Contacts of the helix formed by residues 178 - 197 (chain C) 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 C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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177C MSE 1.3 78.2 - - - +
179C ALA* 1.3 65.3 + - - +
180C GLU* 3.1 24.6 + - - +
181C ALA* 3.0 25.4 + - - +
182C ILE* 3.0 22.0 + - - +
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Residues in contact with ALA 179 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177C MSE 4.0 0.2 + - - -
178C SER* 1.3 72.8 - - - +
180C GLU* 1.3 68.0 + - + +
182C ILE* 3.2 9.9 + - - +
183C GLU* 2.9 32.2 + - - +
199D GLU 6.2 0.2 - - - +
201D GLU* 4.8 16.6 - - + +
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Residues in contact with GLU 180 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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178C SER* 3.1 21.8 + - - +
179C ALA* 1.3 92.2 + - + +
181C ALA* 1.3 56.8 + - - +
183C GLU* 3.5 5.5 + - - +
184C LEU* 3.0 29.3 + - - +
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Residues in contact with ALA 181 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160C PRO 5.4 0.2 - - - +
177C MSE 4.0 17.4 - - + +
178C SER* 3.0 30.2 + - - +
180C GLU* 1.3 78.3 - - - +
182C ILE* 1.3 56.3 + - - +
184C LEU* 3.4 11.5 + - - +
185C ALA* 3.0 25.5 + - - +
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Residues in contact with ILE 182 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177C MSE 3.7 35.7 - - + +
178C SER 3.0 18.4 + - - +
179C ALA* 3.8 8.3 - - - +
181C ALA* 1.3 74.3 - - - +
183C GLU* 1.3 65.1 + - - +
185C ALA* 3.2 7.9 + - - +
186C TYR* 3.1 19.9 + - - +
210C LEU* 4.2 14.6 - - + -
214C GLU* 4.2 23.6 - - + +
217C ARG* 6.4 2.0 - - + -
218C PHE* 4.2 22.6 - - + -
221C LYS* 6.3 3.1 - - + -
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Residues in contact with GLU 183 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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179C ALA 2.9 17.2 + - - +
180C GLU* 3.9 5.4 - - - +
182C ILE* 1.3 77.1 - - - +
184C LEU* 1.3 57.4 + - - +
186C TYR* 3.2 12.5 + - - +
187C ARG* 2.9 68.8 + - + +
221C LYS* 4.1 18.0 + - - +
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Residues in contact with LEU 184 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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136C ASP* 3.9 7.6 - - - +
137C THR* 4.9 0.9 - - - -
138C PRO* 3.6 34.5 - - + -
160C PRO 5.5 0.2 - - - +
180C GLU 3.0 17.1 + - - +
181C ALA* 3.5 11.7 - - - +
183C GLU* 1.3 75.9 - - - +
185C ALA* 1.3 64.3 + - - +
187C ARG* 3.1 5.2 + - + -
188C ARG* 2.9 66.0 + - + +
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Residues in contact with ALA 185 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160C PRO* 3.5 26.6 - - - +
161C LEU* 3.7 17.0 - - + -
177C MSE 5.6 0.2 - - - -
181C ALA 3.0 14.4 + - - +
182C ILE* 3.2 12.8 + - - +
184C LEU* 1.3 79.5 - - - +
186C TYR* 1.3 61.9 + - - +
188C ARG* 3.4 3.9 + - - +
189C VAL* 3.3 25.3 + - - +
218C PHE* 3.6 18.8 - - + -
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Residues in contact with TYR 186 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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182C ILE 3.1 9.6 + - - +
183C GLU* 3.2 13.2 + - - +
185C ALA* 1.3 79.4 - - - +
187C ARG* 1.3 91.6 + - - +
189C VAL* 3.4 3.1 + - - +
190C LYS* 2.9 48.8 + - + +
218C PHE* 3.6 12.9 - - + -
221C LYS* 3.6 59.2 + - + -
222C ILE* 3.8 18.2 - - + -
225C LEU* 4.1 20.8 - - + +
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Residues in contact with ARG 187 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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138C PRO* 3.7 22.6 - - + +
183C GLU* 2.9 41.8 + - + +
184C LEU* 3.1 11.0 + - + +
186C TYR* 1.3 96.8 + - - +
188C ARG* 1.3 59.6 + - - +
190C LYS* 3.6 28.7 - - - +
191C ALA* 2.8 30.7 + - - +
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Residues in contact with ARG 188 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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135C ALA 5.1 0.2 - - - -
136C ASP* 3.0 38.6 + - - +
138C PRO* 4.4 7.0 - - + -
141C PHE* 3.3 38.6 - - + +
158C PHE* 4.5 7.2 - - + -
159C TYR 4.2 2.8 + - - -
160C PRO* 2.9 31.1 + - + -
161C LEU 4.4 1.0 - - - -
162C ALA 2.8 29.1 + - - -
169C LEU* 4.6 3.0 - - - +
184C LEU* 2.9 50.5 + - + +
185C ALA 3.7 4.9 - - - +
187C ARG* 1.3 73.2 - - - +
189C VAL* 1.3 60.7 + - - +
191C ALA* 3.0 7.8 + - - +
192C VAL* 2.8 35.7 + - - +
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Residues in contact with VAL 189 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158C PHE* 3.8 21.1 - - + -
160C PRO* 3.7 24.5 - - + -
185C ALA 3.3 15.5 + - - +
186C TYR 3.7 6.1 - - - +
188C ARG* 1.3 75.3 - - - +
190C LYS* 1.3 62.7 + - - +
192C VAL* 3.2 3.1 + - - +
193C ARG* 3.0 22.3 + - - +
202C LEU* 4.6 3.7 - - + +
204C VAL* 4.5 7.0 - - + -
218C PHE* 4.2 11.4 - - + -
222C ILE* 4.3 8.5 - - + -
225C LEU* 3.3 20.2 - - + -
227C ILE* 4.0 22.4 - - + -
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Residues in contact with LYS 190 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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186C TYR* 2.9 39.6 + - + +
187C ARG* 3.6 39.4 - - - +
189C VAL* 1.3 77.2 - - - +
191C ALA* 1.3 57.1 + - - +
193C ARG* 3.3 1.9 + - - +
194C ASP* 2.9 56.3 + - - +
225C LEU* 3.6 27.8 - - + +
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Residues in contact with ALA 191 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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138C PRO* 3.4 35.2 - - + +
142C ALA* 3.9 10.5 - - + +
187C ARG 2.8 19.6 + - - +
188C ARG 3.0 4.2 + - - +
190C LYS* 1.3 76.9 - - - +
192C VAL* 1.3 59.4 + - - +
194C ASP* 3.8 6.9 - - - +
195C ALA* 2.9 32.8 + - - +
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Residues in contact with VAL 192 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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131C TRP* 4.2 15.3 - - + -
141C PHE* 4.1 20.0 - - + -
142C ALA* 5.1 0.4 - - - +
145C VAL* 4.0 21.4 - - + +
156C LEU* 4.7 2.7 - - + -
158C PHE* 3.7 33.0 - - + -
188C ARG 2.8 19.2 + - - +
189C VAL 3.6 6.5 - - - +
191C ALA* 1.3 74.5 - - - +
193C ARG* 1.3 59.8 + - - +
195C ALA* 3.7 0.7 - - - +
196C ALA* 2.8 33.6 + - - +
202C LEU* 3.8 24.9 - - + -
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Residues in contact with ARG 193 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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189C VAL 3.0 15.8 + - - +
190C LYS 3.8 4.3 - - - +
192C VAL* 1.3 76.6 - - - +
194C ASP* 1.3 64.9 + - - +
196C ALA* 4.6 0.6 - - - +
197C GLY* 2.7 60.4 + - - -
198C PRO* 3.8 12.1 + - - -
200C ILE* 2.7 32.7 + - - +
201C GLU* 4.8 0.6 - - - +
202C LEU* 3.4 33.1 - - + +
225C LEU* 2.9 37.0 + - + +
226C ASP* 2.8 39.0 + - - +
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Residues in contact with ASP 194 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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190C LYS* 2.9 51.9 + - - +
191C ALA* 3.9 6.4 - - - +
193C ARG* 1.3 85.0 - - - +
195C ALA* 1.3 59.8 + - - +
197C GLY* 3.9 5.9 + - - -
225C LEU* 5.7 1.2 - - - +
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Residues in contact with ALA 195 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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142C ALA* 3.4 21.1 - - + +
145C VAL* 3.4 30.4 - - + +
149C LEU* 4.5 3.8 - - - +
191C ALA 2.9 19.1 + - - +
192C VAL 4.1 1.1 - - - +
194C ASP* 1.3 76.9 - - - +
196C ALA* 1.3 61.0 + - - +
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Residues in contact with ALA 196 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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145C VAL* 4.7 2.7 - - + -
149C LEU* 4.0 17.7 - - + +
156C LEU* 4.6 8.3 - - + -
192C VAL* 2.8 20.5 + - + +
193C ARG* 4.0 3.1 - - - +
195C ALA* 1.3 77.6 - - - +
197C GLY* 1.3 61.7 + - - +
199C GLU 5.3 0.2 + - - -
200C ILE* 3.3 43.3 - - + +
202C LEU* 4.6 7.0 - - + -
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Residues in contact with GLY 197 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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193C ARG* 2.7 46.1 + - - +
194C ASP 3.9 5.2 + - - -
195C ALA 3.5 2.4 - - - -
196C ALA* 1.3 80.4 - - - +
198C PRO* 1.3 63.3 - - - +
199C GLU 3.5 2.8 + - - -
200C ILE 4.0 1.0 + - - -
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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
------------------------------------------------------------
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