Contacts of the helix formed by residues 174 - 196 (chain A) in PDB entry 3UVH
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 174 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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36A LEU* 5.0 0.9 - - - -
96A LEU* 3.0 21.5 - - - +
97A ALA 4.3 2.7 - - - +
98A ALA* 4.0 15.2 - - - +
169A ASP* 3.9 27.9 - - + +
172A GLU* 3.9 12.8 - - + +
173A LEU* 1.3 78.9 - - - +
175A LEU* 1.3 68.6 + - - +
176A ALA* 3.5 17.4 + - - +
177A ASP* 2.9 24.8 + - - +
178A CYS* 3.3 13.9 + - - -
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Residues in contact with LEU 175 (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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29A ARG* 5.4 0.7 - - - +
33A VAL* 3.8 35.2 - - + +
81A MET* 4.0 37.1 - - + +
85A GLU* 3.8 26.9 - - + +
96A LEU* 2.9 31.6 + - + +
97A ALA* 3.7 26.0 - - + +
98A ALA 5.2 0.7 - - - +
104A ASN* 5.4 2.7 - - - +
174A THR* 1.3 70.9 - - - +
176A ALA* 1.3 62.8 + - - +
178A CYS* 2.9 20.6 + - - +
179A ASN* 3.1 12.2 + - - +
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Residues in contact with ALA 176 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98A ALA* 4.6 2.4 - - + +
103A SER* 3.4 32.5 - - - +
104A ASN* 3.6 21.3 + - - +
108A LEU* 5.9 0.2 - - - +
168A LEU* 3.7 10.0 - - + +
174A THR* 3.6 11.4 - - - +
175A LEU* 1.3 77.6 - - - +
177A ASP* 1.3 62.9 + - - +
179A ASN* 3.3 9.4 + - - +
180A LEU* 3.2 23.0 + - - +
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Residues in contact with ASP 177 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32A MET* 4.8 0.4 - - + -
167A PHE* 3.8 6.5 - - - +
168A LEU* 3.2 17.3 + - - +
169A ASP 5.0 0.3 + - - -
172A GLU 3.9 0.9 - - - +
173A LEU* 3.3 32.1 - - + -
174A THR* 2.9 35.5 + - - +
176A ALA* 1.3 75.7 - - - +
178A CYS* 1.4 58.5 + - - +
180A LEU 4.5 0.2 - - - +
181A LEU* 2.9 38.5 + - + +
209A TYR* 2.8 40.2 + - - +
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Residues in contact with CYS 178 (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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29A ARG* 3.2 35.7 - - + +
32A MET* 3.7 27.1 - - + -
33A VAL* 3.8 20.6 - - + -
36A LEU* 3.4 33.0 - - - -
174A THR 3.6 8.1 - - - -
175A LEU* 2.9 12.9 + - - +
177A ASP* 1.4 77.8 - - - +
179A ASN* 1.3 56.1 + - - +
182A PRO* 3.0 18.9 - - - +
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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
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25A PRO* 5.3 1.0 - - - +
29A ARG* 3.5 46.7 + - - +
81A MET* 6.3 0.4 - - - -
104A ASN 5.5 0.2 + - - -
108A LEU* 3.8 27.3 - - + +
175A LEU 3.1 9.3 + - - +
176A ALA* 3.6 9.9 - - - +
177A ASP 3.1 0.4 - - - -
178A CYS* 1.3 76.4 - - - +
180A LEU* 1.3 65.3 + - - +
182A PRO* 3.5 8.5 - - - +
183A LYS* 2.7 44.9 + - - +
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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
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106A ALA 3.7 16.6 - - - +
107A GLY* 3.5 28.7 - - - +
108A LEU* 4.0 15.5 - - + -
140A LEU* 3.8 19.5 - - + -
168A LEU* 3.7 20.0 - - + -
176A ALA 3.2 14.1 + - - +
179A ASN* 1.3 78.2 - - - +
181A LEU* 1.3 56.4 + - - +
183A LYS* 3.0 12.2 + - + +
184A LEU* 2.8 57.2 + - + +
209A TYR* 4.0 11.9 - - + +
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Residues in contact with LEU 181 (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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32A MET* 4.2 12.1 - - + -
173A LEU* 4.2 12.1 - - + -
177A ASP* 2.9 36.3 + - + +
180A LEU* 1.3 77.3 - - - +
182A PRO* 1.4 66.8 - - + +
184A LEU* 3.3 3.7 + - + +
185A HIS 3.0 19.6 + - - -
209A TYR* 3.4 34.3 - - + +
210A LEU* 4.3 13.7 - - + -
213A ALA* 3.4 36.1 - - + -
219A PHE* 3.5 29.0 - - + -
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Residues in contact with PRO 182 (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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25A PRO* 3.7 26.9 - - + +
28A GLN* 3.5 43.7 - - + +
29A ARG 4.0 3.4 - - - +
32A MET* 4.1 7.0 - - - -
178A CYS 3.0 27.1 - - - +
179A ASN 3.5 6.7 - - - +
181A LEU* 1.4 93.0 - - + +
183A LYS* 1.3 60.8 + - - +
185A HIS* 3.5 4.7 - - + +
186A ILE* 3.3 28.1 + - - +
219A PHE* 4.3 2.7 - - + -
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Residues in contact with LYS 183 (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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25A PRO* 3.9 16.6 - - + -
26A PHE* 4.6 21.5 - - - -
29A ARG* 5.1 3.0 - - - +
108A LEU* 4.2 17.8 + - + +
111A PHE* 3.7 44.7 - - + -
179A ASN* 2.7 42.8 + - - +
180A LEU* 3.0 11.5 + - + +
182A PRO* 1.3 75.1 - - - +
184A LEU* 1.3 64.6 + - + +
186A ILE* 3.2 6.8 + - - +
187A VAL* 3.0 25.0 + - - +
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Residues in contact with LEU 184 (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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110A ILE* 4.0 39.3 - - + -
137A LEU* 4.5 9.6 - - + -
140A LEU* 3.8 22.0 - - + -
180A LEU* 2.8 38.3 + - + +
181A LEU* 3.8 5.4 - - + +
183A LYS* 1.3 73.6 - - + +
185A HIS* 1.3 57.6 + - - +
187A VAL* 3.4 6.7 + - + +
188A GLN* 2.9 33.9 + - - +
199A ILE* 5.7 3.3 - - + +
206A VAL* 5.3 3.6 - - + -
209A TYR* 4.1 18.6 - - + -
210A LEU* 4.1 25.1 - - + -
214A TYR* 5.3 0.4 - - - -
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Residues in contact with HIS 185 (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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28A GLN* 4.8 2.0 - - - -
181A LEU 3.0 16.7 + - - +
182A PRO* 3.5 7.2 - - + +
184A LEU* 1.3 73.2 - - - +
186A ILE* 1.3 66.3 + - + +
188A GLN* 3.4 2.9 + - - +
189A VAL* 3.1 44.8 + - + +
210A LEU* 5.5 0.2 - - - +
214A TYR* 2.8 34.9 + + - +
219A PHE* 3.8 10.7 - - + -
223A CYS* 3.7 28.8 - - + +
224A PRO* 3.6 18.3 + - + -
226A ASP* 4.1 8.6 + - - -
229A ILE* 3.3 34.3 - - + +
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Residues in contact with ILE 186 (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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23A ASN* 3.6 24.9 - - - +
24A CYS 5.1 0.4 - - - -
25A PRO* 3.7 34.5 - - + -
111A PHE* 3.9 13.0 - - + -
114A PHE* 3.8 13.2 - - + -
182A PRO 3.3 16.1 + - - +
183A LYS 3.2 5.5 + - - +
185A HIS* 1.3 74.5 - - + +
187A VAL* 1.3 66.1 + - - +
189A VAL 3.2 1.2 + - - -
190A VAL* 2.9 28.3 + - + +
229A ILE* 4.2 18.2 - - + -
233A TYR* 3.7 34.5 - - + +
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Residues in contact with VAL 187 (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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110A ILE* 4.0 19.5 - - + -
111A PHE* 4.0 7.9 - - + -
114A PHE* 3.8 38.4 - - + -
133A LEU* 4.6 13.9 - - + -
137A LEU* 5.5 6.3 - - + -
183A LYS 3.0 18.5 + - - +
184A LEU* 3.5 11.2 - - + +
185A HIS 3.3 0.2 - - - -
186A ILE* 1.3 78.1 - - - +
188A GLN* 1.3 65.1 + - + +
191A CYS* 3.0 42.7 + - + +
197A PHE* 5.5 2.2 - - + -
199A ILE* 5.7 4.9 - - + -
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Residues in contact with GLN 188 (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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184A LEU 2.9 19.7 + - - +
185A HIS* 3.7 5.2 - - - +
186A ILE 3.3 0.2 - - - -
187A VAL* 1.3 78.0 - - - +
189A VAL* 1.3 65.9 + - + +
191A CYS* 4.0 2.6 - - - +
192A LYS* 3.1 52.0 + - - +
197A PHE 4.7 0.5 - - - +
198A THR* 6.3 0.4 - - - +
199A ILE* 4.0 29.6 - - + +
207A HIS* 4.8 10.9 - - - -
210A LEU* 3.5 28.5 - - + +
214A TYR* 3.6 23.2 + - - +
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Residues in contact with VAL 189 (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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185A HIS* 3.1 32.3 + - + +
186A ILE 4.0 1.8 - - - +
188A GLN* 1.3 75.7 - - + +
190A VAL* 1.3 64.0 + - - +
192A LYS* 3.5 8.1 + - + +
193A LYS* 3.1 23.4 + - - +
226A ASP* 3.5 33.9 - - + +
229A ILE* 3.6 26.7 - - + -
230A GLU* 3.7 27.6 - - + +
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Residues in contact with VAL 190 (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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114A PHE* 3.5 22.0 - - + -
118A ILE* 4.1 11.7 - - + -
186A ILE* 2.9 22.3 + - + +
189A VAL* 1.3 74.1 - - - +
191A CYS* 1.3 60.1 + - - +
193A LYS* 3.2 1.7 + - - -
194A TYR* 2.8 52.7 + - + +
229A ILE* 3.6 18.6 - - + +
233A TYR* 3.5 42.8 - - + -
237A ALA* 4.9 0.9 - - + -
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Residues in contact with CYS 191 (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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114A PHE* 3.5 26.2 - - - -
117A TYR* 4.2 10.3 - - - -
118A ILE* 4.4 1.8 - - - -
133A LEU* 3.9 17.5 - - - -
187A VAL* 3.0 32.8 + - + +
188A GLN* 4.2 1.8 - - - +
190A VAL* 1.3 77.0 - - - +
192A LYS* 1.3 61.7 + - - +
195A ARG* 3.0 23.9 + - - -
196A GLY 3.0 7.3 + - - -
197A PHE* 3.1 33.3 + - + +
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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
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188A GLN* 3.1 46.1 + - - +
189A VAL* 3.7 8.1 - - + +
191A CYS* 1.3 78.2 - - - +
193A LYS* 1.3 64.8 + - - +
196A GLY* 3.3 16.5 + - - -
197A PHE 3.5 14.6 - - - +
198A THR* 4.2 22.2 - - + +
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Residues in contact with LYS 193 (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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189A VAL 3.1 14.7 + - - +
190A VAL 3.9 1.8 - - - +
192A LYS* 1.3 82.0 - - - +
194A TYR* 1.3 91.2 + - + +
196A GLY 5.0 0.3 + - - -
230A GLU* 3.4 39.7 + - + +
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Residues in contact with TYR 194 (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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118A ILE* 5.5 1.8 - - + -
190A VAL* 2.8 38.7 + - + +
193A LYS* 1.3 98.9 - - + +
195A ARG* 1.3 79.0 + - + +
196A GLY 3.8 0.2 - - - -
230A GLU* 2.5 36.9 + - - +
233A TYR* 4.1 12.6 - - + -
234A GLU* 3.4 28.9 - - + +
237A ALA* 3.3 31.0 - - + -
238A LYS 6.3 0.2 - - - -
239A ALA* 6.0 0.2 - - - -
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Residues in contact with ARG 195 (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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117A TYR* 3.2 67.8 + - + +
118A ILE* 3.6 23.2 + - + -
120A ASN 2.6 30.5 + - - -
126A ASN* 3.6 11.3 + - - +
191A CYS 3.0 12.2 + - - +
194A TYR* 1.3 94.9 + - + +
196A GLY* 1.3 64.6 + - - +
197A PHE* 3.2 3.8 + - + +
237A ALA* 6.3 0.2 - - - -
238A LYS 2.7 26.0 + - - +
239A ALA* 4.4 5.5 - - - +
240A LEU* 3.8 17.2 - - - +
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Residues in contact with GLY 196 (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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191A CYS 3.0 3.4 + - - -
192A LYS* 3.3 15.9 + - - -
193A LYS 4.8 0.4 - - - -
194A TYR 3.8 0.4 - - - -
195A ARG* 1.3 78.4 - - - +
197A PHE* 1.3 59.5 + - - +
198A THR* 4.1 7.3 + - - +
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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
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Atomic class I II III IV V VI VII VIII
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I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
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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