Contacts of the helix formed by residues 182 - 213 (chain E) in PDB entry 1LWU
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 VAL 182 (chain E).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119D ILE* 4.8 6.3 - - + -
122D GLN* 3.4 25.4 - - + +
123D LEU* 3.7 29.4 - - + -
126D LEU* 3.9 9.2 - - + -
177E ARG 2.8 20.5 + - - +
178E ILE* 4.0 3.1 - - - +
180E SER 2.7 4.6 + - - -
181E THR* 1.3 71.5 - - - +
183E ALA* 1.3 51.1 + - - +
184E GLY 2.7 7.4 + - - -
185E SER* 2.9 1.0 + - - -
186E LEU* 2.5 51.3 + - + +
102F HIS* 3.0 33.9 - - + +
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Residues in contact with ALA 183 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
178E ILE 3.4 13.0 + - - +
179E GLU* 3.7 15.5 - - - +
180E SER 3.6 0.6 + - - -
182E VAL* 1.3 78.4 - - - +
184E GLY* 1.3 54.9 + - - +
186E LEU* 3.8 8.7 - - - +
187E ARG* 3.2 28.0 + - - +
102F HIS* 3.5 22.7 - - - +
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Residues in contact with GLY 184 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181D ILE* 5.1 3.7 - - - +
179E GLU 4.5 0.6 + - - -
180E SER* 2.8 18.0 + - - -
182E VAL 2.7 3.2 + - - -
183E ALA* 1.3 78.7 - - - +
185E SER* 1.3 63.3 + - - -
187E ARG* 3.4 2.1 + - - +
188E SER* 3.1 26.7 + - - -
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Residues in contact with SER 185 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126D LEU* 4.2 13.2 - - - -
181D ILE* 3.5 27.1 - - - +
183D ASN* 4.2 2.7 + - - +
184D LEU* 3.2 23.2 - - - +
180E SER 4.0 1.8 + - - -
181E THR 3.1 18.1 + - - -
182E VAL 2.9 5.8 + - - -
184E GLY* 1.3 76.3 - - - +
186E LEU* 1.3 66.2 + - - +
187E ARG 3.2 0.9 + - - -
188E SER* 3.8 1.3 - - - -
189E MET* 3.0 36.7 + - - +
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Residues in contact with LEU 186 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126D LEU* 3.8 15.9 - - + -
182E VAL* 2.5 36.1 + - + +
183E ALA* 3.8 9.6 - - - -
185E SER* 1.3 75.5 - - - +
187E ARG* 1.3 63.9 + - - +
189E MET* 3.6 2.6 - - - +
190E LYS* 3.4 17.0 + - + +
102F HIS* 4.3 7.0 - - + +
105F GLN* 3.2 53.8 - - + +
106F ILE* 3.4 31.2 - - + -
109F LEU* 3.7 13.4 - - + +
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Residues in contact with ARG 187 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183E ALA 3.2 18.1 + - - +
184E GLY* 4.0 2.2 - - - +
185E SER 3.2 0.8 - - - -
186E LEU* 1.3 77.7 + - - +
188E SER* 1.3 55.3 + - - +
189E MET 2.6 16.3 + - - -
190E LYS* 3.1 57.0 + - - +
191E SER* 3.5 9.4 + - - -
105F GLN* 3.8 22.1 + - - +
108F GLU* 5.1 2.2 + - - -
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Residues in contact with SER 188 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174D LEU* 5.0 1.1 - - - +
177D ALA* 5.6 10.1 - - - -
178D ALA* 3.9 19.8 + - - +
181D ILE* 6.0 4.0 - - - -
184E GLY 3.1 14.3 + - - -
185E SER* 3.8 2.5 - - - -
187E ARG* 1.3 76.2 - - - +
189E MET* 1.3 57.2 + - - +
191E SER* 4.2 10.9 - - - -
192E VAL* 4.0 11.3 + - - +
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Residues in contact with MET 189 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126D LEU* 3.7 45.5 - - + +
129D LEU* 4.0 15.9 - - - +
130D GLN* 3.7 26.9 - - + +
133D ILE* 3.9 16.6 - - + +
178D ALA* 4.1 20.4 - - + +
184D LEU* 5.4 1.8 - - + -
185E SER* 3.0 30.0 + - - +
186E LEU 3.6 4.0 - - - +
187E ARG 2.6 6.3 + - - -
188E SER* 1.3 76.7 - - - +
190E LYS* 1.3 57.2 + - - +
191E SER 2.8 10.6 + - - -
192E VAL* 3.2 3.4 + - - +
193E LEU* 3.0 29.3 + - - +
109F LEU* 3.7 9.4 - - + -
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Residues in contact with LYS 190 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
186E LEU* 3.4 8.4 + - + +
187E ARG* 3.1 50.8 + - - +
189E MET* 1.3 77.9 - - - +
191E SER* 1.3 56.4 + - - +
193E LEU* 4.6 2.7 - - - -
194E GLU* 2.9 44.3 + - - +
108F GLU* 3.7 27.1 + - - +
109F LEU* 3.4 26.1 - - + +
112F MET* 4.0 17.1 - - + +
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Residues in contact with SER 191 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174D LEU* 5.3 10.0 - - - +
187E ARG 3.5 11.0 + - - -
188E SER* 4.4 9.9 - - - -
189E MET 2.8 0.2 - - - -
190E LYS* 1.3 79.8 - - - +
192E VAL* 1.3 56.1 + - - +
194E GLU* 2.9 8.2 + - - +
195E HIS* 2.5 38.8 + - - +
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Residues in contact with VAL 192 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133D ILE* 3.5 30.3 - - + -
137D VAL* 4.0 14.8 - - + -
171D ASN* 5.1 5.2 - - - +
174D LEU* 4.0 40.6 - - + +
175D GLU* 4.0 7.4 - - + +
178D ALA* 4.2 4.0 - - + -
188E SER 4.0 12.8 - - - +
189E MET* 3.2 8.5 + - - +
191E SER* 1.3 80.6 - - - +
193E LEU* 1.3 54.8 + - - +
195E HIS* 3.4 7.4 - - - +
196E LEU* 2.7 41.6 + - + +
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Residues in contact with LEU 193 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129D LEU* 5.1 2.7 - - + -
133D ILE* 4.0 23.1 - - + -
136D GLN* 3.6 11.4 - - - +
189E MET 3.0 20.3 + - - +
190E LYS 4.5 0.4 - - - +
192E VAL* 1.3 78.2 - - - +
194E GLU* 1.3 62.5 + - - +
196E LEU* 4.5 3.1 - - + -
197E ARG* 3.2 8.7 + - - +
109F LEU* 3.6 45.1 - - + +
112F MET* 4.1 19.5 - - + +
113F TRP* 3.5 40.8 - - + -
116F ASN* 3.0 25.9 + - - +
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Residues in contact with GLU 194 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
190E LYS* 2.9 46.9 + - - +
191E SER* 2.9 7.5 + - - +
193E LEU* 1.3 77.6 - - - +
195E HIS* 1.3 64.5 - - - +
197E ARG* 3.3 31.3 + - - +
198E ALA* 3.3 20.6 + - - +
112F MET* 4.6 9.3 - - - -
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Residues in contact with HIS 195 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168D LYS* 3.6 30.7 - - + +
170D LYS* 3.8 16.9 - - - -
171D ASN* 2.7 44.4 + - + +
174D LEU* 4.1 12.3 - - + -
191E SER* 2.5 20.1 + - - +
192E VAL* 3.4 8.1 - - - +
194E GLU* 1.3 70.9 - - - +
196E LEU* 1.3 66.0 + - - +
197E ARG 3.2 0.2 + - - -
198E ALA* 3.2 8.1 + - - +
199E LYS* 3.0 31.5 + - - +
202E ARG* 5.0 7.0 - - - -
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Residues in contact with LEU 196 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133D ILE* 5.1 1.1 - - + -
136D GLN* 3.1 30.3 - - + +
137D VAL* 3.9 37.9 - - + +
140D ILE* 3.8 26.9 - - + +
171D ASN* 3.8 19.7 - - - +
192E VAL* 2.7 32.0 + - + +
193E LEU* 4.5 4.9 - - + -
195E HIS* 1.3 73.7 + - - +
197E ARG* 1.3 64.4 + - - +
199E LYS* 3.0 19.8 + - + +
200E MET* 3.0 18.4 + - - +
116F ASN* 3.5 11.9 - - - +
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Residues in contact with ARG 197 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
193E LEU 3.2 7.0 + - - +
194E GLU* 3.5 36.5 + - - +
195E HIS 3.2 0.8 - - - -
196E LEU* 1.3 77.9 - - - +
198E ALA* 1.3 66.4 + - - +
200E MET* 2.7 30.6 + - - +
201E GLN* 2.9 43.5 + - - +
112F MET* 6.0 6.1 - - + +
115F VAL* 5.4 8.1 - - + -
116F ASN* 3.3 26.6 - - - +
119F PHE* 4.2 17.9 - - + -
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Residues in contact with ALA 198 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
194E GLU 3.3 7.8 + - - +
195E HIS* 3.2 10.8 + - + +
197E ARG* 1.3 89.5 - - - +
199E LYS* 1.3 61.9 + - - +
201E GLN* 3.4 17.4 + - - +
202E ARG* 3.1 39.4 + - - +
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Residues in contact with LYS 199 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140D ILE* 3.8 23.6 - - + +
141D LEU* 5.4 5.7 - - - +
144D GLU* 3.0 36.5 + - + +
164D TYR* 4.5 0.7 + - - -
166D LEU* 5.3 0.6 - - - +
167D ASP* 5.7 4.6 - - - +
168D LYS* 4.4 13.1 + - - +
171D ASN* 4.8 12.6 - - - +
195E HIS* 3.0 26.3 + - - +
196E LEU* 3.0 16.7 + - + +
198E ALA* 1.3 78.3 - - - +
200E MET* 1.3 61.7 + - - +
202E ARG* 3.3 29.2 + - - +
203E MET* 3.1 42.5 + - + +
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Residues in contact with MET 200 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140D ILE* 3.4 38.8 - - + -
196E LEU 3.1 11.4 - - - +
197E ARG* 2.7 13.9 + - - +
199E LYS* 1.3 69.4 - - - +
201E GLN* 1.3 50.7 + - - -
203E MET* 3.1 11.2 + - - +
204E GLU* 2.6 36.0 + - - +
116F ASN* 3.3 35.2 - - - +
119F PHE* 3.2 53.7 - - + -
120F VAL* 3.6 18.4 - - - -
123F LEU* 3.8 9.9 - - + +
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Residues in contact with GLN 201 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
197E ARG* 2.9 42.6 + - - +
198E ALA* 3.8 16.7 + - - +
199E LYS 3.3 0.2 - - - -
200E MET* 1.3 75.5 - - - +
202E ARG* 1.3 64.7 + - - +
204E GLU* 2.7 4.7 + - - +
205E GLU* 2.7 28.4 + - - +
119F PHE* 3.8 23.4 - - + -
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Residues in contact with ARG 202 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144D GLU* 4.8 2.4 + - - -
164D TYR* 3.6 16.3 + - + +
165D ARG 5.3 7.3 + - - -
166D LEU 6.2 0.2 - - - -
167D ASP* 4.7 14.4 + - - +
168D LYS* 4.1 22.0 - - - +
195E HIS* 5.0 5.7 - - - -
198E ALA* 3.1 30.2 + - + +
199E LYS* 3.6 43.1 - - - +
201E GLN* 1.3 77.2 - - - +
203E MET* 1.3 56.9 + - - +
205E GLU* 3.3 12.6 - - + +
206E ALA* 3.1 27.0 + - - +
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Residues in contact with MET 203 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140D ILE* 4.1 10.8 - - + +
143D VAL* 4.6 1.6 - - - -
144D GLU* 3.5 35.9 - - + +
147D ILE* 3.8 23.6 - - + -
164D TYR* 3.1 28.7 - - + +
199E LYS* 3.1 51.2 + - + +
200E MET* 3.1 14.8 + - - +
201E GLN 2.7 0.8 + - - -
202E ARG* 1.3 77.2 - - - +
204E GLU* 1.3 65.7 + - - +
206E ALA* 3.1 3.5 + - - +
207E ILE* 3.0 28.6 + - - +
123F LEU* 3.9 13.7 - - + -
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Residues in contact with GLU 204 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
200E MET 2.6 20.2 + - - +
201E GLN* 2.7 6.7 + - - +
203E MET* 1.3 71.6 - - - +
205E GLU* 1.3 61.8 + - - +
207E ILE* 3.3 2.9 + - - +
208E LYS* 3.0 36.7 + - + +
119F PHE* 3.0 25.8 - - + -
122F ARG* 2.8 32.2 + - - -
123F LEU* 3.7 11.6 - - + +
126F GLN* 3.1 27.7 + - - +
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Residues in contact with GLU 205 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201E GLN 2.7 16.4 + - - +
202E ARG* 3.3 17.7 - - - +
204E GLU* 1.3 73.7 - - - +
206E ALA* 1.3 71.6 + - - +
207E ILE 3.0 0.3 + - - -
208E LYS* 3.0 8.0 + - - +
209E THR* 2.9 38.1 + - - +
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Residues in contact with ALA 206 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151D LEU* 4.0 13.3 - - + +
164D TYR* 3.2 40.2 - - + -
202E ARG 3.1 9.1 + - - +
203E MET* 3.1 6.6 + - - +
205E GLU* 1.3 90.0 - - + +
207E ILE* 1.3 59.2 + - - +
209E THR* 3.8 4.8 + - - +
210E GLN* 3.3 22.9 + - - +
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Residues in contact with ILE 207 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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147D ILE* 3.5 27.4 - - + -
151D LEU* 3.2 39.0 - - + -
203E MET 3.0 20.7 + - - +
204E GLU* 3.6 6.3 - - - +
206E ALA* 1.3 73.9 - - - +
208E LYS* 1.3 68.9 + - - +
209E THR 3.1 1.1 - - - -
210E GLN* 3.2 2.3 + - - +
211E LYS* 2.8 30.0 + - + +
123F LEU* 5.0 1.8 - - + -
126F GLN* 3.8 41.7 - - + +
130F ILE* 4.7 16.5 - - + +
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Residues in contact with LYS 208 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
204E GLU* 3.0 25.4 + - + +
205E GLU* 3.0 6.7 + - - +
207E ILE* 1.3 84.5 - - - +
209E THR* 1.3 56.8 + - - +
211E LYS* 3.4 30.9 + - + +
212E GLU* 2.9 30.9 + - - +
126F GLN* 3.2 32.0 + - - +
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Residues in contact with THR 209 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
162D LEU* 4.0 20.4 - - + -
205E GLU* 2.9 30.6 + - - +
206E ALA* 3.9 6.3 - - - +
208E LYS* 1.3 79.0 - - - +
210E GLN* 1.3 63.2 + - + +
212E GLU* 3.3 6.0 + - - +
213E LEU* 3.1 44.9 + - + +
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Residues in contact with GLN 210 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151D LEU* 4.1 30.1 - - + +
154D CYS* 3.2 29.3 - - + +
160D ARG 3.7 8.8 + - - +
161D TYR* 3.1 19.8 - - + +
162D LEU* 2.9 38.9 - - + +
163D GLU 5.6 1.1 - - - +
206E ALA 3.3 12.2 + - - +
207E ILE 3.2 4.7 + - - +
209E THR* 1.3 75.6 - - - +
211E LYS* 1.3 69.5 + - - +
213E LEU* 3.0 12.3 + - - +
214E CYS* 3.2 25.1 + - - -
130F ILE* 4.5 5.6 - - + -
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Residues in contact with LYS 211 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
207E ILE* 2.8 18.5 + - + +
208E LYS* 3.4 31.4 - - - +
210E GLN* 1.3 74.9 - - - +
212E GLU* 1.3 64.1 + - - +
214E CYS* 3.1 19.5 + - + +
215E SER* 3.9 2.9 + - - -
129F ASP* 4.6 16.6 + - - +
130F ILE* 4.4 15.6 - - + +
133F THR* 4.8 17.6 - - + +
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Residues in contact with GLU 212 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
208E LYS 2.9 18.3 + - - +
209E THR* 3.5 7.6 - - - +
210E GLN 3.2 0.2 - - - -
211E LYS* 1.3 77.1 - - - +
213E LEU* 1.3 63.0 + - + +
214E CYS 3.1 4.7 + - - -
215E SER* 3.3 26.7 + - - -
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Residues in contact with LEU 213 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158D CYS* 3.3 13.3 - - - +
159D ALA* 3.8 4.2 + - - +
160D ARG* 3.1 72.6 + - + +
162D LEU* 3.3 34.1 - - + -
209E THR* 3.1 25.7 + - + +
210E GLN* 3.0 16.5 + - - +
212E GLU* 1.3 80.3 - - + +
214E CYS* 1.3 55.7 + - - +
215E SER* 3.3 3.8 + - - -
216E ALA 4.0 1.3 - - - +
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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