Contacts of the helix formed by residues 192 - 222 (chain B) in PDB entry 1S13
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 THR 192 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
191B MET* 1.3 77.1 - - - +
193B PRO* 1.3 75.7 - - + +
194B ALA* 3.2 7.8 + - - +
195B VAL* 3.5 25.3 + - + +
196B ARG* 3.0 21.0 + - - +
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Residues in contact with PRO 193 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
191B MET 4.6 0.7 - - - +
192B THR* 1.3 90.2 - - + +
194B ALA* 1.3 59.9 + - - +
196B ARG* 3.5 10.9 + - + +
197B GLN* 3.2 21.1 + - - +
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Residues in contact with ALA 194 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
192B THR* 3.1 7.7 - - - +
193B PRO* 1.3 77.4 - - - +
195B VAL* 1.3 67.2 + - + +
197B GLN* 3.0 20.9 + - - +
198B ARG* 3.0 18.1 + - - +
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Residues in contact with VAL 195 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127B GLU* 4.0 25.4 - - + -
128B LEU* 5.3 0.7 - - + -
191B MET* 4.0 21.8 - - + -
192B THR* 3.3 22.0 + - + +
194B ALA* 1.3 77.7 - - + +
196B ARG* 1.3 62.9 + - - +
198B ARG* 3.2 28.2 + - - +
199B VAL* 2.9 41.4 + - + +
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Residues in contact with ARG 196 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10B PRO 3.4 6.7 + - - -
11B GLN 2.8 27.8 + - - -
12B ASP 3.3 15.6 + - - -
13B LEU* 3.8 29.4 - - + +
16B ALA* 3.4 19.6 - - - +
191B MET* 3.9 28.2 - - + +
192B THR 3.0 17.2 + - - +
193B PRO* 3.6 10.3 - - + +
195B VAL* 1.3 76.2 - - - +
197B GLN* 1.3 63.4 + - - +
199B VAL* 3.3 4.1 + - - +
200B ILE* 3.1 30.7 + - + +
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Residues in contact with GLN 197 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
193B PRO 3.2 9.4 + - - +
194B ALA* 3.0 14.6 + - - +
196B ARG* 1.3 80.0 - - - +
198B ARG* 1.3 60.3 + - - +
200B ILE* 3.1 10.4 + - - +
201B GLU* 2.9 46.7 + - + +
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Residues in contact with ARG 198 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125B GLU* 2.5 31.2 + - - -
127B GLU* 2.9 23.4 + - - -
128B LEU* 3.6 26.7 - - + +
194B ALA* 3.0 12.2 + - - +
195B VAL* 3.2 31.6 + - - +
197B GLN* 1.3 77.5 - - - +
199B VAL* 1.3 56.3 + - - +
201B GLU* 3.3 10.9 + - + +
202B GLU* 2.8 29.8 + - - +
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Residues in contact with VAL 199 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13B LEU* 4.6 19.5 - - + -
17B LEU* 4.8 7.0 - - + -
127B GLU 3.6 24.0 - - - +
128B LEU* 3.9 11.0 - - + -
130B VAL* 5.0 6.3 - - + -
131B ALA* 3.5 23.9 - - + +
191B MET* 4.0 14.1 - - + -
195B VAL* 2.9 32.4 + - + +
196B ARG* 3.5 9.2 - - - +
198B ARG* 1.3 73.7 - - - +
200B ILE* 1.3 61.2 + - - +
202B GLU* 3.1 5.9 + - - +
203B ALA* 2.9 24.9 + - - +
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Residues in contact with ILE 200 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13B LEU* 4.9 4.0 - - + -
16B ALA* 3.7 31.9 - - + +
17B LEU* 4.2 20.4 - - + -
20B ALA* 3.4 16.3 - - + +
196B ARG* 3.1 27.0 + - + +
197B GLN* 3.5 10.5 - - - +
199B VAL* 1.3 74.8 - - - +
201B GLU* 1.3 65.0 + - - +
203B ALA* 3.2 12.0 + - - +
204B LYS* 3.0 37.7 + - - +
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Residues in contact with GLU 201 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
197B GLN* 2.9 46.0 + - + +
198B ARG* 3.6 9.9 - - + +
200B ILE* 1.3 75.2 - - - +
202B GLU* 1.3 61.2 + - - +
204B LYS* 3.1 29.3 + - - +
205B THR* 2.9 31.7 + - - +
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Residues in contact with GLU 202 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117B ARG* 2.6 42.7 + - - -
121B VAL* 4.1 3.8 - - - -
128B LEU* 3.5 25.8 - - + +
131B ALA* 3.7 8.5 - - + -
132B HIS* 2.9 36.6 + - + +
198B ARG 2.8 13.0 + - - +
199B VAL* 3.4 11.7 - - - +
201B GLU* 1.3 75.3 - - - +
203B ALA* 1.3 59.1 + - - +
205B THR* 3.2 19.2 + - - +
206B ALA* 2.8 28.4 + - - +
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Residues in contact with ALA 203 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17B LEU* 3.8 23.6 - - + -
21B THR* 3.9 14.6 - - + -
131B ALA* 3.7 12.5 - - + +
134B TYR* 5.1 1.6 - - + -
135B THR* 4.2 13.5 - - + -
199B VAL 2.9 11.4 + - - +
200B ILE 3.2 10.8 - - - +
202B GLU* 1.3 76.3 - - - +
204B LYS* 1.3 62.3 + - - +
206B ALA* 2.9 18.7 + - - +
207B PHE* 3.1 14.2 + - - -
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Residues in contact with LYS 204 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20B ALA* 3.1 34.8 - - - +
21B THR* 4.7 2.2 - - + -
23B GLU* 6.3 0.2 - - - -
24B VAL* 4.7 17.1 - - + +
200B ILE* 3.0 38.8 - - - +
201B GLU* 3.1 26.6 + - - +
203B ALA* 1.3 76.4 - - - +
205B THR* 1.3 58.3 + - - +
207B PHE* 3.1 9.5 + - - +
208B LEU* 2.9 37.4 + - + +
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Residues in contact with THR 205 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117B ARG* 4.7 8.7 - - + +
132B HIS* 5.3 0.2 - - - +
201B GLU* 2.9 17.8 + - - +
202B GLU* 3.3 30.1 + - - +
204B LYS* 1.3 75.5 - - - +
206B ALA* 1.3 63.2 + - - +
208B LEU* 3.7 14.6 - - + +
209B LEU* 3.0 39.6 + - + +
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Residues in contact with ALA 206 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114B TYR* 4.3 4.2 + - - +
131B ALA 4.8 0.7 - - - +
132B HIS* 4.1 23.3 - - + -
135B THR* 3.5 31.2 - - + +
202B GLU 2.8 13.3 + - - +
203B ALA* 3.0 11.2 - - - +
205B THR* 1.3 76.5 - - - +
207B PHE* 1.3 62.3 + - - +
209B LEU* 3.1 15.9 + - - +
210B ASN* 3.0 20.6 + - - +
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Residues in contact with PHE 207 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21B THR* 3.6 29.4 - - + -
24B VAL* 3.5 33.2 - - + -
25B HIS* 3.5 33.2 - + + -
28B ALA* 4.4 7.2 - - + -
134B TYR* 5.4 0.2 - + - -
135B THR* 3.9 19.3 - - + -
203B ALA 3.1 13.5 + - - -
204B LYS 3.1 7.2 + - - +
206B ALA* 1.3 79.4 - - - +
208B LEU* 1.3 51.2 - - - +
210B ASN* 2.7 14.2 + - - +
211B ILE* 2.7 36.8 + - + +
300B 2FH 3.4 53.6 - + + -
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Residues in contact with LEU 208 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24B VAL* 4.4 14.1 - - + -
27B GLN* 5.4 3.1 - - - +
204B LYS* 2.9 28.4 + - + +
205B THR* 3.7 14.8 - - + +
207B PHE* 1.3 72.8 - - - +
209B LEU* 1.3 58.6 + - + +
211B ILE* 3.5 19.3 - - + +
212B GLN* 2.8 34.9 + - - +
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Residues in contact with LEU 209 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110B ALA 5.1 2.5 - - - +
113B ARG* 4.6 7.6 - - + +
114B TYR* 4.0 49.0 - - + +
117B ARG* 4.1 27.8 - - + -
132B HIS* 4.3 8.5 - - - +
205B THR* 3.0 29.7 + - + +
206B ALA* 3.3 7.4 - - - +
207B PHE 3.0 0.2 - - - -
208B LEU* 1.3 76.8 - - + +
210B ASN* 1.3 60.7 + - - +
212B GLN* 3.3 28.1 + - - +
213B LEU* 3.1 22.5 + - - +
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Residues in contact with ASN 210 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57B ILE* 5.0 0.2 - - - +
114B TYR* 2.9 32.2 + - - -
136B ARG* 3.0 21.0 + - - -
206B ALA 3.0 21.2 + - - -
207B PHE* 2.7 13.2 + - - +
209B LEU* 1.3 69.8 - - - +
211B ILE* 1.3 65.2 + - + +
213B LEU* 3.0 14.7 + - - +
214B PHE* 3.0 34.6 + - + -
300B 2FH 3.4 45.2 - - + +
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Residues in contact with ILE 211 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24B VAL* 3.6 31.0 - - + +
27B GLN* 4.3 17.9 - - + +
28B ALA* 3.7 24.9 - - + +
31B ALA* 5.3 4.3 - - + +
207B PHE* 2.7 27.5 + - + +
208B LEU* 3.5 22.0 - - + +
210B ASN* 1.3 72.7 - - - +
212B GLN* 1.3 63.1 + - - +
214B PHE* 3.2 19.3 + - - +
215B GLU* 3.1 35.0 + - + +
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Residues in contact with GLN 212 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110B ALA* 4.2 6.6 + - + +
113B ARG* 2.7 53.2 + - - +
208B LEU* 2.8 21.7 + - - +
209B LEU* 3.3 32.5 + - - +
211B ILE* 1.3 71.7 - - + +
213B LEU* 1.3 63.7 + - - +
214B PHE 3.3 0.2 - - - -
215B GLU* 3.5 19.5 + - - +
216B GLU* 3.2 21.5 + - - +
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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
----------------------------------------------------------
53B SER* 3.7 35.9 - - - +
57B ILE* 4.0 18.6 - - + -
110B ALA* 3.4 37.0 - - + +
111B MET* 4.0 10.8 - - + -
114B TYR* 4.5 8.3 - - + -
209B LEU 3.1 14.1 + - - +
210B ASN* 3.0 17.1 + - - +
212B GLN* 1.3 76.3 - - - +
214B PHE* 1.3 65.6 + - + +
216B GLU* 3.3 6.2 + - - +
217B LEU* 3.0 42.6 + - + +
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Residues in contact with PHE 214 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28B ALA* 4.0 18.4 - - + -
31B ALA* 4.0 19.7 - - + -
33B PHE* 3.6 19.9 - + + +
34B MET* 3.3 42.8 - - + -
50B VAL* 5.9 2.9 - - + -
210B ASN* 3.0 28.8 + - + -
211B ILE* 3.5 9.0 - - - +
213B LEU* 1.3 83.5 - - + +
215B GLU* 1.3 59.1 + - - +
217B LEU* 3.7 11.8 - - + +
218B GLN* 2.9 30.5 + - - +
300B 2FH 3.9 34.5 - - + -
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Residues in contact with GLU 215 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31B ALA* 6.0 3.6 - - + -
211B ILE* 3.1 30.5 - - + +
212B GLN* 3.8 18.2 - - - +
213B LEU 3.2 0.6 - - - -
214B PHE* 1.3 75.0 - - + +
216B GLU* 1.3 62.2 + - - +
218B GLN* 3.5 5.5 + - - +
219B GLU* 3.1 33.3 + - - +
----------------------------------------------------------
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Residues in contact with GLU 216 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108B THR* 2.6 29.5 + - - +
109B PRO* 3.2 21.0 - - - +
110B ALA* 2.9 36.8 + - + +
113B ARG* 4.5 3.5 + - - +
212B GLN 3.2 12.1 + - - +
213B LEU* 3.7 10.2 - - - +
215B GLU* 1.3 76.3 - - - +
217B LEU* 1.3 64.1 + - - +
219B GLU* 3.2 20.8 - - + +
220B LEU* 2.9 46.2 + - + +
----------------------------------------------------------
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Residues in contact with LEU 217 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33B PHE* 4.2 20.4 - - + -
49B LEU* 4.1 27.4 - - + +
50B VAL* 4.1 27.1 - - + -
53B SER* 4.3 11.2 - - - +
111B MET* 4.4 16.4 - - + -
213B LEU* 3.0 35.2 + - + +
214B PHE* 3.7 13.7 - - + +
215B GLU 3.3 0.2 - - - -
216B GLU* 1.3 90.4 - - - +
218B GLN* 1.3 60.9 + - - +
220B LEU* 3.2 10.1 + - + +
221B LEU* 3.0 30.5 + - - +
----------------------------------------------------------
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Residues in contact with GLN 218 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32B GLU* 3.8 36.3 + - + +
33B PHE* 3.0 43.5 + - + +
36B ASN* 3.8 11.8 + - - +
214B PHE 2.9 17.7 + - - +
215B GLU* 3.7 7.9 - - - +
216B GLU 3.3 0.2 - - - -
217B LEU* 1.3 78.0 - - - +
219B GLU* 1.3 58.0 + - - +
221B LEU* 3.4 6.2 + - - +
222B THR* 2.8 63.3 + - - +
----------------------------------------------------------
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Residues in contact with GLU 219 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
215B GLU* 3.1 19.4 + - - +
216B GLU* 3.2 28.7 + - + +
218B GLN* 1.3 74.3 - - - +
220B LEU* 1.3 64.3 + - + +
222B THR* 3.6 12.5 + - - -
223B HIS* 3.4 21.0 + - - +
----------------------------------------------------------
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Residues in contact with LEU 220 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49B LEU* 4.8 15.5 - - + -
108B THR* 4.1 23.3 - - + -
216B GLU* 2.9 41.6 + - + +
217B LEU* 3.2 15.7 + - + +
219B GLU* 1.3 79.8 - - + +
221B LEU* 1.3 62.9 + - - +
223B HIS* 3.4 17.3 - - + +
----------------------------------------------------------
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Residues in contact with LEU 221 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33B PHE* 3.5 34.5 - - + -
42B VAL* 6.1 0.4 - - + -
43B THR* 5.0 5.8 - - + +
45B ASP* 4.3 11.0 - - + +
46B GLY* 3.9 22.9 - - - +
49B LEU* 3.8 23.8 - - + -
217B LEU 3.0 17.1 + - - +
218B GLN* 3.9 7.9 - - - +
220B LEU* 1.3 74.3 - - - +
222B THR* 1.3 62.1 + - + +
223B HIS 2.8 17.5 + - - +
----------------------------------------------------------
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Residues in contact with THR 222 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32B GLU* 5.6 1.3 - - - +
218B GLN* 2.8 44.3 + - + +
219B GLU* 3.6 11.9 - - - +
220B LEU 3.5 0.2 - - - -
221B LEU* 1.3 75.2 - - + +
223B HIS* 1.3 58.5 + - - +
----------------------------------------------------------
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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