Contacts of the helix formed by residues 196 - 213 (chain A) in PDB entry 3EGC
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 LEU 196 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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133A GLU* 4.0 23.6 - - + +
154A ARG* 3.4 51.1 - - + +
192A GLY* 5.5 1.3 - - - -
193A SER* 3.2 37.0 + - - +
194A ALA 3.3 0.2 - - - -
195A GLY* 1.3 79.5 - - - +
197A MET* 1.3 60.4 + - - +
198A THR* 3.7 18.2 - - - +
199A SER* 3.5 6.0 + - - +
200A ARG* 2.9 27.9 + - - +
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Residues in contact with MET 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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153A ASN 3.4 24.0 - - - +
154A ARG* 4.5 12.9 - - + +
155A GLU* 3.6 49.1 - - + +
165A LEU* 3.8 16.6 - - + -
168A ASN* 3.8 10.8 - - - +
196A LEU* 1.3 73.2 - - - +
198A THR* 1.3 58.9 + - - +
200A ARG* 3.6 22.8 - - - +
201A GLU* 2.9 70.7 + - + +
325A ARG* 4.1 5.8 - - - +
123E ARG* 5.8 0.7 - - - +
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Residues in contact with THR 198 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153A ASN* 3.4 44.0 - - - +
154A ARG* 4.1 11.8 + - + +
168A ASN* 4.2 12.6 - - - +
196A LEU* 3.7 17.7 - - - +
197A MET* 1.3 77.1 - - + +
199A SER* 1.3 67.8 + - - -
201A GLU* 3.8 0.5 - - - +
202A ARG* 2.9 58.8 + - - +
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Residues in contact with SER 199 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
191A VAL* 4.0 22.1 - - - +
192A GLY* 3.4 23.2 + - - +
193A SER 2.8 27.4 + - - -
194A ALA* 4.5 5.6 - - - -
196A LEU* 3.5 10.7 + - - +
197A MET 3.5 0.2 - - - -
198A THR* 1.3 79.5 + - - +
200A ARG* 1.3 62.9 + - - +
202A ARG* 4.7 2.2 - - - +
203A LEU* 3.0 27.0 + - - +
252A SER* 5.1 2.2 + - - -
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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
----------------------------------------------------------
157A ARG* 4.8 0.6 - - - +
194A ALA 3.9 4.7 - - - +
195A GLY 2.6 28.9 + - - -
196A LEU 2.9 10.0 + - - +
197A MET* 3.6 26.8 - - - +
199A SER* 1.3 76.9 - - - +
201A GLU* 1.3 62.1 + - + +
203A LEU* 3.7 6.1 - - - +
204A LYS* 3.0 27.6 + - - +
120E PHE* 3.1 32.5 - - + -
121E GLU* 5.7 3.0 - - - +
123E ARG* 3.2 27.9 - - - +
142E GLU* 3.2 33.7 - - + +
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Residues in contact with GLU 201 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168A ASN* 2.8 36.9 + - + +
169A VAL* 3.5 27.8 - - + -
197A MET* 2.9 33.2 + - + +
200A ARG* 1.3 78.8 - - + +
202A ARG* 1.3 63.0 + - - +
204A LYS* 3.4 11.6 + - + +
205A GLY 3.1 17.7 + - - -
325A ARG* 2.6 39.8 + - - -
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Residues in contact with ARG 202 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153A ASN* 4.6 4.6 - - - +
166A SER* 5.0 0.2 - - - -
168A ASN* 2.7 34.6 + - + +
172A ALA* 3.3 15.4 - - + +
191A VAL* 4.9 2.2 - - + -
198A THR* 2.9 41.8 + - - +
199A SER 4.1 2.0 - - - +
201A GLU* 1.3 76.3 - - - +
203A LEU* 1.3 62.6 + - - +
206A PHE 3.2 16.3 + - - -
250A LEU* 3.7 11.2 - - + +
252A SER* 2.7 52.5 + - - -
253A SER* 4.6 5.3 - - - -
280A PHE* 3.4 42.0 - - + +
298A GLN* 3.3 28.7 + - - +
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Residues in contact with LEU 203 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
189A ALA* 3.8 18.4 - - + -
191A VAL* 3.8 24.6 - - + +
199A SER 3.0 19.2 + - - +
200A ARG* 3.7 5.2 - - - +
202A ARG* 1.3 74.9 - - - +
204A LYS* 1.3 59.6 + - - +
206A PHE* 3.1 8.9 + - + +
207A ARG* 3.0 39.9 + - - +
222A ILE* 3.7 33.7 - - + -
250A LEU* 5.5 0.2 - - - -
141E THR* 5.0 4.3 - - - +
142E GLU* 3.4 45.1 - - + +
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Residues in contact with LYS 204 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
169A VAL* 4.1 28.9 - - + +
200A ARG 3.0 15.1 + - - +
201A GLU* 3.4 12.8 + - + +
203A LEU* 1.3 76.2 - - - +
205A GLY* 1.3 55.6 - - - +
207A ARG* 3.3 10.1 + - - +
208A ALA* 3.0 29.6 + - + +
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Residues in contact with GLY 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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169A VAL* 3.6 31.8 - - - +
172A ALA* 4.1 0.7 - - - -
173A ARG* 3.4 22.8 - - - +
201A GLU 3.1 11.6 + - - -
202A ARG 3.4 3.3 + - - -
203A LEU 3.3 0.2 - - - -
204A LYS* 1.3 73.1 - - - +
206A PHE* 1.3 64.7 + - - +
208A ALA* 3.4 2.0 + - - +
209A ALA* 3.1 17.8 + - - +
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Residues in contact with PHE 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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172A ALA* 4.2 1.4 - - - +
176A VAL* 3.7 25.8 - - + -
187A ILE* 3.2 45.5 - - + -
188A GLY* 4.0 12.1 - - - -
189A ALA* 4.2 11.4 - - + -
202A ARG 3.2 13.1 + - - +
203A LEU* 3.1 14.3 + - + +
205A GLY* 1.3 76.4 - - - +
207A ARG* 1.3 72.0 + - + +
209A ALA* 3.2 4.2 + - - +
210A MET* 3.0 45.6 + - + +
217A VAL* 3.9 17.3 - - + -
222A ILE* 3.6 28.5 - - + -
250A LEU* 3.8 11.9 - - + -
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Residues in contact with ARG 207 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
203A LEU* 3.0 29.1 + - + +
204A LYS* 3.3 10.5 + - - +
206A PHE* 1.3 88.9 - - + +
208A ALA* 1.3 57.3 + - - +
210A MET* 3.5 5.2 + - - +
211A SER* 2.8 32.2 + - - -
217A VAL* 4.1 27.9 + - + +
219A GLN* 2.8 23.0 + - - +
222A ILE* 4.6 9.2 - - - +
113E ARG* 3.3 36.6 - - - +
142E GLU* 2.6 32.5 + - - +
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Residues in contact with ALA 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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169A VAL* 5.4 5.2 - - + -
173A ARG* 4.3 26.2 - - - +
204A LYS* 3.0 18.9 + - + +
205A GLY* 3.8 6.5 - - - +
206A PHE 3.2 0.2 - - - -
207A ARG* 1.3 77.3 - - - +
209A ALA* 1.3 57.4 + - - +
211A SER* 3.7 6.1 - - - -
212A ALA* 3.0 29.8 + - - +
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Residues in contact with ALA 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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173A ARG* 3.7 31.1 - - + +
176A VAL* 3.6 26.9 - - + -
177A GLU* 3.8 11.1 - - + +
180A ILE* 3.7 5.2 - - + +
205A GLY 3.1 13.4 + - - +
206A PHE 3.6 3.1 - - - +
208A ALA* 1.3 73.8 - - - +
210A MET* 1.3 64.6 + - - +
212A ALA* 3.4 4.6 + - - +
213A ALA* 3.2 22.7 + - - +
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Residues in contact with MET 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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176A VAL* 4.1 3.6 - - + -
180A ILE* 3.9 20.9 - - - -
185A THR 3.8 22.9 - - - +
187A ILE* 3.8 37.2 - - + +
206A PHE* 3.0 39.8 + - + +
207A ARG* 3.8 6.5 - - - +
209A ALA* 1.3 75.6 - - - +
211A SER* 1.3 63.3 + - - +
213A ALA* 3.2 3.5 + - - +
214A GLY 3.0 3.6 + - - -
215A LEU* 3.0 54.1 + - + +
216A PRO 4.0 12.6 - - - +
217A VAL* 4.9 9.6 - - + -
221A TRP* 4.7 1.1 - - + -
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Residues in contact with SER 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 ARG 2.8 18.7 + - - -
208A ALA* 3.7 9.0 - - - -
210A MET* 1.3 75.5 - - - +
212A ALA* 1.3 57.8 + - - +
214A GLY* 2.8 24.4 + - - -
215A LEU 4.8 2.7 - - - +
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Residues in contact with ALA 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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173A ARG* 3.7 22.7 - - - +
177A GLU* 5.3 3.6 - - - +
208A ALA 3.0 15.2 + - - +
209A ALA* 3.9 5.4 - - - +
210A MET 3.3 0.2 - - - -
211A SER* 1.3 80.9 - - - +
213A ALA* 1.3 58.5 + - - +
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Residues in contact with ALA 213 (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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180A ILE* 4.0 31.0 - - + -
209A ALA 3.2 14.9 + - - +
210A MET 3.7 4.3 - - - +
211A SER 3.1 0.4 - - - -
212A ALA* 1.3 77.2 - - - +
214A GLY* 1.3 62.3 + - - +
215A LEU* 3.3 12.6 + - + +
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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