Contacts of the helix formed by residues 159 - 183 (chain Q) in PDB entry 1HI0
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 ASP 159 (chain Q).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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157Q SER* 3.3 4.2 + - - +
158Q ASN* 1.3 75.2 - - - +
160Q MET* 1.3 68.5 + - - +
161Q GLY* 2.9 16.1 + - - -
162Q THR* 3.0 27.5 + - - +
163Q LYS* 2.8 23.1 + - - +
541Q LYS* 4.7 6.0 - - - +
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Residues in contact with MET 160 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145Q ILE* 3.6 28.0 - - + +
146Q ARG 3.8 4.9 - - - +
147Q LYS* 3.6 35.2 - - + -
148Q GLY 6.1 0.2 - - - +
158Q ASN 3.3 5.4 + - - +
159Q ASP* 1.3 73.2 + - - +
161Q GLY* 1.3 63.8 + - - +
163Q LYS* 4.0 12.1 - - - +
164Q ILE* 2.9 50.5 + - + +
541Q LYS* 5.4 4.0 - - - +
647Q HIS* 3.4 41.1 - - + +
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Residues in contact with GLY 161 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159Q ASP* 2.9 14.4 + - - -
160Q MET* 1.3 81.0 - - - +
162Q THR* 1.3 61.0 + - - +
164Q ILE* 3.3 7.3 + - - +
165Q GLU* 3.2 30.5 + - - +
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Residues in contact with THR 162 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
155Q TYR* 5.9 2.9 - - + -
157Q SER* 3.4 25.9 + - - +
159Q ASP* 3.0 22.9 + - - +
161Q GLY* 1.3 72.5 - - - +
163Q LYS* 1.3 68.6 + - - +
165Q GLU* 3.2 14.7 + - + +
166Q ILE* 2.8 40.5 + - + +
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Residues in contact with LYS 163 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145Q ILE* 3.4 22.9 - - + -
146Q ARG 3.5 9.7 + - - -
148Q GLY 3.5 8.5 - - - +
149Q SER* 3.0 40.9 + - - +
150Q SER 5.0 0.2 - - - -
151Q THR* 3.6 27.4 - - + +
157Q SER* 4.3 2.5 - - - +
158Q ASN 3.2 22.5 + - - -
159Q ASP 2.8 18.8 + - - +
160Q MET* 3.6 21.4 - - - +
162Q THR* 1.3 78.1 - - - +
164Q ILE* 1.3 63.0 + - - +
166Q ILE* 3.1 8.2 + - - +
167Q ALA* 2.9 23.0 + - - +
277Q PHE* 3.8 13.6 - - + -
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Residues in contact with ILE 164 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145Q ILE* 3.9 12.6 - - + -
160Q MET* 2.9 44.2 + - + +
161Q GLY* 3.5 8.1 - - - +
163Q LYS* 1.3 76.4 - - - +
165Q GLU* 1.3 64.2 + - + +
167Q ALA* 3.3 5.3 + - - +
168Q GLU* 2.9 48.8 + - + +
647Q HIS* 3.7 17.7 - - + +
648Q GLY 3.5 24.9 - - - +
649Q VAL* 4.5 5.8 - - + -
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Residues in contact with GLU 165 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161Q GLY* 3.2 19.8 + - - +
162Q THR* 3.2 15.7 + - + +
164Q ILE* 1.3 80.6 - - + +
166Q ILE* 1.3 68.0 + - + +
168Q GLU* 3.2 7.9 + - - +
169Q ARG* 2.8 26.9 + - - +
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Residues in contact with ILE 166 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151Q THR* 4.0 25.6 - - + +
155Q TYR* 3.8 34.3 - - + -
157Q SER* 5.1 0.2 - - - -
162Q THR* 2.8 30.1 + - + +
163Q LYS 3.3 7.4 - - - +
165Q GLU* 1.3 76.6 - - + +
167Q ALA* 1.3 58.2 + - - +
169Q ARG* 3.4 6.6 + - - +
170Q ALA* 2.9 26.7 + - - +
277Q PHE* 3.3 29.8 - - + -
278Q ALA* 4.4 14.7 - - + +
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Residues in contact with ALA 167 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143Q LEU* 4.2 23.3 - - + -
145Q ILE* 4.4 3.4 - - + -
163Q LYS 2.9 14.6 + - - +
164Q ILE 3.6 7.4 - - - +
166Q ILE* 1.3 74.1 - - - +
168Q GLU* 1.3 67.1 + - - +
170Q ALA* 2.9 13.7 + - - +
171Q LEU* 2.9 18.4 + - - +
277Q PHE* 4.0 15.0 - - + -
281Q ALA* 4.2 10.5 - - + -
649Q VAL* 4.4 11.2 - - + -
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Residues in contact with GLU 168 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
164Q ILE* 2.9 38.7 + - + +
165Q GLU* 3.7 6.4 - - - +
167Q ALA* 1.3 72.2 - - - +
169Q ARG* 1.3 62.4 + - - +
171Q LEU* 3.4 10.1 + - - +
172Q GLU* 3.1 28.2 + - - +
649Q VAL* 3.2 32.6 - - + +
650Q SER* 3.8 6.8 + - - -
653Q LYS* 3.2 42.3 + - + +
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Residues in contact with ARG 169 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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165Q GLU 2.8 21.9 + - - +
166Q ILE* 3.5 6.5 - - - +
168Q GLU* 1.3 71.8 - - - +
170Q ALA* 1.3 65.5 + - - +
172Q GLU* 2.9 21.6 + - - +
173Q LYS* 2.8 63.6 + - + +
192Q LEU 5.3 3.2 + - - -
193Q HIS* 4.7 12.6 + - + +
194Q GLN* 5.8 4.3 - - - +
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Residues in contact with ALA 170 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166Q ILE 2.9 13.8 + - - +
167Q ALA 2.9 9.7 + - - +
169Q ARG* 1.3 76.4 - - - +
171Q LEU* 1.3 58.2 + - - +
172Q GLU 2.9 0.5 + - - -
173Q LYS* 3.0 1.2 + - - +
174Q ALA* 2.6 36.7 + - - +
193Q HIS 6.0 0.2 - - - -
195Q MET* 3.6 13.7 - - + -
278Q ALA* 3.3 31.0 - - + +
281Q ALA* 3.9 14.4 - - + -
282Q PRO* 4.1 2.0 - - + -
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Residues in contact with LEU 171 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143Q LEU* 4.7 9.9 - - + -
167Q ALA 2.9 21.4 + - - +
168Q GLU* 3.8 10.1 - - - +
170Q ALA* 1.3 73.5 - - - +
172Q GLU* 1.3 61.3 + - + +
174Q ALA* 4.3 1.9 + - - +
175Q GLU* 5.2 1.0 + - - +
281Q ALA* 4.2 3.8 - - + +
282Q PRO* 3.7 28.0 - - + -
285Q ALA* 4.1 6.1 - - + -
649Q VAL* 5.4 2.9 - - + -
653Q LYS* 4.0 10.5 - - + +
654Q THR* 3.8 40.8 - - + +
657Q PHE* 3.2 54.1 - - + +
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Residues in contact with GLU 172 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168Q GLU* 3.1 16.6 + - - +
169Q ARG* 2.9 24.6 + - - +
171Q LEU* 1.3 79.6 - - - +
173Q LYS* 1.3 70.5 + - + +
174Q ALA 3.5 0.4 + - - -
175Q GLU* 4.8 6.4 + - - +
176Q GLU 5.4 0.2 + - - -
653Q LYS* 3.6 26.3 + - - +
656Q ARG* 5.1 16.3 + - - +
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Residues in contact with LYS 173 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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169Q ARG* 2.8 57.0 + - + +
170Q ALA 3.5 0.4 - - - -
172Q GLU* 1.3 83.4 - - + +
174Q ALA* 1.3 66.5 + - - +
175Q GLU 3.2 2.2 - - - -
176Q GLU* 3.1 36.2 + - + +
177Q ALA* 2.9 23.0 + - - +
193Q HIS* 3.3 27.8 - - + +
195Q MET* 4.2 3.4 - - + -
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Residues in contact with ALA 174 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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170Q ALA 2.6 21.9 + - - +
171Q LEU 4.4 0.9 - - - +
172Q GLU 3.5 1.2 - - - -
173Q LYS* 1.3 71.3 - - - +
175Q GLU* 1.3 58.6 + - - +
177Q ALA* 3.1 3.3 + - - +
178Q GLY* 2.8 26.5 + - - -
195Q MET* 3.4 15.0 - - + -
282Q PRO* 3.8 17.9 - - + -
352Q TRP* 3.9 2.5 - - + -
356Q LEU* 3.7 13.6 - - + +
657Q PHE* 3.8 27.1 - - + -
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Residues in contact with GLU 175 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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171Q LEU 5.2 0.6 + - - -
172Q GLU 4.8 6.4 + - - +
173Q LYS 3.2 1.0 - - - -
174Q ALA* 1.3 79.5 - - - +
176Q GLU* 1.3 65.0 + - - +
177Q ALA 3.2 0.2 + - - -
178Q GLY 3.2 1.9 + - - -
179Q ASN* 3.1 39.5 + - - +
352Q TRP* 3.2 53.6 + - + +
657Q PHE* 5.4 0.2 - - - -
660Q SER* 4.0 12.6 + - - -
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Residues in contact with GLU 176 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
172Q GLU 5.7 0.2 - - - +
173Q LYS* 3.1 39.8 + - + +
175Q GLU* 1.3 80.9 - - - +
177Q ALA* 1.3 61.4 + - - +
179Q ASN* 3.7 9.3 + - - +
180Q LEU* 3.2 27.5 + - + +
192Q LEU* 4.2 10.9 - - - +
193Q HIS* 3.1 27.7 + - - +
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Residues in contact with ALA 177 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
173Q LYS 2.9 12.3 + - - +
174Q ALA 3.3 8.5 - - - +
176Q GLU* 1.3 75.8 - - - +
178Q GLY* 1.3 65.7 + - - +
180Q LEU* 2.9 28.8 - - - +
181Q MET* 3.0 14.5 + - + +
189Q ALA* 3.9 4.3 - - + +
193Q HIS* 4.0 16.3 - - + -
195Q MET* 3.5 30.5 - - + -
356Q LEU* 4.4 1.3 - - + -
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Residues in contact with GLY 178 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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174Q ALA 2.8 14.0 + - - -
175Q GLU 3.7 2.5 - - - -
177Q ALA* 1.3 76.3 - - - +
179Q ASN* 1.3 56.8 + - - +
181Q MET* 2.9 9.8 + - - +
182Q LEU* 2.8 28.6 + - - +
352Q TRP* 3.6 28.5 - - - -
355Q LYS* 4.1 1.7 - - - +
356Q LEU* 3.9 10.7 - - - +
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Residues in contact with ASN 179 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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175Q GLU* 3.1 38.9 + - - +
176Q GLU* 4.0 7.7 - - - +
178Q GLY* 1.3 74.0 - - - +
180Q LEU* 1.3 64.0 + - - +
182Q LEU* 3.1 27.2 + - - +
183Q GLN* 3.1 25.8 + - + +
351Q PRO* 5.7 0.3 - - - +
352Q TRP* 3.5 18.1 + - - +
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Residues in contact with LEU 180 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
176Q GLU* 3.2 22.9 + - + +
177Q ALA* 2.9 16.3 + - - +
179Q ASN* 1.3 80.6 - - - +
181Q MET* 1.3 56.3 + - - +
183Q GLN* 3.2 18.3 + - - +
185Q LYS* 2.9 64.9 + - + +
188Q ASP* 4.1 12.8 - - + +
189Q ALA* 4.0 22.9 - - + +
192Q LEU* 4.4 12.1 - - + -
193Q HIS* 4.3 12.3 - - + +
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Residues in contact with MET 181 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177Q ALA 3.0 15.2 + - - +
178Q GLY 2.9 8.4 + - - +
180Q LEU* 1.3 73.6 - - - +
182Q LEU* 1.3 58.7 + - - +
183Q GLN 3.1 0.2 - - - -
184Q GLY* 2.7 23.9 + - - +
185Q LYS 4.3 3.6 - - - +
186Q PHE* 3.5 31.8 - - + -
189Q ALA* 3.9 11.0 - - + -
195Q MET* 4.1 26.7 - - + +
279Q LEU* 4.5 5.6 - - + -
355Q LYS* 3.6 20.6 - - + -
356Q LEU* 2.9 41.5 - - + -
359Q THR* 3.5 29.8 - - + -
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Residues in contact with LEU 182 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
178Q GLY 2.8 14.2 + - - +
179Q ASN* 3.1 30.0 + - - +
181Q MET* 1.3 77.8 - - - +
183Q GLN* 1.3 59.7 + - + +
184Q GLY* 3.1 4.3 + - - -
351Q PRO* 4.0 16.4 - - + +
352Q TRP* 3.7 21.8 - - - +
355Q LYS* 3.5 34.4 - - + +
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Residues in contact with GLN 183 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
179Q ASN* 3.1 21.4 + - + +
180Q LEU* 3.5 26.4 - - - +
181Q MET 3.1 0.6 - - - -
182Q LEU* 1.3 76.2 - - + +
184Q GLY* 1.3 62.2 + - - +
185Q LYS* 3.2 38.2 + - + +
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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) + - + + + + + -
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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