Contacts of the helix formed by residues 183 - 204 (chain B) in PDB entry 1EE8
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 THR 183 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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136B PHE* 4.1 1.3 - - - -
140B LYS* 4.9 1.6 - - - +
177B ARG* 5.3 0.2 - - - +
181B SER 4.5 4.0 - - - +
182B LEU* 1.3 77.6 - - - +
184B GLU* 1.3 60.0 + - - +
185B GLU* 3.3 11.1 + - - +
186B GLU* 3.0 41.0 + - - +
187B ALA* 2.7 27.2 + - - +
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Residues in contact with GLU 184 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132B PHE* 3.9 7.3 - - + -
136B PHE* 3.6 31.1 - - + -
183B THR* 1.3 73.1 - - - +
185B GLU* 1.3 57.9 + - - +
187B ALA* 3.8 0.5 - - - +
188B ARG* 2.5 76.4 + - - +
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Residues in contact with GLU 185 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183B THR* 3.1 9.1 + - - +
184B GLU* 1.3 80.0 - - - +
186B GLU* 1.3 61.9 + - + +
188B ARG* 3.4 9.2 + - - +
189B ARG* 3.2 40.1 + - + +
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Residues in contact with GLU 186 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
173B LEU* 3.8 22.3 - - + +
177B ARG* 2.8 45.8 + - - -
182B LEU* 3.5 4.8 - - + -
183B THR* 3.0 42.1 + - - +
185B GLU* 1.3 74.0 - - + +
187B ALA* 1.3 66.1 + - - +
189B ARG* 2.9 40.3 + - - +
190B LEU 3.0 9.9 + - - -
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Residues in contact with ALA 187 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132B PHE* 3.5 10.9 - - + -
135B PHE* 3.7 4.5 - - - -
136B PHE* 3.5 31.0 - - + -
139B LEU* 4.0 16.2 - - + -
182B LEU* 4.1 15.4 - - + +
183B THR 2.7 19.1 + - - +
186B GLU* 1.3 72.6 - - - +
188B ARG* 1.3 56.9 + - - +
190B LEU* 3.3 2.2 + - - +
191B TYR* 2.9 29.3 + - - +
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Residues in contact with ARG 188 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132B PHE* 2.9 50.0 - - + +
184B GLU* 2.5 58.2 + - - +
185B GLU* 3.5 8.7 - - - +
186B GLU 3.1 0.2 - - - -
187B ALA* 1.3 78.0 - - - +
189B ARG* 1.3 62.7 + - + +
191B TYR* 3.3 4.4 + - + +
192B ARG* 3.1 23.9 + - - +
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Residues in contact with ARG 189 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171B ALA* 2.9 40.6 + - + +
172B ARG* 3.6 12.9 + - - +
173B LEU* 3.4 19.4 - - - +
185B GLU* 3.2 32.3 + - + +
186B GLU* 2.9 33.1 + - - +
188B ARG* 1.3 79.0 - - + +
190B LEU* 1.3 56.8 + - - +
192B ARG* 3.5 5.0 + - - +
193B ALA* 2.9 29.6 + - - +
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Residues in contact with LEU 190 (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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135B PHE* 3.8 20.6 - - + -
146B LEU* 3.7 36.1 - - + -
150B LEU* 4.4 12.1 - - + -
167B ALA* 4.1 24.9 - - + +
168B LEU* 3.6 24.0 - - + -
171B ALA* 3.7 8.7 - - + +
173B LEU* 3.6 12.6 - - + -
182B LEU* 4.2 6.5 - - + -
186B GLU 3.0 6.9 + - - +
187B ALA* 3.7 8.3 - - - +
189B ARG* 1.3 74.3 - - - +
191B TYR* 1.3 67.1 + - - +
193B ALA* 4.3 0.2 - - - -
194B LEU* 2.9 31.6 + - + +
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Residues in contact with TYR 191 (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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130B PHE* 2.6 58.3 + + - -
131B ALA* 3.7 4.0 - - - -
132B PHE* 3.4 45.9 + + + -
135B PHE* 3.8 19.5 - + + -
187B ALA 2.9 17.9 + - - +
188B ARG* 3.5 7.2 - - + +
189B ARG 3.3 0.2 - - - -
190B LEU* 1.3 77.0 - - - +
192B ARG* 1.3 65.5 + - + +
194B LEU* 3.8 3.7 - - - +
195B ARG* 3.3 47.6 + - - +
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Residues in contact with ARG 192 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
188B ARG 3.1 13.2 + - - +
189B ARG* 3.8 5.8 - - - +
191B TYR* 1.3 85.0 - - + +
193B ALA* 1.3 60.9 + - - +
195B ARG* 3.3 5.3 + - - +
196B GLU* 2.6 68.9 + - + +
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Residues in contact with ALA 193 (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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167B ALA* 3.4 26.0 - - - +
170B ARG* 3.7 20.9 - - + +
171B ALA* 3.9 6.5 - - + +
189B ARG 2.9 19.2 + - - +
190B LEU 3.3 3.3 + - - +
192B ARG* 1.3 76.9 - - - +
194B LEU* 1.3 55.6 + - - +
196B GLU* 4.6 4.5 - - - -
197B VAL* 2.8 41.1 + - - +
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Residues in contact with LEU 194 (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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125B PRO* 5.8 0.2 - - + -
130B PHE* 4.0 26.5 - - + -
135B PHE* 4.6 6.3 - - + -
150B LEU* 4.2 31.6 - - + -
156B ALA* 4.3 13.9 - - + -
159B VAL* 4.3 29.6 - - + -
163B TYR 4.3 4.3 - - - +
164B ALA* 4.8 0.4 - - - -
167B ALA* 3.5 23.9 - - + +
190B LEU* 2.9 20.8 + - + +
191B TYR 3.8 3.8 - - - +
193B ALA* 1.3 78.1 - - - +
195B ARG* 1.3 61.6 + - - +
197B VAL* 4.0 0.7 - - - +
198B LEU* 3.1 37.9 + - + +
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Residues in contact with ARG 195 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125B PRO 2.7 36.6 + - - +
126B LEU* 3.5 30.6 + - + +
127B SER 3.0 21.4 + - - -
128B GLU* 5.2 1.4 + - - +
130B PHE* 3.5 23.7 + - + -
191B TYR* 3.3 44.7 + - - +
192B ARG* 3.7 5.8 - - - +
194B LEU* 1.3 79.8 - - - +
196B GLU* 1.3 58.8 + - + +
198B LEU* 4.7 1.6 - - - -
199B ALA* 3.0 30.4 + - - +
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Residues in contact with GLU 196 (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 ARG* 3.8 21.3 + - - +
192B ARG* 2.6 69.0 + - + +
193B ALA* 3.9 1.4 - - - +
195B ARG* 1.3 72.7 - - + +
197B VAL* 1.3 64.3 + - - +
199B ALA* 3.4 4.6 + - - +
200B GLU* 2.9 37.0 + - + +
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Residues in contact with VAL 197 (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 TYR* 3.5 33.9 - - + +
166B GLU* 4.1 13.2 - - + +
167B ALA* 4.0 16.6 - - + +
170B ARG* 3.5 33.4 - - - +
193B ALA 2.8 28.0 + - - +
194B LEU* 4.0 4.7 - - - +
196B GLU* 1.3 73.0 - - - +
198B LEU* 1.3 58.0 + - - +
200B GLU* 3.8 8.0 - - - +
201B ALA* 3.0 27.2 + - - +
224B PHE* 3.9 14.0 - - + -
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Residues in contact with LEU 198 (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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3B LEU* 4.7 11.9 - - + -
4B PRO* 3.8 18.4 - - + +
125B PRO* 3.4 37.0 - - + -
126B LEU* 3.9 16.6 - - + -
158B GLY 5.3 1.3 - - - +
159B VAL* 4.2 17.3 - - + -
163B TYR* 3.7 34.8 - - + -
194B LEU* 3.1 28.3 + - + +
197B VAL* 1.3 72.9 - - + +
199B ALA* 1.3 65.6 + - - +
201B ALA* 3.4 4.0 + - - +
202B VAL* 3.0 27.7 + - - +
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Residues in contact with ALA 199 (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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126B LEU* 3.8 18.5 - - + +
195B ARG 3.0 19.8 + - - +
196B GLU* 3.9 5.2 - - - +
198B LEU* 1.3 78.3 - - - +
200B GLU* 1.3 64.0 + - + +
202B VAL* 3.2 5.2 + - - +
203B GLU* 3.0 35.9 + - - +
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Residues in contact with GLU 200 (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 ARG* 2.6 46.2 + - - -
196B GLU* 2.9 28.6 + - + +
197B VAL* 3.8 1.4 - - - +
199B ALA* 1.3 75.8 - - - +
201B ALA* 1.3 64.6 + - - +
203B GLU* 3.1 16.0 + - - +
204B LEU* 3.0 26.6 + - + +
224B PHE* 3.6 21.4 - - + -
227B ARG* 3.4 27.8 + - - +
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Residues in contact with ALA 201 (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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4B PRO* 3.5 19.1 - - + -
163B TYR* 3.3 37.0 - - + +
197B VAL 3.0 13.7 + - - +
198B LEU 3.6 0.4 - - - +
200B GLU* 1.3 76.8 - - - +
202B VAL* 1.3 61.5 + - - +
204B LEU* 3.1 7.1 + - - +
206B GLY 2.8 25.9 + - - -
224B PHE* 3.4 17.4 - - + -
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Residues in contact with VAL 202 (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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3B LEU* 4.1 8.1 - - + -
4B PRO* 4.0 23.1 - - + -
7B GLU* 4.2 13.0 - - + -
8B THR* 4.3 6.5 + - - +
11B ARG* 3.6 40.4 + - - +
126B LEU* 4.0 18.8 - - + -
198B LEU 3.0 19.0 + - - +
199B ALA* 3.2 8.9 + - - +
201B ALA* 1.3 75.4 - - - +
203B GLU* 1.3 66.0 + - + +
205B GLY* 3.1 13.9 + - - +
206B GLY 4.7 1.1 - - - +
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Residues in contact with GLU 203 (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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11B ARG* 6.1 0.4 - - - +
199B ALA* 3.0 30.4 + - - +
200B GLU* 3.1 14.5 + - - +
202B VAL* 1.3 80.0 - - + +
204B LEU* 1.3 66.7 + - + +
205B GLY 3.3 2.9 + - - -
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Residues in contact with LEU 204 (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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200B GLU* 3.0 14.6 + - + +
201B ALA 3.1 3.1 + - - +
203B GLU* 1.3 89.2 - - + +
205B GLY* 1.3 59.1 + - - +
206B GLY 3.3 0.2 - - - -
222B GLY* 3.6 1.9 - - - -
223B GLY* 2.8 47.7 + - - +
224B PHE* 3.6 26.2 - - + +
226B THR* 4.7 1.1 - - - +
227B ARG* 3.8 42.4 - - + +
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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
------------------------------------------------------------
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