Contacts of the helix formed by residues 192 - 201 (chain C) in PDB entry 3EU9
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 192 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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162C HIS* 4.1 2.7 - - - -
183C VAL 5.1 0.2 - - - -
184C ASP* 3.5 22.9 - - - +
185C MET 3.4 2.2 - - - -
186C MET* 3.8 17.0 - - + -
191C MET* 1.3 75.4 - - - +
193C PRO* 1.3 76.5 - - - +
194C LEU* 3.5 8.0 + - - +
195C MET* 3.1 48.8 + - + +
196C TRP* 3.1 13.0 + - - -
219C LEU* 4.0 16.2 - - + -
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Residues in contact with PRO 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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161C ILE* 3.6 42.2 - - + +
162C HIS* 3.9 6.5 - - + -
165C ALA* 3.4 25.1 - - + +
182C ASP 4.8 0.4 - - - +
183C VAL 3.4 26.5 - - - +
185C MET 3.2 15.0 - - - +
192C THR* 1.3 88.1 - - - +
194C LEU* 1.3 55.9 + - - +
196C TRP* 3.3 2.5 + - + -
197C ALA* 3.0 26.2 + - - +
210C LEU* 3.9 14.6 - - + -
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Residues in contact with LEU 194 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183C VAL 5.1 1.0 + - - +
192C THR* 3.2 7.9 + - - +
193C PRO* 1.3 79.9 - - - +
195C MET* 1.3 57.5 + - - +
197C ALA* 3.3 2.1 + - - +
198C ALA* 2.9 29.0 + - + +
207C THR* 4.3 14.1 - - + +
210C LEU* 3.9 29.0 - - + +
211C LEU* 4.2 16.2 - - + -
215C VAL* 3.9 26.4 - - + +
216C SER 4.3 5.2 - - - +
217C VAL* 4.1 19.7 - - - +
228C ALA* 3.6 23.1 - - + -
244C LEU* 4.0 17.5 - - + -
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Residues in contact with MET 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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186C MET* 4.7 0.7 - - + -
190C GLY 4.5 0.4 - - - +
191C MET* 3.9 11.9 - - + -
192C THR* 3.1 44.1 + - + +
194C LEU* 1.3 78.9 - - - +
196C TRP* 1.3 57.4 + - - +
198C ALA* 3.3 2.1 + - - +
199C TYR* 3.0 30.8 + - - +
219C LEU* 3.1 32.3 - - + +
220C GLY 3.4 4.3 - - - +
221C ASP* 3.2 43.3 - - - +
226C ASN 3.9 2.9 - - - +
228C ALA* 4.0 16.2 - - + +
231C TRP* 3.7 24.1 - - + +
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Residues in contact with TRP 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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158C CYS* 4.3 3.3 - - - -
162C HIS* 3.7 27.4 - + + +
165C ALA* 4.3 2.2 - - + -
166C GLN* 3.8 35.0 - - + +
187C ASP* 2.8 29.0 + - - -
189C ASN* 4.0 13.9 - - + -
191C MET* 3.3 34.8 - - + +
192C THR 3.1 20.2 + - - -
193C PRO 3.7 7.2 - - - +
195C MET* 1.3 77.1 - - - +
197C ALA* 1.3 57.1 + - - +
199C TYR* 4.6 8.3 - + - -
200C ARG* 2.8 82.1 + - + +
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Residues in contact with ALA 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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165C ALA* 4.1 8.9 + - + +
193C PRO 3.0 17.7 + - - +
194C LEU* 3.7 4.0 - - - +
195C MET 3.3 0.2 - - - -
196C TRP* 1.3 75.7 - - - +
198C ALA* 1.3 60.0 + - - +
201C THR* 2.6 46.4 + - - +
206C PRO* 4.2 12.3 - - + -
207C THR* 3.7 18.2 + - - +
210C LEU* 4.1 16.4 - - + -
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Residues in contact with ALA 198 (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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194C LEU* 2.9 18.1 + - + +
195C MET 3.7 4.3 - - - +
197C ALA* 1.3 77.1 - - - +
199C TYR* 1.3 58.6 + - - +
207C THR* 4.3 0.8 + - - -
228C ALA* 3.4 32.8 - - + +
231C TRP* 4.2 0.8 - - + +
232C ALA* 3.6 9.3 - - + +
235C ALA* 4.2 0.2 - - - +
237C ASN* 2.9 29.7 + - - +
240C VAL* 3.9 26.2 - - + -
244C LEU* 4.4 0.9 - - + -
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Residues in contact with TYR 199 (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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191C MET* 4.8 3.4 - - + -
195C MET 3.0 17.3 + - - +
196C TRP* 4.0 13.5 - + - +
198C ALA* 1.3 79.7 - - - +
200C ARG* 1.3 82.5 + - + +
202C HIS* 4.3 4.7 - - - -
231C TRP* 3.5 57.6 - + + +
234C LEU* 4.3 11.9 - - + -
235C ALA* 3.4 30.1 - - + +
237C ASN* 5.0 0.4 - - - -
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Residues in contact with ARG 200 (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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166C GLN* 3.4 53.0 + - + +
167C PHE* 5.1 5.9 - - - -
196C TRP* 2.8 54.9 + - + +
199C TYR* 1.3 99.3 - - + +
201C THR* 1.3 58.9 + - - +
202C HIS* 3.8 12.7 + - - -
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Residues in contact with THR 201 (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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165C ALA 3.4 25.6 - - - +
166C GLN 4.0 5.4 - - - +
167C PHE 4.6 0.7 - - - -
168C GLY* 3.7 24.0 - - - +
197C ALA* 2.6 38.4 + - - +
200C ARG* 1.3 76.1 - - - +
202C HIS* 1.3 53.4 + - - +
203C SER* 3.0 20.9 + - - +
205C ASP 4.3 1.7 + - - -
206C PRO* 3.8 9.6 - - + +
207C THR* 4.4 3.5 + - - -
237C ASN* 2.7 22.2 + - - -
240C VAL* 3.6 5.7 - - - +
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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