Contacts of the helix formed by residues 137 - 169 (chain B) in PDB entry 6KJV
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 PRO 137 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136B SER* 1.3 84.8 - - - +
138B GLU* 1.3 70.0 + - + +
140B GLN* 3.4 17.1 + - + +
141B LEU* 3.8 6.2 + - - +
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Residues in contact with GLU 138 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136B SER* 4.7 0.9 - - - -
137B PRO* 1.3 81.6 - - + +
139B GLU* 1.3 65.0 + - - +
140B GLN 3.3 0.2 + - - -
141B LEU* 3.4 7.7 + - - +
142B LEU* 3.0 23.0 + - - +
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Residues in contact with GLU 139 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136B SER* 3.6 26.2 - - - +
137B PRO 3.3 0.6 - - - -
138B GLU* 1.3 80.5 - - - +
140B GLN* 1.3 56.6 + - - +
142B LEU* 3.8 6.6 - - - +
143B PHE* 2.9 30.8 + - - +
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Residues in contact with GLN 140 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136B SER 3.6 9.5 + - - +
137B PRO* 3.4 11.1 + - + +
138B GLU 3.2 0.6 - - - -
139B GLU* 1.3 78.8 - - - +
141B LEU* 1.3 62.3 + - - +
143B PHE* 3.3 5.2 + - - +
144B LEU* 3.0 36.1 + - + +
382B ILE* 5.6 14.6 - - + -
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Residues in contact with LEU 141 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137B PRO 3.8 6.0 + - - +
138B GLU* 3.4 9.7 + - - +
140B GLN* 1.3 77.7 - - - +
142B LEU* 1.3 59.0 + - - +
144B LEU* 3.5 8.9 + - - +
145B TYR* 2.9 28.1 + - - +
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Residues in contact with LEU 142 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138B GLU 3.0 16.7 + - - +
139B GLU* 3.8 7.6 - - - +
141B LEU* 1.3 77.5 - - - +
143B PHE* 1.3 57.8 + - - +
145B TYR* 3.1 11.3 + - + +
146B ILE* 3.0 32.0 + - + +
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Residues in contact with PHE 143 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139B GLU 2.9 17.0 + - - +
140B GLN* 3.7 5.6 - - - +
142B LEU* 1.3 74.7 - - - +
144B LEU* 1.3 72.0 + - + +
146B ILE* 3.1 22.9 + - + +
147B ILE* 3.1 32.8 + - + +
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Residues in contact with LEU 144 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140B GLN* 3.0 26.3 + - + +
141B LEU* 3.9 6.5 - - - +
143B PHE* 1.3 79.8 - - + +
145B TYR* 1.3 61.9 + - - +
147B ILE* 3.2 23.5 - - + +
148B TYR* 3.0 25.1 + - - +
382B ILE* 4.9 15.5 - - + +
385B PHE* 3.9 41.7 - - + +
386B THR* 5.2 8.5 - - + -
388B LEU* 5.6 8.9 - - + +
389B SER* 6.1 0.2 - - - -
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Residues in contact with TYR 145 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141B LEU 2.9 16.1 + - - +
142B LEU* 3.2 13.0 - - + +
144B LEU* 1.3 76.8 - - - +
146B ILE* 1.3 79.3 + - + +
148B TYR* 3.3 8.1 + + + +
149B THR* 3.0 50.5 + - + +
198B ASP* 2.8 39.0 + - + -
201B LEU* 5.6 5.6 - - + -
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Residues in contact with ILE 146 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142B LEU* 3.0 21.0 + - + +
143B PHE* 3.1 16.8 + - + +
145B TYR* 1.3 93.9 - - + +
147B ILE* 1.3 69.8 + - + +
149B THR* 3.2 6.6 + - - +
150B VAL* 3.0 37.6 + - + +
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Residues in contact with ILE 147 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143B PHE* 3.1 32.7 + - + +
144B LEU* 3.2 33.0 - - + +
146B ILE* 1.3 79.9 - - + +
148B TYR* 1.3 71.3 + - + +
150B VAL* 3.3 11.1 - - + +
151B GLY* 2.9 26.9 + - - -
388B LEU* 4.8 2.2 - - + -
389B SER* 3.6 38.6 - - - +
392B SER* 4.0 0.5 + - - -
393B PHE* 4.0 12.2 - - + -
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Residues in contact with TYR 148 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144B LEU 3.0 17.9 + - - +
145B TYR* 3.6 9.6 - + - +
146B ILE 3.1 0.2 - - - -
147B ILE* 1.3 81.3 - - + +
149B THR* 1.3 72.3 + - + +
151B GLY 3.2 1.7 + - - -
152B TYR* 3.0 62.1 + + - -
194B VAL* 3.7 27.6 - - + +
233B MET* 5.6 2.4 - - - +
388B LEU* 3.5 52.4 - - + +
391B THR* 4.3 4.3 - - - -
392B SER* 3.5 9.0 - - - -
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Residues in contact with THR 149 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145B TYR* 3.0 55.4 + - + +
146B ILE* 3.2 13.9 + - - +
148B TYR* 1.3 84.4 - - + +
150B VAL* 1.3 60.6 + - - +
152B TYR* 3.4 5.8 + - - +
153B ALA* 2.9 26.7 + - - +
194B VAL* 5.7 5.4 - - + -
195B PHE* 4.4 11.2 - - + -
198B ASP* 4.5 9.4 - - + +
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Residues in contact with VAL 150 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146B ILE* 3.0 34.9 + - + +
147B ILE* 3.3 14.8 - - + +
149B THR* 1.3 77.7 - - - +
151B GLY* 1.3 65.0 + - - +
153B ALA* 4.1 6.3 - - + -
154B LEU* 2.9 43.0 + - + +
393B PHE* 4.6 9.4 - - + -
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Residues in contact with GLY 151 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147B ILE 2.9 16.6 + - - -
148B TYR 3.2 3.3 + - - -
150B VAL* 1.3 77.5 - - - +
152B TYR* 1.3 56.9 + - - +
154B LEU* 3.9 1.7 - - - +
155B SER* 2.9 32.1 + - - -
392B SER* 3.6 12.8 - - - -
393B PHE* 3.8 28.8 - - - -
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Residues in contact with TYR 152 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148B TYR* 3.0 65.6 + + - +
149B THR* 4.0 3.6 - - - +
151B GLY* 1.3 75.6 - - - +
153B ALA* 1.3 57.9 + - - +
155B SER* 3.8 5.7 - - - -
156B PHE* 2.9 31.7 + - - +
187B PHE* 5.5 0.9 - + - -
190B ARG* 3.4 33.4 + - + -
191B ALA* 3.8 28.1 - - + +
194B VAL* 3.8 24.0 - - + +
195B PHE* 3.5 19.0 - - + -
233B MET* 5.6 0.7 - - - -
391B THR* 3.4 21.6 + - - -
392B SER* 3.5 20.0 - - - -
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Residues in contact with ALA 153 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149B THR 2.9 18.9 + - - +
150B VAL* 3.7 9.0 - - + +
151B GLY 3.3 0.2 - - - -
152B TYR* 1.3 73.3 - - - +
154B LEU* 1.3 69.5 + - + +
156B PHE* 3.3 2.5 + - - +
157B SER* 3.0 31.2 + - - +
195B PHE* 3.8 13.2 - - + -
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Residues in contact with LEU 154 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150B VAL* 2.9 27.7 + - + +
151B GLY* 3.9 3.8 - - - +
153B ALA* 1.3 80.9 - - + +
155B SER* 1.3 57.5 + - - +
157B SER* 4.0 3.8 - - - -
158B ALA* 2.9 33.4 + - - +
393B PHE* 3.9 23.8 - - + -
396B LEU* 4.2 21.6 - - + +
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Residues in contact with SER 155 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151B GLY 2.9 22.3 + - - -
152B TYR* 3.8 9.6 - - - -
154B LEU* 1.3 77.0 - - - +
156B PHE* 1.3 56.2 + - - +
158B ALA* 3.8 0.3 - - - +
159B LEU* 2.9 40.2 + - - +
191B ALA* 5.7 1.6 - - - -
392B SER 2.9 17.8 + - - -
393B PHE* 3.9 0.3 - - - -
395B GLY* 3.7 8.0 + - - -
396B LEU* 2.9 35.3 + - - +
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Residues in contact with PHE 156 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152B TYR 2.9 21.7 + - - +
153B ALA* 3.8 3.4 - - - +
155B SER* 1.3 73.7 - - - +
157B SER* 1.3 71.3 + - - +
159B LEU* 3.9 4.9 - - - +
160B VAL* 3.0 46.4 + - + +
188B ILE* 3.7 32.5 - - + -
191B ALA* 4.2 13.8 - - + +
192B LEU* 5.0 7.2 - - + -
195B PHE* 3.9 26.9 - + + -
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Residues in contact with SER 157 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153B ALA* 3.0 18.2 + - - +
154B LEU* 4.0 4.0 - - - -
156B PHE* 1.3 85.8 - - - +
158B ALA* 1.3 57.4 + - - +
160B VAL* 3.4 3.6 + - - +
161B ILE* 2.9 42.1 + - - +
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Residues in contact with ALA 158 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154B LEU 2.9 19.5 + - - +
155B SER* 3.9 2.7 - - - +
157B SER* 1.3 76.6 - - - +
159B LEU* 1.3 58.3 + - - +
161B ILE* 3.4 4.7 + - - -
162B ALA* 2.9 30.8 + - - +
396B LEU* 3.7 23.6 - - + -
399B ALA* 4.0 14.1 - - + -
404B PHE* 3.5 16.4 - - + -
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Residues in contact with LEU 159 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
155B SER* 2.9 26.6 + - - +
156B PHE* 4.0 0.9 - - - +
158B ALA* 1.3 73.2 - - - +
160B VAL* 1.3 60.9 + - - +
162B ALA* 3.9 1.2 - - - +
163B SER* 2.7 31.8 + - - -
184B PHE* 3.5 36.3 - - + +
187B PHE* 3.6 29.8 - - + +
188B ILE* 3.6 27.8 - - + +
395B GLY* 3.4 31.4 - - - +
398B VAL* 4.6 3.8 - - + -
399B ALA* 3.7 13.5 - - + +
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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
----------------------------------------------------------
156B PHE* 3.0 46.0 + - + +
157B SER* 3.9 4.7 - - - +
159B LEU* 1.3 76.6 - - - +
161B ILE* 1.3 63.4 + - + +
163B SER* 2.9 19.3 + - - +
164B ALA* 2.9 16.4 + - + +
188B ILE* 3.9 17.9 - - + -
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Residues in contact with ILE 161 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157B SER* 2.9 30.1 + - - +
158B ALA* 3.7 6.5 - - - +
160B VAL* 1.3 78.6 - - + +
162B ALA* 1.3 57.5 + - - +
164B ALA* 3.2 8.2 + - - +
165B ILE* 2.9 44.0 + - + +
404B PHE* 4.0 13.2 - - + -
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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 ALA 2.9 18.1 + - - +
159B LEU* 3.9 3.4 - - - +
161B ILE* 1.3 77.6 - - - +
163B SER* 1.3 58.1 + - - +
165B ILE* 3.1 4.2 + - - +
166B LEU* 2.9 32.9 + - - +
184B PHE* 4.4 9.2 - - + -
399B ALA* 4.3 9.9 - - + -
403B CYS* 3.6 33.9 - - + -
404B PHE* 3.8 10.1 - - + -
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Residues in contact with SER 163 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159B LEU 2.7 23.4 + - - -
160B VAL* 2.9 17.5 + - - +
162B ALA* 1.3 75.3 - - - +
164B ALA* 1.3 56.7 + - - +
166B LEU* 3.3 1.4 + - - +
167B LEU* 2.9 39.8 + - - +
181B LEU* 3.6 25.4 - - - -
184B PHE* 4.3 13.3 - - - -
188B ILE* 4.5 6.4 - - - +
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Residues in contact with ALA 164 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160B VAL* 2.9 21.4 + - + +
161B ILE* 3.4 8.7 - - - +
163B SER* 1.3 76.0 + - - +
165B ILE* 1.3 58.3 + - + +
167B LEU* 3.9 5.2 - - - +
168B GLY* 2.9 27.2 + - - -
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Residues in contact with ILE 165 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161B ILE* 2.9 37.0 + - + +
162B ALA 3.1 5.8 + - - +
164B ALA* 1.3 74.8 - - + +
166B LEU* 1.3 65.5 + - - +
167B LEU 3.2 0.5 + - - -
168B GLY* 3.3 8.5 + - - -
169B PHE* 3.3 40.9 + - + -
172B LEU* 3.6 10.2 - - + +
403B CYS* 4.4 13.9 - - - -
404B PHE* 4.0 19.1 - - + -
409B VAL* 4.4 4.7 - - + -
413B PHE* 3.5 34.5 - - + -
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Residues in contact with LEU 166 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
162B ALA 2.9 18.0 + - - +
163B SER 3.3 4.2 + - - +
165B ILE* 1.3 76.9 - - - +
167B LEU* 1.3 62.1 + - - +
169B PHE 3.6 11.8 - - - +
172B LEU* 3.8 22.9 - - + +
173B HIS* 3.8 9.7 - - - -
177B ASN* 3.9 52.0 - - + +
180B HIS* 4.1 7.4 - - + -
181B LEU* 4.0 14.9 - - + +
184B PHE* 3.6 30.1 - - + -
402B TYR 5.0 4.3 - - - +
403B CYS* 4.3 11.2 - - + -
406B ASN* 5.8 0.2 - - - +
409B VAL* 4.2 13.9 - - + -
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Residues in contact with LEU 167 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163B SER* 2.9 26.0 + - - +
164B ALA* 4.1 4.9 - - - +
166B LEU* 1.3 77.5 - - - +
168B GLY* 1.3 64.5 + - - +
173B HIS* 3.0 33.1 + - + +
178B TYR* 5.4 3.6 - - + -
181B LEU* 3.6 31.2 - - + -
----------------------------------------------------------
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Residues in contact with GLY 168 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
164B ALA 2.9 18.4 + - - -
165B ILE* 3.3 1.1 + - - -
167B LEU* 1.3 78.9 - - - +
169B PHE* 1.3 65.0 + - - +
170B ARG* 3.5 3.3 + - - +
173B HIS* 5.1 0.7 - - - -
----------------------------------------------------------
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Residues in contact with PHE 169 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165B ILE* 3.3 48.2 + - + -
166B LEU 3.6 13.2 - - - +
167B LEU 4.3 0.4 - - - -
168B GLY* 1.3 76.7 - - - +
170B ARG* 1.3 64.9 + - - +
171B HIS 4.5 0.4 - - - +
172B LEU* 3.4 27.1 + - + +
173B HIS* 3.9 4.7 - - - -
412B GLU* 3.7 43.5 - - + +
413B PHE* 4.0 32.8 - + - -
416B SER* 4.4 15.3 - - - -
----------------------------------------------------------
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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