Contacts of the helix formed by residues 156 - 183 (chain B) in PDB entry 5TQB
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 156 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154B PRO* 3.3 4.4 - - - +
155B LEU* 1.3 83.7 - - - +
157B ARG* 1.3 62.8 + - - +
158B GLY* 3.4 5.9 + - - -
159B GLN* 3.1 44.3 + - - +
160B VAL* 3.2 17.7 + - - +
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Residues in contact with ARG 157 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150B LEU* 3.7 49.5 + - + +
151B GLU* 4.7 12.5 + - - +
154B PRO* 4.0 21.6 - - + +
156B SER* 1.3 72.5 - - - +
158B GLY* 1.3 61.7 + - - +
160B VAL* 3.4 1.9 + - - +
161B GLU* 3.1 47.3 + - - +
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Residues in contact with GLY 158 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156B SER* 3.2 5.6 + - - -
157B ARG* 1.3 78.6 - - - +
159B GLN* 1.3 63.4 + - - +
161B GLU* 3.6 8.2 + - - +
162B ALA* 3.1 24.4 + - - +
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Residues in contact with GLN 159 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156B SER* 3.1 32.2 + - - +
158B GLY* 1.3 76.0 - - - +
160B VAL* 1.3 58.8 + - + +
162B ALA* 3.3 8.2 + - - +
163B ALA* 2.9 28.9 + - - +
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Residues in contact with VAL 160 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146B LEU* 3.3 39.7 - - + +
149B SER* 4.9 9.6 - - - +
150B LEU* 3.5 22.0 - - + -
154B PRO* 4.2 18.4 - - + -
155B LEU 5.8 0.2 - - - +
156B SER 3.2 14.9 + - - +
157B ARG 3.9 0.9 - - - +
159B GLN* 1.3 75.3 - - + +
161B GLU* 1.3 54.3 + - - +
163B ALA* 3.0 7.1 + - - +
164B ILE* 2.7 47.7 + - + +
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Residues in contact with GLU 161 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150B LEU* 4.2 17.0 - - + +
157B ARG* 3.1 51.7 + - - +
158B GLY* 4.0 7.1 - - - +
160B VAL* 1.3 75.8 - - - +
162B ALA* 1.3 57.2 + - - +
164B ILE* 3.5 10.2 + - + +
165B ALA* 2.9 29.3 + - - +
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Residues in contact with ALA 162 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158B GLY 3.1 19.3 + - - +
159B GLN* 3.4 10.5 - - - +
160B VAL 3.1 0.2 - - - -
161B GLU* 1.3 75.2 - - - +
163B ALA* 1.3 59.3 + - - +
165B ALA* 3.3 6.8 + - - +
166B ASP* 3.0 38.0 + - - +
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Residues in contact with ALA 163 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146B LEU* 3.9 20.6 - - + -
159B GLN 2.9 15.0 + - - +
160B VAL* 3.4 10.8 - - - +
162B ALA* 1.3 74.9 - - - +
164B ILE* 1.3 60.2 + - - +
166B ASP* 3.4 9.9 + - - +
167B LYS* 3.0 35.2 + - + +
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Residues in contact with ILE 164 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143B ILE* 4.6 9.2 - - + +
146B LEU* 3.6 27.8 - - + +
147B MSE 4.0 22.2 - - + +
150B LEU* 4.4 12.1 - - + -
160B VAL* 2.7 41.8 + - + +
161B GLU* 3.6 11.0 - - + +
163B ALA* 1.3 73.0 - - - +
165B ALA* 1.3 58.0 + - - +
167B LYS* 3.3 3.6 + - - +
168B ARG* 2.9 68.3 + - + +
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Residues in contact with ALA 165 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161B GLU 2.9 18.3 + - - +
162B ALA* 3.3 8.3 + - - +
164B ILE* 1.3 76.7 - - - +
166B ASP* 1.3 64.2 + - - +
168B ARG* 3.3 8.5 + - - +
169B ARG* 3.0 51.9 + - - +
209B GLU* 5.9 0.9 - - - +
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Residues in contact with ASP 166 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113A LYS* 3.7 26.1 + - - -
116A GLN* 5.8 0.2 + - - -
162B ALA* 3.0 22.4 + - - +
163B ALA* 3.6 11.0 - - - +
165B ALA* 1.3 75.1 - - - +
167B LYS* 1.3 66.8 + - + +
169B ARG* 3.3 18.5 + - - +
170B ARG* 3.1 41.1 + - - +
401B PEG 4.8 5.2 - - - +
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Residues in contact with LYS 167 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105B GLU* 2.8 28.7 + - - -
111B PRO* 4.4 0.6 - - - +
139B LEU* 4.0 18.4 - - + +
142B GLN* 2.7 42.0 + - + +
143B ILE* 3.7 22.5 - - + +
146B LEU* 4.5 13.0 - - + -
163B ALA* 3.0 22.9 + - + +
164B ILE* 3.6 5.8 - - - +
166B ASP* 1.3 81.7 - - + +
168B ARG* 1.3 57.7 + - - +
170B ARG* 3.3 8.0 + - + +
171B LEU* 3.0 27.7 + - - +
401B PEG 5.8 6.1 + - - +
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Residues in contact with ARG 168 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143B ILE* 3.9 26.1 - - + +
147B MSE 3.3 35.2 - - - +
164B ILE* 2.9 42.4 + - + +
165B ALA* 3.7 7.2 - - - +
167B LYS* 1.3 77.1 - - - +
169B ARG* 1.3 57.2 + - + +
171B LEU* 3.4 1.5 + - - -
172B ALA* 2.8 29.5 + - - +
206B ILE* 3.5 45.1 + - + +
207B ALA* 4.8 2.2 - - + -
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Residues in contact with ARG 169 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165B ALA* 3.0 39.4 + - - +
166B ASP* 3.6 18.6 + - - +
168B ARG* 1.3 75.5 - - + +
170B ARG* 1.3 73.4 + - - +
172B ALA* 3.3 6.4 + - - +
173B GLU* 2.9 36.9 + - - +
207B ALA* 4.6 1.8 - - + -
209B GLU* 3.7 34.5 + - - +
210B TRP* 3.5 58.1 + - + +
249B PRO* 6.3 0.8 - - - +
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Residues in contact with ARG 170 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110A TRP* 3.9 18.2 - - + -
112A VAL* 3.8 23.9 - - - +
113A LYS* 5.1 0.4 - - - +
115B LEU* 5.5 2.2 - - + -
139B LEU* 4.0 17.9 - - + -
166B ASP* 3.1 34.7 + - - +
167B LYS* 3.3 10.5 + - + +
169B ARG* 1.3 83.1 - - - +
171B LEU* 1.3 57.0 + - - +
173B GLU* 2.9 44.6 + - - +
174B THR* 2.8 31.8 + - - -
210B TRP* 3.7 17.6 - - - -
401B PEG 3.0 39.5 + - - +
405B EDO 4.0 6.1 - - - -
407B EDO 4.1 5.1 - - - -
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Residues in contact with LEU 171 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136B ALA* 3.7 42.4 - - + +
139B LEU* 3.8 12.1 - - + +
140B ARG* 3.7 32.1 - - + +
143B ILE* 3.8 17.9 - - + -
167B LYS 3.0 13.7 + - - +
168B ARG 3.5 7.6 - - - +
170B ARG* 1.3 75.8 - - - +
172B ALA* 1.3 65.9 + - - +
174B THR* 2.9 13.9 + - - -
175B LEU* 3.0 24.4 + - + +
202B GLU* 4.2 7.6 - - - +
206B ILE* 3.7 22.0 - - + -
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Residues in contact with ALA 172 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168B ARG 2.8 18.3 + - - +
169B ARG* 3.3 5.6 + - - +
171B LEU* 1.3 75.3 - - - +
173B GLU* 1.3 58.0 + - - +
175B LEU* 3.3 5.6 + - - +
176B CYS* 3.0 33.7 + - - -
203B ALA* 4.3 6.9 - - + +
206B ILE* 3.7 16.8 - - + +
207B ALA* 3.9 9.6 - - + -
210B TRP* 5.0 1.8 - - + -
213B THR* 3.7 27.4 - - + -
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Residues in contact with GLU 173 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108A ARG* 3.8 6.5 + - - +
110A TRP* 3.9 12.5 - - + -
169B ARG 2.9 17.5 + - - +
170B ARG* 2.9 43.1 + - - +
172B ALA* 1.3 77.1 - - - +
174B THR* 1.3 58.1 + - - +
176B CYS* 3.4 5.4 + - - +
177B ALA* 2.9 27.2 + - - +
210B TRP* 2.6 32.5 + - + +
212B GLU* 3.5 27.1 - - + +
404B EDO 4.1 0.4 - - - -
405B EDO 3.0 29.3 + - - +
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Residues in contact with THR 174 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110A TRP* 3.8 7.4 - - - -
115B LEU* 3.7 33.2 - - + +
132B PHE* 3.6 34.1 - - + +
136B ALA* 4.2 13.2 - - + +
139B LEU* 3.8 5.2 - - - +
170B ARG 2.8 18.5 + - - -
171B LEU* 2.9 15.1 + - - -
173B GLU* 1.3 74.8 - - - +
175B LEU* 1.3 64.8 + - + +
177B ALA* 3.2 4.7 + - - +
178B VAL* 3.1 24.3 + - + +
----------------------------------------------------------
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Residues in contact with LEU 175 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136B ALA* 4.7 8.1 - - + -
140B ARG* 4.4 12.1 - - - +
171B LEU* 3.0 30.9 + - + +
172B ALA 3.3 5.4 + - - +
174B THR* 1.3 77.9 - - + +
176B CYS* 1.3 57.2 + - - +
178B VAL* 3.1 9.6 + - + +
179B VAL* 3.0 30.2 + - - +
199B LEU* 3.7 43.3 - - + +
202B GLU* 3.5 37.7 - - + +
203B ALA* 4.1 11.9 - - + +
206B ILE* 4.3 8.1 - - + -
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Residues in contact with CYS 176 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108A ARG* 3.9 13.5 - - - +
172B ALA 3.0 24.9 + - - +
173B GLU* 3.6 7.2 - - - +
174B THR 3.2 0.2 - - - -
175B LEU* 1.3 75.5 - - - +
177B ALA* 1.3 64.4 + - - +
179B VAL* 3.2 5.6 + - - +
180B GLU* 3.1 26.3 + - - +
200B ILE* 5.8 1.1 - - - -
203B ALA* 4.6 9.9 - - - -
212B GLU* 3.8 13.2 - - + -
213B THR* 4.1 11.9 - - - -
216B THR* 3.0 44.1 - - - +
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Residues in contact with ALA 177 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105A LYS* 5.1 1.6 - - - +
108A ARG* 3.6 22.8 - - - +
110A TRP* 4.6 5.4 - - + -
119B GLN* 5.6 0.7 - - - +
132B PHE* 3.6 32.6 - - + -
173B GLU 2.9 14.8 + - - +
174B THR* 3.2 11.2 + - - +
176B CYS* 1.3 75.5 - - - +
178B VAL* 1.3 61.0 + - - +
180B GLU* 3.4 6.0 + - - +
181B VAL* 3.3 24.3 + - - +
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Residues in contact with VAL 178 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129B VAL* 4.1 18.4 - - + +
132B PHE* 3.6 31.2 - - + -
133B GLU* 5.3 4.3 - - + +
174B THR* 3.1 16.5 + - + +
175B LEU* 3.1 11.8 + - + +
177B ALA* 1.3 74.5 - - - +
179B VAL* 1.3 65.8 + - - +
181B VAL* 3.1 16.8 + - - +
182B TYR* 3.1 33.8 + - + -
199B LEU* 3.6 22.7 - - + -
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Residues in contact with VAL 179 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175B LEU 3.0 18.7 + - - +
176B CYS* 3.3 9.6 - - - +
178B VAL* 1.3 76.7 - - - +
180B GLU* 1.3 62.7 + - + +
182B TYR* 3.1 14.1 + - - +
183B MSE 3.2 23.5 + - - +
196B CYS* 3.9 17.0 - - - +
199B LEU* 3.5 28.5 - - + -
200B ILE* 4.0 16.2 - - + -
216B THR* 3.7 22.7 - - + +
219B ASN* 5.7 0.4 - - + -
220B VAL* 3.8 20.9 - - + -
----------------------------------------------------------
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Residues in contact with GLU 180 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103A PRO* 5.7 2.0 - - + -
104A THR 3.3 23.1 - - - +
105A LYS* 3.3 10.4 - - - +
106A ILE* 3.0 26.4 + - - +
108A ARG* 2.9 43.2 + - - -
176B CYS 3.1 11.0 + - - +
177B ALA* 3.7 6.4 - - - +
178B VAL 3.2 0.4 - - - -
179B VAL* 1.3 78.3 - - + +
181B VAL* 1.3 57.3 + - - +
183B MSE 3.4 7.3 + - - +
184B THR* 2.7 37.5 + - - +
216B THR* 4.2 9.8 + - + -
219B ASN* 4.6 17.6 + - - +
----------------------------------------------------------
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Residues in contact with VAL 181 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105A LYS* 4.5 15.3 - - + -
125B GLY* 3.8 36.8 - - - +
128B SER* 4.5 8.3 - - - -
129B VAL* 3.9 13.2 - - + -
132B PHE* 4.1 19.5 - - + -
177B ALA 3.3 16.0 + - - +
178B VAL* 3.1 9.3 + - - +
180B GLU* 1.3 76.3 - - - +
182B TYR* 1.3 58.4 + - - +
183B MSE 3.1 0.2 - - - -
184B THR* 3.1 7.1 + - - -
185B ASP* 3.0 19.8 + - + +
186B LEU* 2.9 28.6 + - + -
----------------------------------------------------------
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Residues in contact with TYR 182 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91A PHE* 4.8 2.4 - - - -
126B HIS* 5.0 2.3 + - - -
129B VAL* 4.1 20.1 - - + +
133B GLU* 5.6 0.3 + - - -
178B VAL* 3.1 42.7 + - + -
179B VAL 3.1 8.5 + - - +
181B VAL* 1.3 76.4 - - - +
183B MSE 1.3 59.0 + - - +
184B THR 3.4 1.1 - - - -
186B LEU* 3.6 41.0 - - + +
187B SER* 3.1 23.4 - - - -
189B GLU* 4.3 8.3 - - + -
192B ALA* 4.0 24.7 - - + +
195B ARG* 2.4 59.3 + - + -
196B CYS* 3.8 14.8 - - - -
199B LEU* 4.7 4.0 - - + -
----------------------------------------------------------
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Residues in contact with MSE 183 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66A TRP* 4.8 2.8 + - - -
91A PHE* 4.0 15.0 - - + -
95A CYS* 3.5 26.9 - - - +
99A ARG* 3.3 16.8 - - - +
103A PRO* 3.3 30.2 - - + +
179B VAL* 3.2 32.9 + - - +
180B GLU* 3.4 5.8 + - - +
181B VAL 3.1 0.8 - - - -
182B TYR* 1.3 79.4 - - - +
184B THR* 1.3 62.0 + - - +
187B SER* 3.9 6.3 - - - -
196B CYS* 4.0 3.8 - - - -
219B ASN* 3.4 16.2 - - - +
220B VAL* 4.1 16.8 - - - -
223B SER* 3.1 37.0 - - - +
----------------------------------------------------------
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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