Contacts of the helix formed by residues 196 - 213 (chain F) in PDB entry 1ZWS
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 F).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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131F HIS* 3.3 57.3 + - + +
134F LYS* 4.4 11.4 - - + -
135F ILE 3.0 43.5 - - - +
136F ALA* 3.9 11.4 - - + +
168F ILE* 4.1 14.8 - - + +
195F GLY* 1.3 71.2 - - - -
197F GLU* 1.3 66.0 + - - +
198F ALA 2.9 1.3 + - - -
199F ASP* 3.1 12.1 + - - +
200F MET* 3.7 3.4 + - - +
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Residues in contact with GLU 197 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187F GLU* 3.7 10.9 - - - +
193F PRO 5.2 1.0 - - - +
194F LEU 4.0 0.7 - - - -
195F GLY* 2.8 36.1 + - - -
196F LEU* 1.3 80.2 + - + +
198F ALA* 1.3 63.3 + - - +
200F MET* 3.0 22.0 + - - +
260F THR* 4.0 41.8 - - + +
261F ARG* 5.0 10.3 + - - +
263F ARG* 2.8 23.6 + - + +
264F LEU 5.7 0.9 - - - -
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Residues in contact with ALA 198 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138F PHE* 3.4 23.1 - - + -
185F ALA* 4.3 4.2 - - + +
187F GLU* 3.1 23.9 + - + +
188F ILE* 4.8 13.0 - - + -
194F LEU* 5.4 0.4 - - + -
195F GLY 2.9 16.1 + - - +
196F LEU 2.9 0.4 + - - -
197F GLU* 1.3 75.7 - - - +
199F ASP* 1.3 66.2 + - - +
201F TRP* 2.6 25.3 + - - +
202F SER* 3.5 5.0 + - - -
263F ARG* 3.8 2.7 - - - +
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Residues in contact with ASP 199 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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127F VAL* 5.1 1.8 - - + -
131F HIS* 3.1 28.5 + - + +
136F ALA* 3.1 10.7 - - - +
137F HIS* 2.9 23.5 + - - +
138F PHE* 2.7 32.6 + - - -
140F LEU* 3.8 23.1 - - + +
196F LEU 3.1 8.9 + - - +
198F ALA* 1.3 78.5 - - - +
200F MET* 1.3 62.1 + - - +
202F SER* 3.2 23.8 + - - -
203F ILE* 3.2 11.5 + - - +
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Residues in contact with MET 200 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124F LEU* 5.3 0.4 - - + -
127F VAL* 5.2 1.1 - - - -
131F HIS* 4.6 9.4 - - + +
196F LEU 3.7 7.8 + - - +
197F GLU* 3.0 16.3 + - - +
198F ALA 2.7 5.1 + - - -
199F ASP* 1.3 72.3 - - - +
201F TRP* 1.3 67.1 + - - +
203F ILE* 2.8 27.7 + - + +
204F GLY 3.1 7.6 + - - -
255F LEU* 3.7 18.7 - - + +
263F ARG* 4.1 7.6 - - - -
264F LEU 3.5 20.2 - - - +
265F THR* 3.3 7.9 - - - +
266F ILE* 3.2 54.1 - - + +
269F ALA* 3.3 22.0 - - + -
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Residues in contact with TRP 201 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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182F GLU 4.9 0.6 + - - -
183F PHE 3.7 6.9 - - - -
184F VAL 3.1 24.6 + - - -
185F ALA* 3.5 7.4 - - + -
186F PRO* 3.4 32.1 - - + -
198F ALA 2.6 11.9 + - - +
200F MET* 1.3 72.5 - - - +
202F SER* 1.3 64.8 + - - +
204F GLY* 3.0 5.7 + - - -
205F VAL* 3.0 36.6 + - + +
217F PHE* 3.1 40.5 - + - -
229F ILE* 3.9 20.2 - - + -
232F VAL* 4.3 9.4 - - + -
255F LEU 4.0 10.5 - - - -
256F LEU* 3.7 10.7 - - + +
257F VAL 3.8 34.8 - - - -
258F LYS 4.3 1.3 - - - -
263F ARG* 2.9 31.2 - - - +
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Residues in contact with SER 202 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140F LEU* 3.9 33.0 + - - +
183F PHE* 3.1 24.1 + - - +
184F VAL* 5.2 0.2 - - - -
185F ALA 5.4 0.7 + - - -
198F ALA 3.7 6.9 + - - -
199F ASP* 3.2 15.7 + - - -
200F MET 3.0 0.2 - - - -
201F TRP* 1.3 77.3 - - - +
203F ILE* 1.3 66.0 + - - +
205F VAL* 2.8 8.6 + - - +
206F ILE* 2.8 28.7 + - - +
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Residues in contact with ILE 203 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120F ILE* 4.7 10.5 - - + -
123F ILE* 4.1 23.8 - - + -
124F LEU* 4.3 21.3 - - + -
127F VAL* 4.2 13.2 - - + -
140F LEU* 3.8 24.5 - - + -
199F ASP 3.2 11.2 - - - +
200F MET* 2.8 30.1 + - + +
202F SER* 1.3 73.1 - - - +
204F GLY* 1.3 62.7 + - - +
206F ILE* 3.2 9.5 + - + +
207F THR* 2.8 34.0 + - - +
251F PHE* 4.8 2.7 - - + -
255F LEU* 3.9 15.0 - - + -
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Residues in contact with GLY 204 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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200F MET 3.1 3.2 + - - -
201F TRP 3.0 7.8 + - - -
202F SER 3.0 0.8 - - - -
203F ILE* 1.3 79.1 - - - +
205F VAL* 1.3 62.2 + - - +
207F THR* 3.0 7.2 + - - -
208F TYR* 2.9 24.1 + - - +
252F ILE* 3.9 6.8 - - - +
255F LEU* 3.4 21.2 - - - +
256F LEU* 3.9 16.8 - - - -
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Residues in contact with VAL 205 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182F GLU 4.2 14.4 - - - +
183F PHE* 3.6 29.6 - - + +
201F TRP* 3.0 40.1 + - + +
202F SER* 2.8 15.0 + - - +
204F GLY* 1.3 70.2 - - - +
206F ILE* 1.3 61.7 + - - +
208F TYR* 3.4 2.8 + - - +
209F ILE* 3.0 35.4 + - + +
215F SER* 4.6 2.9 - - - +
216F PRO* 4.3 19.5 - - + -
217F PHE* 4.3 9.4 - - + -
256F LEU* 3.7 7.5 - - + +
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Residues in contact with ILE 206 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101F LEU* 6.2 0.4 - - + -
102F PHE* 4.3 20.1 - - + -
120F ILE* 4.7 6.5 - - + -
123F ILE* 4.7 20.2 - - + -
140F LEU* 4.3 5.4 - - + +
141F LYS* 3.9 11.9 - - - +
142F PRO* 3.3 37.7 - - + -
145F ILE* 5.2 9.6 - - + -
183F PHE* 4.0 9.6 - - + -
202F SER* 2.8 27.1 + - - +
203F ILE* 3.4 10.5 - - + +
205F VAL* 1.3 70.5 - - - +
207F THR* 1.3 57.1 + - - +
209F ILE* 3.1 7.6 + - - +
210F LEU* 2.5 39.7 + - + +
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Residues in contact with THR 207 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120F ILE* 3.5 24.8 - - + +
203F ILE 2.8 16.2 + - - -
204F GLY* 3.4 7.2 - - - -
206F ILE* 1.3 75.0 - - - +
208F TYR* 1.3 55.7 + - - +
210F LEU* 3.0 7.1 + - - +
211F LEU* 2.7 42.6 + - + +
248F ALA* 6.2 0.2 - - + -
251F PHE* 4.1 11.0 - - + -
252F ILE* 3.4 19.5 - - + -
274F TRP* 4.0 32.5 - - + -
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Residues in contact with TYR 208 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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204F GLY 2.9 12.4 + - - +
205F VAL* 3.5 9.0 - - - +
207F THR* 1.3 74.2 - - - +
209F ILE* 1.3 64.5 + - - +
211F LEU* 3.8 2.6 - - - +
212F SER* 2.8 38.2 + - - -
214F ALA* 2.7 38.4 - - + +
215F SER 4.0 0.6 + - - -
216F PRO* 3.4 43.3 - - + +
234F TYR* 3.8 8.7 - + - -
235F ASP* 2.7 36.1 + - - -
236F PHE* 4.1 11.9 - + - -
237F ASP* 5.5 1.2 - - - +
240F PHE* 5.7 0.5 - - - -
241F PHE* 3.2 27.6 - + - -
252F ILE* 3.5 20.5 - - + +
256F LEU* 4.5 0.9 - - + -
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Residues in contact with ILE 209 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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102F PHE* 3.5 26.7 - - + -
142F PRO* 4.8 4.9 - - + -
182F GLU* 4.1 13.7 - - - +
183F PHE* 3.6 35.2 - - + -
205F VAL* 3.0 23.4 + - + +
206F ILE* 3.4 6.3 - - - +
208F TYR* 1.3 75.3 - - - +
210F LEU* 1.3 60.9 + - - +
213F GLY* 2.5 43.6 + - - +
214F ALA 3.6 7.2 - - - -
215F SER* 3.9 21.5 - - - -
216F PRO* 4.3 1.1 - - + -
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Residues in contact with LEU 210 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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101F LEU* 5.4 4.0 - - + -
102F PHE* 4.4 11.9 - - + -
105F LEU* 4.3 20.2 - - + -
111F LEU* 3.3 32.9 - - + +
116F ALA* 3.7 20.0 - - + +
119F PHE* 4.9 9.0 - - + -
120F ILE* 3.3 33.9 - - + -
206F ILE* 2.5 25.2 + - + +
207F THR* 3.2 6.7 - - - +
209F ILE* 1.3 76.5 - - - +
211F LEU* 1.3 75.2 + - + +
213F GLY* 4.1 1.7 + - - -
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Residues in contact with LEU 211 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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111F LEU* 5.6 1.1 - - + -
113F GLU* 4.9 9.9 - - + -
116F ALA* 4.0 15.3 - - + -
207F THR* 2.7 33.3 + - + +
208F TYR* 3.9 2.5 - - - +
210F LEU* 1.3 92.8 - - + +
212F SER* 1.3 63.5 + - - +
213F GLY* 4.7 0.2 - - - -
240F PHE 5.5 0.6 - - - +
241F PHE* 5.1 6.5 - - + -
244F THR* 4.3 21.8 - - + +
248F ALA* 3.7 30.3 - - + -
249F LYS 5.3 0.2 - - - +
252F ILE* 4.9 8.1 - - + -
274F TRP* 4.1 15.3 - - + -
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Residues in contact with SER 212 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
208F TYR* 2.8 20.5 + - - -
211F LEU* 1.3 79.4 - - - +
213F GLY* 1.3 62.3 + - - +
214F ALA* 2.9 19.6 + - - +
240F PHE* 3.4 47.7 - - - +
241F PHE* 3.5 23.1 - - - -
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Residues in contact with GLY 213 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
209F ILE* 2.5 35.5 + - - +
210F LEU 4.6 1.8 - - - -
211F LEU 3.5 0.4 - - - -
212F SER* 1.3 74.7 + - - +
214F ALA* 1.3 58.3 + - - +
240F PHE* 5.4 1.1 - - - -
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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