Contacts of the helix formed by residues 196 - 210 (chain C) in PDB entry 1Z1G
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 PRO 196 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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194C SER 4.4 2.5 - - - +
195C SER* 1.3 85.7 - - - +
197C CYS* 1.3 69.5 + - - +
198C TRP* 3.1 30.9 + - + +
199C LEU* 3.3 17.3 + - - +
200C ARG* 4.4 2.1 + - - +
275C THR* 4.6 10.5 - - + +
288C TYR* 3.5 36.6 - - + +
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Residues in contact with CYS 197 (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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195C SER 4.3 2.7 - - - -
196C PRO* 1.3 75.4 - - - +
198C TRP* 1.3 62.8 + - + +
200C ARG* 3.2 32.3 - - + +
201C LEU* 3.6 6.9 + - - +
265C ILE* 4.1 27.1 - - + -
266C LEU* 4.6 2.9 - - + -
275C THR* 5.6 6.2 - - + +
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Residues in contact with TRP 198 (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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196C PRO* 3.3 28.3 - - + +
197C CYS* 1.3 75.5 - - + +
199C LEU* 1.3 89.8 + - + +
201C LEU* 3.1 3.7 + - - +
202C ALA* 2.7 38.6 + - + +
266C LEU* 4.0 20.2 - - + +
272C ILE* 4.3 13.1 - - + +
273C ALA 3.5 26.9 - - - +
274C SER* 4.3 2.2 - - - +
275C THR* 4.1 27.2 + - + +
280C LEU* 4.4 24.2 - - + -
284C THR* 5.1 4.5 - - + -
285C VAL* 4.6 26.0 - - + -
288C TYR* 3.4 43.5 - + + -
2K T 6.0 3.3 + - - -
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Residues in contact with LEU 199 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
192C ALA* 4.4 9.6 - - + -
195C SER* 3.8 23.1 - - - +
196C PRO 3.3 11.3 + - - +
198C TRP* 1.3 97.6 - - + +
200C ARG* 1.3 57.2 + - + +
202C ALA* 3.1 3.3 + - - +
203C MSE 2.5 56.2 + - + +
285C VAL* 4.3 8.7 - - + +
288C TYR* 3.6 37.5 - - + +
289C PHE* 3.8 22.7 - - + +
292C ALA* 4.8 2.5 - - + -
307C PHE* 4.7 7.4 - - + -
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Residues in contact with ARG 200 (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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189C TYR* 2.7 69.9 + - + -
190C GLN* 5.7 1.0 - - - +
192C ALA* 4.6 18.8 - - + +
193C GLU* 5.4 13.0 - - - +
195C SER 5.5 0.2 - - - +
196C PRO 4.8 0.9 - - - +
197C CYS* 3.2 23.1 - - - +
199C LEU* 1.3 74.6 - - - +
201C LEU* 1.3 60.5 + - + +
203C MSE 2.8 33.2 + - - +
204C GLU* 2.9 18.1 + - - +
261C LYS* 6.1 1.3 - - - +
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Residues in contact with LEU 201 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
197C CYS 3.6 7.4 + - - +
198C TRP 3.1 7.6 + - - +
200C ARG* 1.3 82.0 - - + +
202C ALA* 1.3 52.6 + - - +
204C GLU* 3.3 21.9 + - - +
205C LEU* 2.7 36.4 + - - +
258C THR* 3.3 29.2 - - + +
261C LYS* 3.6 24.9 - - + +
262C CYS* 3.4 23.3 - - - +
265C ILE* 4.9 7.4 - - + -
266C LEU* 3.6 34.8 - - + -
272C ILE* 4.0 8.5 - - + -
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Residues in contact with ALA 202 (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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198C TRP* 2.7 23.1 + - + +
199C LEU* 3.4 5.8 - - - +
201C LEU* 1.3 72.5 - - - +
203C MSE 1.3 52.6 + - - +
205C LEU* 3.2 3.2 + - - +
206C ALA* 2.6 39.7 + - - +
216C LEU* 4.0 16.4 - - + +
272C ILE* 3.5 22.7 - - + +
285C VAL* 4.2 21.5 - - + -
307C PHE* 4.1 3.0 - - + -
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Residues in contact with MSE 203 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
185C TYR* 3.7 30.7 - - + +
188C ILE 5.3 0.2 - - - +
189C TYR* 3.8 27.8 - - + +
192C ALA* 4.4 12.3 - - - -
199C LEU* 2.5 50.4 + - + +
200C ARG* 2.8 14.7 + - - +
202C ALA* 1.3 70.3 - - - +
204C GLU* 1.3 68.2 + - + +
206C ALA* 2.9 11.6 + - - +
207C VAL* 3.0 19.6 + - - +
289C PHE* 3.6 39.3 - - + -
307C PHE* 4.4 1.1 - - + -
310C LEU* 4.1 15.5 - - + -
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Residues in contact with GLU 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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185C TYR* 3.9 11.6 + - - +
189C TYR* 3.2 26.0 + - + -
200C ARG* 2.9 8.8 + - - +
201C LEU* 3.5 12.9 - - - +
203C MSE 1.3 80.3 - - - +
205C LEU* 1.3 67.0 + - - +
207C VAL* 2.9 16.3 + - - +
208C VAL* 2.9 15.0 + - - +
253C ILE* 3.7 32.7 - - + +
258C THR* 3.4 30.2 + - + +
261C LYS* 3.0 32.5 + - - -
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Residues in contact with LEU 205 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201C LEU 2.7 19.3 + - - +
202C ALA 3.3 4.7 - - - +
204C GLU* 1.3 72.2 - - - +
206C ALA* 1.3 55.2 + - - +
208C VAL* 3.0 12.0 + - + +
209C THR* 2.7 47.8 + - + +
216C LEU* 3.6 23.3 - - + +
219C MSE 4.8 9.2 - - - -
255C MSE 5.3 1.8 - - + +
258C THR* 3.7 24.5 - - + +
259C LEU* 4.2 22.2 - - + -
262C CYS* 4.7 5.2 - - - -
271C ILE* 3.8 16.2 - - + -
272C ILE* 3.7 24.7 - - + -
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Residues in contact with ALA 206 (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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202C ALA 2.6 17.3 + - - +
203C MSE 3.0 10.5 - - - +
205C LEU* 1.3 73.5 - - - +
207C VAL* 1.3 57.4 + - - +
209C THR* 4.8 1.1 - - - -
210C GLY* 2.8 30.1 + - - -
211C GLN 3.7 8.9 + - - +
216C LEU* 4.0 10.5 - - + +
307C PHE* 3.4 30.7 - - + -
310C LEU* 3.6 14.7 - - + +
311C ARG* 4.6 1.7 - - + +
314C SER* 4.3 0.9 - - - -
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Residues in contact with VAL 207 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
185C TYR* 4.1 23.1 - - + -
203C MSE 3.0 20.2 - - - +
204C GLU* 2.9 5.6 + - - +
206C ALA* 1.3 76.9 - - + +
208C VAL* 1.3 63.9 + - - +
248C ILE* 4.3 13.6 - - + +
251C LEU* 4.5 19.3 - - + -
253C ILE* 5.3 5.2 - - + -
310C LEU* 4.1 15.0 - - + +
313C LEU* 4.7 7.9 - - + -
314C SER* 3.1 49.4 + - - +
317C LEU* 6.2 1.1 - - + -
318C TYR* 3.8 5.4 - - - -
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Residues in contact with VAL 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 GLU 2.9 10.2 + - - +
205C LEU* 3.0 30.1 - - + +
207C VAL* 1.3 76.6 - - - +
209C THR* 1.3 68.4 + - + +
246C LEU* 4.0 13.3 - - + +
248C ILE* 4.2 17.9 - - + -
253C ILE* 4.5 13.0 - - + +
255C MSE 3.8 47.8 - - + +
258C THR* 4.9 1.8 - - - +
318C TYR* 2.1 34.1 + - - +
330C LEU* 3.8 2.1 - - - +
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Residues in contact with THR 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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205C LEU* 2.7 34.5 + - + +
206C ALA 4.2 0.5 + - - -
208C VAL* 1.3 89.2 - - + +
210C GLY* 1.3 63.2 + - - +
211C GLN* 3.0 41.1 + - - +
216C LEU* 4.7 3.1 - - + +
219C MSE 4.3 11.2 - - + +
229C LEU* 5.0 4.3 - - + -
242C ILE* 3.6 14.2 - - - +
255C MSE 5.0 7.4 - - + -
330C LEU* 3.0 24.3 - - - +
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Residues in contact with GLY 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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206C ALA 2.8 15.2 + - - -
207C VAL 3.6 1.0 + - - -
208C VAL 3.5 2.0 - - - -
209C THR* 1.3 79.0 - - - +
211C GLN* 1.3 61.0 + - - +
311C ARG* 2.7 39.9 + - - +
314C SER* 3.2 22.9 + - - -
330C LEU* 4.8 1.8 - - - -
331C LEU* 4.1 8.2 - - - +
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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