Contacts of the helix formed by residues 185 - 215 (chain A) in PDB entry 3OMA
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 TYR 185 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159A ALA* 4.1 13.6 - - + +
160A PRO* 3.1 36.7 + - + +
184A GLY* 1.3 76.0 - - - -
186A SER* 1.3 66.8 + - - +
187A THR 3.2 2.9 - - - -
188A ASP* 2.9 30.3 + - + +
189A LEU* 3.1 29.9 + - + +
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Residues in contact with SER 186 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156A SER* 2.7 36.6 + - - -
159A ALA* 3.7 18.2 - - - -
160A PRO 3.0 17.6 + - - -
161A GLY* 3.8 11.2 - - - -
167A GLY 3.9 0.2 - - - -
168A SER* 2.7 27.8 + - - -
184A GLY 3.6 0.8 - - - -
185A TYR* 1.3 77.2 - - - +
187A THR* 1.3 57.2 + - - +
189A LEU* 3.3 2.8 + - - -
190A ALA* 3.0 23.6 + - - +
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Residues in contact with THR 187 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168A SER* 2.9 23.1 + - - -
170A ILE* 3.8 20.0 - - + +
174A LEU* 5.6 0.7 - - + -
179A SER* 3.7 22.0 - - - +
182A GLU* 3.7 19.6 - - - +
183A SER 5.2 1.0 + - - -
184A GLY 5.3 0.2 - - - -
185A TYR 3.2 1.0 - - - -
186A SER* 1.3 76.5 - - - +
188A ASP* 1.3 57.0 + - - +
190A ALA* 3.3 6.7 + - + +
191A ILE* 3.0 35.9 + - + +
257A ARG* 3.7 26.2 - - - +
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Residues in contact with ASP 188 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
184A GLY 4.0 0.5 - - - +
185A TYR* 2.9 35.3 + - + +
187A THR* 1.3 75.1 - - - +
189A LEU* 1.3 59.4 + - + +
191A ILE* 3.1 5.0 + - - +
192A PHE* 2.8 42.8 + - + -
254A LEU* 3.6 15.6 - - + +
257A ARG* 2.8 32.5 + - - -
258A ASN* 2.9 31.4 + - - +
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Residues in contact with LEU 189 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152A LEU* 3.8 27.2 - - + +
155A ALA* 4.3 9.9 - - + -
156A SER* 3.9 18.8 - - - +
159A ALA* 3.7 28.9 - - + -
185A TYR* 3.1 30.0 + - + +
186A SER 3.5 6.7 - - - +
188A ASP* 1.3 77.0 - - + +
190A ALA* 1.3 56.6 + - - +
192A PHE* 3.4 16.8 + - + +
193A ALA* 2.9 28.6 + - - +
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Residues in contact with ALA 190 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100A THR* 6.5 1.6 - - + -
104A ILE* 5.8 10.6 - - + +
153A ALA* 5.2 2.5 - - - +
156A SER* 4.0 12.9 - - - +
168A SER* 4.8 7.4 - - - +
170A ILE* 5.7 0.2 - - + -
174A LEU* 5.2 14.4 - - + -
186A SER 3.0 13.3 + - - +
187A THR* 3.5 13.2 - - + +
188A ASP 3.3 0.2 - - - -
189A LEU* 1.3 73.6 - - - +
191A ILE* 1.3 64.8 + - - +
193A ALA* 3.3 8.2 + - - +
194A VAL* 3.1 29.6 + - + +
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Residues in contact with ILE 191 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174A LEU* 4.4 19.3 - - + -
187A THR* 3.0 33.3 + - + +
188A ASP* 3.1 7.2 + - - +
190A ALA* 1.3 74.4 - - - +
192A PHE* 1.3 66.1 + - + +
194A VAL* 3.3 6.5 + - - -
195A HIS* 3.1 37.1 + - + +
250A ILE* 3.6 28.3 - - + +
253A LEU* 3.9 29.4 - - + -
254A LEU* 4.1 26.7 - - + +
257A ARG* 4.4 6.7 - - - -
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Residues in contact with PHE 192 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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152A LEU* 3.7 22.2 - - + -
188A ASP* 2.8 35.2 + - + +
189A LEU* 3.8 13.7 - - + +
190A ALA 3.3 0.2 - - - -
191A ILE* 1.3 76.4 - - + +
193A ALA* 1.3 61.9 + - - +
195A HIS* 3.2 21.2 + + + +
196A LEU* 3.0 27.5 + - + +
254A LEU* 3.7 34.3 - - + -
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Residues in contact with ALA 193 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104A ILE* 5.7 0.7 - - + -
109A PHE* 3.5 14.4 - - + -
149A GLY* 3.2 28.8 - - - +
152A LEU* 3.9 4.6 - - + +
153A ALA* 3.4 27.8 - - + +
189A LEU 2.9 10.5 + - - +
190A ALA* 3.4 11.2 - - - +
192A PHE* 1.3 75.0 - - - +
194A VAL* 1.3 56.7 + - + +
196A LEU* 3.3 4.2 + - - +
197A SER 3.0 22.7 + - - -
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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
----------------------------------------------------------
104A ILE* 4.7 15.3 - - + -
108A PHE* 3.8 31.8 - - + -
109A PHE* 4.8 0.7 - - + -
174A LEU* 5.0 11.0 - - + -
190A ALA* 3.1 15.9 + - + +
191A ILE* 3.8 7.4 - - - +
192A PHE 3.3 0.2 - - - -
193A ALA* 1.3 75.3 - - + +
195A HIS* 1.3 60.0 + - - +
197A SER* 3.4 6.5 + - - -
198A GLY* 2.9 26.0 + - - -
246A LEU* 3.5 32.7 - - + +
250A ILE* 3.7 17.0 - - + +
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Residues in contact with HIS 195 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
191A ILE* 3.1 33.0 + - + +
192A PHE* 3.4 26.9 - + + +
194A VAL* 1.3 74.5 - - - +
196A LEU* 1.3 61.1 + - + +
198A GLY* 3.3 2.4 + - - -
199A ALA* 2.9 29.0 + - - +
247A ALA* 3.6 24.6 - - + +
250A ILE* 3.7 17.1 - - + +
251A THR* 3.2 30.1 + - - +
254A LEU* 4.9 4.6 - - - +
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Residues in contact with LEU 196 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145A LEU* 3.7 34.8 - - + +
148A ALA* 3.7 16.4 - - + -
149A GLY* 3.6 28.5 - - - +
152A LEU* 3.8 20.2 - - + -
192A PHE* 3.0 15.8 + - + +
193A ALA 3.6 6.5 - - - +
194A VAL 3.3 0.2 - - - -
195A HIS* 1.3 77.4 - - + +
197A SER* 1.3 59.7 + - - +
199A ALA* 3.2 7.9 + - + +
200A SER* 2.9 29.3 + - - -
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Residues in contact with SER 197 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108A PHE* 3.5 35.0 + - - -
109A PHE* 3.7 30.2 - - - -
145A LEU 4.7 1.3 + - - -
146A TYR* 5.3 2.9 - - - +
193A ALA 3.0 8.4 + - - -
194A VAL* 3.7 8.1 - - - -
195A HIS 3.4 0.2 - - - -
196A LEU* 1.3 75.9 - - - +
198A GLY* 1.3 56.7 + - - +
200A SER* 3.3 8.3 + - - -
201A SER* 2.9 37.1 + - - -
243A LEU* 5.8 0.2 - - - +
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Residues in contact with GLY 198 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108A PHE* 5.6 0.2 - - - -
194A VAL 2.9 15.0 + - - -
195A HIS* 3.3 3.8 + - - -
197A SER* 1.3 76.2 + - - +
199A ALA* 1.3 55.7 + - - +
201A SER* 3.3 2.6 + - - -
202A ILE* 2.9 40.4 + - - +
243A LEU* 3.7 30.2 - - - +
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Residues in contact with ALA 199 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145A LEU* 4.0 20.9 - - + -
195A HIS 2.9 13.4 + - - +
196A LEU* 3.4 12.3 - - + +
197A SER 3.2 0.2 - - - -
198A GLY* 1.3 72.8 - - - +
200A SER* 1.3 64.6 + - - +
202A ILE* 3.2 10.0 + - - +
203A LEU* 3.0 29.6 + - + +
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Residues in contact with SER 200 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33A TYR* 3.2 14.2 + - - -
142A SER* 2.8 42.3 + - - +
145A LEU* 4.0 3.7 - - - +
146A TYR* 3.6 20.9 - - - +
196A LEU 2.9 12.7 + - - -
197A SER* 3.4 10.1 - - - -
199A ALA* 1.3 76.2 - - - +
201A SER* 1.3 62.3 + - - +
203A LEU 3.6 0.2 + - - -
204A GLY* 3.1 18.7 + - - -
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Residues in contact with SER 201 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112A ILE* 4.8 11.7 - - - +
116A PHE* 4.2 5.4 - - - -
197A SER* 2.9 25.3 + - - -
198A GLY* 3.6 5.3 - - - -
200A SER* 1.3 76.6 + - - +
202A ILE* 1.3 59.1 + - - +
204A GLY* 3.3 3.4 + - - +
205A ALA* 2.9 28.6 + - - +
239A ILE* 3.6 29.4 - - - +
243A LEU* 4.4 10.0 - - - +
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Residues in contact with ILE 202 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
198A GLY* 2.9 25.5 + - - +
199A ALA* 3.2 7.8 + - - +
201A SER* 1.3 73.8 - - - +
203A LEU* 1.3 65.9 + - + +
205A ALA* 3.1 4.4 + - - +
206A ILE* 2.9 41.4 + - + +
239A ILE* 4.2 12.6 - - + +
240A LEU* 4.2 14.8 - - + -
243A LEU* 4.0 24.5 - - + -
244A PRO* 4.3 20.2 - - + -
247A ALA* 6.2 1.8 - - + -
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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
----------------------------------------------------------
138A MET* 3.8 41.9 - - + +
139A ASN* 6.4 0.4 - - - -
141A LEU* 3.8 32.3 - - + -
142A SER* 4.0 10.1 - - - +
145A LEU* 3.9 17.7 - - + -
199A ALA* 3.0 18.9 + - + +
200A SER 3.9 3.8 - - - +
202A ILE* 1.3 82.6 - - + +
204A GLY* 1.3 62.8 + - - +
206A ILE* 3.3 10.4 + - + +
207A ASN* 3.0 24.2 + - - +
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Residues in contact with GLY 204 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116A PHE* 3.9 10.5 - - - -
121A ASN* 6.0 2.0 - - - -
139A ASN* 5.3 5.2 - - - -
142A SER* 4.4 8.4 - - - -
200A SER 3.1 13.9 + - - -
201A SER 3.6 4.0 - - - -
203A LEU* 1.3 76.4 - - - +
205A ALA* 1.3 57.1 + - - +
207A ASN* 3.4 6.4 + - - +
208A MET* 2.9 40.4 + - - +
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Residues in contact with ALA 205 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116A PHE* 3.9 4.2 - - + -
201A SER 2.9 18.1 + - - +
202A ILE 3.1 5.1 + - - +
204A GLY* 1.3 74.0 - - - +
206A ILE* 1.3 64.8 + - - +
209A ILE* 3.0 31.4 + - - +
236A ALA* 3.1 41.0 - - - +
239A ILE* 4.0 8.7 - - + -
240A LEU* 4.0 12.3 - - + -
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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
----------------------------------------------------------
135A PHE* 4.1 15.7 - - + -
138A MET* 3.8 22.4 - - + -
202A ILE* 2.9 28.6 + - + +
203A LEU* 3.4 13.9 - - + +
205A ALA* 1.3 76.8 - - - +
207A ASN* 1.3 62.6 + - - +
209A ILE* 3.8 3.8 - - - +
210A THR* 3.0 31.7 + - - +
240A LEU* 3.8 27.6 - - + -
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Residues in contact with ASN 207 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121A ASN* 5.7 0.7 - - - +
133A MET* 3.5 15.8 - - + +
134A ALA 3.4 9.4 + - - -
135A PHE* 2.8 61.6 + - - +
138A MET* 4.2 5.0 - - - +
139A ASN* 3.5 29.7 - - - +
203A LEU 3.0 7.7 + - - +
204A GLY* 3.6 10.1 - - - +
206A ILE* 1.3 80.0 - - - +
208A MET* 1.3 62.0 + - + +
210A THR* 4.8 0.2 - - - -
211A THR* 2.9 31.3 + - - -
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Residues in contact with MET 208 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116A PHE* 3.4 54.3 - - + +
120A GLY* 3.8 4.5 - - - +
121A ASN* 3.7 30.3 - - - +
124A MET* 3.4 15.3 - - + +
133A MET* 3.5 21.1 - - - +
204A GLY* 2.9 31.1 + - - +
205A ALA 3.9 3.6 - - - +
206A ILE 3.4 0.2 - - - -
207A ASN* 1.3 74.2 - - + +
209A ILE* 1.3 57.4 + - - +
212A PHE* 3.0 31.5 + - - +
232A ILE* 3.6 21.8 - - + +
233A PHE* 4.5 2.5 - - - -
236A ALA* 4.0 12.1 - - + -
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Residues in contact with ILE 209 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
205A ALA 3.0 20.3 + - - +
206A ILE* 3.8 4.5 - - - +
208A MET* 1.3 77.0 - - - +
210A THR* 1.3 68.2 + - - +
212A PHE* 3.4 1.4 + - - +
213A LEU* 3.0 38.6 + - + +
233A PHE* 4.0 9.9 - - + -
236A ALA* 3.7 24.5 - - + +
237A TRP* 3.7 49.6 - - + +
240A LEU* 3.6 29.4 - - + -
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Residues in contact with THR 210 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134A ALA* 3.6 19.7 - - + -
135A PHE* 3.6 28.5 - - + -
206A ILE* 3.0 20.4 + - - +
207A ASN 4.1 0.4 - - - -
209A ILE* 1.3 78.1 - - - +
211A THR* 1.3 63.4 + - - +
213A LEU* 3.1 3.9 + - - -
214A ASN* 2.9 51.9 + - + +
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Residues in contact with THR 211 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124A MET* 4.1 5.8 - - + -
125A PRO* 4.9 2.0 - - + -
128A ILE* 3.7 19.4 - - + +
130A ALA* 4.1 7.9 - - + -
132A ASP 3.9 18.8 - - - +
133A MET* 3.3 18.7 - - - -
134A ALA* 2.6 26.9 + - - +
207A ASN 2.9 17.9 + - - -
208A MET 4.1 1.8 - - - -
210A THR* 1.3 75.0 - - - +
212A PHE* 1.3 59.6 + - - +
215A MET* 2.9 39.3 + - + +
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Residues in contact with PHE 212 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124A MET* 4.4 14.6 - - + +
128A ILE* 3.9 13.2 - - + -
208A MET 3.0 21.9 + - - +
209A ILE 3.7 1.3 - - - +
210A THR 3.3 0.2 - - - -
211A THR* 1.3 76.7 - - - +
213A LEU* 1.3 61.5 + - + +
216A ARG* 2.9 31.9 + - - +
222A MET* 3.9 21.1 - - + -
225A VAL* 3.6 35.9 - - + -
229A ALA* 3.5 23.6 - - + -
230A TRP* 4.1 15.9 - + - -
233A PHE* 3.4 55.6 - + + -
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Residues in contact with LEU 213 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
209A ILE* 3.0 37.3 + - + +
210A THR* 3.9 3.1 - - - +
212A PHE* 1.3 81.9 - - + +
214A ASN* 1.3 71.7 + - - +
216A ARG* 3.4 24.3 + - - +
222A MET* 5.1 7.9 - - + -
233A PHE* 3.7 26.9 - - + -
237A TRP* 4.8 7.4 - - + -
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Residues in contact with ASN 214 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
210A THR* 2.9 37.8 + - + +
213A LEU* 1.3 90.8 - - - +
215A MET* 1.3 66.1 + - + +
216A ARG 3.6 4.9 + - - +
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Residues in contact with MET 215 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128A ILE* 4.4 0.2 - - - -
129A GLY 4.3 0.7 - - - +
130A ALA* 3.3 28.9 - - + +
131A PRO* 4.1 21.3 - - + +
132A ASP* 3.3 26.7 - - + +
133A MET 4.4 3.6 - - - +
134A ALA* 3.6 36.1 - - + -
211A THR* 2.9 24.0 + - - +
214A ASN* 1.3 83.2 - - + +
216A ARG* 1.3 65.3 + - - +
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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).
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