Contacts of the helix formed by residues 158 - 181 (chain B) in PDB entry 6QVC
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 158 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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156B SER* 3.4 13.2 - - - +
157B LEU* 1.3 103.5 - - + +
159B LEU* 1.3 71.3 + - + +
161B PHE* 3.3 9.2 - - + +
162B LEU* 2.9 34.9 + - + +
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Residues in contact with LEU 159 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153B MET* 3.3 22.5 - - + +
156B SER* 2.9 30.0 + - - +
158B PRO* 1.3 90.1 - - + +
160B GLN* 1.3 62.2 + - - +
162B LEU* 3.1 25.6 + - + +
163B VAL* 2.9 23.4 + - - +
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Residues in contact with GLN 160 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150B TYR* 3.1 49.9 + - + +
151B ALA* 3.9 7.1 + - - +
153B MET* 3.7 13.9 - - + -
154B GLN 2.5 34.3 + - - +
155B PRO* 3.4 15.2 - - - +
156B SER 2.6 20.8 + - - +
157B LEU* 5.1 0.4 - - - -
159B LEU* 1.3 69.9 - - - +
161B PHE* 1.3 58.9 + - - +
163B VAL* 3.3 5.0 - - - +
164B TRP* 2.9 30.5 + - - +
406B PHE* 3.7 12.7 - - + -
408B PRO* 5.4 3.5 - - - +
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Residues in contact with PHE 161 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157B LEU 3.5 14.5 + - - +
158B PRO* 3.3 11.6 + - + +
159B LEU 3.2 0.2 - - - -
160B GLN* 1.3 78.0 - - - +
162B LEU* 1.3 65.1 + - + +
164B TRP* 3.3 3.3 + + + +
165B VAL* 2.9 55.9 + - + +
399B PHE* 5.3 11.0 - + - -
402B ALA 5.4 0.7 - - - -
403B SER* 4.9 20.9 - - - -
406B PHE* 3.6 40.6 - + + -
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Residues in contact with LEU 162 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158B PRO* 2.9 22.3 + - + +
159B LEU* 3.1 35.4 + - + +
161B PHE* 1.3 84.6 - - + +
163B VAL* 1.3 57.5 + - - +
165B VAL* 3.1 15.0 - - + +
166B THR* 2.9 31.1 + - + +
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Residues in contact with VAL 163 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146B TYR* 4.3 7.5 - - + +
149B SER* 5.8 4.3 - - - -
150B TYR* 3.7 33.0 - - + +
153B MET* 3.7 27.4 - - + -
159B LEU 2.9 9.6 + - - +
160B GLN 3.3 10.3 - - - +
162B LEU* 1.3 76.6 - - - +
164B TRP* 1.3 66.3 + - - +
166B THR* 3.8 12.3 - - + -
167B PHE* 3.1 33.3 + - + +
168B PRO* 4.2 0.3 - - - +
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Residues in contact with TRP 164 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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146B TYR* 3.2 36.3 - + - -
150B TYR* 4.0 28.0 - + - -
160B GLN 2.9 19.4 + - - +
161B PHE* 3.6 7.0 - + - +
163B VAL* 1.3 79.3 - - - +
165B VAL* 1.3 61.5 + - + +
168B PRO* 3.3 19.2 - - - +
402B ALA* 3.3 28.3 + - + +
405B THR* 3.2 37.2 - - + -
406B PHE* 3.2 35.8 - + + +
407B PRO* 3.6 23.3 - - + -
416B GLY 3.8 11.7 - - - -
417B GLU* 4.9 5.6 - - + -
419B MET* 4.6 11.7 - - + -
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Residues in contact with VAL 165 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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161B PHE* 2.9 42.5 + - + +
162B LEU* 3.1 31.0 - - + +
164B TRP* 1.3 78.7 - - + +
166B THR* 1.3 64.7 + - - +
167B PHE 3.2 1.8 + - - -
168B PRO* 3.2 11.8 - - - +
169B LEU* 3.4 20.2 + - + +
399B PHE* 4.1 33.0 - - + +
402B ALA* 4.8 16.1 - - + +
403B SER* 5.6 0.7 - - - +
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Residues in contact with THR 166 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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162B LEU 2.9 25.0 + - - +
163B VAL* 3.1 16.5 + - + +
165B VAL* 1.3 76.0 - - - +
167B PHE* 1.3 65.3 + - + +
169B LEU* 3.6 10.5 - - - +
170B VAL* 3.3 29.8 - - - +
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Residues in contact with PHE 167 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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142B SER* 4.8 19.7 - - - -
146B TYR* 3.4 45.1 - + + -
163B VAL* 3.1 14.6 + - + +
166B THR* 1.3 80.8 - - + +
168B PRO* 1.4 69.8 - - + +
169B LEU 3.4 0.2 + - - -
170B VAL* 3.4 3.5 + - + +
171B LEU* 3.1 49.2 + - + +
224B GLY 5.2 5.2 - - - -
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Residues in contact with PRO 168 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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146B TYR* 4.0 17.5 - - + +
164B TRP 3.3 19.3 - - - +
165B VAL 3.2 15.9 - - - +
167B PHE* 1.4 88.7 - - + +
169B LEU* 1.3 55.3 + - - +
171B LEU* 3.4 12.8 + - + +
172B ILE* 3.0 35.0 + - - +
225B SER* 4.6 9.4 - - - +
226B GLY* 5.2 7.6 - - - +
227B ILE* 5.0 6.7 - - + +
398B THR* 4.5 11.4 - - + -
402B ALA* 5.6 7.0 - - + -
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Residues in contact with LEU 169 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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165B VAL* 3.4 27.0 + - + +
166B THR* 3.6 18.4 - - - +
167B PHE 3.4 0.8 - - - -
168B PRO* 1.3 78.1 - - - +
170B VAL* 1.3 76.5 + - + +
172B ILE* 3.7 2.2 - - - +
173B LEU* 2.8 35.1 + - + +
395B GLY* 4.5 27.3 - - - +
396B ILE* 6.0 1.6 - - + -
398B THR* 4.4 11.2 - - + +
399B PHE* 5.0 19.7 - - + +
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Residues in contact with VAL 170 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166B THR* 3.3 27.4 - - - +
167B PHE* 3.4 3.0 + - - +
168B PRO 3.3 0.4 - - - -
169B LEU* 1.3 88.0 - - + +
171B LEU* 1.3 64.7 + - - +
173B LEU* 3.3 23.3 - - + +
174B PHE* 3.0 23.2 + - + +
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Residues in contact with LEU 171 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142B SER* 6.0 1.8 - - - +
167B PHE* 3.1 54.3 + - + +
168B PRO* 3.6 15.9 - - + +
170B VAL* 1.3 76.3 - - - +
172B ILE* 1.3 59.3 + - + +
174B PHE* 3.2 9.5 + - + +
175B SER* 2.9 27.4 + - - -
221B ALA* 3.2 39.4 - - + +
224B GLY* 3.9 7.0 - - - +
225B SER* 3.7 28.0 - - - +
226B GLY 5.1 0.7 - - - +
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Residues in contact with ILE 172 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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168B PRO 3.0 18.7 + - - +
169B LEU* 3.9 5.4 - - - +
171B LEU* 1.3 74.0 - - - +
173B LEU* 1.3 60.1 + - - +
175B SER* 3.3 9.4 + - - -
176B ALA* 2.9 28.6 + - + +
221B ALA 4.6 5.6 - - - +
222B GLY* 5.0 5.8 - - - +
225B SER* 3.8 30.1 - - - +
227B ILE* 4.5 9.6 - - + -
394B PRO* 4.6 12.3 - - + -
395B GLY* 4.9 4.7 - - - -
398B THR* 3.9 28.7 - - + +
477B MET* 4.6 16.2 - - - -
479B ILE* 5.3 11.4 - - + +
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Residues in contact with LEU 173 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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169B LEU* 2.8 21.3 + - + +
170B VAL* 3.3 43.5 - - + +
172B ILE* 1.3 72.5 - - - +
174B PHE* 1.3 63.9 + - + +
176B ALA* 3.3 5.4 + - - +
177B LEU* 2.9 35.5 + - + +
391B LEU* 5.6 14.7 - - + +
395B GLY* 5.9 3.8 - - - -
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Residues in contact with PHE 174 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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170B VAL* 3.0 13.9 + - + +
171B LEU* 3.3 11.2 - - - +
173B LEU* 1.3 84.9 - - + +
175B SER* 1.3 62.4 + - - +
177B LEU* 3.3 17.2 + - + +
178B PHE* 3.1 63.7 + + - -
217B VAL* 5.3 7.9 - - + -
221B ALA* 4.6 15.5 - - + -
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Residues in contact with SER 175 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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171B LEU 2.9 12.3 + - - -
172B ILE* 3.6 12.8 - - - -
174B PHE* 1.3 77.0 - - - +
176B ALA* 1.3 58.5 + - - +
178B PHE* 3.2 5.2 + - - +
179B CYS* 2.9 27.5 + - - -
218B ALA* 3.3 36.7 + - - +
221B ALA* 3.8 9.2 - - - -
222B GLY* 4.3 4.1 + - - -
479B ILE* 3.3 23.4 - - - +
480B PRO* 5.1 0.9 - - - +
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Residues in contact with ALA 176 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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172B ILE* 2.9 17.5 + - + +
173B LEU* 3.9 5.8 - - - +
175B SER* 1.3 73.4 - - - +
177B LEU* 1.3 61.1 + - - +
179B CYS* 3.2 13.6 - - + +
180B HIS* 2.8 29.3 + - - +
391B LEU* 6.5 1.3 - - - -
394B PRO* 4.7 21.3 - - + -
478B PRO* 5.1 6.7 - - + +
479B ILE* 4.8 4.4 - - + +
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Residues in contact with LEU 177 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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173B LEU* 2.9 22.4 + - + +
174B PHE* 3.5 17.9 - - + +
176B ALA* 1.3 76.4 - - - +
178B PHE* 1.3 70.2 + - + +
180B HIS* 4.3 10.1 - - + +
181B LEU* 2.9 50.7 + - + +
391B LEU* 5.7 11.7 - - + -
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Residues in contact with PHE 178 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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174B PHE* 3.1 54.8 + + - +
175B SER 3.2 7.6 + - - +
177B LEU* 1.3 88.2 - - + +
179B CYS* 1.3 65.1 + - - +
182B ILE* 4.0 21.1 + - + +
183B SER* 3.4 19.9 + - - -
214B ALA* 4.0 16.1 - - - +
217B VAL* 4.0 31.2 - - + -
218B ALA* 3.7 19.7 - - + -
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Residues in contact with CYS 179 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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175B SER* 2.9 24.1 + - - -
176B ALA* 3.2 14.6 - - - +
178B PHE* 1.3 77.0 - - - +
180B HIS* 1.3 57.2 + - - +
183B SER* 2.3 32.9 + - - +
187B VAL* 3.3 25.3 - - + +
218B ALA* 5.0 2.7 - - - +
390B ARG* 5.8 1.1 - - - +
478B PRO* 3.6 18.4 - - + +
479B ILE* 3.9 4.9 - - - -
480B PRO* 3.5 32.5 - - - -
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Residues in contact with HIS 180 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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176B ALA 2.8 15.8 + - - +
177B LEU* 3.2 12.1 + - + +
179B CYS* 1.3 77.0 - - - +
181B LEU* 1.3 79.8 + - + +
183B SER 3.3 12.6 - - - +
184B PRO* 5.1 0.7 - - - +
390B ARG* 3.1 56.7 + - + +
391B LEU* 6.0 6.5 - - + -
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Residues in contact with LEU 181 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177B LEU* 2.9 34.3 + - + +
178B PHE* 6.3 0.4 - - + -
180B HIS* 1.3 90.6 - - + +
182B ILE* 1.3 85.7 + - + +
183B SER 4.5 1.7 - - - +
184B PRO* 5.5 0.9 - - - +
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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) + - + + + + + -
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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