Contacts of the helix formed by residues 191 - 215 (chain A) in PDB entry 1WMA
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 SER 191 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141A MET* 5.9 0.7 - - - +
145A ALA* 5.2 3.3 - - - +
174A PHE* 4.6 0.4 - - - -
189A PRO* 3.4 7.0 - - - +
190A SER* 1.3 75.4 - - - +
192A ALA* 1.3 63.8 + - - +
193A TYR* 4.1 1.4 - - - +
194A GLY* 3.0 22.0 + - - -
195A VAL* 3.1 25.7 + - - +
301A SO4 2.7 26.3 + - - -
310A PE5 4.1 22.7 + - - -
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Residues in contact with ALA 192 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102A PHE* 3.8 24.5 - - + -
105A GLN* 4.8 3.4 - - + +
106A ALA* 3.9 26.7 - - - +
109A THR* 4.3 5.2 - - + +
174A PHE* 3.7 16.5 - - + -
190A SER 3.4 3.8 + - - -
191A SER* 1.3 69.6 - - - +
193A TYR* 1.3 68.2 + - - +
195A VAL* 3.1 4.2 + - - +
196A THR* 3.0 26.4 + - + +
301A SO4 3.0 11.1 + - - +
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Residues in contact with TYR 193 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92A ILE 3.5 26.5 - - - -
93A ALA* 3.6 18.8 - - + -
94A PHE 5.9 0.7 - - - +
109A THR* 4.5 7.7 + - + +
113A ASN* 3.8 12.6 - - - -
139A SER* 3.9 4.9 - - - -
141A MET* 4.1 9.9 - - + -
191A SER* 4.2 2.9 - - - +
192A ALA* 1.3 77.2 - - - +
194A GLY* 1.3 64.3 + - - +
196A THR* 2.8 24.8 + - - -
197A LYS* 3.1 25.9 + - + +
234A MET* 4.4 0.9 - - - -
301A SO4 2.9 17.9 + - - +
307A AB3 2.5 43.5 + + - -
309A NDP 2.7 29.1 + - - -
310A PE5 3.8 18.8 - - - +
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Residues in contact with GLY 194 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141A MET* 4.0 14.1 - - - -
142A SER* 4.0 1.7 - - - -
145A ALA* 3.8 19.9 - - - +
191A SER* 3.0 19.6 + - - -
192A ALA 3.2 0.2 - - - -
193A TYR* 1.3 83.3 - - - +
195A VAL* 1.3 55.3 + - - +
197A LYS* 3.2 5.2 + - - +
198A ILE* 2.9 28.1 + - - +
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Residues in contact with VAL 195 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110A MET* 4.0 3.1 - - + -
171A MET* 3.7 15.6 - - + +
174A PHE* 3.8 39.9 - - + -
188A TRP* 3.9 17.9 - - + -
189A PRO* 3.7 34.3 - - + -
191A SER 3.1 15.4 + - - +
192A ALA 3.1 6.0 + - - +
194A GLY* 1.3 71.1 - - - +
196A THR* 1.3 67.0 + - - +
198A ILE* 3.1 13.3 + - + +
199A GLY 3.0 17.2 + - - -
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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
----------------------------------------------------------
106A ALA 4.8 0.4 - - - +
109A THR* 3.5 24.0 - - - +
110A MET* 3.5 40.2 - - + +
113A ASN* 3.1 33.8 + - - +
114A PHE* 4.3 4.3 - - - +
174A PHE* 5.8 0.7 - - + -
192A ALA 3.0 15.4 + - - +
193A TYR* 2.8 15.8 + - - -
195A VAL* 1.3 76.3 - - - +
197A LYS* 1.3 58.0 + - - +
199A GLY* 3.1 4.7 + - - -
200A VAL* 3.1 26.5 + - - +
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Residues in contact with LYS 197 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90A ALA 5.0 1.4 + - - -
91A GLY* 4.9 0.8 - - - -
113A ASN* 4.0 14.8 - - + +
137A VAL 3.0 18.2 + - - -
138A SER* 3.1 34.2 + - - +
139A SER* 4.0 14.4 - - - +
142A SER* 3.4 13.5 - - - +
193A TYR* 3.1 32.9 + - + +
194A GLY* 3.8 7.0 - - - +
196A THR* 1.3 78.9 + - - +
198A ILE* 1.3 64.1 + - - +
199A GLY 3.1 0.9 - - - -
200A VAL* 4.1 12.7 - - + +
201A THR* 2.9 22.5 + - - -
309A NDP 2.9 44.6 + - - -
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Residues in contact with ILE 198 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142A SER* 3.5 23.0 - - - +
145A ALA* 3.8 9.9 - - + -
146A LEU* 3.7 23.6 - - + +
149A CYS* 3.8 23.6 - - - -
157A PHE* 3.8 40.6 - - + -
171A MET* 4.7 1.1 - - + -
194A GLY 2.9 16.7 + - - +
195A VAL* 3.1 17.7 + - + +
197A LYS* 1.3 73.9 - - - +
199A GLY* 1.3 64.6 + - - +
201A THR* 3.2 1.7 + - - -
202A VAL* 2.9 30.8 + - + +
276A TRP* 4.2 10.3 - - + -
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Residues in contact with GLY 199 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114A PHE* 3.6 16.3 - - - -
167A LEU* 3.7 6.8 - - - +
171A MET* 3.7 23.3 - - - -
195A VAL 3.0 11.3 + - - -
196A THR 3.1 6.0 + - - -
198A ILE* 1.3 77.3 - - - +
200A VAL* 1.3 55.5 + - - +
203A LEU* 2.9 32.1 + - - +
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Residues in contact with VAL 200 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113A ASN* 3.2 28.9 - - + +
114A PHE* 4.6 2.7 - - - -
117A THR* 4.7 12.1 - - + +
136A ASN* 4.0 23.5 + - + -
137A VAL 4.1 4.9 - - - +
138A SER* 3.9 24.9 - - - +
196A THR 3.1 13.6 + - - +
197A LYS* 3.2 21.3 + - + +
199A GLY* 1.3 75.1 - - - +
201A THR* 1.3 62.1 + - - +
203A LEU* 3.4 7.8 + - + +
204A SER* 2.8 28.7 + - - +
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Residues in contact with THR 201 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138A SER* 2.8 23.6 + - - -
142A SER* 3.0 11.6 + - - -
197A LYS 2.9 9.0 + - - -
198A ILE 3.7 3.1 - - - -
200A VAL* 1.3 75.6 - - - +
202A VAL* 1.3 61.9 + - - +
204A SER* 3.2 9.0 + - - -
205A ARG* 3.1 26.4 + - + +
224A ALA* 4.3 6.5 - - + -
266A GLN 6.3 0.2 - - - -
267A PHE* 3.5 23.3 - - + -
276A TRP* 3.6 42.4 - - + -
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Residues in contact with VAL 202 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157A PHE* 3.5 31.9 - - + +
162A ILE* 4.2 19.3 - - + -
167A LEU* 3.9 25.1 - - + -
198A ILE* 2.9 32.3 + - + +
201A THR* 1.3 70.1 - - - +
203A LEU* 1.3 65.9 + - - +
205A ARG* 3.1 11.3 + - + +
206A ILE* 2.9 31.1 + - + +
276A TRP* 3.8 18.4 - - + +
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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
----------------------------------------------------------
114A PHE* 4.2 13.9 - - + -
117A THR* 4.6 14.1 - - + -
118A ARG* 4.0 29.4 - - + +
121A CYS* 4.9 2.9 - - - -
136A ASN* 5.5 3.8 - - - +
164A GLU* 4.0 24.2 - - + +
167A LEU* 3.5 15.3 - - + +
199A GLY 2.9 19.4 + - - +
200A VAL* 3.7 6.5 - - - +
201A THR 3.3 0.2 - - - -
202A VAL* 1.3 76.0 - - - +
204A SER* 1.3 56.3 + - - +
206A ILE* 3.3 5.5 + - + +
207A HIS* 2.9 71.0 + - + +
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Residues in contact with SER 204 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136A ASN* 2.9 26.3 + - - +
200A VAL 2.8 18.7 + - - -
201A THR 3.3 8.5 - - - -
203A LEU* 1.3 77.4 - - - +
205A ARG* 1.3 58.9 + - - +
207A HIS* 4.6 0.7 - - - -
208A ALA* 2.9 28.3 + - - +
222A LEU* 3.3 21.9 - - - +
223A ASN* 5.1 0.2 - - - -
224A ALA* 3.5 29.1 - - - +
265A GLY* 5.1 2.5 - - - -
266A GLN 5.4 0.9 - - - -
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Residues in contact with ARG 205 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157A PHE 4.3 4.0 + - - -
158A ARG* 3.1 28.3 + - - +
159A SER 4.3 5.1 + - - -
160A GLU* 4.3 19.0 + - - +
162A ILE* 6.6 0.2 - - + -
201A THR* 3.1 18.9 + - + +
202A VAL* 3.1 14.1 + - + +
204A SER* 1.3 76.5 - - - +
206A ILE* 1.3 63.5 + - + +
208A ALA* 3.4 3.6 + - - +
209A ARG* 3.1 23.2 + - - +
265A GLY* 3.7 26.5 + - - +
266A GLN* 5.6 5.5 - - - +
276A TRP* 3.4 48.2 + - - +
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Residues in contact with ILE 206 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
162A ILE* 3.6 29.4 - - + +
163A THR 3.7 23.8 - - - +
164A GLU* 3.9 20.2 - - + +
167A LEU* 3.9 22.7 - - + -
202A VAL* 2.9 19.4 + - + +
203A LEU* 3.6 7.4 - - + +
205A ARG* 1.3 77.2 - - + +
207A HIS* 1.3 71.0 + - + +
209A ARG* 3.2 19.3 + - - +
210A LYS* 3.0 39.7 + - - +
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Residues in contact with HIS 207 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118A ARG* 5.4 1.3 - - - -
121A CYS* 3.7 31.0 - - + +
125A LEU* 3.6 8.1 - - - +
136A ASN* 5.3 2.6 + - - -
164A GLU* 2.8 28.4 + - - -
203A LEU* 2.9 45.0 + - + +
204A SER* 4.0 1.5 - - - +
206A ILE* 1.3 81.0 - - + +
208A ALA* 1.3 65.3 + - - +
210A LYS* 3.4 2.8 + - + -
211A LEU* 3.0 27.0 + - - +
222A LEU* 3.8 22.4 - - + +
311A P33 3.4 33.6 - - - +
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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 SER 2.9 13.8 + - - +
205A ARG 3.8 3.1 - - - +
207A HIS* 1.3 76.9 - - - +
209A ARG* 1.3 62.7 + - - +
211A LEU* 3.2 3.6 + - - -
212A SER* 3.0 13.4 + - - -
222A LEU* 4.0 6.1 - - + +
264A HIS* 2.9 40.3 + - + +
265A GLY* 3.3 36.1 - - - +
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Residues in contact with ARG 209 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160A GLU* 3.4 26.8 + - - -
161A THR* 4.3 4.9 + - - -
162A ILE 3.1 25.7 + - - -
205A ARG 3.1 17.4 + - - +
206A ILE* 3.2 15.7 + - - +
208A ALA* 1.3 75.8 - - - +
210A LYS* 1.3 65.9 + - - +
212A SER* 3.2 7.8 + - - -
213A GLU* 2.9 76.9 + - + +
303A SO4 2.7 46.1 + - - -
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Residues in contact with LYS 210 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
164A GLU* 4.7 16.5 + - - +
165A GLU* 5.2 6.9 + - - -
206A ILE* 3.0 29.1 + - + +
207A HIS* 3.8 6.7 - - + +
209A ARG* 1.3 82.7 - - - +
211A LEU* 1.3 53.9 + - - +
213A GLU* 4.2 8.1 - - - +
214A GLN* 2.6 57.7 + - - +
303A SO4 3.4 37.4 + - - +
311A P33 3.8 41.4 + - - +
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Residues in contact with LEU 211 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125A LEU* 5.9 4.7 - - + +
128A ILE* 6.1 1.3 - - + -
134A VAL* 5.7 0.7 - - + -
207A HIS 3.0 19.9 + - - +
208A ALA 3.4 6.7 - - - +
210A LYS* 1.3 76.6 - - - +
212A SER* 1.3 56.6 + - - +
215A ARG* 2.8 55.9 + - + +
220A ILE* 3.8 39.7 - - + +
222A LEU* 3.8 32.5 - - + -
264A HIS* 4.0 12.8 - - + +
302A SO4 5.6 0.3 + - - -
311A P33 3.6 26.2 - - - -
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Residues in contact with SER 212 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
208A ALA 3.0 14.7 + - - -
209A ARG* 3.2 9.3 + - - -
211A LEU* 1.3 77.0 - - - +
213A GLU* 1.3 63.3 + - - +
216A LYS* 3.9 20.7 + - - +
264A HIS* 3.1 21.1 + - - -
302A SO4 5.4 5.6 + - - -
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Residues in contact with GLU 213 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
209A ARG* 2.9 61.6 + - + +
210A LYS* 3.7 6.4 - - - +
212A SER* 1.3 82.7 - - - +
214A GLN* 1.3 66.8 + - + +
216A LYS* 4.7 14.6 - - - +
303A SO4 4.3 6.2 + - - -
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Residues in contact with GLN 214 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
210A LYS* 2.6 47.7 + - - +
213A GLU* 1.3 83.8 + - + +
215A ARG* 1.3 61.8 + - - +
216A LYS* 3.7 3.7 - - - -
303A SO4 4.4 9.7 + - - -
311A P33 3.8 25.4 + - - +
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Residues in contact with ARG 215 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125A LEU 4.0 14.8 + - - -
126A PRO* 4.7 5.9 + - - +
128A ILE* 2.9 31.5 + - - +
129A LYS* 4.3 0.2 - - - +
130A PRO* 4.1 12.1 - - - +
211A LEU* 2.8 32.6 + - + +
214A GLN* 1.3 82.4 - - - +
216A LYS* 1.3 68.8 + - - +
217A GLY 3.2 0.2 + - - -
218A ASP* 2.9 48.8 + - + +
219A LYS 4.6 0.2 + - - -
220A ILE* 3.3 21.4 + - + +
302A SO4 4.2 5.4 + - - -
311A P33 3.8 29.2 + - - -
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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