Contacts of the helix formed by residues 178 - 197 (chain H) in PDB entry 2POZ
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 SER 178 (chain H).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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177H MSE 1.3 76.6 - - - +
179H ALA* 1.3 66.5 + - - +
180H GLU* 3.5 23.4 + - - +
181H ALA* 2.9 32.7 + - - +
182H ILE* 3.0 11.8 + - - +
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Residues in contact with ALA 179 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201F GLU* 4.2 20.2 - - + +
177H MSE 3.8 1.2 + - - -
178H SER* 1.3 73.0 - - - +
180H GLU* 1.3 67.0 + - - +
182H ILE* 3.6 10.7 + - - +
183H GLU* 3.1 27.7 + - - +
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Residues in contact with GLU 180 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
178H SER* 3.0 18.9 + - - +
179H ALA* 1.3 91.6 + - + +
181H ALA* 1.3 60.0 + - - +
183H GLU* 3.3 7.1 + - - +
184H LEU* 3.0 27.2 + - - +
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Residues in contact with ALA 181 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160H PRO 5.3 0.2 - - - +
163H GLN* 6.3 0.4 - - - +
177H MSE 4.2 16.1 - - + +
178H SER* 2.9 27.1 + - - +
180H GLU* 1.3 74.8 - - - +
182H ILE* 1.3 61.5 + - - +
184H LEU* 3.3 11.1 + - + +
185H ALA* 2.9 27.2 + - - +
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Residues in contact with ILE 182 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177H MSE 3.4 44.2 - - + +
178H SER 3.0 13.3 + - - +
179H ALA* 4.0 8.1 - - - +
181H ALA* 1.3 75.7 - - - +
183H GLU* 1.3 62.9 + - - +
185H ALA* 3.4 7.7 - - - +
186H TYR* 3.2 20.3 + - - +
210H LEU* 3.9 19.3 - - + -
214H GLU* 4.3 20.2 - - + +
218H PHE* 4.1 24.9 - - + -
221H LYS* 5.8 3.2 - - + +
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Residues in contact with GLU 183 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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179H ALA 3.1 19.5 + - - +
180H GLU* 3.4 8.5 - - - +
181H ALA 3.1 0.2 - - - -
182H ILE* 1.3 75.1 - - - +
184H LEU* 1.3 66.7 + - - +
186H TYR* 3.0 8.5 + - - +
187H ARG* 2.8 65.3 + - + +
221H LYS* 4.3 17.8 + - - +
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Residues in contact with LEU 184 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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136H ASP* 3.6 15.9 - - - +
137H THR* 5.5 1.3 - - - -
138H PRO* 4.0 17.0 - - + -
163H GLN* 5.8 1.8 - - - +
180H GLU 3.0 16.5 + - - +
181H ALA* 3.5 10.8 - - - +
183H GLU* 1.3 78.3 - - - +
185H ALA* 1.3 57.4 + - - +
187H ARG* 3.2 7.7 + - - +
188H ARG* 2.8 70.6 + - + +
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Residues in contact with ALA 185 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160H PRO* 3.4 26.7 - - - +
161H LEU* 3.6 25.4 - - + -
177H MSE 5.3 0.2 - - + -
181H ALA 2.9 13.0 + - - +
182H ILE* 3.4 12.8 - - - +
183H GLU 3.1 0.2 - - - -
184H LEU* 1.3 77.3 - - - +
186H TYR* 1.3 61.1 - - - +
188H ARG* 3.2 12.8 + - - +
189H VAL* 3.2 18.5 + - - +
218H PHE* 3.7 9.2 - - + -
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Residues in contact with TYR 186 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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182H ILE 3.2 8.3 + - - +
183H GLU* 3.0 11.0 + - - +
185H ALA* 1.3 80.6 - - - +
187H ARG* 1.3 99.0 + - - +
189H VAL* 3.2 3.1 + - - +
190H LYS* 2.9 48.3 + - + +
218H PHE* 3.6 13.2 - - + -
221H LYS* 3.5 62.5 + - + -
222H ILE* 3.9 14.6 - - + -
224H GLU* 5.0 3.9 + - - -
225H LEU* 4.1 18.9 - - + +
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Residues in contact with ARG 187 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138H PRO* 3.6 24.2 - - + +
183H GLU* 2.8 45.7 + - + +
184H LEU* 3.6 7.9 - - - +
186H TYR* 1.3 95.8 + - - +
188H ARG* 1.3 57.5 + - - +
190H LYS* 3.5 34.6 - - - +
191H ALA* 2.9 30.5 + - - +
221H LYS* 5.4 2.8 - - - +
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Residues in contact with ARG 188 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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135H ALA 5.0 1.1 + - - -
136H ASP* 2.9 45.0 + - - +
138H PRO* 4.4 9.9 - - + -
141H PHE* 3.5 36.9 - - + +
158H PHE* 4.4 1.3 - - + -
159H TYR 4.2 2.6 + - - -
160H PRO* 3.0 35.6 + - + -
161H LEU 4.3 1.4 - - - -
162H ALA 2.7 25.9 + - - +
163H GLN* 3.7 18.8 - - - +
184H LEU* 2.8 41.3 + - + +
185H ALA 3.3 7.0 - - - +
186H TYR 3.1 0.4 - - - -
187H ARG* 1.3 77.3 - - - +
189H VAL* 1.3 63.5 + - - +
191H ALA* 3.2 4.0 + - - +
192H VAL* 3.0 28.3 + - - +
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Residues in contact with VAL 189 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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158H PHE* 3.9 21.7 - - + -
160H PRO* 3.7 24.0 - - + -
185H ALA 3.5 13.0 - - - +
186H TYR 3.2 6.2 + - - +
188H ARG* 1.3 75.4 - - - +
190H LYS* 1.3 63.7 + - - +
192H VAL* 3.2 2.8 + - - +
193H ARG* 3.0 22.5 + - - +
202H LEU* 4.9 2.6 - - + +
204H VAL* 4.4 6.1 - - + -
218H PHE* 4.3 2.5 - - + -
222H ILE* 4.2 17.9 - - + -
225H LEU* 3.3 20.9 - - + -
227H ILE* 3.9 26.0 - - + -
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Residues in contact with LYS 190 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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186H TYR* 2.9 32.6 + - + +
187H ARG* 3.5 36.3 - - - +
189H VAL* 1.3 76.0 - - - +
191H ALA* 1.3 58.4 + - - +
193H ARG* 3.5 1.6 + - - +
194H ASP* 2.9 58.2 + - - +
225H LEU* 3.5 27.7 - - + +
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Residues in contact with ALA 191 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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138H PRO* 3.4 33.9 - - + +
141H PHE* 5.0 0.2 - - + -
142H ALA* 3.9 10.1 - - + +
187H ARG 2.9 19.1 + - - +
188H ARG 3.5 4.5 - - - +
189H VAL 3.2 0.2 - - - -
190H LYS* 1.3 75.6 - - - +
192H VAL* 1.3 60.2 + - - +
194H ASP* 3.3 7.7 + - - +
195H ALA* 2.9 31.7 + - - +
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Residues in contact with VAL 192 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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131H TRP* 3.8 29.6 - - + -
141H PHE* 4.1 21.3 - - + +
142H ALA* 4.9 0.7 - - - +
145H VAL* 3.9 12.7 - - + +
156H LEU* 4.6 2.0 - - + -
158H PHE* 3.9 26.2 - - + -
188H ARG 3.0 14.2 + - - +
189H VAL 3.7 5.8 - - - +
191H ALA* 1.3 75.8 - - - +
193H ARG* 1.3 58.1 + - - +
195H ALA* 3.8 0.3 - - - +
196H ALA* 2.9 34.5 + - - +
202H LEU* 3.8 25.6 - - + -
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Residues in contact with ARG 193 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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189H VAL 3.0 16.8 + - - +
190H LYS* 3.8 5.6 - - - +
192H VAL* 1.3 76.9 - - - +
194H ASP* 1.3 67.8 + - - +
196H ALA* 5.0 0.4 - - - +
197H GLY* 2.8 52.8 + - - +
198H PRO* 4.0 12.4 - - - -
200H ILE* 2.8 30.7 + - - +
201H GLU* 4.8 0.2 - - - +
202H LEU* 3.3 33.5 - - + +
225H LEU* 2.9 37.2 + - + +
226H ASP* 2.6 41.8 + - - +
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Residues in contact with ASP 194 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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190H LYS* 2.9 59.3 + - - +
191H ALA* 3.7 7.6 - - - +
193H ARG* 1.3 83.1 - - - +
195H ALA* 1.3 60.6 + - - +
196H ALA 3.5 0.2 + - - -
197H GLY* 3.8 7.3 + - - -
225H LEU* 5.9 0.7 - - - +
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Residues in contact with ALA 195 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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142H ALA* 3.5 36.1 - - + +
145H VAL* 3.6 15.4 - - + +
149H LEU* 4.4 3.1 - - - +
191H ALA 2.9 17.1 + - - +
192H VAL 4.2 0.7 - - - +
194H ASP* 1.3 76.9 - - - +
196H ALA* 1.3 60.7 + - - +
197H GLY 3.6 0.2 - - - -
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Residues in contact with ALA 196 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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145H VAL* 4.2 2.2 - - + +
149H LEU* 3.8 18.5 - - + +
156H LEU* 4.7 6.3 - - + -
192H VAL* 2.9 20.8 + - + +
193H ARG* 4.2 2.0 - - - +
195H ALA* 1.3 79.8 - - - +
197H GLY* 1.3 60.9 + - - +
200H ILE* 3.3 41.7 - - + +
202H LEU* 4.6 8.5 - - + -
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Residues in contact with GLY 197 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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193H ARG* 2.8 36.9 + - - +
194H ASP 3.8 5.5 + - - -
195H ALA 3.6 1.8 - - - -
196H ALA* 1.3 82.0 - - - +
198H PRO* 1.3 72.0 - - - +
199H GLU 3.3 4.0 + - - -
200H ILE 3.8 1.9 + - - -
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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
------------------------------------------------------------
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