Contacts of the helix formed by residues 198 - 221 (chain C) in PDB entry 5L26
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 PRO 198 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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196C GLY 3.2 7.8 - - - +
197C VAL* 1.3 90.5 - - + +
199C LEU* 1.3 65.7 - - - +
200C PRO* 3.4 6.7 - - + -
201C TYR* 3.4 37.8 + - + +
202C LEU* 3.3 19.1 + - - +
343C LEU* 4.0 20.4 - - + -
356C LYS* 5.5 2.0 - - + +
360C SER* 4.1 7.6 - - - +
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Residues in contact with LEU 199 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60C SER* 3.2 35.7 - - - +
63C ILE* 4.4 11.0 - - + -
64C SER* 4.1 18.4 - - - +
67C ILE* 4.8 5.2 - - + -
189C LEU* 3.9 11.4 - - + -
193C VAL* 3.6 31.6 - - + +
197C VAL 3.2 6.0 + - - -
198C PRO* 1.3 69.1 - - - +
200C PRO* 1.4 75.1 - - + +
202C LEU* 2.9 6.0 + - + +
203C ILE* 2.9 47.8 + - + +
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Residues in contact with PRO 200 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56C LEU* 3.7 22.2 - - + +
57C GLY* 5.8 2.2 - - - -
60C SER* 3.3 27.8 - - - +
198C PRO* 3.6 8.5 - - + -
199C LEU* 1.4 93.9 - - + +
201C TYR* 1.3 68.5 + - + +
203C ILE* 3.3 5.6 + - + +
204C ALA* 3.0 24.8 + - - +
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Residues in contact with TYR 201 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47C LEU* 4.4 15.7 - - + -
198C PRO* 3.4 34.0 + - + +
199C LEU 3.2 0.6 - - - -
200C PRO* 1.3 83.8 - - + +
202C LEU* 1.3 59.0 + - + +
204C ALA 3.5 0.2 + - - -
205C ALA* 2.9 32.5 + - - +
353C ASP* 4.5 5.2 + - - +
356C LYS* 4.2 4.5 - - + -
357C ALA* 3.5 34.0 - - + +
360C SER* 3.6 29.2 - - - +
361C PHE* 3.4 33.8 - + + -
416C THR* 4.6 5.7 + - - -
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Residues in contact with LEU 202 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
189C LEU* 3.6 39.4 - - + +
192C TYR* 3.7 24.5 - - + -
193C VAL* 3.7 17.5 - - + -
197C VAL* 3.9 22.7 - - + +
198C PRO 3.3 9.6 + - - +
199C LEU* 2.9 7.7 + - - +
201C TYR* 1.3 74.2 - - + +
203C ILE* 1.3 64.6 + - - +
205C ALA* 4.0 0.9 - - - +
206C SER* 2.9 30.7 + - - -
336C TYR* 3.9 15.7 - - - +
360C SER 4.6 2.7 - - - +
364C CYS* 3.7 25.4 - - + -
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Residues in contact with ILE 203 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56C LEU* 3.7 17.9 - - + -
59C ALA* 4.7 12.8 - - + +
60C SER* 4.2 10.3 - - - +
63C ILE* 3.6 30.5 - - + -
189C LEU* 4.4 11.2 - - + -
199C LEU* 2.9 42.3 + - + +
200C PRO* 3.5 8.7 - - + +
202C LEU* 1.3 77.4 - - - +
204C ALA* 1.3 64.0 + - - +
206C SER* 3.3 11.4 + - - -
207C PHE* 3.0 42.7 + - + -
501C 6ZL 6.1 0.7 - - + -
502C 6ZL 4.8 5.8 - - + -
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Residues in contact with ALA 204 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46C VAL* 3.8 20.2 - - + -
47C LEU* 4.8 0.9 - - + -
56C LEU* 4.3 6.9 - - + +
200C PRO 3.0 13.6 + - - +
203C ILE* 1.3 80.7 - - - +
205C ALA* 1.3 58.8 + - - +
207C PHE* 3.2 8.6 + - - +
208C MET* 3.0 45.5 + - + +
361C PHE* 3.6 22.9 - - + -
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Residues in contact with ALA 205 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201C TYR 2.9 19.1 + - - +
202C LEU 4.0 0.2 - - - +
204C ALA* 1.3 76.4 - - - +
206C SER* 1.3 57.0 + - - +
208C MET* 3.4 5.3 + - - +
209C ALA* 3.0 28.4 + - - +
361C PHE* 3.5 26.0 - - + +
364C CYS* 3.6 37.0 - - + +
408C SER* 5.1 3.7 + - - -
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Residues in contact with SER 206 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150C ILE* 3.4 43.1 + - - +
183C SER* 5.9 0.2 - - - -
184C VAL* 4.3 13.5 - - - +
189C LEU* 3.2 20.8 - - - +
202C LEU 2.9 21.8 + - - -
203C ILE* 3.7 4.9 - - - -
204C ALA 3.3 0.4 - - - -
205C ALA* 1.3 76.7 - - - +
207C PHE* 1.3 62.4 + - - +
209C ALA* 3.5 16.4 - - - +
364C CYS* 4.3 8.1 - - - -
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Residues in contact with PHE 207 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42C LEU* 4.0 18.1 - - + +
128C ILE* 4.7 14.6 - - + -
150C ILE* 4.0 34.6 - - + +
203C ILE* 3.0 43.2 + - + -
204C ALA* 3.2 9.3 + - - +
206C SER* 1.3 76.4 - - - +
208C MET* 1.3 60.8 + - + +
209C ALA 3.1 4.9 + - - -
210C ALA* 3.7 6.1 + - - +
211C PRO* 3.3 15.4 - - - +
502C 6ZL 4.0 49.4 - - + -
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Residues in contact with MET 208 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39C GLN* 4.0 22.4 - - + +
42C LEU* 4.2 17.5 - - + -
43C GLY* 3.6 28.3 - - - +
46C VAL* 3.9 9.0 - - + -
47C LEU* 4.1 7.2 - - + -
204C ALA* 3.0 40.1 + - + +
205C ALA 3.4 3.3 + - - +
207C PHE* 1.3 74.6 - - + +
209C ALA* 1.3 63.4 + - - +
210C ALA 3.3 0.2 - - - -
211C PRO* 3.2 11.0 - - - +
212C GLY* 3.2 21.5 + - - -
361C PHE* 3.9 12.8 - - + -
404C SER* 4.5 0.3 + - - -
408C SER* 3.4 36.2 + - - +
411C ILE* 4.8 3.6 - - + -
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Residues in contact with ALA 209 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
179C GLY* 5.1 2.5 - - - +
182C ALA* 3.3 29.0 - - - +
183C SER* 3.8 20.4 - - - -
205C ALA 3.0 17.3 + - - +
206C SER* 3.5 12.8 - - - +
207C PHE 3.1 0.6 - - - -
208C MET* 1.3 79.5 - - - +
210C ALA* 1.3 56.6 + - - +
213C GLY* 2.8 27.9 + - - -
364C CYS 5.7 0.4 - - - +
404C SER* 3.9 7.0 + - - -
405C ASN* 5.7 0.4 - - - -
408C SER* 5.4 0.7 - - - -
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Residues in contact with ALA 210 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128C ILE* 5.9 0.9 - - + -
132C LEU* 4.4 10.8 - - + -
146C ALA* 3.3 39.9 - - + +
149C ASN* 6.2 0.7 - - - -
150C ILE* 4.2 13.4 - - + +
179C GLY* 5.8 3.1 - - - -
183C SER* 6.2 0.2 - - - -
206C SER 4.3 1.0 + - - -
207C PHE 3.7 6.5 + - - +
209C ALA* 1.3 77.4 - - - +
211C PRO* 1.4 73.0 - - + +
213C GLY* 3.8 0.9 - - - -
214C LEU* 3.1 29.4 + - - +
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Residues in contact with PRO 211 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35C ALA* 3.6 25.6 - - + +
38C ILE* 4.2 20.2 - - + -
39C GLN* 4.2 16.6 - - + -
42C LEU* 4.4 4.5 - - + -
132C LEU* 4.8 11.6 - - + -
136C LEU* 5.2 0.9 - - + -
207C PHE 3.3 15.0 - - - +
208C MET* 3.2 16.8 - - - +
210C ALA* 1.4 93.2 - - + +
212C GLY* 1.3 57.1 + - - +
214C LEU* 3.4 10.3 + - + +
215C LEU* 2.9 29.5 + - - +
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Residues in contact with GLY 212 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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39C GLN* 3.4 24.2 - - - +
208C MET 3.2 13.2 + - - -
211C PRO* 1.3 74.5 - - - +
213C GLY* 1.3 63.6 + - - +
215C LEU* 3.4 1.9 + - - +
216C PHE* 3.2 31.4 + - - -
404C SER* 3.1 18.5 + - - -
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Residues in contact with GLY 213 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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175C ALA 5.4 0.4 - - - -
178C SER* 4.0 17.0 - - - -
179C GLY* 4.7 5.4 - - - -
182C ALA* 4.2 12.1 - - - -
209C ALA 2.8 18.5 + - - -
210C ALA 3.8 1.1 - - - -
212C GLY* 1.3 77.9 - - - +
214C LEU* 1.3 62.7 + - - +
216C PHE* 3.6 1.4 + - - +
217C ALA* 3.1 26.6 + - - +
400C ALA* 5.4 1.7 - - - +
404C SER* 3.3 6.2 + - - -
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Residues in contact with LEU 214 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31C THR* 5.4 1.1 - - + +
35C ALA* 4.8 1.6 - - + -
132C LEU* 3.9 26.7 - - + -
136C LEU* 3.7 29.4 - - + -
138C THR* 4.7 16.8 - - + +
142C GLU* 4.1 25.6 - - + +
143C SER* 5.0 1.8 - - - +
146C ALA* 4.1 10.1 - - + -
175C ALA* 4.3 24.5 - - + +
179C GLY* 5.7 0.6 - - - -
210C ALA 3.1 17.9 + - - +
211C PRO* 3.7 4.3 - - + +
213C GLY* 1.3 72.5 - - - +
215C LEU* 1.3 65.6 + - - +
217C ALA* 4.2 3.1 - - - -
218C LYS* 3.0 32.1 + - + +
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Residues in contact with LEU 215 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14C ILE* 5.3 5.2 - - + -
31C THR* 6.4 0.4 - - - -
32C VAL* 3.2 42.7 - - + +
35C ALA* 3.8 9.6 - - + +
36C PHE* 4.2 24.9 - - + +
39C GLN* 4.0 16.4 - - - +
211C PRO 2.9 18.3 + - - +
212C GLY* 3.4 5.4 - - - +
213C GLY 3.2 0.4 - - - -
214C LEU* 1.3 78.6 - - - +
216C PHE* 1.3 86.5 + - + +
218C LYS 3.4 1.2 + - - -
219C LEU* 3.2 42.5 + - + +
407C MET* 4.8 2.5 - - + -
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Residues in contact with PHE 216 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13C LEU* 4.0 19.3 - - + -
14C ILE* 4.5 3.8 - - + -
17C ALA* 3.7 19.7 - - + -
212C GLY 3.2 23.1 + - - +
213C GLY 4.6 0.7 - - - +
215C LEU* 1.3 95.5 - - + +
217C ALA* 1.3 60.1 + - - +
219C LEU* 3.7 11.4 - - + -
220C LEU* 3.2 33.8 + - + +
400C ALA* 3.8 22.7 - - + +
403C LEU* 3.4 49.1 - - + -
404C SER* 3.6 14.8 - - - -
407C MET* 3.9 27.8 - - + -
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Residues in contact with ALA 217 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171C SER* 4.4 1.1 + - - +
174C PHE* 3.9 10.8 - - + -
175C ALA* 3.6 36.3 - - + -
178C SER* 3.9 10.1 - - - +
213C GLY 3.1 20.1 + - - +
214C LEU 3.8 4.0 - - - +
215C LEU 3.2 0.2 - - - -
216C PHE* 1.3 79.7 - - - +
218C LYS* 1.3 58.4 + - + +
219C LEU 3.2 1.8 - - - -
221C VAL* 3.2 34.3 + - - +
400C ALA* 4.7 0.4 - - - +
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Residues in contact with LYS 218 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27C ILE* 4.3 4.2 - - - +
28C ASN* 5.1 2.1 + - + +
31C THR* 3.8 26.9 - - + -
32C VAL* 4.1 11.9 - - + +
138C THR* 4.0 13.7 - - + +
142C GLU* 2.7 43.5 + - - -
171C SER* 3.4 26.8 + - - +
175C ALA* 4.4 8.5 - - - -
214C LEU* 3.0 21.4 + - - +
215C LEU 3.8 2.7 - - - +
217C ALA* 1.3 76.5 - - - +
219C LEU* 1.3 59.6 + - - +
221C VAL 4.2 2.5 - - - -
222C PRO* 3.3 27.2 - - + +
223C GLU* 3.9 22.1 + - + +
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Residues in contact with LEU 219 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14C ILE* 4.4 17.9 - - + +
17C ALA* 4.0 27.4 - - + +
18C VAL* 4.3 12.6 - - + -
21C SER* 2.7 32.3 + - - -
27C ILE* 3.9 29.0 - - + +
32C VAL* 3.7 23.8 - - + -
215C LEU* 3.2 41.9 + - + +
216C PHE* 3.9 13.7 - - + +
217C ALA 3.2 0.4 - - - -
218C LYS* 1.3 80.2 - - - +
220C LEU* 1.3 55.6 + - - +
222C PRO* 4.0 2.1 - - - +
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Residues in contact with LEU 220 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17C ALA* 3.2 33.9 - - + +
20C LEU* 3.7 29.9 - - + +
21C SER* 3.4 2.6 - - - +
22C THR* 3.0 29.6 + - - +
174C PHE* 3.9 13.9 - - + -
216C PHE* 3.2 19.5 + - + +
219C LEU* 1.3 77.7 - - - +
221C VAL* 1.3 64.3 + - + +
222C PRO* 3.8 0.7 - - - -
396C LYS* 3.5 28.7 - - + +
399C VAL* 4.7 7.9 - - + -
400C ALA* 3.7 19.7 - - + +
403C LEU* 5.3 1.6 - - + -
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Residues in contact with VAL 221 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22C THR* 3.6 25.1 - - + +
170C GLU* 4.9 12.6 - - + +
171C SER* 2.4 37.0 + - - +
174C PHE* 3.4 52.3 - - + -
217C ALA 3.2 11.0 + - - +
218C LYS* 4.2 0.6 - - - -
220C LEU* 1.3 84.5 - - + +
222C PRO* 1.3 58.7 - - - +
393C LEU* 5.3 8.3 - - + -
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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