Contacts of the helix formed by residues 167 - 192 (chain A) in PDB entry 5ULW
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 ASP 167 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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164A ASN* 2.9 26.0 + - + +
166A LEU* 1.3 77.6 - - - +
168A VAL* 1.3 65.4 + - - +
169A LEU* 2.8 29.9 + - - +
170A HIS* 3.0 39.7 + - + +
171A ILE* 3.1 14.4 + - - +
223A PRO* 5.9 0.2 - - - +
224A GLU* 4.2 8.8 - - - +
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Residues in contact with VAL 168 (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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140A LEU* 5.8 2.5 - - + -
166A LEU 3.4 6.6 + - - +
167A ASP* 1.3 73.6 + - - +
169A LEU* 1.3 73.5 + - + +
171A ILE* 3.3 8.8 + - + +
172A ARG* 3.0 46.1 + - + +
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Residues in contact with LEU 169 (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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27A SER* 3.7 29.6 - - - +
167A ASP* 2.8 23.1 + - - +
168A VAL* 1.3 84.4 - - + +
170A HIS* 1.3 55.9 + - - +
172A ARG* 3.4 9.6 + - - +
173A LEU* 3.0 36.7 + - + +
223A PRO* 4.2 28.0 - - + -
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Residues in contact with HIS 170 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161A GLN* 3.9 2.0 - - - -
162A SER 3.7 8.1 - - - -
163A ILE* 3.8 7.3 - - + -
164A ASN* 3.1 43.3 + - + +
167A ASP* 3.0 33.3 + - + +
169A LEU* 1.3 75.8 - - + +
171A ILE* 1.3 59.7 + - + +
173A LEU* 3.3 1.2 + - - +
174A LEU* 2.8 36.6 + - - +
222A LEU* 3.6 36.7 - - + +
223A PRO* 4.2 13.5 - - + -
224A GLU* 3.0 28.7 + - - -
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Residues in contact with ILE 171 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140A LEU* 3.7 29.8 - - + -
148A LEU* 4.1 27.8 - - + +
151A VAL* 4.1 17.0 - - + +
165A LEU* 3.3 52.9 - - + +
166A LEU 5.4 0.2 - - - -
167A ASP 3.1 10.8 + - - +
168A VAL* 3.7 11.2 - - + +
170A HIS* 1.3 74.4 - - + +
172A ARG* 1.3 64.3 + - + +
174A LEU* 3.2 6.3 + - + +
175A VAL* 3.0 23.8 + - + +
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Residues in contact with ARG 172 (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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27A SER* 3.4 38.8 + - - +
29A VAL* 3.9 15.3 - - + +
133A THR* 3.8 16.5 - - - +
136A VAL* 3.5 25.1 - - + +
137A GLU* 2.9 38.2 - - - +
140A LEU* 3.6 21.0 - - + +
168A VAL* 3.0 40.5 + - + +
169A LEU* 3.9 9.0 - - + +
171A ILE* 1.3 77.2 - - - +
173A LEU* 1.3 58.6 + - + +
175A VAL 3.5 0.2 + - - -
176A GLY* 2.9 23.7 + - - -
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Residues in contact with LEU 173 (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 ARG 4.6 2.9 - - - +
29A VAL* 4.2 13.7 - - + -
169A LEU* 3.0 23.6 + - + +
170A HIS 3.9 2.9 - - - +
172A ARG* 1.3 73.7 - - + +
174A LEU* 1.3 63.3 + - - +
176A GLY* 3.4 2.2 + - - +
177A SER* 3.0 24.9 + - - -
199A VAL* 3.8 15.3 - - + +
200A ALA* 3.7 33.9 - - - +
201A SER* 4.4 7.0 - - - +
220A VAL* 3.7 16.4 - - + +
221A LEU 3.4 20.6 - - - +
222A LEU* 4.1 7.6 - - + -
223A PRO* 3.9 24.2 - - + -
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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
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151A VAL* 4.0 23.3 - - + +
152A THR* 4.1 7.8 - - - +
153A VAL* 3.5 39.5 - - + +
157A VAL* 5.1 0.4 - - + -
163A ILE* 3.5 42.2 - - + -
165A LEU* 4.7 3.6 - - + -
170A HIS 2.8 22.7 + - - +
171A ILE* 3.2 6.0 + - - +
173A LEU* 1.3 77.3 - - - +
175A VAL* 1.3 61.5 + - - +
177A SER* 2.7 27.3 + - - -
178A GLN* 2.9 11.9 + - - +
220A VAL* 4.6 7.9 - - + -
222A LEU* 4.6 10.8 - - + -
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Residues in contact with VAL 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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136A VAL* 4.0 23.8 - - + +
139A ARG* 4.0 31.9 - - + -
140A LEU* 3.9 24.0 - - + -
143A LEU* 5.9 1.8 - - + -
151A VAL* 4.4 15.7 - - + -
171A ILE 3.0 16.9 + - - +
172A ARG 3.7 4.5 - - - +
174A LEU* 1.3 73.5 - - - +
176A GLY* 1.3 64.2 + - - +
178A GLN* 2.8 28.6 + - - +
179A ILE* 2.9 14.3 + - + +
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Residues in contact with GLY 176 (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 VAL* 3.8 24.9 - - - -
132A LEU* 3.6 11.7 - - - +
136A VAL* 3.8 7.6 - - - +
172A ARG 2.9 11.5 + - - -
173A LEU 3.6 5.2 - - - -
174A LEU 3.2 0.2 - - - -
175A VAL* 1.3 75.8 - - - +
177A SER* 1.3 56.9 + - - +
179A ILE* 3.5 1.0 + - - -
180A ALA* 3.0 21.3 + - - +
199A VAL* 3.5 14.9 - - - +
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Residues in contact with SER 177 (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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153A VAL* 3.6 11.4 - - - +
154A SER* 2.9 37.7 + - - -
173A LEU 3.0 12.2 + - - -
174A LEU 2.7 16.6 + - - -
176A GLY* 1.3 74.2 - - - +
178A GLN* 1.3 59.6 + - - +
180A ALA 3.2 0.3 + - - -
181A ALA 2.9 12.3 + - - -
199A VAL* 3.9 10.1 - - - +
218A GLN* 2.8 24.5 + - - +
219A THR 6.2 0.2 - - - -
220A VAL* 4.3 12.1 - - - -
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Residues in contact with GLN 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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139A ARG* 4.7 12.6 + - - +
151A VAL* 4.0 11.9 - - - +
152A THR* 2.8 44.8 + - + +
154A SER* 4.1 12.6 - - - -
174A LEU 2.9 13.7 + - - +
175A VAL* 2.8 21.4 + - - +
177A SER* 1.3 75.8 + - - +
179A ILE* 1.3 65.8 + - - +
181A ALA* 3.2 5.1 + - - +
182A GLU* 3.1 29.5 + - - +
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Residues in contact with ILE 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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116A PHE* 4.2 5.2 - - + -
132A LEU* 3.8 27.6 - - + -
135A MET* 3.8 39.5 - - + -
136A VAL* 3.9 26.7 - - + +
139A ARG* 3.6 29.8 - - - +
175A VAL* 2.9 16.8 + - + +
176A GLY 3.9 5.6 - - - +
178A GLN* 1.3 76.0 - - - +
180A ALA* 1.3 64.8 + - - +
182A GLU* 3.1 9.7 + - - +
183A MET* 3.0 32.0 + - + +
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Residues in contact with ALA 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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31A VAL* 4.1 13.5 - - + -
132A LEU* 4.7 0.2 - - - +
176A GLY 3.0 15.9 + - - +
177A SER 3.4 9.0 - - - +
178A GLN 3.2 0.2 - - - -
179A ILE* 1.3 77.3 - - - +
181A ALA* 1.3 64.2 + - - +
183A MET* 3.3 13.9 + - - +
184A ARG* 2.9 25.0 + - - +
197A ALA* 4.1 11.6 - - + +
199A VAL* 3.9 16.6 - - + -
218A GLN* 3.6 11.7 - - + +
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Residues in contact with ALA 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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154A SER* 3.3 26.2 - - - +
177A SER 2.9 8.4 + - - +
178A GLN* 3.2 8.7 + - - +
180A ALA* 1.3 75.3 - - - +
182A GLU* 1.3 53.7 + - + +
184A ARG* 3.1 7.0 + - - +
185A GLU* 2.7 36.6 + - - +
218A GLN* 3.3 17.2 + - - +
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Residues in contact with GLU 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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116A PHE* 4.1 18.9 - - + -
139A ARG* 2.8 44.6 + - - -
178A GLN* 3.1 17.2 + - - +
179A ILE* 3.1 7.7 + - - +
181A ALA* 1.3 75.6 - - + +
183A MET* 1.3 52.1 + - - +
185A GLU* 2.9 10.2 + - - +
186A ALA* 2.7 35.0 + - - +
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Residues in contact with MET 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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31A VAL* 4.1 15.7 - - - -
33A VAL* 4.4 12.3 - - + -
112A LEU* 5.0 0.2 - - - +
113A LEU* 4.0 24.9 - - + +
116A PHE* 3.8 45.6 - - + -
130A VAL* 4.0 19.5 - - + -
132A LEU* 3.5 31.0 - - + -
179A ILE* 3.0 20.2 + - + +
180A ALA* 3.4 13.2 - - - +
182A GLU* 1.3 74.4 - - - +
184A ARG* 1.3 65.5 + - + +
186A ALA* 3.1 3.6 + - - +
187A MET* 2.9 28.5 + - - +
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Residues in contact with ARG 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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33A VAL* 5.3 8.5 - - + -
180A ALA 2.9 16.5 + - - +
181A ALA* 3.6 9.1 - - - +
183A MET* 1.3 75.1 - - + +
185A GLU* 1.3 61.4 + - - +
187A MET* 3.5 10.9 + - + +
188A TYR* 3.1 23.0 + - - +
193A LEU 4.5 1.6 - - - +
194A THR* 6.0 0.3 - - - -
195A GLY 3.0 27.3 + - - +
196A CYS* 4.1 13.5 - - - +
197A ALA* 4.1 11.0 - - + +
216A ASN* 3.0 39.4 + - - -
217A GLN* 4.1 9.5 - - - +
218A GLN* 2.9 38.1 + - - +
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Residues in contact with GLU 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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181A ALA 2.7 17.3 + - - +
182A GLU* 2.9 8.9 + - - +
184A ARG* 1.3 77.2 - - - +
186A ALA* 1.3 57.5 + - - +
188A TYR* 3.4 7.8 + - - +
189A ASN* 2.9 64.3 + - - +
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Residues in contact with ALA 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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112A LEU* 3.7 24.5 - - + -
116A PHE* 4.3 12.1 - - + -
182A GLU 2.7 15.2 + - - +
183A MET* 3.5 8.1 - - - +
185A GLU* 1.3 72.2 - - - +
187A MET* 1.3 57.7 + - - +
189A ASN* 4.4 5.2 - - - +
190A GLN* 2.6 47.7 + - - +
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Residues in contact with MET 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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33A VAL* 4.0 19.3 - - + -
35A LEU* 3.1 42.2 - - + -
109A VAL* 3.9 21.5 - - + -
112A LEU* 3.7 22.7 - - + -
113A LEU* 4.5 10.8 - - + -
183A MET* 2.9 20.2 + - - +
184A ARG* 4.0 8.3 - - + +
186A ALA* 1.3 76.7 - - - +
188A TYR* 1.3 58.7 + - - +
191A LEU* 3.2 14.3 + - + +
192A GLY 3.0 9.9 + - - -
193A LEU* 2.9 35.5 + - + +
195A GLY* 4.8 4.0 - - - +
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Residues in contact with TYR 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 ARG 3.1 16.0 + - - +
185A GLU* 3.9 9.4 - - - +
187A MET* 1.3 78.8 - - - +
189A ASN* 1.3 70.7 + - - +
192A GLY* 2.9 43.1 + - - -
193A LEU 3.3 7.1 + - - +
194A THR* 3.7 30.5 - - + -
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Residues in contact with ASN 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 GLU* 2.9 55.4 + - - +
186A ALA* 4.0 4.5 - - - +
188A TYR* 1.3 89.9 - - - +
190A GLN* 1.3 65.5 + - + +
192A GLY 4.9 0.2 + - - -
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Residues in contact with GLN 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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112A LEU* 3.8 28.3 - - + +
115A GLU* 4.7 8.1 + - - +
186A ALA* 2.6 28.9 + - - +
189A ASN* 1.3 82.1 - - + +
191A LEU* 1.3 73.5 + - + +
192A GLY 3.7 0.2 - - - -
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Residues in contact with LEU 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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45A ILE* 4.6 6.1 - - - +
105A MET* 4.8 10.5 - - - +
108A LYS* 3.8 32.1 - - + +
109A VAL* 3.7 42.4 - - + +
112A LEU* 4.4 15.7 - - + -
187A MET* 3.2 12.4 + - + +
190A GLN* 1.3 92.2 - - + +
192A GLY* 1.3 64.8 + - - +
193A LEU* 3.3 18.7 + - + +
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Residues in contact with GLY 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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41A GLN* 4.1 2.1 - - - +
45A ILE* 3.4 21.3 - - - +
187A MET 3.0 0.4 + - - -
188A TYR* 2.9 37.1 + - - -
189A ASN 4.6 0.4 - - - -
190A GLN 3.7 0.6 - - - -
191A LEU* 1.3 77.4 - - - +
193A LEU* 1.3 57.6 + - - +
194A THR* 4.3 0.5 + - - +
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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