Contacts of the helix formed by residues 203 - 233 (chain B) in PDB entry 5I7L
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 LEU 203 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93A GLY 5.6 3.4 - - - +
94A LYS* 6.4 0.2 - - - -
95A VAL* 4.7 7.2 - - + +
96A THR* 4.2 26.7 - - - +
99A ILE* 4.3 17.0 - - + -
106B ILE* 5.9 6.1 - - + -
141B VAL* 5.4 4.0 - - + -
150B LEU* 4.1 28.0 - - + -
151B LEU* 4.2 18.4 - - + -
199B PRO* 2.9 14.3 + - + +
201B GLN 3.8 0.6 - - - -
202B GLY* 1.3 81.4 - - - +
204B LEU* 1.3 57.5 + - - +
205B ASP* 3.4 2.4 - - - +
206B SER* 3.0 14.8 + - - -
207B LEU* 2.8 45.7 + - + +
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Residues in contact with LEU 204 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151B LEU* 4.0 16.1 - - + +
153B LEU* 3.6 32.5 - - + -
189B ILE* 5.4 1.6 - - + -
190B SER 6.3 0.2 - - - -
191B LEU* 3.8 36.1 - - + -
199B PRO 3.3 3.6 + - - +
200B ILE* 3.4 26.0 + - + +
203B LEU* 1.3 76.7 - - - +
205B ASP* 1.3 58.7 + - - +
207B LEU* 3.0 3.0 + - + +
208B THR* 2.5 51.8 + - - +
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Residues in contact with ASP 205 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
200B ILE 5.2 2.5 - - - +
201B GLN 4.8 9.9 - - - +
202B GLY 6.5 0.2 - - - -
203B LEU 3.4 1.4 - - - +
204B LEU* 1.3 83.2 - - - +
206B SER* 1.3 58.8 + - - +
208B THR* 3.3 9.3 + - - +
209B GLY* 2.9 27.2 + - - -
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Residues in contact with SER 206 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93A GLY* 5.8 2.5 - - - -
95A VAL* 4.1 22.3 - - - +
202B GLY 4.0 13.2 + - - -
203B LEU* 3.0 12.8 + - - -
205B ASP* 1.3 78.5 - - - +
207B LEU* 1.3 62.1 + - - +
209B GLY* 3.4 1.6 + - - -
210B ILE* 3.3 27.6 + - - +
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Residues in contact with LEU 207 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77B LEU* 5.5 4.3 - - + -
106B ILE* 5.0 9.0 - - + -
108B ILE* 4.7 16.6 - - + -
141B VAL* 3.9 29.6 - - + -
151B LEU* 3.6 26.9 - - + -
153B LEU* 4.5 9.0 - - + -
203B LEU* 2.8 27.2 + - + +
204B LEU* 3.5 3.8 - - + +
206B SER* 1.3 74.2 - - - +
208B THR* 1.3 65.5 + - - +
209B GLY 3.1 1.1 - - - -
210B ILE* 3.2 14.8 + - + +
211B LEU* 3.1 40.5 + - + +
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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
----------------------------------------------------------
153B LEU* 5.9 1.1 - - - +
189B ILE* 4.2 27.2 - - + +
204B LEU* 2.5 40.9 + - - +
205B ASP* 3.5 10.4 - - - +
207B LEU* 1.3 71.8 - - - +
209B GLY* 1.3 64.9 + - - +
211B LEU* 3.3 3.6 + - - +
212B ASN* 2.9 39.4 + - - +
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Residues in contact with GLY 209 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
205B ASP 2.9 16.2 + - - -
206B SER* 3.4 3.6 + - - -
207B LEU 3.1 0.2 - - - -
208B THR* 1.3 77.5 - - - +
210B ILE* 1.3 64.9 + - - +
212B ASN* 3.3 15.4 + - - +
213B LYS* 3.4 14.6 + - - +
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Residues in contact with ILE 210 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93A GLY* 4.4 23.6 - - - +
77B LEU* 3.7 34.3 - - + -
206B SER* 3.3 16.5 + - - +
207B LEU* 3.2 16.5 + - + +
209B GLY* 1.3 76.5 - - - +
211B LEU* 1.3 66.0 + - + +
213B LYS* 2.9 18.5 + - - +
214B VAL* 3.1 15.2 + - + +
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Residues in contact with LEU 211 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73B LEU* 4.3 22.7 - - + -
77B LEU* 5.5 3.4 - - + -
108B ILE* 5.6 3.6 - - + -
139B LEU* 3.6 29.6 - - + -
153B LEU* 4.1 15.9 - - + -
187B LEU* 4.5 1.3 - - - -
189B ILE* 3.7 26.5 - - + -
207B LEU* 3.1 32.7 + - + +
208B THR 3.7 3.4 - - - +
210B ILE* 1.3 79.0 - - + +
212B ASN* 1.3 58.5 + - - +
214B VAL* 2.9 5.9 + - + -
215B LEU* 2.6 55.5 + - + +
216B PRO* 3.4 0.5 - - - +
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Residues in contact with ASN 212 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187B LEU* 3.5 27.9 + - - +
189B ILE* 4.4 4.6 - - - +
208B THR* 2.9 39.0 + - - +
209B GLY* 3.4 9.6 - - - +
210B ILE 3.2 0.4 - - - -
211B LEU* 1.3 75.5 - - - +
213B LYS* 1.3 60.7 + - + +
216B PRO* 3.6 15.8 - - - +
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Residues in contact with LYS 213 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
209B GLY 3.4 8.5 + - - +
210B ILE* 2.9 11.2 + - - +
212B ASN* 1.3 81.0 - - + +
214B VAL* 1.3 64.1 + - + +
216B PRO* 4.4 1.6 - - - -
217B GLU* 4.6 12.3 - - - +
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Residues in contact with VAL 214 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73B LEU* 4.1 20.4 - - + -
76B ILE* 3.5 34.5 - - + +
77B LEU* 4.3 14.6 - - + -
210B ILE* 3.7 13.2 - - + +
211B LEU* 2.9 5.3 + - + +
213B LYS* 1.3 86.0 - - + +
215B LEU* 1.3 70.2 + - - +
216B PRO* 3.5 1.8 - - - -
217B GLU* 3.8 5.1 + - - +
218B LEU* 3.3 22.4 + - + +
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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
----------------------------------------------------------
71B LEU* 4.5 13.2 - - + -
73B LEU* 4.0 24.5 - - + -
137B ILE* 4.7 8.1 - - + -
139B LEU* 4.5 7.2 - - + -
155B VAL* 3.7 30.3 - - + -
157B LEU* 5.0 2.0 - - + -
187B LEU* 4.5 9.4 - - + -
211B LEU* 2.6 47.7 + - + +
214B VAL* 1.3 74.9 - - - +
216B PRO* 1.4 65.0 - - + +
218B LEU* 3.1 5.5 + - + +
219B VAL* 3.0 42.1 + - + +
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Residues in contact with PRO 216 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157B LEU* 4.2 16.4 - - + -
182B HIS* 3.3 49.1 - - + +
187B LEU* 4.0 16.6 - - + -
211B LEU 3.4 10.3 - - - +
212B ASN 3.6 17.7 - - - +
213B LYS 4.4 1.1 - - - -
214B VAL 3.6 4.9 - - - +
215B LEU* 1.4 92.3 - - + +
217B GLU* 1.3 60.7 + - - +
219B VAL* 4.0 1.7 - - - +
220B GLN* 3.1 24.3 + - - +
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Residues in contact with GLU 217 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182B HIS* 4.7 1.3 + - - -
213B LYS 4.6 10.9 - - - +
214B VAL* 3.8 6.4 + - - +
215B LEU 3.4 0.4 - - - -
216B PRO* 1.3 80.5 - - - +
218B LEU* 1.3 62.7 + - - +
220B GLN* 3.8 15.8 - - - +
221B GLY* 3.1 19.9 + - - -
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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
----------------------------------------------------------
71B LEU* 4.4 13.0 - - + -
72B PRO* 4.1 24.0 - - + +
73B LEU* 4.0 30.1 - - + -
76B ILE* 4.1 32.8 - - + -
214B VAL* 3.3 18.2 + - + +
215B LEU* 3.1 9.5 + - + +
217B GLU* 1.3 78.4 - - - +
219B VAL* 1.3 63.0 + - - +
221B GLY* 3.5 1.4 + - - -
222B ASN* 2.6 45.6 + - - +
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Residues in contact with VAL 219 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68B LEU* 4.7 5.8 - - + -
71B LEU* 3.8 26.0 - - + -
135B LEU* 3.8 15.9 - - + -
137B ILE* 5.9 2.2 - - + -
157B LEU* 3.5 33.2 - - + -
159B ILE* 3.9 4.7 - - + -
215B LEU* 3.0 25.6 + - + +
216B PRO 4.0 0.2 - - - +
218B LEU* 1.3 73.1 - - - +
220B GLN* 1.3 58.6 + - - +
222B ASN* 2.7 25.2 + - - -
223B VAL* 2.8 35.4 + - + +
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Residues in contact with GLN 220 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159B ILE* 4.2 16.3 - - + +
180B CYS 3.1 28.6 + - - +
181B THR* 3.5 23.2 - - - +
182B HIS* 3.8 11.1 + - - +
216B PRO 3.1 15.9 + - - +
217B GLU* 3.8 16.4 - - - +
219B VAL* 1.3 78.1 - - - +
221B GLY* 1.3 66.1 + - - +
223B VAL 4.6 0.2 - - - +
224B CYS* 3.0 37.9 + - + +
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Residues in contact with GLY 221 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
217B GLU 3.1 14.5 + - - -
218B LEU 3.9 2.0 - - - -
219B VAL 3.1 0.2 + - - -
220B GLN* 1.3 81.4 - - - +
222B ASN* 1.3 63.3 + - - +
224B CYS* 5.4 0.4 - - - -
225B PRO* 3.2 23.8 - - - +
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Residues in contact with ASN 222 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67B ILE* 3.2 44.0 - - + +
70B ASN 5.3 0.5 - - - +
71B LEU* 3.6 22.1 - - + +
72B PRO* 4.0 11.7 - - - +
218B LEU* 2.6 41.4 + - - +
219B VAL* 2.7 6.1 + - - +
221B GLY* 1.3 82.1 - - - +
223B VAL* 1.3 59.1 + - + +
225B PRO* 4.0 5.6 - - - +
226B LEU* 4.7 1.4 + - - +
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Residues in contact with VAL 223 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59B LEU* 5.3 1.6 - - + -
64B LEU* 4.0 29.8 - - + -
67B ILE* 4.9 1.1 - - + -
68B LEU* 4.4 10.5 - - + -
133B ILE* 4.8 6.1 - - + -
135B LEU* 4.5 7.6 - - + -
159B ILE* 4.4 18.8 - - + -
219B VAL* 2.8 36.4 + - + +
220B GLN 4.5 0.2 - - - +
222B ASN* 1.3 83.2 - - + +
224B CYS* 1.3 67.1 + - - +
225B PRO* 3.2 2.2 - - - -
226B LEU* 2.8 18.3 + - + +
227B VAL* 3.0 25.5 + - + +
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Residues in contact with CYS 224 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159B ILE* 4.3 3.4 - - - -
177B LEU* 3.3 13.1 - - + +
180B CYS* 2.0 70.4 - - + -
220B GLN* 3.0 32.3 + - - +
221B GLY* 5.4 0.2 - - - -
223B VAL* 1.3 76.7 - - - +
225B PRO* 1.4 60.2 - - + +
227B VAL* 3.1 4.5 + - - +
228B ASN* 2.9 23.7 + - - +
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Residues in contact with PRO 225 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
221B GLY* 3.2 26.9 - - - +
222B ASN* 4.0 3.6 - - - +
223B VAL 3.3 5.8 - - - +
224B CYS* 1.4 93.9 - - + +
226B LEU* 1.3 61.6 + - - +
228B ASN* 3.2 7.4 + - + +
229B GLU* 3.0 23.7 + - - +
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Residues in contact with LEU 226 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59B LEU* 3.8 19.5 - - + +
62B GLY* 3.6 26.9 - - - +
64B LEU* 3.5 46.9 - - + +
67B ILE* 3.7 23.1 - - + -
222B ASN 4.8 0.4 + - - -
223B VAL* 2.8 15.0 + - - +
225B PRO* 1.3 76.2 - - - +
227B VAL* 1.3 57.5 + - - +
229B GLU* 3.3 23.8 + - - +
230B VAL* 3.0 32.1 + - + +
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Residues in contact with VAL 227 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55B LEU* 5.3 7.1 - - + +
59B LEU* 3.8 17.5 - - + -
131B VAL* 5.4 5.4 - - + -
133B ILE* 3.5 33.0 - - + -
161B ALA* 5.0 4.7 - - + -
163B ILE* 6.1 0.7 - - + -
177B LEU* 3.7 24.5 - - + -
180B CYS* 5.3 2.9 - - - -
223B VAL* 3.0 22.1 + - + +
224B CYS* 3.4 9.6 - - - +
225B PRO 3.1 0.2 - - - -
226B LEU* 1.3 76.0 - - - +
228B ASN* 1.3 66.2 + - - +
230B VAL* 3.4 3.6 + - - +
231B LEU* 3.1 28.3 + - + +
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Residues in contact with ASN 228 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
176B VAL* 3.5 18.3 - - - +
177B LEU* 3.0 43.5 + - + +
224B CYS 2.9 13.9 + - - +
225B PRO* 3.7 9.9 - - + +
227B VAL* 1.3 77.6 - - - +
229B GLU* 1.3 60.8 + - - +
231B LEU* 3.1 6.4 + - - +
232B ARG* 3.0 25.2 + - - +
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Residues in contact with GLU 229 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62B GLY* 5.0 6.2 - - - -
225B PRO 3.0 12.7 + - - +
226B LEU* 3.4 31.8 - - - +
227B VAL 3.2 0.2 - - - -
228B ASN* 1.3 76.7 - - - +
230B VAL* 1.3 64.5 + - + +
232B ARG* 3.3 18.1 + - + +
233B GLY* 3.2 17.3 + - - -
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Residues in contact with VAL 230 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54B ALA 4.1 3.1 - - - +
55B LEU* 4.0 33.4 - - + +
58B GLY* 3.3 45.1 - - - +
59B LEU* 3.5 11.7 - - + +
62B GLY* 5.6 0.2 - - - -
226B LEU* 3.0 26.0 + - + +
227B VAL* 3.9 6.3 - - - +
228B ASN 3.3 0.2 - - - -
229B GLU* 1.3 78.1 - - + +
231B LEU* 1.3 62.4 + - - +
233B GLY* 3.3 11.8 + - - +
234B LEU* 3.5 16.0 + - + +
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Residues in contact with LEU 231 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51B LEU* 5.1 0.4 - - + -
55B LEU* 3.6 26.2 - - + -
163B ILE* 3.9 31.4 - - + -
175B LEU* 3.6 19.2 + - + +
176B VAL* 3.5 9.0 - - - +
177B LEU* 3.4 44.6 - - + +
227B VAL* 3.1 17.5 + - + +
228B ASN* 3.1 10.5 + - - +
230B VAL* 1.3 77.4 - - - +
232B ARG* 1.3 60.5 + - - +
234B LEU* 3.4 37.4 + - + +
239B VAL* 5.0 1.6 - - - +
----------------------------------------------------------
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Residues in contact with ARG 232 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174B HIS* 5.3 13.9 + - - +
175B LEU 4.5 4.9 - - - -
176B VAL* 6.4 2.0 - - + -
228B ASN* 3.0 15.3 + - - +
229B GLU* 3.6 16.8 - - + +
231B LEU* 1.3 76.8 - - - +
233B GLY* 1.3 61.1 + - - +
234B LEU 3.3 5.4 + - - +
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Residues in contact with GLY 233 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
229B GLU 3.2 12.2 + - - -
230B VAL* 3.3 7.6 + - - -
231B LEU 3.2 0.6 - - - -
232B ARG* 1.3 79.3 - - - +
234B LEU* 1.3 61.1 + - - +
235B ASP 3.8 0.9 + - - -
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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