Contacts of the helix formed by residues 159 - 179 (chain B) in PDB entry 4ACR
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 LEU 159 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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147B GLU 5.7 0.9 - - - +
148B LEU* 3.8 27.1 - - + -
151B TYR* 4.0 36.3 - - + +
157B LEU 3.7 3.8 + - - -
158B HIS* 1.3 74.1 - - - +
160B GLU* 1.3 67.3 + - - +
162B THR* 3.3 9.7 + - + -
163B LEU* 3.1 50.8 + - + +
210B ARG* 5.3 0.7 - - + +
213B ALA* 4.0 10.3 - - + -
214B THR* 3.4 45.5 - - + +
217B PHE* 5.1 0.9 - - + -
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Residues in contact with GLU 160 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158B HIS 3.6 0.6 - - - -
159B LEU* 1.3 78.9 - - - +
161B GLU* 1.3 69.0 + - + +
163B LEU* 3.4 2.4 + - - +
164B ALA* 2.9 33.7 + - + +
210B ARG* 3.8 42.9 + - - +
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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
----------------------------------------------------------
158B HIS* 3.3 41.6 - - + +
159B LEU 3.4 0.4 - - - -
160B GLU* 1.3 89.0 + - + +
162B THR* 1.3 58.0 + - - +
164B ALA* 3.9 4.9 - - - +
165B GLU* 2.9 34.1 + - - +
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Residues in contact with THR 162 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144B LEU* 4.7 11.4 - - + -
147B GLU* 3.9 36.4 + - + -
148B LEU* 6.5 0.4 - - + -
156B ASN* 4.6 6.1 + - - -
158B HIS* 3.5 25.1 + - - -
159B LEU* 3.3 13.4 + - + -
160B GLU 3.3 0.2 - - - -
161B GLU* 1.3 77.9 - - - +
163B LEU* 1.3 62.3 + - + +
165B GLU* 3.7 9.4 - - - +
166B PHE* 2.9 27.9 + - + +
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Residues in contact with LEU 163 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144B LEU* 3.7 28.0 - - + -
148B LEU* 4.7 6.5 - - + -
159B LEU* 3.1 43.6 + - + +
160B GLU 3.9 2.9 - - - +
162B THR* 1.3 73.9 - - + +
164B ALA* 1.3 61.5 + - - +
166B PHE* 3.2 6.4 + - + +
167B TRP* 2.9 46.1 + - + +
206B PRO 5.5 0.4 - - - +
209B LEU* 4.8 18.2 - - + +
210B ARG* 3.6 41.5 - - + +
213B ALA* 5.4 1.8 - - + -
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Residues in contact with ALA 164 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160B GLU* 2.9 22.9 + - + +
161B GLU* 3.9 5.2 - - - +
163B LEU* 1.3 76.4 - - - +
165B GLU* 1.3 57.9 + - - +
167B TRP* 3.4 9.7 + - - +
168B ALA* 2.9 28.6 + - - +
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Residues in contact with GLU 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 20.2 + - - +
162B THR* 3.7 8.1 - - - +
164B ALA* 1.3 76.2 - - - +
166B PHE* 1.3 63.9 + - - +
168B ALA* 3.1 8.2 + - + +
169B ARG* 2.9 35.8 + - + +
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Residues in contact with PHE 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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140B ALA* 3.7 42.6 - - + -
141B PHE* 4.0 18.8 - + - -
144B LEU* 3.6 39.9 - - + -
162B THR* 2.9 18.8 + - + +
163B LEU* 3.4 8.3 - - + +
165B GLU* 1.3 78.1 - - - +
167B TRP* 1.3 72.4 - + - +
169B ARG* 3.5 4.0 + - - +
170B LEU* 2.9 59.1 + - + +
173B ARG* 4.5 1.3 + - - -
321B LEU* 3.8 14.6 - - + -
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Residues in contact with TRP 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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163B LEU* 2.9 40.2 + - + +
164B ALA* 3.8 7.2 - - - +
166B PHE* 1.3 82.6 - + - +
168B ALA* 1.3 61.0 + - - +
170B LEU* 3.6 25.4 - - + +
171B LEU* 2.9 31.5 + - - +
202B PHE* 3.6 29.3 - + + -
205B ALA 5.3 0.4 - - - -
206B PRO* 3.5 36.0 + - + +
209B LEU* 3.8 25.9 - - + +
320B TRP 4.8 1.3 - - - -
321B LEU* 3.6 24.5 - - + -
324B ALA* 3.5 31.4 - - + -
325B ILE* 6.0 0.4 - - + -
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Residues in contact with ALA 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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164B ALA 2.9 14.6 + - - +
165B GLU* 3.1 13.2 + - + +
167B TRP* 1.3 76.8 - - - +
169B ARG* 1.3 59.3 + - + +
171B LEU* 3.3 4.2 + - - +
172B GLU* 2.9 33.3 + - - +
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Residues in contact with ARG 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 GLU* 2.9 28.5 + - + +
166B PHE* 4.2 3.1 - - - +
168B ALA* 1.3 77.4 - - + +
170B LEU* 1.3 57.9 + - - +
172B GLU* 3.2 22.2 + - - +
173B ARG* 2.9 84.6 + - - +
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Residues in contact with LEU 170 (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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137B ASN* 4.4 9.6 - - + +
140B ALA* 5.4 0.4 - - + -
141B PHE* 4.3 26.7 - - + -
166B PHE* 2.9 37.2 + - + +
167B TRP* 3.6 35.9 - - + +
169B ARG* 1.3 78.8 - - - +
171B LEU* 1.3 56.8 + - - +
173B ARG* 3.6 15.3 - - - +
174B LEU* 2.9 63.3 + - + +
202B PHE* 4.3 7.9 - - + -
325B ILE* 5.1 5.8 - - + -
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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
----------------------------------------------------------
167B TRP 2.9 17.4 + - - +
168B ALA* 3.8 4.5 - - - +
170B LEU* 1.3 73.8 - - - +
172B GLU* 1.3 67.2 + - - +
174B LEU* 4.6 1.8 - - - -
175B PHE* 2.9 45.7 + - + +
192B LEU* 4.6 17.7 - - + +
193B GLY* 5.4 2.7 - - - -
196B ALA* 3.5 31.4 - - + -
201B PRO* 3.8 15.7 - - + -
202B PHE* 4.0 19.0 - - + -
328B LEU* 4.1 28.5 - - + -
335B LEU* 5.1 1.6 - - + -
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Residues in contact with GLU 172 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168B ALA* 2.9 16.6 + - - +
169B ARG* 3.2 29.9 + - - +
171B LEU* 1.3 77.1 - - - +
173B ARG* 1.3 61.4 + - + +
175B PHE* 3.9 0.9 - - - +
176B LYS* 2.9 31.4 + - - +
186B ASP* 4.3 11.2 - - - +
189B LEU* 3.8 47.0 - - + +
190B ASP* 5.5 1.0 - - - +
192B LEU* 4.9 3.1 - - + -
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Residues in contact with ARG 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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137B ASN* 3.6 26.4 + - - +
139B ARG* 6.1 1.2 - - - +
140B ALA* 3.3 37.2 - - - +
166B PHE* 4.5 4.0 + - - +
169B ARG* 2.9 59.8 + - - +
170B LEU* 3.6 29.2 - - - +
172B GLU* 1.3 81.0 - - + +
174B LEU* 1.3 57.9 + - - +
176B LYS* 3.3 9.6 + - + +
177B GLN* 2.9 47.5 + - - +
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Residues in contact with LEU 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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133B LEU* 3.7 49.4 - - + +
137B ASN* 3.8 13.0 - - - +
170B LEU* 2.9 49.3 + - + +
171B LEU 4.3 1.1 - - - +
173B ARG* 1.3 77.6 - - - +
175B PHE* 1.3 59.2 + - - +
177B GLN* 3.2 4.7 + - - +
178B LEU* 2.9 34.8 + - + +
202B PHE* 4.8 2.5 - - + -
325B ILE* 4.7 21.5 - - + -
328B LEU* 4.1 26.5 - - + -
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Residues in contact with PHE 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 30.3 + - + +
174B LEU* 1.3 74.0 - - - +
176B LYS* 1.3 65.2 + - - +
178B LEU* 3.4 17.6 + - + -
179B HIS* 3.5 42.5 + + - +
182B LEU* 6.0 2.0 - - + -
184B LEU* 4.0 14.2 - - + +
188B TYR* 5.3 2.5 - + - -
192B LEU* 3.9 35.0 - - + -
328B LEU* 5.0 5.1 - - + +
332B ARG* 5.2 2.2 - - + -
335B LEU* 3.8 31.0 - - + -
336B THR* 3.9 26.2 - - + -
339B VAL* 4.3 15.3 - - + -
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Residues in contact with LYS 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 GLU 2.9 20.4 + - - +
173B ARG* 3.5 10.1 - - + +
174B LEU 3.2 0.2 - - - -
175B PHE* 1.3 78.5 - - - +
177B GLN* 1.3 60.9 + - + +
179B HIS 3.3 23.6 - - - +
180B PRO* 3.7 4.7 - - - +
182B LEU 5.1 1.9 - - - +
183B LEU* 5.8 6.1 - - - -
184B LEU* 4.3 39.9 + - + +
189B LEU* 5.0 10.7 - - + +
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Residues in contact with GLN 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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132B GLU 4.9 1.9 - - - +
133B LEU* 4.4 13.1 - - + +
136B GLN* 5.1 12.9 - - - +
137B ASN* 3.3 26.6 + - - +
173B ARG* 2.9 36.7 + - - +
174B LEU* 3.2 10.8 + - - +
176B LYS* 1.3 79.8 - - + +
178B LEU* 1.3 65.5 + - - +
179B HIS 3.2 1.8 - - - -
180B PRO* 3.5 16.4 - - - +
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Residues in contact with LEU 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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133B LEU* 4.0 28.0 - - + -
174B LEU* 2.9 22.9 + - + +
175B PHE* 3.4 15.7 + - + +
176B LYS 3.4 0.4 - - - -
177B GLN* 1.3 79.3 - - - +
179B HIS* 1.3 79.3 + - + +
180B PRO* 3.6 4.6 - - - +
181B GLN* 5.6 0.7 + - - -
328B LEU* 4.5 19.5 - - + -
329B GLN* 4.0 12.3 - - - +
332B ARG* 3.7 42.7 - - + +
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Residues in contact with HIS 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 PHE* 3.5 45.0 + + - +
176B LYS* 3.3 9.4 - - - +
178B LEU* 1.3 96.9 + - + +
180B PRO* 1.3 61.9 - - - +
181B GLN* 3.1 12.6 + - - +
182B LEU* 3.0 56.4 + - + +
184B LEU* 5.7 4.1 - - + +
332B ARG* 5.3 9.7 - - + +
336B THR* 3.6 33.0 + - + +
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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
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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