
167A LEU* 3.8 22.0 - - + -
192B TRP* 4.3 14.1 - - + -
198B GLU 3.2 9.9 + - - +
199B LYS* 3.1 10.4 + - - +
201B GLU* 1.3 77.0 - - + +
203B ILE* 1.3 61.8 + - - +
205B GLN* 3.1 25.2 + - + +
206B THR* 2.7 34.4 + - - +
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Residues in contact with ILE 203 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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167A LEU* 4.7 2.9 - - + -
107B ILE* 3.9 22.2 - - + -
111B THR* 4.1 17.7 - - + -
179B PHE* 3.5 58.1 - - + -
192B TRP* 4.3 11.0 - - + -
195B PHE* 3.9 24.5 - - + -
199B LYS 3.1 15.9 + - - +
200B ALA* 3.6 7.9 - - - +
202B LEU* 1.3 74.1 - - - +
204B TYR* 1.3 65.7 + - - +
206B THR* 3.1 8.2 + - - -
207B VAL* 2.9 23.8 + - + +
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Residues in contact with TYR 204 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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100B LEU* 3.6 28.4 + - - +
101B LEU* 5.1 1.6 - - - +
103B CYS* 4.8 2.2 - - + -
104B LYS* 3.3 55.2 - - + +
107B ILE* 3.5 16.1 - - + +
108B MET* 4.5 6.3 - - + -
200B ALA 3.0 15.1 + - - +
201B GLU* 3.3 29.2 - - - +
203B ILE* 1.3 76.9 - - - +
205B GLN* 1.3 59.7 + - + +
207B VAL* 3.8 0.6 - - + +
208B THR* 2.7 58.7 + - + +
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Residues in contact with GLN 205 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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201B GLU* 2.8 49.0 + - - +
202B LEU* 3.1 26.2 + - + +
204B TYR* 1.3 83.0 - - + +
206B THR* 1.3 62.6 + - - +
208B THR* 3.8 5.3 - - - -
209B CYS* 3.1 23.7 + - - +
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Residues in contact with THR 206 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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164A ARG* 5.1 2.9 + - - +
167A LEU* 3.7 25.4 - - - +
168A HIS* 3.6 52.0 + - + +
171A ALA* 4.2 9.9 - - + -
179B PHE* 5.3 1.1 - - + -
202B LEU* 2.7 21.4 + - - +
203B ILE* 3.1 8.9 + - - -
205B GLN* 1.3 74.3 - - - +
207B VAL* 1.3 67.2 + - - +
209B CYS* 3.1 14.8 + - - +
210B HIS* 3.2 14.1 + - - +
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Residues in contact with VAL 207 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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171A ALA* 4.6 4.3 - - + -
103B CYS* 4.8 2.0 - - + -
107B ILE* 4.1 17.0 - - + -
172B LEU 5.5 0.2 - - - +
175B GLU* 3.9 36.1 - - + +
176B VAL* 3.7 21.3 - - + +
179B PHE* 4.2 13.5 - - + -
203B ILE* 2.9 18.9 + - + +
204B TYR* 4.0 2.5 - - + +
206B THR* 1.3 75.7 - - - +
208B THR* 1.3 58.1 + - - +
210B HIS* 3.1 7.7 + - - +
211B ILE* 2.8 55.6 + - + +
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Residues in contact with THR 208 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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96B ARG* 5.5 0.2 - - - +
100B LEU* 3.6 30.4 - - + +
103B CYS* 5.9 0.7 - - - +
204B TYR* 2.7 53.3 + - + +
205B GLN* 3.8 6.3 - - - -
207B VAL* 1.3 76.5 - - - +
209B CYS* 1.3 64.5 - - - +
211B ILE* 3.8 9.3 - - - +
212B ASP* 3.0 33.0 + - - +
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Residues in contact with CYS 209 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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168A HIS* 4.0 9.9 - - + -
217A GLY 6.1 0.2 - - - -
218A LEU* 4.0 27.1 - - - -
205B GLN 3.1 14.9 + - - +
206B THR* 3.1 11.2 + - - +
208B THR* 1.3 78.8 - - - +
210B HIS* 1.3 60.5 + - - +
212B ASP* 3.4 6.6 + - - +
213B LEU* 3.0 42.4 + - - +
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Residues in contact with HIS 210 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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168A HIS* 2.6 61.1 + + + +
171A ALA* 3.9 8.2 - - + +
172A LEU* 4.3 4.7 - - + -
214A ILE* 3.7 39.1 - - + +
218A LEU* 4.9 0.7 - - + -
175B GLU* 2.7 36.4 + - - +
206B THR* 3.2 9.6 + - + -
207B VAL 3.1 5.9 + - - +
209B CYS* 1.3 82.8 - - - +
211B ILE* 1.3 54.8 + - - +
213B LEU* 3.1 7.1 + - + +
214B ILE* 2.8 40.7 + - + +
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Residues in contact with ILE 211 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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99B ILE* 4.2 8.5 - - + -
100B LEU* 3.5 27.8 - - + -
103B CYS* 3.3 36.1 - - + -
172B LEU* 4.6 23.6 - - + +
175B GLU* 5.9 1.8 - - + +
176B VAL* 5.1 0.7 - - + -
207B VAL* 2.8 39.5 + - + +
208B THR* 3.8 5.4 - - - +
210B HIS* 1.3 72.1 - - + +
212B ASP* 1.3 54.4 + - - +
214B ILE* 3.1 7.5 + - - +
215B LEU* 2.7 59.1 + - + +
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Residues in contact with ASP 212 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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96B ARG* 3.1 42.2 + - - +
100B LEU* 3.6 15.1 - - - +
208B THR* 3.0 29.6 + - - +
209B CYS* 3.6 6.4 - - - +
211B ILE* 1.3 73.7 - - - +
213B LEU* 1.3 65.3 + - + +
215B LEU* 4.6 4.5 - - - -
216B HIS* 3.2 39.4 + - + -
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Residues in contact with LEU 213 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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213A LEU* 4.0 16.9 - - - +
214A ILE* 3.8 30.1 - - + +
217A GLY* 3.7 37.5 - - - +
218A LEU* 4.3 1.6 - - + +
209B CYS* 3.0 35.3 + - - +
210B HIS* 3.1 8.0 + - - +
212B ASP* 1.3 79.7 - - + +
214B ILE* 1.3 60.8 + - - +
216B HIS* 4.1 3.9 - - - +
217B GLY* 3.2 18.7 + - - -
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Residues in contact with ILE 214 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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175A GLU* 3.5 18.2 - - - +
210A HIS* 3.6 38.8 - - + +
213A LEU* 3.8 8.7 - - + +
214A ILE* 3.9 22.9 - - + -
172B LEU* 3.0 39.0 - - + -
175B GLU* 4.0 2.5 - - - +
210B HIS* 2.8 27.8 + - + +
211B ILE 3.7 2.9 - - - +
213B LEU* 1.3 73.4 - - - +
215B LEU* 1.3 66.0 + - - +
217B GLY* 3.2 1.6 + - - -
218B LEU* 3.1 41.4 + - + +
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Residues in contact with LEU 215 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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96B ARG* 4.1 25.1 - - + -
99B ILE* 4.1 26.0 - - + -
100B LEU* 4.8 0.4 - - + -
152B VAL* 4.1 29.4 - - + -
155B TYR* 3.7 24.6 - - + -
156B THR* 3.4 11.1 - - + +
172B LEU* 4.6 9.2 - - + -
211B ILE* 2.7 44.1 + - + +
212B ASP* 4.0 3.8 - - - +
214B ILE* 1.3 72.6 - - - +
216B HIS* 1.3 64.3 + - + +
218B LEU* 4.8 1.8 - - + -
219B THR* 2.9 27.1 + - - -
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Residues in contact with HIS 216 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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92B ARG* 5.2 2.2 - - - -
93B ASP* 5.6 0.6 + - - -
96B ARG* 4.4 12.4 + - - -
155B TYR* 3.1 30.9 + + - -
212B ASP* 3.2 25.5 + - + +
213B LEU* 4.1 3.8 - - - +
215B LEU* 1.3 78.9 - - + +
217B GLY* 1.3 64.9 + - - +
218B LEU 3.3 0.5 + - - -
219B THR* 3.5 19.4 + - - +
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Residues in contact with GLY 217 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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209A CYS* 6.0 0.2 - - - -
213A LEU* 3.7 35.4 - - - +
213B LEU 3.2 8.9 + - - -
214B ILE 3.2 0.8 + - - -
216B HIS* 1.3 78.7 - - - +
218B LEU* 1.3 61.5 + - - +
219B THR 4.7 2.2 - - - +
220B GLN* 5.5 0.2 + - - -
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Residues in contact with LEU 218 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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209A CYS* 3.9 20.0 - - - -
210A HIS* 4.7 0.7 - - - +
213A LEU* 4.4 3.1 - - + -
152B VAL* 5.0 10.3 - - + -
156B THR* 3.8 22.0 - - + +
158B CYS* 4.4 1.2 - - - -
165B MET* 5.0 7.2 - - + -
168B HIS* 3.7 49.1 - - + +
172B LEU* 5.7 1.3 - - + -
214B ILE* 3.1 36.9 + - + +
215B LEU* 5.1 1.6 - - + -
216B HIS 3.2 0.2 - - - -
217B GLY* 1.3 81.4 - - - +
219B THR* 1.3 55.7 + - - +
220B GLN* 2.6 34.4 + - - +
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Residues in contact with THR 219 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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92B ARG* 2.9 35.3 + - - +
155B TYR* 3.9 2.1 - - - +
156B THR* 3.6 22.6 - - - +
215B LEU 2.9 21.5 + - - -
216B HIS* 3.5 15.1 + - - +
217B GLY 4.7 2.1 - - - +
218B LEU* 1.3 73.2 - - - +
220B GLN* 1.3 74.2 + - - +
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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
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Atomic class I II III IV V VI VII VIII
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I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
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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