Contacts of the helix formed by residues 202 - 216 (chain A) in PDB entry 1Z15
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 TYR 202 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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146A ASP* 3.9 14.0 + - - -
148A GLN* 3.9 21.8 - - + -
149A GLN* 3.8 10.5 + - - -
150A TYR* 3.3 50.2 - + + +
151A GLY 5.8 0.2 - - - -
199A TYR* 3.9 3.8 - - - -
201A GLY* 1.3 76.3 - - - -
203A HIS* 1.3 69.3 + - + +
204A PRO* 3.3 14.7 - - + -
205A GLU* 3.4 11.2 + - - +
206A MET* 3.3 17.3 + - - +
227A GLY* 3.5 18.6 - - - +
228A VAL* 4.2 4.5 - - - -
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Residues in contact with HIS 203 (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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202A TYR* 1.3 73.8 - - + +
204A PRO* 1.4 86.6 - - + +
206A MET* 4.2 1.6 - - - -
207A GLY* 2.9 22.5 + - - -
227A GLY 3.1 14.1 + - - +
228A VAL* 3.5 26.2 - - - +
230A ASN* 3.8 30.2 + - + +
232A SER* 3.4 26.3 + - - -
233A LEU* 3.8 18.6 - - + +
236A ILE* 5.5 6.3 - - + -
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Residues in contact with PRO 204 (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 LYS* 6.1 2.2 - - - +
202A TYR* 3.3 15.9 - - + -
203A HIS* 1.4 116.1 - - + +
205A GLU* 1.3 77.7 + - - +
207A GLY* 3.5 1.0 + - - -
208A GLN* 3.4 22.8 + - - +
236A ILE* 6.0 4.3 - - + +
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Residues in contact with GLU 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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146A ASP* 4.6 2.5 - - - +
175A ILE* 3.9 18.2 - - + -
177A ALA* 3.7 17.3 - - - +
178A GLY* 2.9 28.4 + - - +
179A GLU 4.6 2.3 - - - +
182A PHE* 4.2 15.3 - - + -
199A TYR* 3.1 29.2 + - + +
202A TYR* 3.4 15.7 + - - +
203A HIS 3.4 0.2 - - - -
204A PRO* 1.3 90.4 - - - +
206A MET* 1.3 66.3 + - - +
208A GLN* 3.0 6.8 + - - +
209A ILE* 2.9 27.2 + - + +
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Residues in contact with MET 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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199A TYR* 4.1 32.4 - - + -
202A TYR 3.3 14.1 + - - +
203A HIS 3.8 3.6 - - - +
205A GLU* 1.3 77.3 - - - +
207A GLY* 1.3 58.6 + - - +
209A ILE* 4.2 13.7 - - + -
210A LEU* 2.9 45.5 + - + +
222A PHE* 3.9 28.3 - - + -
223A MET 5.1 3.6 - - - +
228A VAL* 3.4 37.2 - - + -
233A LEU* 3.9 7.2 - - + -
244A LEU* 4.3 14.4 - - + -
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Residues in contact with GLY 207 (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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203A HIS 2.9 16.9 + - - -
204A PRO 4.0 1.3 - - - -
206A MET* 1.3 76.3 - - - +
208A GLN* 1.3 61.4 + - - +
210A LEU* 3.9 1.9 - - - +
211A ARG* 3.0 36.9 + - - +
233A LEU* 3.9 12.3 - - - +
236A ILE* 4.7 8.3 - - - -
237A ALA* 4.1 13.7 - - - +
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Residues in contact with GLN 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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179A GLU 4.8 1.1 - - - +
180A LYS* 3.8 41.3 - - + +
182A PHE* 3.2 27.6 - - + -
204A PRO 3.4 15.7 + - - +
205A GLU* 3.0 4.7 + - - +
207A GLY* 1.3 73.9 - - - +
209A ILE* 1.3 65.2 + - - +
211A ARG* 2.9 40.0 + - - +
212A GLN* 3.1 44.5 + - - +
236A ILE* 5.5 0.4 - - - +
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Residues in contact with ILE 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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175A ILE* 4.8 1.6 - - + -
182A PHE* 3.7 33.7 - - + -
185A LEU* 4.2 24.7 - - + -
186A VAL* 4.8 3.8 - - + +
189A LEU* 5.4 2.9 - - + -
197A VAL* 6.0 0.4 - - + -
199A TYR* 3.8 36.3 - - + -
205A GLU* 2.9 22.6 + - + +
206A MET* 3.9 9.4 - - + +
208A GLN* 1.3 75.0 - - - +
210A LEU* 1.3 57.3 + - - +
212A GLN* 3.7 3.3 - - - +
213A ALA* 2.8 34.3 + - + +
222A PHE* 3.7 31.0 - - + -
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Residues in contact with LEU 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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206A MET* 2.9 41.2 + - + +
207A GLY 3.9 4.0 - - - +
209A ILE* 1.3 76.7 - - - +
211A ARG* 1.3 61.7 + - - +
213A ALA* 3.9 2.8 - - - +
214A ARG* 3.1 36.4 + - - +
222A PHE* 3.6 39.7 - - + -
233A LEU* 4.5 7.2 - - + -
237A ALA* 4.5 5.8 - - + -
240A SER* 3.6 29.4 - - - +
241A ALA* 4.1 14.1 - - + -
244A LEU* 4.2 17.5 - - + -
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Residues in contact with ARG 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 GLY 3.0 16.3 + - - +
208A GLN* 2.9 48.9 + - - +
210A LEU* 1.3 78.1 - - - +
212A GLN* 1.3 61.2 + - + +
214A ARG* 3.3 3.5 + - - +
215A ALA* 2.9 30.3 + - - +
236A ILE* 3.3 40.9 + - - +
237A ALA* 3.9 20.4 - - - +
240A SER* 4.0 9.0 + - - +
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Residues in contact with GLN 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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180A LYS 3.0 25.9 + - - -
181A ASP* 4.0 6.7 - - - +
182A PHE* 2.7 40.4 + - - -
183A SER* 3.6 3.7 + - - -
186A VAL* 4.0 16.1 - - + +
208A GLN* 3.1 30.1 + - - +
209A ILE* 4.0 2.0 - - - +
211A ARG* 1.3 80.0 - - + +
213A ALA* 1.3 65.8 + - - +
215A ALA* 3.4 7.1 + - - +
216A ALA* 3.2 23.9 + - - +
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Residues in contact with ALA 213 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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186A VAL* 4.1 8.4 - - + +
189A LEU* 5.2 0.4 - - + -
209A ILE* 2.8 23.5 + - + +
210A LEU 3.9 2.9 - - - +
211A ARG 3.3 0.2 - - - -
212A GLN* 1.3 73.0 - - - +
214A ARG* 1.3 65.9 + - - +
216A ALA* 3.4 4.2 + - - -
218A LEU* 3.1 48.0 + - + +
222A PHE* 3.9 31.4 - - + -
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Residues in contact with ARG 214 (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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210A LEU* 3.1 22.1 + - - +
211A ARG 3.8 1.1 - - - +
213A ALA* 1.3 76.6 - - - +
215A ALA* 1.3 65.7 + - - +
217A GLY* 3.0 13.7 + - - -
218A LEU* 3.1 28.0 + - - +
219A LYS* 3.7 4.8 + - - -
220A THR* 2.8 34.7 + - - +
221A GLN* 4.8 4.4 - - - +
222A PHE* 4.3 19.5 - - - +
240A SER* 3.6 39.3 + - - +
242A GLU 4.9 10.5 + - - -
243A GLY 6.1 2.0 - - - -
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Residues in contact with ALA 215 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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211A ARG 2.9 18.2 + - - +
212A GLN* 3.7 9.2 - - - +
213A ALA 3.4 0.2 - - - -
214A ARG* 1.3 77.1 - - - +
216A ALA* 1.3 57.0 + - + +
217A GLY 3.1 4.5 + - - -
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Residues in contact with ALA 216 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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186A VAL* 3.7 22.0 - - + -
190A LYS* 4.4 27.1 + - + +
212A GLN 3.2 13.3 + - - +
213A ALA 3.9 1.6 - - - +
214A ARG 3.2 1.2 - - - -
215A ALA* 1.3 77.2 - - - +
217A GLY* 1.3 60.1 + - - +
218A LEU* 3.4 5.1 + - + +
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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