Contacts of the helix formed by residues 200 - 219 (chain C) in PDB entry 1EZF
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 ASP 200 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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196C LEU* 2.9 21.5 + - + +
197C VAL* 3.9 7.0 - - - +
198C GLY 3.5 0.6 - - - -
199C GLU* 1.3 68.3 - - - +
201C THR* 1.3 62.4 + - - +
202C GLU* 3.3 13.2 + - - +
203C ARG* 2.9 47.2 + - + +
204C ALA* 3.3 18.8 + - - +
276C TYR* 5.5 0.3 - - - -
279C ARG* 2.7 33.2 + - - +
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Residues in contact with THR 201 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181C ILE* 2.9 38.6 - - + +
185C ARG* 6.0 1.3 - - - -
198C GLY 4.1 11.4 - - - +
199C GLU 2.8 17.0 + - - +
200C ASP* 1.3 70.9 + - - +
202C GLU* 1.3 57.9 + - - +
204C ALA* 4.4 0.7 - - - -
205C ASN* 2.8 33.9 + - - +
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Residues in contact with GLU 202 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
200C ASP* 3.2 10.0 + - - +
201C THR* 1.3 80.8 + - - +
203C ARG* 1.3 68.4 + - - +
205C ASN* 3.1 16.0 + - - +
206C SER* 2.9 34.2 + - - -
272C ASP* 4.0 13.9 - - - +
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Residues in contact with ARG 203 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
200C ASP* 2.9 45.2 + - + +
202C GLU* 1.3 87.3 - - - +
204C ALA* 1.3 62.5 + - - +
206C SER* 3.3 5.2 + - - -
207C MET* 3.3 23.9 + - - +
272C ASP* 3.3 52.2 + - - +
275C THR* 3.5 23.2 + - + +
276C TYR* 4.0 20.9 - - + +
279C ARG* 3.6 18.9 - - - +
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Residues in contact with ALA 204 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
180C GLY* 3.4 24.5 - - - +
181C ILE* 3.7 16.6 - - + +
184C SER* 3.2 28.5 - - - +
200C ASP 3.3 11.3 + - - +
201C THR* 3.8 1.1 - - - +
202C GLU 3.3 0.4 - - - -
203C ARG* 1.3 75.7 - - - +
205C ASN* 1.3 65.1 + - - +
207C MET* 3.4 16.9 + - - +
208C GLY 3.4 4.3 + - - -
276C TYR* 3.9 11.4 - - + -
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Residues in contact with ASN 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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173C HIS* 2.8 33.0 + - + +
177C GLY* 3.0 28.5 - - - -
181C ILE* 3.8 6.4 - - + +
201C THR 2.8 22.0 + - - +
202C GLU* 3.4 15.4 + - - +
204C ALA* 1.3 74.7 - - - +
206C SER* 1.3 59.3 + - - +
208C GLY* 3.0 4.0 + - - -
209C LEU* 2.9 47.0 + - - +
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Residues in contact with SER 206 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
202C GLU* 2.9 13.3 + - - +
203C ARG 3.6 4.5 - - - -
204C ALA 3.3 0.2 - - - -
205C ASN* 1.3 75.7 + - - +
207C MET* 1.3 59.3 + - - +
209C LEU* 3.6 8.5 - - - +
210C PHE* 2.8 33.1 + - - +
269C HIS* 4.0 21.6 - - - +
272C ASP* 2.6 46.1 + - - -
273C VAL* 4.6 2.0 - - - -
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Residues in contact with MET 207 (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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203C ARG 3.4 14.6 - - - +
204C ALA* 3.4 9.2 - - - +
205C ASN 3.2 0.2 - - - -
206C SER* 1.3 77.9 - - - +
208C GLY* 1.3 61.5 + - - +
210C PHE* 3.6 0.9 + - - +
211C LEU* 3.5 14.4 + - - +
273C VAL* 3.8 28.0 - - + +
276C TYR* 3.5 51.6 - - + -
277C LEU* 3.8 15.9 - - + -
289C CYS* 4.1 11.0 - - + +
293C GLN* 3.1 39.4 + - + +
995C IN0 3.6 21.5 - - + -
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Residues in contact with GLY 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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176C ALA* 3.3 29.1 - - - +
177C GLY* 4.1 0.4 - - - -
204C ALA 3.4 3.6 + - - -
205C ASN 3.0 7.5 + - - -
207C MET* 1.3 79.2 - - - +
209C LEU* 1.3 65.1 + - - +
210C PHE 3.3 0.2 + - - -
211C LEU* 3.4 2.6 + - - +
212C GLN* 3.0 19.8 + - - +
995C IN0 3.5 21.5 - - - -
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Residues in contact with LEU 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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169C ASP* 3.9 35.2 - - + +
172C CYS* 3.5 38.1 - - + +
173C HIS* 3.6 5.2 - - - +
177C GLY* 4.2 0.9 - - - -
205C ASN* 2.9 42.3 + - - +
206C SER* 3.1 7.6 + - - +
208C GLY* 1.3 75.4 - - - +
210C PHE* 1.3 64.0 + - - +
213C LYS* 3.0 35.3 + - - +
269C HIS* 3.7 31.2 - - + +
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Residues in contact with PHE 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 SER 2.8 15.8 + - - +
207C MET 3.9 1.8 - - - +
208C GLY 3.2 0.2 - - - -
209C LEU* 1.3 79.2 - - - +
211C LEU* 1.3 56.7 + - - +
213C LYS* 4.1 1.5 - - - +
214C THR* 2.7 35.2 + - + +
266C ALA* 3.2 30.5 - - + -
267C LEU* 4.5 1.8 - - + -
269C HIS* 3.9 14.1 + - + -
270C ILE* 3.2 28.3 - - + -
273C VAL* 4.1 8.7 - - + -
293C GLN* 2.9 28.0 - - - +
296C ALA* 3.8 17.3 - - + -
297C ILE* 3.3 29.6 - - + -
300C LEU* 3.5 32.1 - - + -
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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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207C MET 3.5 2.6 + - - +
208C GLY 3.4 4.1 + - - +
210C PHE* 1.3 75.8 - - - +
212C GLN* 1.3 62.3 + - - +
214C THR* 3.4 6.8 + - - -
215C ASN* 3.0 33.1 + - - +
292C PRO* 3.3 46.0 - - + +
293C GLN* 3.5 25.8 - - - +
296C ALA* 3.6 13.9 - - + -
995C IN0 3.5 58.3 - - + +
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Residues in contact with GLN 212 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171C TYR* 5.4 3.6 - - + -
172C CYS* 3.9 29.4 - - + -
175C VAL* 4.0 14.9 - - + +
176C ALA* 3.6 12.9 - - + +
208C GLY 3.0 18.1 + - - +
209C LEU 4.1 1.8 - - - +
211C LEU* 1.3 77.4 - - - +
213C LYS* 1.3 57.5 + - - +
215C ASN* 3.2 13.1 + - - +
216C ILE* 2.8 52.5 + - + +
995C IN0 3.0 32.3 - - - +
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Residues in contact with LYS 213 (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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168C TRP* 3.7 38.9 - - + -
169C ASP* 2.8 29.7 + - - +
172C CYS* 3.9 16.4 - - - -
209C LEU* 3.0 27.2 + - - +
210C PHE 4.1 0.4 - - - +
212C GLN* 1.3 74.7 - - - +
214C THR* 1.3 58.0 + - - +
216C ILE* 3.3 3.4 + - - +
217C ILE* 2.8 35.6 + - - +
265C ASN* 2.7 28.8 - - - +
266C ALA* 4.1 15.7 - - + -
269C HIS* 2.9 33.2 + - + +
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Residues in contact with THR 214 (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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210C PHE* 2.7 32.7 + - + +
211C LEU* 3.4 5.9 + - - -
213C LYS* 1.3 73.8 - - - +
215C ASN* 1.3 62.0 + - - +
217C ILE* 3.2 3.0 + - - +
218C ARG* 2.8 35.2 + - - +
266C ALA* 4.9 1.3 - - + -
296C ALA* 3.8 29.1 + - + +
299C THR* 4.7 8.5 - - - +
300C LEU* 3.6 47.4 - - + +
303C CYS* 5.9 0.2 - - - -
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Residues in contact with ASN 215 (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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211C LEU* 3.0 26.8 + - - +
212C GLN* 3.2 18.8 + - - +
214C THR* 1.3 81.4 + - - +
216C ILE* 1.3 54.5 + - - +
218C ARG* 2.6 44.6 + - - +
219C ASP* 2.8 47.0 + - - +
995C IN0 4.6 16.2 + - - +
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Residues in contact with ILE 216 (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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168C TRP* 3.8 24.9 - - + +
171C TYR* 4.4 12.3 - - + -
172C CYS* 4.1 8.5 - - - -
212C GLN* 2.8 45.9 + - + +
213C LYS* 3.6 5.4 - - - +
215C ASN* 1.3 77.1 - - - +
217C ILE* 1.3 61.7 + - - +
219C ASP* 4.0 2.0 - - - +
220C TYR* 3.7 10.4 + - - -
223C ASP* 4.8 9.1 - - - +
230C PHE* 3.6 35.7 - - + +
231C TRP* 2.9 38.1 + - + -
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Residues in contact with ILE 217 (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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168C TRP* 4.2 11.4 - - + -
213C LYS 2.8 27.3 + - - +
214C THR* 3.5 4.7 - - - +
216C ILE* 1.3 80.0 - - - +
218C ARG* 1.3 64.8 + - - +
220C TYR 3.5 6.8 + - - -
231C TRP* 3.6 19.9 - - + +
259C LEU* 3.7 28.3 - - + +
262C LEU* 3.8 44.6 - - + +
263C ILE* 3.9 15.9 - - + +
266C ALA* 4.3 4.7 - - + -
300C LEU* 4.1 13.7 - - + -
303C CYS* 4.8 5.4 - - + -
309C VAL* 3.7 9.0 - - - +
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Residues in contact with ARG 218 (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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214C THR* 2.8 21.4 + - - +
215C ASN* 2.6 32.1 + - - +
217C ILE* 1.3 73.9 - - - +
219C ASP* 1.3 91.0 + - - +
220C TYR 3.3 3.7 + - - -
221C LEU 5.0 0.3 + - - -
299C THR* 4.0 33.2 + - + +
303C CYS* 4.2 16.6 - - - -
309C VAL* 4.6 12.4 - - - +
312C GLY 4.9 6.1 - - - +
313C ALA* 5.5 10.8 - - - +
314C VAL 5.6 9.6 - - - +
995C IN0 4.5 14.5 + - - -
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Residues in contact with ASP 219 (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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215C ASN* 2.8 28.3 + - - +
216C ILE* 4.0 3.8 - - - +
217C ILE 3.3 0.2 - - - -
218C ARG* 1.3 110.8 + - - +
220C TYR* 1.3 63.1 + - - +
221C LEU 3.5 1.8 - - - -
222C GLU* 3.3 29.3 + - + +
223C ASP* 2.9 39.3 + - - +
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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