Contacts of the helix formed by residues 170 - 196 (chain A) in PDB entry 5CRV
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 170 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
164A ALA* 4.3 14.1 - - - -
166A SER 3.5 1.8 + - - -
167A VAL* 3.3 14.0 + - - -
168A ASP 3.6 0.6 - - - -
169A MET* 1.3 82.4 - - - +
171A ARG* 1.3 59.9 + - - +
172A GLN* 3.9 6.8 + - - +
173A ILE* 3.2 28.4 + - - +
174A LEU* 2.9 28.6 + - - +
229A LEU* 5.4 2.4 - - - +
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Residues in contact with ARG 171 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158A ARG* 3.8 38.9 + - + +
159A GLU* 2.8 34.6 + - - +
164A ALA* 5.2 3.2 - - - +
170A SER* 1.3 74.2 - - - +
172A GLN* 1.3 65.7 + - + +
174A LEU 3.6 0.2 + - - -
175A THR* 2.7 38.5 + - - +
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Residues in contact with GLN 172 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
170A SER* 3.3 7.1 + - - +
171A ARG* 1.3 82.2 - - + +
173A ILE* 1.3 59.2 + - + +
175A THR* 3.3 8.4 + - - +
176A LEU* 3.0 27.0 + - - +
220A ALA* 5.0 6.1 - - + +
223A ASN* 4.1 19.8 - - - +
226A THR* 4.6 15.6 + - - +
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Residues in contact with ILE 173 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100A PHE* 4.1 17.0 - - + -
167A VAL 3.5 12.8 - - - +
168A ASP 3.5 23.8 - - - +
170A SER* 3.2 21.6 + - - +
172A GLN* 1.3 76.8 - - + +
174A LEU* 1.3 58.1 + - - +
176A LEU* 3.2 11.6 + - + +
177A ASN* 2.9 39.0 + - - +
226A THR* 3.7 31.9 - - + +
229A LEU* 4.6 12.6 - - + -
230A LEU* 3.9 18.8 - - + -
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Residues in contact with LEU 174 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119A TYR* 4.3 2.2 - - + -
154A PHE* 4.0 16.6 - - + +
157A LEU* 3.7 29.8 - - + -
158A ARG* 3.6 45.3 - - + +
161A PHE 5.9 0.7 - - - +
168A ASP 4.2 3.8 - - - +
169A MET* 3.3 32.1 - - - +
170A SER 2.9 18.8 + - - +
171A ARG 4.1 0.9 - - - +
173A ILE* 1.3 76.1 - - - +
175A THR* 1.3 57.9 + - - +
177A ASN* 3.3 20.3 + - - +
178A VAL* 2.9 33.7 + - - +
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Residues in contact with THR 175 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158A ARG* 2.9 32.9 + - - +
171A ARG* 2.7 27.8 + - - +
172A GLN* 3.6 7.9 - - - -
173A ILE 3.3 0.2 - - - -
174A LEU* 1.3 74.2 - - - +
176A LEU* 1.3 60.0 + - - +
178A VAL* 3.3 3.8 + - + +
179A ASN* 2.9 45.3 + - - +
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Residues in contact with LEU 176 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
172A GLN 3.0 12.9 + - - +
173A ILE* 3.2 17.7 + - + +
175A THR* 1.3 77.3 - - - +
177A ASN* 1.3 61.1 + - - +
179A ASN* 3.8 3.8 - - - +
180A LEU* 2.9 30.2 + - + +
217A ALA* 3.4 37.0 - - + +
220A ALA* 3.9 18.5 - - + +
221A LEU* 3.8 31.6 - - + -
226A THR* 4.7 7.9 - - + -
230A LEU* 4.1 12.3 - - + -
237A TRP* 4.1 20.4 - - + -
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Residues in contact with ASN 177 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12A LEU* 3.5 29.7 - - + +
119A TYR* 4.2 6.1 + - - -
154A PHE* 3.7 25.6 - - + -
173A ILE* 2.9 30.7 + - - +
174A LEU* 3.5 25.3 - - - +
176A LEU* 1.3 79.3 - - - +
178A VAL* 1.3 61.7 + - - +
180A LEU* 3.7 6.8 - - - +
181A MET* 3.0 31.4 + - - +
237A TRP* 3.9 15.9 - - - -
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Residues in contact with VAL 178 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151A ALA* 3.7 14.8 - - + +
154A PHE* 3.9 4.0 - - + -
155A ALA* 3.6 34.5 - - + +
158A ARG* 4.3 11.9 - - - +
174A LEU 2.9 22.6 + - - +
175A THR* 3.5 8.1 - - + +
176A LEU 3.3 0.2 - - - -
177A ASN* 1.3 75.3 - - - +
179A ASN* 1.3 63.0 + - - +
181A MET* 3.2 3.1 + - - +
182A LEU* 2.9 49.0 + - + +
341A PRO* 4.3 14.6 - - + -
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Residues in contact with ASN 179 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175A THR* 2.9 39.6 + - - +
176A LEU* 4.0 3.1 - - - +
178A VAL* 1.3 77.9 - - - +
180A LEU* 1.3 59.5 + - - +
182A LEU* 4.4 9.9 - - - +
183A GLY* 3.0 24.9 + - - -
213A TYR* 3.9 37.0 - - - +
214A TYR* 4.9 0.2 - - - -
216A GLU* 3.9 28.2 + - - +
217A ALA* 4.3 10.1 - - - +
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Residues in contact with LEU 180 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10A ILE* 3.7 37.0 - - + -
12A LEU* 4.7 1.6 - - + -
176A LEU* 2.9 21.2 + - + +
177A ASN* 3.7 4.5 - - - +
179A ASN* 1.3 75.6 - - - +
181A MET* 1.3 72.5 - - + +
183A GLY* 3.3 1.6 + - - -
184A GLN* 3.0 41.3 + - - +
214A TYR* 4.1 12.1 - - + -
217A ALA* 4.2 12.0 - - + +
221A LEU* 6.2 0.4 - - + -
237A TRP* 3.9 26.9 - - + -
241A VAL* 3.8 28.5 - - + -
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Residues in contact with MET 181 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10A ILE 3.7 10.8 - - - +
12A LEU* 4.0 21.1 - - + -
126A SER* 3.7 14.4 - - - -
147A PHE* 3.4 34.3 - - - +
150A ALA* 3.6 29.8 - - + -
151A ALA* 3.9 9.0 - - + +
154A PHE* 4.5 7.0 - - + -
177A ASN 3.0 21.5 + - - +
178A VAL 3.6 3.8 - - - +
180A LEU* 1.3 85.8 - - + +
182A LEU* 1.3 59.7 + - - +
184A GLN* 3.3 27.3 + - - +
185A ALA* 2.8 28.9 + - - +
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Residues in contact with LEU 182 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148A GLN* 4.8 4.3 - - + -
151A ALA* 3.7 14.8 - - + -
178A VAL* 2.9 36.3 + - + +
179A ASN* 4.0 7.9 - - - +
181A MET* 1.3 73.2 - - - +
183A GLY* 1.3 60.2 + - - +
185A ALA* 3.3 2.6 + - - -
186A GLN* 2.8 31.2 + - - +
213A TYR* 3.9 31.4 - - + +
339A VAL* 3.4 14.4 - - + +
340A LYS* 3.6 39.9 - - - +
341A PRO* 4.1 12.1 - - + -
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Residues in contact with GLY 183 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
179A ASN 3.0 14.1 + - - -
181A MET 3.2 0.2 - - - -
182A LEU* 1.3 77.6 - - - +
184A GLN* 1.3 56.6 + - - +
186A GLN* 3.4 3.0 + - - +
187A GLU* 3.0 27.9 + - - +
210A VAL* 4.2 4.9 - - - +
213A TYR* 3.5 24.6 - - - +
214A TYR* 3.4 20.5 + - - -
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Residues in contact with GLN 184 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9A MET* 3.6 20.4 - - - +
10A ILE* 2.6 55.8 + - - +
147A PHE* 3.4 29.0 - - + -
180A LEU* 3.0 24.9 + - + +
181A MET* 3.3 17.2 + - - +
183A GLY* 1.3 72.2 - - - +
185A ALA* 1.3 64.1 + - - +
187A GLU* 3.5 4.2 + - - +
188A CYS* 3.2 27.9 + - - -
214A TYR* 3.4 20.6 - - + +
240A LEU* 5.2 0.7 - - - +
244A LYS* 4.7 2.3 + - - -
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Residues in contact with ALA 185 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144A CYS* 3.5 22.6 - - - +
147A PHE* 3.8 19.9 - - + -
148A GLN* 3.8 9.4 - - + +
181A MET 2.8 17.4 + - - +
182A LEU* 3.5 7.4 - - - +
183A GLY 3.2 0.2 - - - -
184A GLN* 1.3 76.5 - - - +
186A GLN* 1.3 62.5 + - - +
188A CYS* 3.1 15.4 + - - +
189A LEU* 3.3 8.3 + - - +
339A VAL* 3.6 19.1 - - + -
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Residues in contact with GLN 186 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182A LEU 2.8 20.6 + - - +
183A GLY 3.8 3.8 - - - +
185A ALA* 1.3 73.1 - - - +
187A GLU* 1.3 56.7 + - - +
189A LEU* 3.1 6.4 + - - +
190A LEU* 3.0 22.7 + - - +
206A ILE* 3.4 31.0 + - - +
209A GLN* 3.5 14.3 - - + +
210A VAL* 3.5 27.2 - - + +
213A TYR* 4.0 8.1 - - + -
336A ALA 2.8 22.0 + - - -
338A LEU* 3.1 32.3 + - - +
339A VAL* 3.6 15.3 + - + +
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Residues in contact with GLU 187 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7A MET* 3.5 15.2 - - - +
9A MET* 3.4 18.1 - - + +
134A ARG* 4.4 0.2 + - - -
183A GLY 3.0 15.3 + - - +
184A GLN 3.6 5.8 - - - +
185A ALA 3.2 0.4 - - - -
186A GLN* 1.3 74.2 - - - +
188A CYS* 1.3 62.4 + - - +
190A LEU* 3.1 5.1 + - - +
191A GLU* 3.1 34.3 + - + +
210A VAL* 3.7 14.5 - - + +
214A TYR* 2.5 32.2 + - - +
244A LYS* 2.9 20.4 + - - -
248A PHE* 3.2 32.8 - - + -
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Residues in contact with CYS 188 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9A MET* 4.1 2.0 - - - -
134A ARG* 3.7 27.6 - - - -
140A MET* 3.6 24.2 - - - +
143A SER* 3.8 4.9 - - - -
144A CYS* 3.6 22.4 - - + -
147A PHE* 3.9 10.8 - - - -
184A GLN 3.2 19.9 + - - -
185A ALA 3.1 9.9 + - - +
187A GLU* 1.3 79.3 - - - +
189A LEU* 1.3 57.6 + - - +
191A GLU* 3.4 13.7 + - - +
192A LYS* 3.1 24.6 + - - +
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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
----------------------------------------------------------
140A MET 5.8 0.7 - - - +
141A LYS* 6.0 1.1 - - - -
144A CYS* 3.7 23.6 - - + -
185A ALA 3.3 2.7 + - - +
186A GLN* 3.1 10.6 + - - +
188A CYS* 1.3 77.5 - - - +
190A LEU* 1.3 59.2 + - - +
192A LYS* 3.3 10.1 + - + +
193A SER* 2.8 30.0 + - - -
206A ILE* 4.1 8.5 - - + -
338A LEU* 3.5 37.5 - - + +
339A VAL* 3.7 20.4 - - + -
357C ALA 5.3 2.5 - - - +
358C LEU* 3.6 29.2 - - + -
361C TYR* 4.0 21.0 - - + -
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Residues in contact with LEU 190 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
186A GLN 3.0 11.8 + - - +
187A GLU* 3.1 11.2 + - - +
189A LEU* 1.3 73.6 - - - +
191A GLU* 1.3 67.8 + - + +
193A SER* 2.6 28.2 + - - +
194A MET* 3.1 19.1 + - + +
203A VAL* 3.5 35.9 - - + +
206A ILE* 3.7 8.9 - - + +
207A SER* 3.6 22.0 - - - +
210A VAL* 4.4 2.7 - - + -
248A PHE* 3.4 39.7 - - + -
251A VAL* 4.0 10.1 - - + -
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Residues in contact with GLU 191 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6A ARG* 3.4 36.9 + - - +
7A MET 4.7 0.9 + - - -
134A ARG* 2.7 56.7 + - - +
140A MET* 3.6 14.9 - - - +
187A GLU* 3.1 23.2 + - + +
188A CYS* 3.5 13.0 - - - +
189A LEU 3.3 0.2 - - - -
190A LEU* 1.3 78.8 - - + +
192A LYS* 1.3 57.5 + - - +
194A MET* 3.4 15.1 + - + +
195A LEU* 3.0 26.2 + - - +
248A PHE* 6.2 1.3 - - + -
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Residues in contact with LYS 192 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137A GLU* 3.1 31.6 + - + -
140A MET* 3.4 16.4 - - + -
141A LYS* 3.7 32.5 - - + +
188A CYS 3.1 14.7 + - - +
189A LEU* 3.6 13.2 - - + +
190A LEU 3.2 0.4 - - - -
191A GLU* 1.3 74.5 - - - +
193A SER* 1.3 55.2 + - - +
195A LEU* 3.0 3.4 + - + +
196A ASP* 2.5 73.6 + - - +
198A ARG* 4.4 2.6 - - - +
358C LEU* 4.1 15.7 - - + -
361C TYR* 3.3 25.4 - - + +
362C ASN* 5.0 3.6 + - - -
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Residues in contact with SER 193 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
189A LEU 2.8 18.5 + - - -
190A LEU* 2.6 32.6 + - - +
192A LYS* 1.3 72.2 - - - +
194A MET* 1.3 56.0 + - - +
197A ASN 3.2 4.3 + - - -
198A ARG* 3.0 35.5 + - - +
203A VAL* 3.7 18.3 - - - +
206A ILE* 3.7 23.1 - - - -
361C TYR* 3.4 15.4 + - - -
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Residues in contact with MET 194 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1A MET* 3.6 36.6 - - - +
2A GLU* 3.7 25.7 - - - +
4A VAL* 4.0 15.5 - - + -
6A ARG* 4.9 3.4 - - - +
190A LEU* 3.1 25.4 + - + +
191A GLU* 3.8 15.0 - - + +
193A SER* 1.3 85.2 + - - +
195A LEU* 1.3 63.3 + - - +
197A ASN* 3.2 13.8 + - - +
203A VAL* 4.0 16.4 - - + -
251A VAL* 4.6 10.1 - - + -
255A HIS* 3.9 21.8 - - - +
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Residues in contact with LEU 195 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2A GLU* 3.5 40.9 - - + +
6A ARG* 5.3 1.1 - - - +
135A VAL 4.4 10.8 - - - +
136A SER* 5.1 0.2 - - - -
137A GLU* 3.7 39.0 - - + +
140A MET* 3.8 22.0 - - + -
191A GLU 3.0 13.8 + - - +
192A LYS 3.0 8.2 + - - +
194A MET* 1.3 77.4 - - - +
196A ASP* 1.3 63.7 + - - +
197A ASN* 3.1 3.0 + - - +
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Residues in contact with ASP 196 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137A GLU* 4.0 16.3 - - - +
192A LYS* 2.5 55.2 + - - +
193A SER 4.1 0.9 - - - +
195A LEU* 1.3 75.8 - - - +
197A ASN* 1.3 70.2 + - - +
198A ARG* 3.2 35.9 + - - +
361C TYR* 2.7 12.9 + - - +
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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