Contacts of the helix formed by residues 158 - 181 (chain A) in PDB entry 2H31
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 GLY 158 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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146A ILE* 4.1 14.6 - - - -
156A LEU* 3.5 10.4 + - - +
157A ILE* 1.3 74.6 - - - +
159A GLN* 1.3 70.1 + - - +
160A THR 3.4 2.2 - - - -
161A GLU* 3.2 12.0 + - - -
162A VAL* 2.8 28.0 + - - +
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Residues in contact with GLN 159 (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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142A GLU* 5.7 0.5 - - - +
146A ILE* 3.7 29.8 - - + +
158A GLY* 1.3 74.4 - - - +
160A THR* 1.3 69.5 + - - +
162A VAL* 3.7 1.0 - - - +
163A ASP* 2.8 45.4 + - - +
414A LYS* 2.8 30.4 - - - +
421A ARG* 5.9 2.5 - - - +
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Residues in contact with THR 160 (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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158A GLY 3.4 0.6 - - - -
159A GLN* 1.3 88.4 - - - +
161A GLU* 1.3 68.1 + - - +
163A ASP* 3.4 3.1 + - - +
164A ILE* 3.0 39.0 + - + +
414A LYS* 4.0 39.6 + - + +
415A GLN* 5.0 3.8 - - - +
418A LYS* 3.4 34.7 - - + +
421A ARG* 3.7 14.9 + - - -
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Residues in contact with GLU 161 (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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155A LEU* 3.6 27.7 - - + +
156A LEU* 3.7 14.1 - - - +
157A ILE* 3.7 19.3 - - + -
158A GLY* 3.2 16.9 + - - +
160A THR* 1.3 81.7 - - - +
162A VAL* 1.3 65.5 + - - +
164A ILE* 3.2 9.2 + - + +
165A MSE 3.2 28.9 + - - +
203A ILE* 3.6 24.3 - - + +
415A GLN* 5.7 1.9 + - - -
418A LYS* 3.2 30.6 + - - +
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Residues in contact with VAL 162 (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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98A TRP* 3.9 15.6 - - + -
142A GLU* 3.2 39.4 - - + +
145A LEU* 4.0 20.0 - - + -
146A ILE* 3.8 20.6 - - + +
157A ILE* 3.8 18.8 - - + -
158A GLY* 2.8 25.7 + - - +
159A GLN 3.7 2.2 - - - +
161A GLU* 1.3 72.4 - - - +
163A ASP* 1.3 61.7 + - - +
165A MSE 3.5 7.8 + - - -
166A SER* 3.2 22.2 + - - -
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Residues in contact with ASP 163 (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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142A GLU* 4.0 17.0 - - - +
159A GLN* 2.8 36.1 + - - +
160A THR 3.5 4.7 - - - +
162A VAL* 1.3 78.3 - - - +
164A ILE* 1.3 62.6 + - - +
166A SER* 3.1 9.6 + - - -
167A HIS* 2.9 35.4 + - - -
410A TRP* 3.2 29.1 - - + -
414A LYS* 3.3 13.4 + - - -
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Residues in contact with ILE 164 (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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160A THR* 3.0 26.9 + - + +
161A GLU* 3.2 12.7 + - + +
163A ASP* 1.3 77.2 - - - +
165A MSE 1.3 53.5 + - - +
167A HIS* 3.3 5.1 + - - +
168A ALA* 2.8 37.5 + - + +
203A ILE* 4.7 24.7 - - + +
410A TRP* 4.6 9.4 - - - +
411A ILE* 3.5 36.0 - - + +
414A LYS* 5.0 5.8 - - + -
415A GLN* 3.5 29.2 - - - +
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Residues in contact with MSE 165 (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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94A ILE* 4.2 17.3 - - + -
98A TRP* 3.7 40.2 - - + -
145A LEU* 4.7 1.8 - - + -
157A ILE* 3.9 33.0 - - + -
161A GLU 3.2 21.7 + - - +
162A VAL* 3.9 7.6 - - + +
164A ILE* 1.3 75.3 - - - +
166A SER* 1.3 59.7 + - - +
168A ALA* 4.4 1.3 - - - -
169A THR* 2.7 33.9 + - - -
194A PHE* 3.6 30.2 - - + -
203A ILE* 3.5 30.5 - - + -
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Residues in contact with SER 166 (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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98A TRP* 3.7 21.2 - - - -
126A VAL* 4.1 17.6 - - - +
142A GLU* 3.4 24.3 + - - -
162A VAL 3.2 6.3 + - - -
163A ASP* 3.1 13.3 + - - -
165A MSE 1.3 77.8 - - - +
167A HIS* 1.3 71.7 + - - +
169A THR* 3.2 4.3 + - - -
170A GLN* 3.1 24.7 + - - +
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Residues in contact with HIS 167 (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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163A ASP* 2.9 33.8 + - - +
164A ILE 3.6 3.4 - - - +
166A SER* 1.3 87.9 + - - +
168A ALA* 1.3 62.4 + - - +
170A GLN* 3.4 9.8 + - - +
171A ALA* 3.0 22.5 + - - +
403A ARG* 5.0 2.1 + - - -
407A LEU* 4.0 14.0 - - + +
410A TRP* 3.1 57.2 - + - +
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Residues in contact with ALA 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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73A ILE* 5.9 2.0 - - + -
164A ILE* 2.8 27.7 + - + +
165A MSE 3.8 3.4 - - - +
167A HIS* 1.3 73.1 - - - +
169A THR* 1.3 51.2 + - - +
171A ALA* 3.3 1.2 + - - +
172A ILE* 2.8 47.3 + - + +
194A PHE* 4.2 17.5 - - + -
407A LEU* 3.8 25.3 - - + +
411A ILE* 5.2 1.3 - - + -
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Residues in contact with THR 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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98A TRP* 3.5 23.4 - - + +
99A VAL 4.6 5.4 - - - -
100A CYS* 3.8 22.0 - - + +
126A VAL* 4.4 9.2 - - + -
165A MSE 2.7 24.9 + - - -
166A SER* 3.4 7.6 - - - -
167A HIS 3.2 0.2 - - - -
168A ALA* 1.3 74.1 - - - +
170A GLN* 1.3 60.3 + - - +
172A ILE* 3.2 7.3 + - - +
173A PHE* 2.9 27.4 + - - +
190A MSE 5.0 5.5 - - + +
192A ILE* 4.9 7.9 - - + +
194A PHE* 3.2 22.2 - - - -
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Residues in contact with GLN 170 (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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100A CYS* 4.1 9.0 - - - -
123A PRO* 2.7 33.7 + - - +
124A PRO* 3.7 24.2 - - + +
126A VAL* 4.2 9.7 - - + +
166A SER 3.1 9.9 + - - +
167A HIS* 3.7 11.8 - - - +
169A THR* 1.3 79.5 - - - +
171A ALA* 1.3 63.8 + - - +
173A PHE* 3.2 3.1 + - - +
174A GLU* 3.0 43.2 + - - +
403A ARG* 4.8 4.2 - - - +
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Residues in contact with ALA 171 (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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73A ILE* 4.7 4.3 - - + -
167A HIS 3.0 17.9 + - - +
168A ALA 3.5 4.9 - - - +
170A GLN* 1.3 73.8 - - - +
172A ILE* 1.3 65.0 + - - +
174A GLU* 3.4 2.0 + - - +
175A ILE* 2.9 31.3 + - + +
403A ARG* 3.7 34.8 - - - +
407A LEU* 3.7 23.6 - - + -
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Residues in contact with ILE 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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68A LEU* 3.4 30.3 - - + -
73A ILE* 4.1 25.8 - - + -
168A ALA* 2.8 36.4 + - + +
169A THR* 3.2 5.1 + - - +
171A ALA* 1.3 73.4 - - - +
173A PHE* 1.3 65.6 + - - +
175A ILE* 3.4 8.2 + - - +
176A LEU* 3.1 26.6 + - + +
190A MSE 4.5 0.4 - - - -
192A ILE* 3.8 23.8 - - + -
194A PHE* 4.3 13.7 - - + -
205A LEU* 3.7 30.1 - - + -
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Residues in contact with PHE 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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100A CYS* 3.4 48.5 - - + -
101A ARG 4.2 0.2 - - - -
102A ARG* 3.6 34.8 - - + -
124A PRO* 4.1 11.7 - - + -
169A THR 2.9 14.2 + - - +
170A GLN 3.3 8.5 - - - +
171A ALA 3.1 0.2 - - - -
172A ILE* 1.3 75.7 - - - +
174A GLU* 1.3 58.0 + - + +
176A LEU* 3.0 4.0 + - - -
177A GLU* 2.6 62.3 + - + +
187A LEU* 3.4 39.3 - - + +
188A VAL 4.0 0.4 - - - -
189A ASP* 3.8 7.4 - - - -
190A MSE 3.9 17.2 - - + -
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Residues in contact with GLU 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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102A ARG* 4.2 19.3 - - - +
123A PRO 3.7 7.0 - - - +
124A PRO* 3.9 1.7 - - + +
170A GLN* 3.0 37.4 + - - +
171A ALA 3.8 3.8 - - - +
173A PHE* 1.3 84.6 - - + +
175A ILE* 1.3 57.5 + - - +
177A GLU* 3.5 10.6 - - - +
178A LYS* 2.9 31.2 + - - +
399A TRP* 4.3 14.3 + - + +
403A ARG* 2.7 45.3 + - - -
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Residues in contact with ILE 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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67A LEU* 5.1 3.4 - - + -
68A LEU* 4.0 16.6 - - + -
71A ALA* 4.2 9.0 - - + -
73A ILE* 3.8 34.3 - - + -
171A ALA* 2.9 18.7 + - + +
172A ILE* 3.6 5.6 - - - +
173A PHE 3.1 0.2 - - - -
174A GLU* 1.3 76.2 - - - +
176A LEU* 1.3 55.9 + - + +
178A LYS* 3.6 4.4 - - - +
179A SER* 2.7 40.1 + - - +
399A TRP* 4.8 2.9 - - - +
400A SER* 3.0 45.4 + - - +
403A ARG* 4.3 14.8 - - + -
404A ALA* 4.4 5.4 - - - +
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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
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64A ILE* 3.8 32.8 - - + -
67A LEU* 3.9 17.9 - - + -
68A LEU* 3.4 23.8 - - + -
172A ILE* 3.1 21.3 + - + +
173A PHE 3.0 5.7 + - - +
175A ILE* 1.3 72.8 - - - +
177A GLU* 1.3 68.7 + - - +
179A SER* 4.1 3.6 - - - -
180A TRP* 3.0 35.6 + - + +
187A LEU* 4.0 10.5 - - + -
190A MSE 3.4 34.8 - - + -
214A TRP* 4.2 8.5 - - + -
259A LEU* 5.5 0.7 - - + -
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Residues in contact with GLU 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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102A ARG* 2.8 53.9 + - - +
173A PHE* 2.6 33.7 + - + +
174A GLU* 3.5 8.2 - - - +
176A LEU* 1.3 75.4 - - - +
178A LYS* 1.3 61.9 + - - +
180A TRP* 3.4 3.1 + - - +
181A LEU* 3.4 27.2 + - + +
185A CYS 4.8 0.9 - - - +
186A THR* 5.7 2.4 - - + +
187A LEU* 3.7 32.2 + - + +
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Residues in contact with LYS 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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174A GLU 2.9 16.8 + - - +
175A ILE 3.6 4.0 - - - +
177A GLU* 1.3 74.9 - - - +
179A SER* 1.3 65.2 + - - +
180A TRP 3.0 1.2 + - - -
181A LEU* 3.2 28.3 + - + +
182A PRO* 3.4 10.2 - - - +
392A GLY 5.9 1.6 - - - +
396A HIS* 3.6 24.0 - - + +
399A TRP* 3.7 56.5 - - + -
400A SER* 5.3 0.4 - - - +
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Residues in contact with SER 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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67A LEU* 3.5 23.4 - - - +
175A ILE* 2.7 28.1 + - - +
176A LEU* 3.3 4.7 + - - -
178A LYS* 1.3 72.0 - - - +
180A TRP* 1.3 60.9 + - - +
182A PRO* 3.3 13.5 - - - +
259A LEU* 3.0 39.0 - - - +
396A HIS* 3.6 28.8 - - - -
400A SER* 4.0 6.1 + - - -
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Residues in contact with TRP 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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64A ILE* 4.7 0.2 - - - +
176A LEU* 3.0 30.0 + - + +
177A GLU* 3.8 3.8 - - - +
179A SER* 1.3 74.9 - - - +
181A LEU* 1.3 53.6 + - - +
182A PRO 3.2 2.5 - - - -
183A GLN* 2.7 62.0 + - + +
184A ASN 3.6 1.9 + - - -
185A CYS* 3.6 39.6 + - + +
187A LEU* 5.1 4.0 - - + +
214A TRP* 3.4 36.4 - + - -
216A LEU* 3.6 32.4 - - + +
251A TRP* 4.9 1.3 - + - -
252A VAL* 4.2 7.6 - - + -
255A ARG* 3.9 20.9 - - + -
256A VAL* 3.7 34.5 - - + -
259A LEU* 3.5 19.3 - - + +
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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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177A GLU* 3.4 18.0 + - + +
178A LYS* 3.2 21.9 + - + +
180A TRP* 1.3 77.2 - - - +
182A PRO* 1.3 62.9 - - + +
184A ASN* 2.8 24.4 + - - +
185A CYS 3.5 20.4 - - - +
186A THR* 4.8 8.5 - - - +
219A SER* 5.3 1.1 - - - +
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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) + - + + + + + -
------------------------------------------------------------
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