Contacts of the helix formed by residues 183 - 204 (chain A) 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 A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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136A PHE* 4.1 2.0 - - - -
140A LYS* 4.9 2.5 - - - +
177A ARG* 5.3 0.4 - - - +
181A SER 4.6 4.9 - - - +
182A LEU* 1.3 77.3 - - - +
184A GLU* 1.3 59.4 + - - +
185A GLU* 3.4 9.0 + - - +
186A GLU* 3.1 38.6 + - - +
187A ALA* 2.9 26.3 + - - +
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Residues in contact with GLU 184 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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132A PHE* 3.6 17.6 - - + -
136A PHE* 3.3 37.6 - - + -
183A THR* 1.3 74.8 - - - +
185A GLU* 1.3 56.9 - - - +
187A ALA 3.4 0.2 + - - -
188A ARG* 2.7 68.2 + - - +
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Residues in contact with GLU 185 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183A THR* 3.2 8.0 + - - +
184A GLU* 1.3 76.0 - - - +
186A GLU* 1.3 72.2 + - - +
188A ARG* 3.3 11.8 + - + +
189A ARG* 2.6 59.0 + - - +
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Residues in contact with GLU 186 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
173A LEU* 3.4 25.5 - - + +
177A ARG* 2.8 45.4 + - - -
182A LEU* 3.3 11.8 - - + +
183A THR* 3.1 39.5 + - - +
185A GLU* 1.3 87.8 - - - +
187A ALA* 1.3 61.7 + - - +
189A ARG* 3.2 15.4 + - - +
190A LEU 3.1 17.7 + - - -
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Residues in contact with ALA 187 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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132A PHE* 3.4 8.7 - - + -
135A PHE* 3.7 4.5 - - - -
136A PHE* 3.4 33.2 - - + -
139A LEU* 4.2 14.6 - - + -
182A LEU* 4.3 12.9 - - + +
183A THR 2.9 13.2 + - - +
184A GLU 3.6 4.0 - - - +
186A GLU* 1.3 77.9 - - - +
188A ARG* 1.3 56.8 + - - +
190A LEU* 3.3 3.2 + - - -
191A TYR* 2.9 29.3 + - - +
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Residues in contact with ARG 188 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132A PHE* 3.2 43.5 - - + -
184A GLU* 2.7 56.2 + - - +
185A GLU* 3.7 9.9 - - + +
186A GLU 3.2 0.2 - - - -
187A ALA* 1.3 77.7 - - - +
189A ARG* 1.3 59.9 + - - +
191A TYR* 3.5 4.0 - - + +
192A ARG* 3.0 24.8 + - - +
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Residues in contact with ARG 189 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171A ALA* 3.0 36.7 + - + +
172A ARG* 3.8 10.5 + - - +
173A LEU* 3.6 20.7 - - - +
185A GLU* 2.6 61.9 + - - +
186A GLU* 3.2 17.7 + - - +
188A ARG* 1.3 77.9 - - - +
190A LEU* 1.3 57.3 + - - +
192A ARG* 3.3 5.9 + - - +
193A ALA* 2.8 32.2 + - - +
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Residues in contact with LEU 190 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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135A PHE* 4.1 15.3 - - + -
146A LEU* 3.6 42.8 - - + -
150A LEU* 4.1 22.4 - - + -
167A ALA* 4.2 21.3 - - + +
168A LEU* 3.7 22.4 - - + -
171A ALA* 3.7 8.2 - - + +
173A LEU* 3.7 11.4 - - + -
182A LEU* 4.2 6.1 - - + -
186A GLU 3.1 3.9 + - - +
187A ALA* 3.7 8.5 - - - +
189A ARG* 1.3 77.8 - - - +
191A TYR* 1.3 57.9 + - - +
194A LEU* 2.9 34.6 + - + +
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Residues in contact with TYR 191 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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130A PHE* 2.7 47.4 + + - -
131A ALA* 3.8 6.4 - - - -
132A PHE* 3.7 41.6 + + + -
135A PHE* 4.0 19.5 - + + -
187A ALA 2.9 17.5 + - - +
188A ARG* 3.5 7.2 - - + +
190A LEU* 1.3 78.9 - - - +
192A ARG* 1.3 64.8 + - + +
194A LEU* 3.8 3.1 - - - +
195A ARG* 2.5 70.1 + - - +
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Residues in contact with ARG 192 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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188A ARG 3.0 13.8 + - - +
189A ARG* 3.8 5.4 - - - +
191A TYR* 1.3 85.6 - - + +
193A ALA* 1.3 64.8 + - - +
195A ARG* 3.3 6.7 + - - +
196A GLU* 3.0 54.0 + - + +
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Residues in contact with ALA 193 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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167A ALA* 3.4 24.5 - - - +
170A ARG* 3.9 15.0 - - + +
171A ALA* 3.8 15.7 - - + +
189A ARG 2.8 21.9 + - - +
190A LEU 4.0 1.6 - - - +
192A ARG* 1.3 73.3 - - - +
194A LEU* 1.3 64.8 + - - +
196A GLU* 3.3 8.3 + - - +
197A VAL* 2.9 31.4 + - - +
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Residues in contact with LEU 194 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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125A PRO* 5.6 0.7 - - + -
130A PHE* 4.4 18.2 - - + -
135A PHE* 4.6 5.6 - - + -
150A LEU* 4.2 20.6 - - + -
156A ALA* 4.2 24.7 - - + -
159A VAL* 4.2 22.4 - - + -
163A TYR* 4.2 8.3 - - + +
164A ALA* 5.1 1.3 - - - -
167A ALA* 3.6 25.5 - - + +
190A LEU* 2.9 20.9 + - + +
191A TYR* 3.8 4.0 - - - +
193A ALA* 1.3 78.5 - - - +
195A ARG* 1.3 62.1 + - + +
197A VAL* 4.1 1.1 - - + +
198A LEU* 3.2 42.1 + - + +
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Residues in contact with ARG 195 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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125A PRO* 3.0 20.8 + - + +
126A LEU* 3.4 20.5 - - + +
127A SER 2.8 32.4 + - - +
128A GLU* 5.0 1.2 - - - +
130A PHE* 3.3 22.7 + - + -
191A TYR* 2.5 67.5 + - - +
192A ARG* 3.3 5.6 + - - +
193A ALA 3.3 0.4 - - - -
194A LEU* 1.3 77.3 - - - +
196A GLU* 1.3 56.6 - - + +
198A LEU* 4.8 2.5 - - - -
199A ALA* 3.0 30.9 + - - +
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Residues in contact with GLU 196 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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170A ARG* 3.7 25.8 + - - +
192A ARG* 3.0 58.4 + - + +
193A ALA* 3.8 6.6 + - - +
195A ARG* 1.3 75.5 - - + +
197A VAL* 1.3 60.0 + - - +
199A ALA* 3.4 4.6 + - - +
200A GLU* 2.8 41.0 + - - +
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Residues in contact with VAL 197 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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163A TYR* 3.6 29.6 - - + +
166A GLU* 4.0 17.9 - - + +
167A ALA* 4.1 18.4 - - + -
170A ARG* 3.5 32.8 - - - +
193A ALA 2.9 21.6 + - - +
194A LEU* 4.1 3.1 - - - +
196A GLU* 1.3 75.2 - - - +
198A LEU* 1.3 58.7 + - + +
200A GLU* 3.3 4.0 + - - +
201A ALA* 2.7 29.1 + - - +
224A PHE* 3.7 15.9 - - + -
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Residues in contact with LEU 198 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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3A LEU* 4.3 12.6 - - + -
4A PRO* 3.7 27.1 - - + +
125A PRO* 3.4 36.8 - - + -
126A LEU* 4.1 12.1 - - + -
158A GLY 5.5 0.7 - - - +
159A VAL* 4.3 15.9 - - + -
163A TYR* 3.8 25.4 - - + -
194A LEU* 3.2 26.7 + - + +
195A ARG 4.0 2.5 - - - +
197A VAL* 1.3 76.0 - - + +
199A ALA* 1.3 59.3 + - - +
201A ALA* 3.2 4.9 + - - +
202A VAL* 2.9 36.7 + - - +
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Residues in contact with ALA 199 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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126A LEU* 3.8 19.2 - - + +
195A ARG 3.0 20.6 + - - +
196A GLU* 3.7 5.8 - - - +
198A LEU* 1.3 76.6 - - - +
200A GLU* 1.3 62.2 + - + +
202A VAL* 3.4 4.8 + - - +
203A GLU* 3.1 21.7 + - - +
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Residues in contact with GLU 200 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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170A ARG* 2.5 45.5 + - - -
196A GLU* 2.8 32.4 + - - +
197A VAL 3.6 0.7 - - - +
199A ALA* 1.3 72.7 - - + +
201A ALA* 1.3 65.2 + - - +
203A GLU* 3.0 16.2 + - - +
204A LEU* 3.0 26.9 + - + +
224A PHE* 3.6 14.2 - - + -
227A ARG* 3.0 27.0 + - - +
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Residues in contact with ALA 201 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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4A PRO* 3.4 19.5 - - + -
163A TYR* 3.3 33.4 - - + +
197A VAL 2.7 21.5 + - - +
198A LEU 3.5 0.4 - - - +
200A GLU* 1.3 73.1 - - - +
202A VAL* 1.3 61.0 + - - +
204A LEU* 3.4 1.9 + - - +
205A GLY 3.1 4.5 + - - -
206A GLY 2.8 26.1 + - - -
224A PHE* 3.4 17.6 - - + -
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Residues in contact with VAL 202 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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3A LEU* 4.1 7.6 - - + -
4A PRO* 4.1 20.2 - - + -
7A GLU* 4.2 14.1 - - + -
8A THR* 4.1 9.4 + - - +
11A ARG* 3.4 41.2 + - - +
126A LEU* 4.0 19.3 - - + -
198A LEU 2.9 19.9 + - - +
199A ALA* 3.6 6.5 - - - +
201A ALA* 1.3 74.3 - - - +
203A GLU* 1.3 67.5 + - - +
205A GLY* 3.0 14.0 + - - -
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Residues in contact with GLU 203 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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11A ARG* 6.0 0.4 - - - +
199A ALA 3.1 12.5 + - - +
200A GLU* 3.0 18.3 + - - +
202A VAL* 1.3 80.1 - - - +
204A LEU* 1.3 71.6 + - + +
205A GLY 3.4 2.4 + - - -
227A ARG* 5.0 5.5 + - - -
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Residues in contact with LEU 204 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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200A GLU* 3.0 20.1 + - + +
201A ALA 3.4 0.2 + - - -
202A VAL 3.2 0.2 - - - -
203A GLU* 1.3 97.1 - - + +
205A GLY* 1.3 58.4 + - - +
206A GLY 3.5 0.7 - - - -
216A GLN* 4.9 1.6 + - - -
222A GLY* 3.8 1.2 - - - -
223A GLY* 2.9 54.1 + - - +
224A PHE* 3.6 18.4 - - + +
226A THR* 4.5 1.6 - - - +
227A ARG* 3.7 40.6 - - + +
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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