Contacts of the helix formed by residues 129 - 170 (chain M) in PDB entry 3Q84
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 PHE 129 (chain M).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32M ILE* 5.4 0.2 - - + -
33M ASP* 3.2 25.6 - - - -
36M HIS* 3.6 43.1 - + + -
121M TYR* 3.5 38.6 - + + -
122M HIS 3.5 14.8 - - - +
123M LYS* 4.1 21.8 - - + -
124M GLN* 4.3 2.2 - - - -
128M GLY* 1.3 76.5 - - - -
130M LYS* 1.3 67.5 + - - +
131M GLU* 4.1 4.0 - - - +
132M THR* 2.8 34.5 + - - +
133M LYS* 3.0 12.0 + - - +
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Residues in contact with LYS 130 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122M HIS* 2.8 44.3 + - + +
123M LYS 5.7 0.2 - - - -
124M GLN* 3.8 27.0 - - + +
129M PHE* 1.3 70.7 - - - +
131M GLU* 1.3 74.3 + - - +
133M LYS* 3.5 1.9 + - - +
134M GLU* 2.9 46.7 + - + +
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Residues in contact with GLU 131 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32M ILE* 4.2 18.0 - - + +
120M ALA 3.3 12.9 - - - +
121M TYR* 3.8 4.6 - - + +
122M HIS* 2.8 46.9 + - - +
129M PHE* 3.0 4.2 - - + +
130M LYS* 1.3 89.3 + - - +
132M THR* 1.3 56.6 + - - +
134M GLU* 3.6 13.8 - - - +
135M ALA* 3.0 28.4 + - - +
237M PHE* 3.7 29.6 - - + -
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Residues in contact with THR 132 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29M VAL* 3.9 23.3 + - + +
32M ILE* 3.4 22.4 - - - +
33M ASP* 3.2 32.0 + - - +
128M GLY* 5.9 1.6 - - - -
129M PHE* 2.8 26.9 + - - +
131M GLU* 1.3 69.9 - - - +
133M LYS* 1.3 55.5 + - + +
135M ALA* 3.3 5.4 + - - +
136M GLU* 2.8 37.5 + - + +
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Residues in contact with LYS 133 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124M GLN* 4.0 25.1 - - - +
128M GLY* 6.4 0.2 - - - -
129M PHE 3.0 9.7 + - - +
130M LYS 3.8 6.5 - - - +
132M THR* 1.3 77.6 - - + +
134M GLU* 1.3 57.2 + - - +
136M GLU* 2.8 32.5 + - + +
137M ASP* 2.9 38.9 + - - +
140M ARG* 5.0 11.5 - - - +
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Residues in contact with GLU 134 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130M LYS* 2.9 36.6 + - + +
131M GLU* 3.6 16.4 - - - +
133M LYS* 1.3 74.8 - - - +
135M ALA* 1.3 60.2 + - - +
137M ASP* 4.0 7.3 + - - +
138M GLY* 3.2 18.5 + - - -
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Residues in contact with ALA 135 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29M VAL* 3.8 17.0 - - + -
32M ILE* 4.3 7.6 - - + -
131M GLU 3.0 18.7 + - - +
132M THR 3.7 3.4 - - - +
133M LYS 3.1 0.2 - - - -
134M GLU* 1.3 74.8 - - - +
136M GLU* 1.3 64.6 + - - +
138M GLY* 3.3 2.5 + - - -
139M PHE* 3.2 28.0 + - + -
230M VAL* 4.2 4.7 - - - +
234M CYS* 4.1 24.2 - - - -
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Residues in contact with GLU 136 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25M TYR* 3.7 21.7 + - - -
26M LYS* 5.3 5.7 - - - +
29M VAL* 3.8 26.6 - - + +
132M THR* 2.8 18.2 + - + +
133M LYS* 2.8 25.4 + - + +
135M ALA* 1.3 70.4 - - - +
137M ASP* 1.3 64.8 + - - +
139M PHE* 3.4 3.5 + - - +
140M ARG* 3.2 56.3 + - - +
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Residues in contact with ASP 137 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133M LYS* 2.9 49.1 + - - +
134M GLU* 4.0 6.7 + - - +
136M GLU* 1.3 71.4 - - - +
138M GLY* 1.3 67.6 + - - +
140M ARG* 2.9 25.4 + - - +
141M LYS* 3.0 16.1 + - - +
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Residues in contact with GLY 138 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134M GLU 3.2 13.3 + - - -
135M ALA 3.3 4.9 + - - -
137M ASP* 1.3 77.6 - - - +
139M PHE* 1.3 63.6 + - - +
141M LYS* 3.7 4.4 + - - +
142M ALA* 3.1 21.3 + - - +
230M VAL* 3.6 19.5 - - - +
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Residues in contact with PHE 139 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19M PHE* 4.0 13.2 - + - -
25M TYR* 2.9 51.1 - + + -
28M THR* 3.9 29.6 - - + -
29M VAL* 4.7 7.0 - - + -
135M ALA 3.2 24.0 + - - -
136M GLU 3.8 1.1 - - - +
137M ASP 2.9 3.6 + - - -
138M GLY* 1.3 70.6 - - - +
140M ARG* 1.3 48.6 + - - +
142M ALA* 2.9 6.1 + - - -
143M GLN* 2.8 36.1 + - - +
227M MSE 3.5 41.2 - - + +
230M VAL* 3.5 16.2 - - + -
231M PHE* 3.7 24.5 - - + -
234M CYS* 4.1 7.9 - - - -
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Residues in contact with ARG 140 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25M TYR* 3.5 19.3 + - - +
133M LYS* 5.0 11.3 - - - +
136M GLU* 3.2 36.5 + - - +
137M ASP* 2.9 20.1 + - - +
139M PHE* 1.3 73.8 - - - +
141M LYS* 1.3 51.0 + - - +
143M GLN* 2.9 9.3 + - + +
144M LYS* 2.7 39.0 + - + +
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Residues in contact with LYS 141 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137M ASP 3.0 18.0 + - - +
138M GLY* 3.9 5.2 - - - +
140M ARG* 1.3 70.5 - - - +
142M ALA* 1.3 63.7 + - + +
143M GLN 2.8 6.4 + - - -
144M LYS* 3.0 17.5 + - - +
145M PRO* 3.5 10.6 - - - +
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Residues in contact with ALA 142 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138M GLY 3.1 11.9 + - - +
139M PHE 2.9 2.0 + - - -
141M LYS* 1.3 80.8 - - - +
143M GLN* 1.3 55.3 + - - +
144M LYS 3.6 0.2 - - - -
145M PRO* 4.4 9.9 - - - +
223M TYR* 4.1 12.3 - - - +
226M ASN* 3.4 42.1 - - + +
227M MSE 3.1 28.5 - - + +
230M VAL* 4.4 2.2 - - + -
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Residues in contact with GLN 143 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19M PHE 5.3 2.2 + - - -
20M TRP 4.2 1.0 + - - -
21M GLU 4.4 0.8 + - - -
22M VAL* 3.3 49.0 - - - +
23M GLY 3.7 3.8 - - - +
25M TYR* 3.8 21.8 + - - -
139M PHE 2.8 16.0 + - - +
140M ARG* 2.9 7.5 + - - +
141M LYS 2.8 0.2 + - - -
142M ALA* 1.3 77.9 - - - +
144M LYS* 1.3 63.5 + - - +
145M PRO 3.6 1.1 - - - -
146M TRP* 3.9 8.7 - - + -
147M ALA* 2.9 27.3 + - - +
223M TYR* 3.5 35.6 + - + -
227M MSE 3.8 12.0 - - - -
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Residues in contact with LYS 144 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140M ARG* 2.7 14.7 + - + +
141M LYS* 3.0 11.6 + - - +
143M GLN* 1.3 74.6 - - - +
145M PRO* 1.4 78.5 - - + +
146M TRP 3.1 0.2 + - - -
147M ALA* 3.2 8.3 + - - +
148M LYS* 3.2 17.2 + - + +
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Residues in contact with PRO 145 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141M LYS 3.5 10.1 - - - +
142M ALA* 4.4 9.9 - - - +
144M LYS* 1.4 94.9 - - + +
146M TRP* 1.3 70.1 + - + +
148M LYS* 3.1 20.3 - - + +
149M LYS* 3.3 20.0 + - - +
219M THR* 6.3 2.2 - - + -
222M GLN* 6.5 0.9 - - + -
223M TYR* 6.4 2.2 - - - -
226M ASN* 5.7 3.8 - - - +
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Residues in contact with TRP 146 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20M TRP 4.5 2.6 + - - -
22M VAL* 4.3 15.1 - - + +
143M GLN* 3.5 8.5 + - + +
144M LYS 3.1 0.6 - - - -
145M PRO* 1.3 84.3 - - + +
147M ALA* 1.3 69.2 + - - +
149M LYS* 2.8 20.0 + - + +
150M MSE 3.0 46.2 - - + +
216M VAL* 4.0 26.5 - - + -
219M THR* 4.4 11.2 - - - -
220M THR* 3.6 29.2 - - - -
223M TYR* 3.5 61.7 + + + -
297N MSE 5.4 2.9 - - + -
299N TRP* 3.5 34.5 - + - -
300N PRO* 4.3 5.2 - - + -
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Residues in contact with ALA 147 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22M VAL* 4.4 23.8 - - + -
143M GLN* 2.9 23.7 + - - +
144M LYS* 4.0 3.4 - - - +
146M TRP* 1.3 78.8 - - - +
148M LYS* 1.3 62.7 + - - +
150M MSE 3.0 23.0 + - - +
151M LYS* 3.3 14.7 + - - +
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Residues in contact with LYS 148 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144M LYS* 3.2 13.4 + - + +
145M PRO* 3.1 15.0 - - + +
147M ALA* 1.3 78.4 - - - +
149M LYS* 1.3 57.0 + - + +
151M LYS* 2.9 43.0 + - + +
152M GLU* 3.3 24.9 + - + +
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Residues in contact with LYS 149 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145M PRO* 3.4 24.9 - - - +
146M TRP* 2.8 16.5 + - + +
148M LYS* 1.3 71.1 - - + +
150M MSE 1.3 65.2 + - + +
151M LYS 3.3 0.2 - - - -
152M GLU* 3.5 20.1 + - - +
153M LEU* 2.8 30.0 + - - +
212M VAL* 4.6 2.5 - - + +
215M ASP* 3.0 37.4 + - - +
216M VAL* 4.2 15.9 - - + +
219M THR* 3.7 35.3 - - - +
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Residues in contact with MSE 150 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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22M VAL* 4.4 16.4 - - + -
146M TRP* 3.0 76.0 + - + +
147M ALA* 3.0 16.7 + - - +
148M LYS 2.9 0.8 + - - -
149M LYS* 1.3 83.7 - - + +
151M LYS* 1.3 67.0 + - - +
153M LEU* 3.6 22.8 + - + +
154M GLU* 3.1 21.5 + - - +
216M VAL* 5.3 5.2 - - + -
300N PRO* 4.8 10.5 - - - -
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Residues in contact with LYS 151 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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147M ALA* 3.6 11.7 - - - +
148M LYS* 2.9 24.2 + - + +
150M MSE 1.3 76.6 - - - +
152M GLU* 1.3 52.7 + - + +
154M GLU* 2.8 12.6 + - - +
155M ALA* 2.7 34.3 + - - +
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Residues in contact with GLU 152 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148M LYS* 3.3 36.6 + - + +
149M LYS* 3.9 18.3 + - - +
150M MSE 3.5 0.2 - - - -
151M LYS* 1.3 75.7 - - + +
153M LEU* 1.3 54.6 + - - +
155M ALA* 3.6 9.3 - - - +
156M ALA* 2.7 37.9 + - - +
208M LYS* 5.9 2.1 - - - -
212M VAL* 3.9 26.7 - - + +
215M ASP* 5.7 0.2 - - - +
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Residues in contact with LEU 153 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149M LYS 2.8 23.3 + - - +
150M MSE 3.8 24.0 - - + +
152M GLU* 1.3 72.1 - - - +
154M GLU* 1.3 73.6 + - - +
156M ALA* 4.0 1.4 - - - +
157M LYS* 3.0 33.3 + - + +
209M TYR* 4.3 22.1 - - + +
212M VAL* 3.9 14.3 - - + +
213M LEU* 4.5 18.2 - - + -
216M VAL* 4.8 11.0 - - + -
300N PRO* 4.6 18.2 - - + -
301N GLN 5.4 2.5 - - - +
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Residues in contact with GLU 154 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150M MSE 3.1 12.5 + - - +
151M LYS* 2.8 10.4 + - - +
153M LEU* 1.3 89.0 - - - +
155M ALA* 1.3 54.8 + - - +
157M LYS* 4.0 13.5 - - - +
158M LYS* 2.6 54.8 + - - +
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Residues in contact with ALA 155 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151M LYS 2.7 16.7 + - - +
152M GLU* 3.6 13.0 - - - +
154M GLU* 1.3 72.1 - - - +
156M ALA* 1.3 57.2 + - - +
158M LYS* 2.6 38.3 - - - +
159M ALA* 3.1 13.7 + - - +
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Residues in contact with ALA 156 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152M GLU 2.7 21.9 + - - +
153M LEU* 4.2 2.7 - - - +
155M ALA* 1.3 71.3 - - - +
157M LYS* 1.3 65.5 + - - +
159M ALA* 3.8 6.5 - - - +
160M TYR* 3.0 24.6 + - - +
205M THR* 5.1 1.6 - - - +
208M LYS* 4.6 17.9 - - + +
209M TYR* 3.9 33.1 - - + +
212M VAL* 5.0 4.3 - - + -
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Residues in contact with LYS 157 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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153M LEU* 3.0 24.2 + - + +
154M GLU* 4.0 15.5 - - - +
156M ALA* 1.3 77.5 - - - +
158M LYS* 1.3 59.4 + - - +
160M TYR* 3.4 5.1 + - + +
161M HIS* 2.9 29.4 + - + +
209M TYR* 3.8 32.7 + - + +
301N GLN 5.2 1.8 + - - -
303N GLU* 2.6 41.8 - - - +
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Residues in contact with LYS 158 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154M GLU* 2.6 54.9 + - - +
155M ALA* 2.6 38.5 - - - +
157M LYS* 1.3 80.4 - - - +
159M ALA* 1.3 62.8 + - - +
161M HIS* 3.2 3.6 + - - +
162M LEU* 2.8 26.0 + - - +
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Residues in contact with ALA 159 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
155M ALA 3.1 16.0 + - - +
156M ALA* 3.8 7.4 - - - +
157M LYS 3.3 0.2 - - - -
158M LYS* 1.3 76.6 - - - +
160M TYR* 1.3 64.3 + - - +
162M LEU* 3.2 12.5 + - - +
163M ALA* 3.0 23.0 + - - +
205M THR* 4.4 18.1 - - + +
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Residues in contact with TYR 160 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156M ALA 3.0 17.7 + - - +
157M LYS* 3.6 7.4 - - + +
159M ALA* 1.3 78.1 - - - +
161M HIS* 1.3 82.0 + - + +
163M ALA* 3.1 5.7 + - - +
164M CYS* 2.9 26.8 + - + +
202M VAL* 4.8 6.8 - - + +
205M THR* 3.9 15.7 - - - +
206M GLN* 2.2 58.8 + - + -
209M TYR* 4.1 24.2 - + + -
302N PHE* 4.1 18.1 - + - -
303N GLU 4.5 13.5 + - - -
304N GLU* 4.5 8.5 + - - -
305N TRP* 5.1 6.8 + - - +
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Residues in contact with HIS 161 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157M LYS* 2.9 19.9 + - + +
158M LYS* 3.2 2.7 + - - +
160M TYR* 1.3 88.2 - - + +
162M LEU* 1.3 64.9 + - - +
164M CYS* 2.3 66.9 - - + +
165M LYS* 2.9 5.2 + - + +
303N GLU 5.5 1.0 + - - -
304N GLU 5.4 0.2 - - - -
305N TRP* 2.9 44.7 + - + +
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Residues in contact with LEU 162 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158M LYS 2.8 17.6 + - - +
159M ALA* 3.4 10.8 - - - +
160M TYR 3.2 0.2 - - - -
161M HIS* 1.3 77.7 - - - +
163M ALA* 1.3 65.4 + - + +
165M LYS* 2.9 15.4 + - + +
166M GLU* 2.8 41.7 + - + +
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Residues in contact with ALA 163 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159M ALA 3.0 9.9 + - - +
160M TYR 3.2 10.3 - - - +
162M LEU* 1.3 85.0 - - + +
164M CYS* 1.3 67.6 + - - +
165M LYS 2.9 2.3 + - - -
166M GLU* 4.2 5.2 - - - +
167M GLU* 3.1 18.4 + - - +
198M CYS 5.8 0.4 - - - -
201M ASP* 4.8 5.2 - - + -
202M VAL* 3.3 43.1 - - + +
205M THR* 4.0 6.7 - - + +
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Residues in contact with CYS 164 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160M TYR* 2.9 15.1 + - + +
161M HIS* 2.3 79.4 - - + +
163M ALA* 1.3 75.7 - - - +
165M LYS* 1.3 72.3 + - - +
167M GLU* 4.2 3.2 - - - +
168M LYS* 2.9 28.5 + - - +
202M VAL* 4.7 7.2 - - - -
305N TRP* 5.3 2.0 - - + -
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Residues in contact with LYS 165 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161M HIS* 3.6 9.2 - - + +
162M LEU* 2.9 16.4 + - + +
164M CYS* 1.3 86.4 - - - +
166M GLU* 1.3 59.6 + - - +
168M LYS* 3.3 8.3 - - + +
169M LEU* 2.9 35.4 + - + +
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Residues in contact with GLU 166 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
162M LEU* 2.8 31.5 + - + +
163M ALA* 3.3 4.9 + - - +
165M LYS* 1.3 74.3 - - - +
167M GLU* 1.3 58.9 + - - +
169M LEU* 3.2 8.1 + - - +
170M ALA* 3.0 27.1 + - - +
198M CYS* 4.3 21.2 - - + +
201M ASP* 5.3 5.5 - - - +
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Residues in contact with GLU 167 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163M ALA 3.1 14.3 + - - +
164M CYS* 4.2 3.0 - - - +
166M GLU* 1.3 76.1 - - - +
168M LYS* 1.3 69.4 + - - +
170M ALA* 3.2 17.7 + - - +
195M VAL* 4.9 4.4 - - + +
198M CYS* 3.0 34.7 - - - +
199M LYS* 3.0 27.2 - - + +
202M VAL* 4.1 13.8 - - + +
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Residues in contact with LYS 168 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
164M CYS* 2.9 22.0 + - - +
165M LYS* 3.1 11.6 + - + +
167M GLU* 1.3 81.1 + - - +
169M LEU* 1.3 66.9 + - + +
170M ALA 3.8 4.2 - - - +
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Residues in contact with LEU 169 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165M LYS* 2.9 20.2 + - + +
166M GLU* 3.4 10.8 - - + +
168M LYS* 1.3 82.1 - - + +
170M ALA* 1.3 63.7 + - - +
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Residues in contact with ALA 170 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166M GLU 3.0 14.9 + - - +
167M GLU* 3.2 16.5 + - - +
168M LYS 3.8 4.3 - - - +
169M LEU* 1.3 85.4 - - - +
191M LEU* 5.6 12.2 - - + +
195M VAL* 3.2 44.0 - - + -
198M CYS* 4.9 4.0 - - + -
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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