Contacts of the helix formed by residues 166 - 191 (chain A) in PDB entry 1XR2
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 ARG 166 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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165A ARG* 1.3 78.2 - - + +
167A PRO* 1.3 63.5 - - + +
168A ASN* 2.9 45.1 + - - +
169A GLN* 2.6 64.4 + - - +
170A MET* 3.1 11.7 + - - +
208A GLU* 5.2 6.5 - - - +
211A HIS* 4.9 0.4 - - + -
589B LYS* 4.1 25.9 - - + +
592B TRP* 4.8 1.4 - - - -
625B ASN 4.5 4.6 + - - -
626B GLU* 4.0 44.6 + - - +
629B GLU* 5.0 2.2 + - - -
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Residues in contact with PRO 167 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165A ARG 3.8 0.4 - - - -
166A ARG* 1.3 84.6 - - + +
168A ASN* 1.3 58.1 + - - +
170A MET* 3.1 2.2 + - + +
171A GLU* 2.9 34.0 + - - +
208A GLU* 3.6 26.7 - - - +
210A ALA* 3.9 16.4 - - + +
211A HIS* 3.5 31.6 - - + +
214A LEU* 3.6 23.1 - - + +
206B ASP* 5.6 1.1 - - - +
589B LYS* 6.3 1.8 - - + -
590B SER* 4.2 20.9 - - - -
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Residues in contact with ASN 168 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166A ARG* 2.9 40.8 + - - +
167A PRO* 1.3 79.8 - - - +
169A GLN* 1.3 65.7 + - - +
171A GLU* 4.1 5.3 + - - +
172A LYS* 4.9 3.5 + - - +
589B LYS* 3.0 35.3 + - - +
590B SER* 4.6 1.9 - - - +
592B TRP* 4.0 13.9 - - + -
593B PRO* 3.8 29.1 - - + +
626B GLU 4.8 0.4 + - - -
629B GLU* 4.3 3.6 + - - -
630B TYR* 3.2 29.8 + - - +
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Residues in contact with GLN 169 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159A ARG* 5.8 1.6 + - - +
162A GLU* 4.7 10.9 + - - +
163A TRP 2.9 26.9 + - - +
164A ILE* 3.9 13.8 - - + +
165A ARG* 3.5 1.1 + - - +
166A ARG* 2.6 81.9 + - - +
168A ASN* 1.3 82.3 - - - +
170A MET* 1.3 57.6 + - - +
172A LYS* 5.0 1.8 + - - +
173A LEU* 3.7 21.3 + - - +
629B GLU* 4.3 12.9 + - - +
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Residues in contact with MET 170 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151A PHE* 3.5 57.7 - - + +
154A LEU* 3.5 25.8 - - + -
155A TYR* 3.7 8.3 - - + +
164A ILE* 3.2 32.8 - - + +
165A ARG* 4.0 16.4 - - - +
166A ARG 3.1 10.2 + - - +
167A PRO* 4.0 4.0 - - - +
169A GLN* 1.3 77.1 - - - +
171A GLU* 1.3 65.2 + - - +
172A LYS 3.4 0.9 - - - -
173A LEU* 3.1 4.3 + - - +
174A LEU* 2.8 36.8 + - + +
211A HIS* 4.3 4.9 - - - -
214A LEU* 4.2 2.9 - - + -
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Residues in contact with GLU 171 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167A PRO 2.9 17.0 + - - +
168A ASN* 4.4 7.0 - - - +
169A GLN 3.7 0.8 - - - -
170A MET* 1.3 76.7 - - - +
172A LYS* 1.3 66.4 + - - +
174A LEU* 3.4 10.3 + - - +
175A GLU* 3.5 10.6 + - - +
214A LEU* 3.9 24.4 - - + +
590B SER 3.9 11.6 - - - +
593B PRO* 3.4 30.9 - - + +
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Residues in contact with LYS 172 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120A GLU* 5.5 3.8 - - + +
168A ASN 4.9 4.2 + - - +
169A GLN 5.0 1.8 + - - +
170A MET 3.4 1.0 - - - -
171A GLU* 1.3 82.8 - - - +
173A LEU* 1.3 66.8 + - + +
175A GLU* 3.3 16.9 + - - +
176A SER* 3.7 5.5 + - - -
593B PRO* 5.9 1.8 - - + +
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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
----------------------------------------------------------
117A ILE* 4.2 13.9 - - + -
120A GLU* 3.7 36.1 - - + -
122A PHE* 4.0 16.9 - - + -
154A LEU* 3.9 14.8 - - + -
159A ARG* 5.7 2.5 - - + -
164A ILE* 3.9 32.3 - - + -
169A GLN 3.7 19.7 + - - +
170A MET 3.1 6.1 + - - +
172A LYS* 1.3 80.7 - - + +
174A LEU* 1.3 58.2 + - - +
176A SER* 3.0 8.2 + - - -
177A LEU* 2.8 29.6 + - - +
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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
----------------------------------------------------------
150A PRO* 4.1 24.0 - - + +
151A PHE* 4.6 14.6 - - + +
154A LEU* 3.5 21.5 - - + -
170A MET* 2.8 26.6 + - + +
171A GLU* 3.7 5.6 - - - +
173A LEU* 1.3 73.8 - - - +
175A GLU* 1.3 55.3 + - - +
177A LEU* 4.1 7.9 - - + -
178A VAL* 2.7 40.4 + - + +
214A LEU* 4.0 32.1 - - + -
218A VAL* 3.8 30.5 - - + -
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Residues in contact with GLU 175 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171A GLU 3.5 6.4 + - - +
172A LYS* 3.3 12.0 + - - +
173A LEU 3.2 0.8 - - - -
174A LEU* 1.3 78.3 - - - +
176A SER* 1.3 61.7 + - - +
178A VAL* 4.2 4.9 - - - +
179A SER* 3.6 16.6 + - - -
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Residues in contact with SER 176 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120A GLU 3.4 18.6 + - - -
121A GLU* 3.8 3.0 - - - +
122A PHE* 3.2 29.8 + - - +
172A LYS 3.7 3.7 + - - -
173A LEU 3.0 9.2 + - - -
175A GLU* 1.3 77.7 - - - +
177A LEU* 1.3 67.5 + - - +
179A SER* 3.3 19.5 + - - -
180A VAL* 3.7 9.5 + - - +
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Residues in contact with LEU 177 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74A VAL* 3.8 21.8 - - + -
122A PHE* 3.7 39.0 - - + -
150A PRO* 3.5 35.7 - - + +
153A PHE* 3.9 9.9 - - + -
154A LEU* 3.6 25.4 - - + -
173A LEU 2.8 19.7 + - - +
174A LEU* 3.7 7.0 - - + +
176A SER* 1.3 75.5 - - - +
178A VAL* 1.3 62.6 + - - +
180A VAL* 3.2 14.7 + - - +
181A TYR* 3.3 26.3 + - + -
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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
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150A PRO* 4.5 10.1 - - + -
174A LEU* 2.7 26.6 + - + +
175A GLU* 4.2 4.9 - - - +
177A LEU* 1.3 72.2 - - - +
179A SER* 1.3 57.1 + - - +
181A TYR* 3.2 9.6 + - - +
182A LYS* 2.9 27.8 + - + +
218A VAL* 3.6 44.0 - - + +
221A GLU* 4.2 13.2 - - + -
222A LEU* 3.9 26.2 - - + +
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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
----------------------------------------------------------
175A GLU 3.6 11.1 + - - -
176A SER* 3.3 14.6 + - - -
178A VAL* 1.3 79.4 - - - +
180A VAL* 1.3 64.4 + - - +
182A LYS* 3.1 11.3 - - - +
183A GLU* 3.0 20.6 + - - +
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Residues in contact with VAL 180 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73A MET* 4.3 0.7 - - + +
74A VAL* 3.8 23.8 - - + -
122A PHE* 3.6 43.1 - - + +
123A TYR* 3.7 10.3 - - - +
124A LEU* 3.9 33.4 - - + +
176A SER 4.1 4.7 - - - +
177A LEU 3.2 7.7 + - - +
179A SER* 1.3 74.7 - - - +
181A TYR* 1.3 67.5 + - - +
183A GLU* 3.0 9.0 + - - +
184A VAL* 2.9 24.7 + - + +
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Residues in contact with TYR 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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70A THR* 3.4 17.5 - - + +
73A MET* 3.9 19.1 - - + -
74A VAL* 4.3 10.3 - - + -
147A VAL* 4.8 5.8 - - + -
148A ILE 2.6 30.1 + - - -
149A GLY* 3.5 7.9 + - - -
150A PRO* 3.6 40.3 - - + +
153A PHE* 4.0 2.0 - - + +
177A LEU* 3.3 37.1 + - + -
178A VAL* 3.2 11.1 + - - +
180A VAL* 1.3 78.6 - - - +
182A LYS* 1.3 57.6 + - - +
184A VAL* 3.3 7.2 + - - +
185A PHE* 2.9 65.7 + + + -
198A VAL* 5.8 0.2 - - + -
222A LEU* 4.5 7.2 - - + -
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Residues in contact with LYS 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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178A VAL* 2.9 14.2 + - + +
179A SER* 3.1 17.9 - - - +
180A VAL 3.0 0.2 - - - -
181A TYR* 1.3 74.9 - - - +
183A GLU* 1.3 57.7 + - - +
185A PHE 3.4 0.3 + - - -
186A GLU* 2.9 31.2 + - - +
221A GLU 5.7 1.8 - - - +
222A LEU* 4.3 8.3 - - + +
225A PHE* 3.8 21.7 - - + -
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Residues in contact with GLU 183 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124A LEU* 4.1 20.4 - - + -
179A SER 3.0 10.4 + - - +
180A VAL* 3.0 11.7 + - - +
182A LYS* 1.3 76.0 - - - +
184A VAL* 1.3 64.4 + - - +
186A GLU* 3.3 6.6 + - - +
187A LYS* 3.1 30.3 + - + +
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Residues in contact with VAL 184 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73A MET* 4.0 20.6 - - + -
124A LEU* 3.5 29.8 - - + -
127A ASN* 3.7 26.7 + - - +
129A PRO* 4.2 19.5 - - + -
147A VAL* 5.8 0.9 - - + -
180A VAL* 2.9 19.6 + - + +
181A TYR* 3.6 9.4 - - - +
183A GLU* 1.3 76.8 - - - +
185A PHE* 1.3 75.4 + - + +
187A LYS* 3.4 3.5 + - - +
188A LEU* 3.3 24.2 + - + +
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Residues in contact with PHE 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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147A VAL* 4.3 12.3 - - + -
150A PRO* 6.3 0.2 - - + -
181A TYR* 2.9 43.0 + + - +
182A LYS 3.9 1.1 - - - +
184A VAL* 1.3 85.5 - - + +
186A GLU* 1.3 65.8 + - - +
188A LEU* 3.3 5.8 + - + +
189A VAL* 3.1 28.1 + - - +
196A ILE* 3.6 37.6 - - + +
198A VAL* 4.2 11.2 - - + -
222A LEU* 4.2 17.7 - - + -
225A PHE* 3.7 37.5 - + + -
227A LEU* 3.6 31.9 - - + -
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Residues in contact with GLU 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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182A LYS 2.9 17.5 + - - +
183A GLU* 3.6 8.1 - - - +
185A PHE* 1.3 76.7 - - - +
187A LYS* 1.3 67.0 + - + +
189A VAL* 3.5 4.0 + - - +
190A GLU* 2.9 35.7 + - + +
225A PHE* 3.9 15.8 - - + -
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Residues in contact with LYS 187 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124A LEU* 5.9 4.0 - - + -
127A ASN* 3.9 15.3 - - - +
130A LEU* 4.1 18.0 - - + +
183A GLU* 3.1 20.9 + - + +
184A VAL 3.8 5.2 - - - +
185A PHE 3.3 0.2 - - - -
186A GLU* 1.3 82.4 - - + +
188A LEU* 1.3 57.1 + - - +
190A GLU* 3.5 23.7 + - - +
191A ASN* 2.5 36.6 + - - +
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Residues in contact with LEU 188 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129A PRO* 3.9 12.6 - - + +
130A LEU* 3.8 35.0 - - + +
133A TYR* 3.8 24.7 - - + -
145A PRO* 3.8 28.0 - - + -
147A VAL* 6.1 0.4 - - + -
184A VAL* 3.3 18.1 + - + +
185A PHE* 3.7 13.7 - - + +
186A GLU 3.3 0.4 - - - -
187A LYS* 1.3 75.2 - - - +
189A VAL* 1.3 63.8 + - - +
191A ASN* 3.1 10.9 + - - +
192A GLY 3.3 0.5 + - - -
193A CYS* 2.8 31.5 + - + +
196A ILE* 4.1 22.2 - - + -
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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
----------------------------------------------------------
185A PHE 3.1 16.4 + - - +
186A GLU* 4.0 4.7 - - - +
188A LEU* 1.3 76.9 - - - +
190A GLU* 1.3 64.4 + - + +
192A GLY* 3.0 13.9 + - - -
193A CYS 3.9 18.6 - - - +
196A ILE* 5.0 3.8 - - + -
225A PHE* 4.5 8.5 - - + -
226A PRO* 3.8 30.5 - - + -
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Residues in contact with GLU 190 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
186A GLU* 2.9 24.6 + - + +
187A LYS* 3.5 38.8 + - - +
188A LEU 3.2 0.2 - - - -
189A VAL* 1.3 78.7 - - + +
191A ASN* 1.3 64.9 + - - +
192A GLY 3.2 0.8 + - - -
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Residues in contact with ASN 191 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130A LEU* 3.9 22.3 - - + +
133A TYR* 3.5 14.9 - - + -
134A LEU* 4.1 20.1 - - + +
137A LYS* 3.0 22.5 + - - -
187A LYS* 2.5 30.2 + - - +
188A LEU 3.1 6.5 + - - +
189A VAL 3.1 1.0 - - - -
190A GLU* 1.3 83.3 + - - +
192A GLY* 1.3 56.7 + - - +
193A CYS 3.6 0.4 - - - -
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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