Contacts of the helix formed by residues 202 - 213 (chain A) in PDB entry 2EUG
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 HIS 202 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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162A LEU* 3.9 24.1 - - + +
164A TRP* 3.1 32.5 - + + +
183A LEU* 3.4 35.9 + - + +
184A LYS 3.3 37.0 - - - -
185A ALA* 3.6 2.6 + - - +
200A CYS* 3.0 41.2 + - + -
201A ASN* 1.3 77.9 - - - +
203A PHE* 1.3 62.7 + - + +
205A LEU* 3.9 7.8 - - + +
206A ALA* 2.8 31.0 + - - +
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Residues in contact with PHE 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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60A ILE* 4.7 0.4 - - + -
92A MET* 4.0 14.1 - - + -
95A GLU* 4.0 28.5 - - + -
96A LEU* 3.3 40.4 - - + -
99A THR* 4.7 3.8 - - - +
100A ILE* 4.3 4.9 - - + -
114A TRP* 4.5 8.3 - + - -
162A LEU* 4.7 3.4 - - + -
164A TRP* 3.5 37.9 - + - -
197A PHE* 4.2 11.0 - + - -
200A CYS* 5.5 0.2 - - - -
201A ASN 3.2 0.8 + - - -
202A HIS* 1.3 77.5 - - + +
204A VAL* 1.3 66.6 + - - +
206A ALA* 3.5 1.2 + - - +
207A ASN* 3.3 16.1 + - - -
220A TRP* 3.3 61.2 + + + +
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Residues in contact with VAL 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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99A THR* 3.5 27.1 - - - +
100A ILE* 3.6 18.8 - - + -
101A PRO* 5.3 2.2 - - + -
201A ASN* 3.3 30.8 + - - +
202A HIS 3.4 0.2 - - - -
203A PHE* 1.3 75.5 - - - +
205A LEU* 1.3 68.1 + - - +
207A ASN* 3.0 6.9 + - + +
208A GLN* 2.9 43.9 + - + +
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Residues in contact with LEU 205 (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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181A HIS* 5.0 3.5 + - - +
183A LEU* 3.8 28.1 - - + +
200A CYS 3.7 16.4 - - - +
201A ASN* 3.0 33.5 + - + +
202A HIS* 3.9 5.6 - - + +
204A VAL* 1.3 76.9 - - - +
206A ALA* 1.3 61.6 + - - +
208A GLN* 3.4 20.8 + - + +
209A TRP* 3.1 22.7 + - - +
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Residues in contact with ALA 206 (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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58A VAL* 4.6 8.7 - - + -
160A VAL* 4.0 32.2 - - + +
162A LEU* 4.7 6.3 - - + -
183A LEU* 4.3 1.7 - - - +
202A HIS 2.8 18.6 + - - +
203A PHE 3.8 4.9 - - - +
205A LEU* 1.3 76.8 - - - +
207A ASN* 1.3 58.8 + - - +
209A TRP* 3.4 3.3 + - - +
210A LEU* 2.9 32.6 + - - +
220A TRP* 4.4 16.2 - - + -
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Residues in contact with ASN 207 (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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100A ILE* 4.4 8.1 - - + +
203A PHE 3.3 3.7 + - - +
204A VAL* 3.0 10.4 + - + +
206A ALA* 1.3 77.1 - - - +
208A GLN* 1.3 63.4 + - + +
210A LEU* 3.1 5.9 + - - +
211A GLU* 2.8 39.0 + - - +
217A PRO* 3.5 18.5 - - + +
218A ILE* 2.7 52.3 + - - +
220A TRP* 3.1 22.9 + - - +
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Residues in contact with GLN 208 (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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204A VAL* 2.9 33.2 + - + +
205A LEU* 3.6 28.5 - - + +
207A ASN* 1.3 77.8 - - + +
209A TRP* 1.3 64.4 + - - +
211A GLU* 3.1 16.8 + - - +
212A GLN* 2.8 45.5 + - - +
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Residues in contact with TRP 209 (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 GLY* 3.2 37.1 + - - -
160A VAL* 3.3 24.5 - - + -
178A GLN 5.2 7.2 - - - -
179A ARG 4.9 1.8 - - - -
180A HIS 4.6 6.1 - - - -
181A HIS* 3.4 55.6 - + + +
205A LEU 3.1 10.9 + - - +
206A ALA 3.7 6.1 - - - +
208A GLN* 1.3 78.2 - - - +
210A LEU* 1.3 66.9 + - + +
212A GLN* 3.2 18.6 + - - +
213A HIS* 2.8 63.8 + + + +
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Residues in contact with LEU 210 (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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57A LYS* 3.9 36.1 - - + +
58A VAL* 4.2 6.5 - - + -
158A GLY 5.0 3.6 - - - +
160A VAL* 4.4 10.8 - - + -
206A ALA 2.9 21.9 + - - +
207A ASN* 3.1 12.8 + - - +
209A TRP* 1.3 81.6 - - + +
211A GLU* 1.3 57.5 + - - +
213A HIS* 3.3 10.2 + - - +
214A GLY 3.4 0.2 + - - -
215A GLU* 2.8 48.5 + - + +
216A THR 3.6 20.4 - - - +
217A PRO* 4.0 0.9 - - + -
218A ILE* 3.8 31.0 - - + -
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Residues in contact with GLU 211 (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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207A ASN* 2.8 24.6 + - - +
208A GLN* 3.4 19.3 - - - +
210A LEU* 1.3 73.2 - - - +
212A GLN* 1.3 58.9 + - + +
213A HIS 3.0 4.7 - - - -
214A GLY* 2.9 20.8 + - - -
215A GLU 3.7 7.2 - - - +
217A PRO* 3.1 39.4 - - + +
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Residues in contact with GLN 212 (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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208A GLN* 2.8 37.4 + - - +
209A TRP* 3.2 19.2 + - - +
211A GLU* 1.3 75.2 - - + +
213A HIS* 1.3 68.0 + - + +
214A GLY 3.7 0.4 - - - -
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Residues in contact with HIS 213 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158A GLY* 5.8 4.0 - - - -
209A TRP* 2.8 77.3 + + - +
210A LEU* 3.3 7.3 + - - +
211A GLU 3.0 1.2 - - - -
212A GLN* 1.3 88.3 - - + +
214A GLY* 1.3 61.1 + - - +
215A GLU* 3.3 12.9 + - + +
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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
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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