Contacts of the helix formed by residues 192 - 201 (chain A) 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 A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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162A HIS* 4.0 1.8 - - - -
183A VAL 5.1 0.2 - - - -
184A ASP* 3.5 25.1 - - - +
185A MET 3.5 2.5 - - - +
186A MET* 4.3 11.2 - - + -
191A MET* 1.3 77.8 - - - +
193A PRO* 1.3 76.6 - - - +
194A LEU* 3.6 8.7 + - - +
195A MET* 3.2 45.1 + - + +
196A TRP* 3.1 20.8 + - - -
215A VAL* 6.2 1.1 - - - -
216A SER 5.8 0.4 + - - +
219A LEU* 4.3 16.8 - - + -
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Residues in contact with PRO 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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161A ILE* 3.9 35.4 - - + +
162A HIS* 4.0 6.5 - - + -
165A ALA* 3.6 22.9 - - + +
182A ASP 4.8 0.2 - - - +
183A VAL 3.3 26.2 - - - +
185A MET 3.3 13.7 - - - +
192A THR* 1.3 89.7 - - - +
194A LEU* 1.3 56.3 + - - +
196A TRP* 3.2 5.0 + - + +
197A ALA* 2.9 29.8 + - - +
210A LEU* 3.7 18.4 - - + -
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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
----------------------------------------------------------
183A VAL 5.2 0.6 + - - -
192A THR* 3.2 8.0 + - - +
193A PRO* 1.3 80.3 - - - +
195A MET* 1.3 56.2 + - + +
197A ALA* 3.3 2.3 + - - +
198A ALA* 2.9 29.9 + - + +
207A THR* 4.1 20.1 + - + -
210A LEU* 3.7 23.6 - - + +
211A LEU* 3.8 26.7 - - + -
215A VAL* 3.7 29.6 - - + +
216A SER 4.3 2.9 - - - +
217A VAL* 3.9 21.1 - - - +
228A ALA* 3.8 22.2 - - + -
244A LEU* 4.3 7.0 - - + -
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Residues in contact with MET 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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186A MET* 4.3 0.9 - - + -
190A GLY 3.8 12.8 - - - +
191A MET* 3.8 12.2 - - + +
192A THR* 3.2 47.1 + - + +
194A LEU* 1.3 78.3 - - - +
196A TRP* 1.3 58.0 + - - +
198A ALA* 3.3 7.1 + - - +
199A TYR* 2.9 31.0 + - - +
219A LEU* 3.5 29.8 - - + +
220A GLY* 3.7 5.2 - - - +
221A ASP* 3.6 20.4 - - - +
226A ASN 4.0 0.7 - - - +
228A ALA* 4.1 15.7 - - + +
231A TRP* 3.7 33.4 - - + +
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Residues in contact with TRP 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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158A CYS* 3.9 13.0 - - - -
162A HIS* 3.7 26.9 - + + +
165A ALA* 4.3 1.8 - - + -
166A GLN* 3.7 36.5 - - + +
187A ASP* 2.8 28.0 + - - -
189A ASN* 3.9 11.9 - - + -
191A MET* 3.3 29.1 - - + +
192A THR 3.1 21.4 + - - -
193A PRO 3.2 7.6 + - - +
195A MET* 1.3 75.4 - - - +
197A ALA* 1.3 57.8 + - - +
199A TYR* 3.3 13.8 + + - +
200A ARG* 2.9 68.6 + - + +
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Residues in contact with ALA 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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165A ALA* 4.2 8.2 + - + +
193A PRO 2.9 15.7 + - - +
194A LEU* 3.6 4.5 - - - +
196A TRP* 1.3 76.2 - - - +
198A ALA* 1.3 60.1 + - - +
201A THR* 2.7 46.0 + - - +
206A PRO* 4.1 12.3 - - + -
207A THR* 3.5 20.0 - - - +
210A LEU* 4.1 15.7 - - + -
240A VAL* 4.2 0.3 - - - +
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Residues in contact with ALA 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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194A LEU 2.9 17.5 + - - +
195A MET 3.5 5.4 - - - +
196A TRP 3.3 0.2 - - - -
197A ALA* 1.3 77.6 - - - +
199A TYR* 1.3 57.3 + - - +
207A THR* 4.4 0.6 + - - -
228A ALA* 3.3 33.4 - - + +
231A TRP* 4.4 0.4 - - + -
232A ALA* 3.6 10.3 - - - +
235A ALA* 4.1 0.2 - - - +
237A ASN* 3.2 29.1 + - - +
240A VAL* 3.8 26.2 - - + -
244A LEU* 4.3 0.7 - - + -
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Residues in contact with TYR 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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191A MET* 4.5 9.0 - - + -
195A MET 2.9 16.7 + - - +
196A TRP* 4.0 15.7 - + - +
198A ALA* 1.3 79.0 - - - +
200A ARG* 1.3 73.6 + - + +
202A HIS* 4.5 3.5 + - - -
231A TRP* 3.6 47.6 - + + -
234A LEU* 4.6 12.8 - - + -
235A ALA* 3.5 26.1 - - + +
237A ASN* 5.0 0.9 - - - -
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Residues in contact with ARG 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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166A GLN* 2.7 61.3 + - - +
167A PHE* 3.1 35.0 - - - -
196A TRP* 2.9 30.7 + - + +
199A TYR* 1.3 100.7 - - + +
201A THR* 1.3 61.5 + - - +
202A HIS* 3.8 15.2 + - - -
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Residues in contact with THR 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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165A ALA 3.3 26.7 - - - +
166A GLN 3.7 10.8 - - - +
167A PHE 4.6 0.7 - - - -
168A GLY* 3.8 16.8 - - - +
197A ALA* 2.7 40.7 + - - +
199A TYR 4.0 0.4 - - - -
200A ARG* 1.3 75.3 - - - +
202A HIS* 1.3 55.0 + - - +
203A SER* 2.9 24.1 + - - +
205A ASP 4.3 1.0 + - - -
206A PRO* 3.7 9.3 - - + +
207A THR* 4.2 3.3 + - - -
237A ASN* 2.8 14.6 + - - +
240A VAL* 3.3 8.7 - - - +
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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