Contacts of the helix formed by residues 193 - 217 (chain A) in PDB entry 1X0X
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 GLU 193 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
191A VAL* 3.7 5.7 - - + +
192A GLN* 1.3 73.6 - - - +
194A VAL* 1.3 65.2 + - - +
195A ASP* 3.2 5.4 + - + +
196A THR* 2.9 26.8 + - - +
197A VAL* 3.3 25.1 + - - +
246A PRO* 3.8 18.1 - - - +
247A VAL* 3.8 0.3 - - - -
248A SER* 2.8 36.4 + - - -
251A THR* 2.8 26.5 + - + +
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Residues in contact with VAL 194 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133A SER* 4.7 4.7 - - - +
144A MET 4.6 12.8 - - - +
146A VAL* 3.8 30.4 - - + +
167A GLY* 3.6 32.3 - - - +
168A CYS* 3.7 8.3 - - - +
169A LYS* 3.8 27.5 - - + +
192A GLN 2.8 17.1 + - - +
193A GLU* 1.3 72.1 - - - +
195A ASP* 1.3 69.3 + - - +
197A VAL* 3.2 2.8 + - - +
198A GLU* 2.9 26.4 + - - +
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Residues in contact with ASP 195 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131A LEU* 2.7 38.6 - - + +
133A SER* 5.5 0.2 + - - -
134A GLU* 3.8 13.0 - - - +
169A LYS* 5.8 4.9 + - - -
193A GLU* 3.2 3.1 - - + -
194A VAL* 1.3 82.6 - - - +
196A THR* 1.3 64.5 + - - +
198A GLU* 3.2 2.9 + - - +
199A ILE* 3.0 26.1 + - - +
243A CYS* 4.7 12.4 - - + -
244A SER* 3.5 33.7 + - - +
247A VAL* 6.4 0.2 - - + -
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Residues in contact with THR 196 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
193A GLU* 2.9 33.0 + - - +
195A ASP* 1.3 78.7 - - - +
197A VAL* 1.3 63.9 + - - +
199A ILE* 3.0 25.6 - - + +
200A CYS* 3.1 10.5 + - - -
243A CYS* 5.1 2.2 - - - -
246A PRO 4.3 1.2 + - - -
247A VAL* 3.6 21.9 - - + +
251A THR* 3.6 23.3 - - + -
252A PHE* 3.6 35.0 - - + -
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Residues in contact with VAL 197 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146A VAL* 3.9 15.3 - - + -
148A MET* 3.7 17.4 - - + +
165A THR* 4.1 14.6 - - + +
167A GLY* 4.4 4.0 - - - +
191A VAL* 3.5 29.2 - - + -
193A GLU 3.3 14.1 - - - +
194A VAL 3.5 7.0 - - - +
196A THR* 1.3 79.3 - - - +
198A GLU* 1.3 62.6 + - - +
200A CYS* 3.4 14.2 + - - +
201A GLY 3.5 3.8 + - - -
251A THR* 3.9 12.6 - - + -
256A CYS* 3.8 30.7 - - + +
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Residues in contact with GLU 198 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117A SER* 5.2 1.5 + - - -
119A ILE 4.8 7.5 - - - +
121A GLY 4.8 6.4 + - - +
131A LEU* 3.8 23.6 - - + +
132A ILE* 3.3 16.1 + - - +
133A SER* 2.4 47.4 + - - -
146A VAL* 3.4 19.8 - - + +
148A MET* 4.2 18.5 - - + +
194A VAL* 2.9 17.6 + - - +
195A ASP 3.7 4.0 - - - +
197A VAL* 1.3 76.6 - - - +
199A ILE* 1.3 65.4 + - - +
201A GLY* 3.1 12.8 + - - -
202A ALA* 3.2 10.4 + - - +
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Residues in contact with ILE 199 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122A VAL* 3.7 27.1 - - + -
129A LEU* 3.8 26.0 - - + -
131A LEU* 4.1 7.4 - - + +
195A ASP 3.0 15.0 + - - +
196A THR* 3.0 27.6 - - + +
198A GLU* 1.3 76.8 - - - +
200A CYS* 1.3 65.4 + - - +
202A ALA* 3.1 3.0 + - - +
203A LEU* 2.9 48.2 + - + +
238A PHE* 4.6 12.3 - - + -
239A ALA* 3.9 21.3 - - + -
243A CYS* 4.2 11.9 - - - -
252A PHE* 4.9 1.1 - - + -
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Residues in contact with CYS 200 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
196A THR* 3.1 20.5 + - - -
197A VAL 3.5 9.0 - - - +
199A ILE* 1.3 77.1 - - - +
201A GLY* 1.3 62.3 + - - +
204A LYS* 3.1 27.9 + - - +
235A MET* 3.8 12.8 - - + +
251A THR 5.1 0.2 - - - -
252A PHE* 3.4 41.1 - - - -
256A CYS* 3.1 28.7 - - + +
257A GLY* 4.0 13.5 - - - -
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Residues in contact with GLY 201 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120A LYS* 3.4 36.7 - - - +
148A MET* 4.1 11.2 - - - +
197A VAL 3.5 3.8 + - - -
198A GLU 3.1 8.4 + - - -
200A CYS* 1.3 79.6 - - - +
202A ALA* 1.3 60.8 + - - +
204A LYS* 3.4 22.7 - - - +
205A ASN* 4.0 1.4 + - - -
256A CYS 4.2 1.9 + - - -
260A ASP* 4.3 3.4 - - - -
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Residues in contact with ALA 202 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120A LYS* 4.3 0.6 - - - +
121A GLY* 3.3 39.2 - - - +
122A VAL* 3.4 20.2 - - + -
198A GLU 3.2 10.5 + - - +
199A ILE* 3.1 10.4 + - + +
201A GLY* 1.3 80.3 - - - +
203A LEU* 1.3 64.9 + - + +
205A ASN* 3.6 13.2 + - - +
206A VAL 4.4 0.3 + - - -
302A THR* 3.6 17.9 + - + +
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Residues in contact with LEU 203 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122A VAL* 5.2 0.9 - - + -
199A ILE* 2.9 30.9 + - + +
202A ALA* 1.3 78.4 - - + +
204A LYS* 1.3 64.9 + - - +
205A ASN 3.1 2.5 - - - -
206A VAL* 3.1 18.0 + - - +
207A VAL* 3.4 14.8 + - - +
235A MET* 3.8 43.7 - - + +
238A PHE* 3.8 27.4 - - + -
252A PHE* 6.1 0.4 - - + -
302A THR* 4.8 2.5 - - + -
306A LEU* 3.6 39.5 - - + -
322A PHE* 4.2 7.7 - - + -
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Residues in contact with LYS 204 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120A LYS* 3.7 13.6 - - - +
200A CYS 3.1 15.0 + - - +
201A GLY 3.4 21.3 - - - +
203A LEU* 1.3 77.3 - - - +
205A ASN* 1.3 85.3 + - - +
207A VAL* 3.4 4.5 + - - +
208A ALA* 2.9 27.7 + - - +
235A MET* 4.3 4.6 - - + +
256A CYS 5.2 1.1 - - - +
257A GLY 5.5 0.2 - - - +
260A ASP* 3.0 32.8 + - + +
261A LEU* 3.6 36.7 - - + +
264A THR* 2.9 30.2 + - - +
265A CYS* 4.9 0.3 - - - -
1002A SO4 3.0 14.1 + - - -
2001A NAD 5.8 0.6 - - - -
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Residues in contact with ASN 205 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120A LYS* 3.8 21.6 + - - +
201A GLY 4.0 2.0 + - - -
202A ALA 3.6 9.0 + - - +
203A LEU 3.1 1.0 - - - -
204A LYS* 1.3 113.6 + - - +
206A VAL* 1.3 65.3 + - - +
208A ALA* 3.5 5.2 + - - +
209A VAL* 3.1 25.6 + - - +
264A THR* 3.6 7.4 - - - +
270A ASN* 3.3 18.6 + - - +
298A GLN* 3.9 16.4 - - + +
299A GLY* 3.6 19.3 - - - +
302A THR* 5.1 0.4 - - - +
1002A SO4 3.6 3.9 + - - -
2001A NAD 4.3 4.8 + - - -
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Residues in contact with VAL 206 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
202A ALA 4.5 0.2 - - - +
203A LEU 3.1 11.1 + - - +
205A ASN* 1.3 72.7 - - - +
207A VAL* 1.3 66.4 + - - +
209A VAL* 3.0 20.9 + - - +
210A GLY 3.4 3.3 + - - -
299A GLY 3.5 22.0 - - - +
302A THR* 3.7 18.8 - - + -
303A ALA* 3.7 22.9 - - + +
306A LEU* 4.1 9.4 - - + -
322A PHE* 3.9 27.1 - - + -
325A VAL* 3.7 28.9 - - + +
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Residues in contact with VAL 207 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
203A LEU 3.4 14.8 - - - +
204A LYS 3.5 5.6 - - - +
206A VAL* 1.3 76.5 - - - +
208A ALA* 1.3 57.2 + - - +
210A GLY* 2.9 18.4 + - - -
211A ALA* 2.9 10.9 + - - +
227A VAL* 3.7 32.5 - - + +
228A ILE* 4.3 2.7 - - - -
231A GLY* 3.9 22.2 - - - -
235A MET* 4.2 6.1 - - - -
261A LEU* 3.8 25.1 - - + -
265A CYS* 4.2 7.0 - - - -
321A LEU* 4.7 9.9 - - + -
322A PHE* 4.1 15.3 - - + -
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Residues in contact with ALA 208 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
204A LYS 2.9 12.7 + - - +
205A ASN* 3.7 7.0 - - - +
206A VAL 3.2 0.4 - - - -
207A VAL* 1.3 73.9 - - - +
209A VAL* 1.3 64.1 + - - +
211A ALA* 3.3 2.1 + - - +
212A GLY 3.0 17.7 + - - -
264A THR* 3.4 38.4 - - + +
265A CYS* 3.5 18.5 - - - -
270A ASN* 4.3 7.9 - - + -
271A ARG* 3.7 13.8 - - - +
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Residues in contact with VAL 209 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
205A ASN 3.1 17.4 + - - +
206A VAL* 3.0 8.7 + - - +
208A ALA* 1.3 77.1 - - - +
210A GLY* 1.3 62.9 + - - +
212A GLY 3.2 0.2 + - - -
213A PHE* 3.1 46.1 + - + -
270A ASN* 4.0 13.7 - - + +
274A ALA* 3.1 25.9 - - + +
284A ILE* 5.4 1.3 - - + -
299A GLY* 3.9 20.2 - - - -
300A PRO* 4.0 10.8 - - + -
325A VAL* 3.7 13.7 - - + -
329A CYS* 4.1 8.7 - - - -
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Residues in contact with GLY 210 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
206A VAL 3.4 3.6 + - - -
207A VAL 2.9 9.0 + - - -
209A VAL* 1.3 77.8 - - - +
211A ALA* 1.3 64.8 + - - +
213A PHE* 3.1 12.2 + - - +
214A CYS* 3.1 25.1 + - - -
227A VAL* 4.2 6.7 - - - -
321A LEU* 5.3 0.2 - - - -
325A VAL* 4.1 4.4 - - - +
338A PHE* 3.7 25.9 - - - -
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Residues in contact with ALA 211 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
207A VAL 2.9 6.4 + - - +
208A ALA 3.3 8.0 + - - +
210A GLY* 1.3 75.4 - - - +
212A GLY* 1.3 62.6 + - - +
214A CYS* 3.2 7.6 + - - +
215A ASP* 3.0 27.4 + - - +
224A LYS* 4.1 13.8 - - + +
227A VAL* 3.8 16.2 - - + +
265A CYS* 3.7 42.4 - - + +
271A ARG* 4.7 0.2 - - + -
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Residues in contact with GLY 212 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
208A ALA 3.0 10.7 + - - -
209A VAL 3.2 4.0 + - - -
210A GLY 3.2 0.4 - - - -
211A ALA* 1.3 75.8 - - - +
213A PHE* 1.3 58.2 + - - +
215A ASP* 3.3 3.8 + - - +
216A GLY 2.8 22.9 + - - -
271A ARG* 3.6 31.8 - - - +
274A ALA* 3.8 2.9 - - - -
275A GLU* 3.1 19.4 - - - +
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Residues in contact with PHE 213 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
209A VAL* 3.1 42.9 + - + -
210A GLY* 3.3 11.2 - - - +
212A GLY* 1.3 75.3 - - - +
214A CYS* 1.3 59.0 + - - +
216A GLY* 2.7 18.5 + - - -
217A LEU* 2.8 18.5 + - - +
274A ALA* 3.4 22.7 - - + -
277A PHE* 3.8 18.2 - + - -
278A ALA* 4.0 7.0 - - + +
284A ILE* 5.9 0.4 - - + -
325A VAL* 4.3 13.9 - - - -
328A VAL* 3.5 31.4 - - + -
329A CYS* 4.0 11.0 - - - -
335A VAL* 3.8 23.3 - - + -
338A PHE* 3.9 28.3 - + + -
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Residues in contact with CYS 214 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
210A GLY 3.1 14.2 + - - -
211A ALA* 3.2 7.4 + - - +
213A PHE* 1.3 79.9 - - - +
215A ASP* 1.3 61.4 + - - +
217A LEU* 3.2 8.2 + - - -
219A PHE* 2.8 36.7 + - + -
223A THR* 3.9 18.8 - - + -
224A LYS* 5.5 3.4 - - + +
227A VAL* 3.7 22.0 - - + -
338A PHE* 3.7 23.1 - - - -
339A ILE* 3.9 18.8 - - - -
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Residues in contact with ASP 215 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
211A ALA 3.0 14.7 + - - +
212A GLY 3.5 8.1 - - - +
214A CYS* 1.3 76.7 - - - +
216A GLY* 1.3 57.2 + - - +
217A LEU 3.1 0.2 - - - -
218A GLY* 3.0 19.4 + - - -
219A PHE 3.9 16.8 - - - +
220A GLY* 5.0 3.8 - - - +
224A LYS* 2.7 37.9 + - - +
271A ARG* 3.0 32.6 + - - +
275A GLU* 3.9 9.7 - - + +
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Residues in contact with GLY 216 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
212A GLY 2.8 8.3 + - - -
213A PHE 2.7 10.5 + - - -
215A ASP* 1.3 77.6 - - - +
217A LEU* 1.3 59.7 + - - +
218A GLY 3.3 1.1 + - - -
275A GLU* 3.5 20.1 - - - +
278A ALA* 3.7 20.0 - - - +
279A ARG* 4.0 16.8 - - - +
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Residues in contact with LEU 217 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
213A PHE 2.8 20.3 + - - +
214A CYS* 3.2 1.5 + - - -
215A ASP 3.1 0.4 - - - -
216A GLY* 1.3 81.6 - - - +
218A GLY* 1.3 60.8 + - - +
219A PHE* 3.5 32.4 - - + -
278A ALA* 5.1 1.3 - - + +
335A VAL* 3.9 36.8 - - + +
336A GLY* 3.8 23.8 - - - +
338A PHE* 4.6 4.3 - - + -
339A ILE* 4.3 15.0 - - + -
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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