Contacts of the helix formed by residues 196 - 213 (chain C) 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 C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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131C HIS* 3.3 58.3 + - + +
134C LYS* 4.3 10.1 - - + -
135C ILE 2.9 44.2 - - - +
136C ALA* 3.9 10.5 - - + +
168C ILE* 4.1 16.3 - - + +
195C GLY* 1.3 71.0 - - - -
197C GLU* 1.3 66.7 + - - +
198C ALA 2.9 1.2 + - - -
199C ASP* 3.0 12.6 + - - +
200C MET* 3.8 2.9 + - - +
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Residues in contact with GLU 197 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187C GLU* 3.8 10.6 - - - +
193C PRO 4.9 1.0 - - - +
194C LEU* 4.0 0.5 - - - -
195C GLY* 2.8 35.6 + - - -
196C LEU* 1.3 78.8 + - - +
198C ALA* 1.3 63.8 + - - +
200C MET* 2.9 23.8 + - - +
260C THR* 3.9 42.7 - - + +
261C ARG* 5.0 10.2 + - - -
263C ARG* 2.8 23.7 + - + +
264C LEU 5.8 0.9 - - - -
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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
----------------------------------------------------------
138C PHE* 3.4 22.2 - - + -
185C ALA* 4.3 5.0 - - + +
187C GLU* 3.1 23.8 + - + +
188C ILE* 4.8 13.5 - - + -
194C LEU* 5.5 0.4 - - + -
195C GLY 3.0 16.1 + - - +
196C LEU 2.9 0.2 + - - -
197C GLU* 1.3 76.4 - - - +
199C ASP* 1.3 66.8 + - - +
201C TRP* 2.7 24.1 + - - +
202C SER* 3.5 5.7 + - - -
263C ARG* 3.8 2.5 - - - +
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Residues in contact with ASP 199 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127C VAL* 5.0 2.2 - - + -
130C LEU* 6.4 0.2 - - - -
131C HIS* 3.2 23.4 - - + -
136C ALA* 3.1 17.2 - - - +
137C HIS* 2.9 22.6 + - - +
138C PHE* 2.8 30.6 + - - -
140C LEU* 3.7 24.2 - - + +
196C LEU 3.0 9.4 + - - +
198C ALA* 1.3 78.6 - - - +
200C MET* 1.3 61.1 + - - +
202C SER* 3.3 12.7 + - - -
203C ILE* 3.1 23.5 + - - +
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Residues in contact with MET 200 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124C LEU* 5.2 0.9 - - + -
127C VAL* 5.1 1.1 - - - -
131C HIS* 4.5 9.4 - - + +
196C LEU 4.1 7.2 - - - +
197C GLU* 2.9 20.2 + - - +
198C ALA 2.8 4.6 + - - -
199C ASP* 1.3 72.2 - - - +
201C TRP* 1.3 66.2 + - - +
203C ILE* 2.9 29.3 + - + +
204C GLY 3.1 7.6 + - - -
255C LEU* 3.8 17.9 - - + +
263C ARG* 4.0 9.9 - - - -
264C LEU 3.5 19.5 - - - +
265C THR* 3.4 7.2 - - - -
266C ILE* 3.2 51.4 - - + +
269C ALA* 3.5 19.3 - - + -
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Residues in contact with TRP 201 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182C GLU 4.9 0.4 + - - -
183C PHE 3.6 11.6 + - - -
184C VAL 3.3 10.1 + - - -
185C ALA* 3.3 20.0 - - + -
186C PRO* 3.3 31.6 - - + -
197C GLU 3.4 1.8 + - - -
198C ALA 2.7 13.0 + - - +
200C MET* 1.3 73.0 - - - +
202C SER* 1.3 64.4 + - - +
204C GLY* 3.0 6.1 + - - -
205C VAL* 3.0 37.1 + - + +
217C PHE* 3.2 38.9 - + - -
229C ILE* 3.9 22.0 - - + -
232C VAL* 4.3 9.4 - - + -
255C LEU 4.0 11.9 - - - -
256C LEU* 3.7 9.9 - - + +
257C VAL 3.7 41.3 - - - -
258C LYS 4.2 1.3 - - - -
263C ARG* 3.0 22.5 - - - +
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Residues in contact with SER 202 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140C LEU* 3.9 33.2 + - - +
183C PHE* 3.3 24.1 + - - -
184C VAL* 5.3 0.2 - - - -
185C ALA 5.3 0.5 + - - -
198C ALA 3.6 8.3 + - - -
199C ASP* 3.3 15.4 + - - -
200C MET 3.1 0.2 - - - -
201C TRP* 1.3 75.5 - - - +
203C ILE* 1.3 66.9 + - - +
205C VAL* 2.9 7.0 + - - +
206C ILE* 2.7 27.8 + - - +
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Residues in contact with ILE 203 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120C ILE* 4.8 7.0 - - + -
123C ILE* 4.0 24.0 - - + -
124C LEU* 4.2 22.2 - - + -
127C VAL* 4.0 12.8 - - + -
140C LEU* 3.7 25.6 - - + -
199C ASP 3.1 11.9 - - - +
200C MET* 2.9 25.4 + - + +
202C SER* 1.3 77.8 - - - +
204C GLY* 1.3 64.8 + - - +
206C ILE* 3.0 9.8 + - + +
207C THR* 2.8 32.2 + - - +
251C PHE* 4.8 5.4 - - + -
255C LEU* 4.1 14.1 - - + -
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Residues in contact with GLY 204 (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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200C MET 3.1 3.4 + - - -
201C TRP 3.0 8.2 + - - -
203C ILE* 1.3 78.6 - - - +
205C VAL* 1.3 63.8 + - - +
207C THR* 2.8 8.6 + - - -
208C TYR* 2.7 24.5 + - - +
252C ILE* 4.0 6.8 - - - +
255C LEU* 3.6 21.2 - - - +
256C LEU* 4.1 14.4 - - - -
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Residues in contact with VAL 205 (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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182C GLU 4.2 11.9 - - - +
183C PHE* 3.6 29.2 - - + +
201C TRP* 3.0 39.8 + - + +
202C SER* 2.9 10.4 + - - +
204C GLY* 1.3 73.7 - - - +
206C ILE* 1.3 62.3 + - - +
208C TYR* 3.4 7.2 + - - +
209C ILE* 3.0 36.7 + - + +
215C SER* 4.6 3.1 - - - +
216C PRO* 4.2 14.1 - - + -
217C PHE* 4.3 11.7 - - + -
256C LEU* 3.8 9.2 - - + +
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Residues in contact with ILE 206 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101C LEU* 6.3 0.4 - - + -
102C PHE* 4.2 20.9 - - + -
120C ILE* 4.9 6.1 - - + -
123C ILE* 4.8 19.1 - - + -
140C LEU* 4.4 6.3 - - + +
141C LYS* 3.9 9.6 - - - +
142C PRO* 3.4 38.1 - - + -
145C ILE* 5.3 9.2 - - + -
183C PHE* 3.8 11.0 - - + -
202C SER* 2.7 27.6 + - - +
203C ILE* 3.2 11.0 - - + +
205C VAL* 1.3 72.6 - - - +
207C THR* 1.3 54.8 + - - +
209C ILE* 3.0 7.7 + - - +
210C LEU* 2.6 37.5 + - + +
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Residues in contact with THR 207 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120C ILE* 3.1 32.5 - - + +
203C ILE* 2.8 14.3 + - - +
204C GLY* 2.8 12.5 + - - -
206C ILE* 1.3 72.9 - - - +
208C TYR* 1.3 58.5 + - - +
210C LEU* 4.0 1.6 - - - -
211C LEU* 2.8 37.4 + - + +
248C ALA 6.0 0.2 - - - +
251C PHE* 4.1 10.3 - - + -
252C ILE* 3.4 21.1 - - + -
274C TRP* 4.0 31.0 - - + -
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Residues in contact with TYR 208 (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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204C GLY 2.7 15.4 + - - +
205C VAL* 3.6 8.7 - - - +
207C THR* 1.3 72.6 - - - +
209C ILE* 1.3 58.4 + - - +
211C LEU* 4.0 2.4 - - - +
212C SER* 2.6 44.9 + - - -
214C ALA* 2.6 38.3 - - + +
215C SER 4.0 0.6 + - - -
216C PRO* 3.4 43.9 - - + +
234C TYR* 3.8 9.0 - + - -
235C ASP* 2.6 35.3 + - - -
236C PHE* 4.2 3.6 - + - -
237C ASP* 5.4 1.0 - - - +
240C PHE* 5.9 0.5 - - - -
241C PHE* 3.2 29.8 - + - -
252C ILE* 3.6 27.9 - - + +
256C LEU* 4.5 1.1 - - + -
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Residues in contact with ILE 209 (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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102C PHE* 3.3 26.9 - - + -
142C PRO* 4.7 4.9 - - + -
182C GLU* 4.2 4.3 - - - +
183C PHE* 3.6 35.0 - - + -
205C VAL* 3.0 20.0 + - + +
206C ILE* 3.4 5.8 - - - +
208C TYR* 1.3 73.0 - - - +
210C LEU* 1.3 61.2 + - - +
213C GLY* 2.5 42.0 + - - +
214C ALA 3.6 7.0 - - - -
215C SER* 3.9 28.9 - - - +
216C PRO* 4.3 0.7 - - + -
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Residues in contact with LEU 210 (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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101C LEU* 5.5 3.8 - - + -
102C PHE* 4.1 18.1 - - + -
105C LEU* 4.2 21.7 - - + +
111C LEU* 3.2 32.1 - - + +
116C ALA* 3.8 19.5 - - + +
119C PHE* 4.8 9.4 - - + -
120C ILE* 3.6 32.1 - - + -
123C ILE* 5.9 0.9 - - + -
206C ILE* 2.6 22.8 + - + +
207C THR* 3.5 5.6 - - - +
209C ILE* 1.3 75.8 - - - +
211C LEU* 1.3 74.1 + - + +
213C GLY* 4.2 1.4 + - - -
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Residues in contact with LEU 211 (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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111C LEU* 5.5 2.5 - - + +
113C GLU* 5.1 9.0 - - + -
116C ALA* 4.0 15.7 - - + -
120C ILE* 6.2 0.2 - - + -
207C THR* 2.8 38.2 + - + +
208C TYR* 4.0 2.5 - - - +
210C LEU* 1.3 93.0 - - + +
212C SER* 1.3 62.1 + - - +
213C GLY* 4.6 0.2 - - - -
240C PHE 5.5 0.6 - - - +
241C PHE* 5.1 6.7 - - + -
244C THR* 4.2 22.4 - - + +
248C ALA* 3.6 31.0 - - + -
252C ILE* 4.9 7.4 - - + -
274C TRP* 4.1 13.0 - - + -
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Residues in contact with SER 212 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
208C TYR* 2.6 28.0 + - - -
211C LEU* 1.3 77.7 - - - +
213C GLY* 1.3 59.7 + - - +
214C ALA* 3.1 18.6 + - - -
240C PHE* 3.4 44.0 - - - +
241C PHE* 3.4 26.4 - - - -
244C THR* 5.4 0.6 + - - -
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Residues in contact with GLY 213 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
209C ILE* 2.5 34.0 + - - +
210C LEU 4.8 1.3 - - - -
211C LEU 3.4 0.8 - - - -
212C SER* 1.3 74.1 + - - +
214C ALA* 1.3 57.7 + - - +
215C SER 4.5 0.2 + - - -
240C PHE* 5.4 1.7 - - - -
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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
------------------------------------------------------------
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