Contacts of the helix formed by residues 196 - 217 (chain A) in PDB entry 1Z57
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 VAL 196 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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194A LYS* 2.8 23.6 + - + -
195A ASN* 1.3 78.8 - - - +
197A ASP* 1.3 68.3 + - + +
198A ARG* 4.1 11.7 - - + +
199A TYR* 3.0 31.7 + - + -
200A CYS* 2.8 24.3 + - - -
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Residues in contact with ASP 197 (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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196A VAL* 1.3 72.9 - - + +
198A ARG* 1.3 66.1 + - - +
200A CYS* 3.3 6.7 + - - +
201A GLU* 3.0 31.2 + - - +
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Residues in contact with ARG 198 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
196A VAL* 4.1 8.0 - - + +
197A ASP* 1.3 80.9 - - - +
199A TYR* 1.3 95.1 + - + +
201A GLU* 3.5 11.9 + - - +
202A ALA* 3.1 26.5 + - - +
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Residues in contact with TYR 199 (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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171A ALA* 3.4 43.1 + - + +
172A PHE* 3.8 20.4 - - + +
193A VAL* 3.5 19.8 - - + +
194A LYS* 4.2 17.2 + - + +
196A VAL* 3.0 25.1 + - + +
198A ARG* 1.3 93.6 - - + +
200A CYS* 1.3 64.3 + - - +
202A ALA* 3.7 8.9 - - + +
203A ALA* 2.9 24.9 + - - +
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Residues in contact with CYS 200 (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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193A VAL* 4.5 2.7 - - - -
194A LYS 3.5 20.2 - - - -
195A ASN* 4.0 15.3 - - - -
196A VAL 2.8 22.7 + - - +
197A ASP* 3.7 7.0 - - - +
199A TYR* 1.3 75.2 - - - +
201A GLU* 1.3 65.0 + - - +
203A ALA* 3.2 3.4 + - - +
204A ARG* 3.0 29.4 + - + +
236A HIS* 6.2 0.4 - - - -
237A ILE* 3.7 24.6 - - + +
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Residues in contact with GLU 201 (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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197A ASP* 3.0 24.2 + - - +
198A ARG* 3.6 12.5 - - - +
199A TYR 3.3 0.2 - - - -
200A CYS* 1.3 77.0 - - - +
202A ALA* 1.3 59.7 + - - +
204A ARG* 3.3 8.6 + - - +
205A SER* 3.0 29.0 + - - -
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Residues in contact with ALA 202 (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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198A ARG 3.1 14.0 + - - +
199A TYR* 3.7 12.1 - - + +
200A CYS 3.3 0.2 - - - -
201A GLU* 1.3 80.0 - - - +
203A ALA* 1.3 56.6 + - - +
205A SER* 3.3 5.5 + - - -
206A GLU* 2.8 30.0 + - - +
327A GLY* 3.4 30.7 - - - +
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Residues in contact with ALA 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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191A LYS* 6.4 0.2 - - - -
193A VAL* 3.9 25.8 - - + -
199A TYR 2.9 18.1 + - - +
200A CYS 3.6 4.9 - - - +
201A GLU 3.2 0.2 - - - -
202A ALA* 1.3 72.3 - - - +
204A ARG* 1.3 68.0 + - - +
206A GLU* 3.2 9.6 + - - +
207A ILE* 3.0 30.7 + - - +
237A ILE* 4.0 20.2 - - + -
239A ILE* 4.1 6.4 - - + +
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Residues in contact with ARG 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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200A CYS* 3.0 21.8 + - - +
201A GLU* 3.7 9.0 - - - +
203A ALA* 1.3 76.6 - - - +
205A SER* 1.3 62.2 + - - +
207A ILE* 3.4 11.4 + - - +
208A GLN* 3.2 26.9 + - - +
230A TRP* 3.2 31.3 - - - -
232A GLU* 2.9 35.5 + - - -
237A ILE* 3.4 25.3 - - + +
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Residues in contact with SER 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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201A GLU* 3.0 15.7 + - - -
202A ALA* 3.5 11.4 - - - -
203A ALA 3.2 0.2 - - - -
204A ARG* 1.3 74.8 - - - +
206A GLU* 1.3 59.3 + - - +
208A GLN* 3.1 9.1 + - - +
209A VAL* 2.9 35.3 + - - +
326A PHE 4.6 1.0 + - - -
327A GLY 4.6 6.6 + - - -
329A ALA 4.3 13.7 + - - -
334A GLU* 5.3 6.2 + - - -
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Residues in contact with GLU 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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1A DBQ 4.3 3.5 - - - +
191A LYS* 2.8 37.3 + - - +
202A ALA 2.8 20.5 + - - +
203A ALA* 3.2 8.1 + - - +
205A SER* 1.3 73.5 - - - +
207A ILE* 1.3 56.7 + - - +
209A VAL* 3.3 1.9 + - - +
210A LEU* 2.8 51.1 + - + +
239A ILE* 3.6 15.6 - - + +
241A PHE* 4.3 3.6 - - - -
325A ASP* 3.4 6.1 + - - -
326A PHE* 2.8 49.4 + - + +
327A GLY* 3.7 4.5 + - - +
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Residues in contact with ILE 207 (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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203A ALA 3.0 20.2 + - - +
204A ARG* 3.6 16.4 - - - +
206A GLU* 1.3 76.5 - - - +
208A GLN* 1.3 59.5 + - + +
211A GLU* 2.9 49.4 + - - +
227A MET* 3.7 17.4 - - - +
230A TRP* 3.6 54.3 - - + +
237A ILE* 4.1 13.2 - - + -
239A ILE* 3.8 23.3 - - + -
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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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204A ARG 3.2 14.6 + - - +
205A SER* 3.1 11.7 + - - +
207A ILE* 1.3 77.7 - - + +
209A VAL* 1.3 64.4 + - + +
211A GLU* 3.4 15.2 + - - +
212A HIS* 3.2 22.2 + - - +
331A TYR* 4.5 4.8 + - + -
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Residues in contact with VAL 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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205A SER* 2.9 24.5 + - - +
206A GLU 3.7 4.0 - - - +
208A GLN* 1.3 76.2 - - + +
210A LEU* 1.3 57.0 + - - +
212A HIS* 3.2 3.6 + - - +
213A LEU* 2.9 51.1 + - + +
284A LEU* 4.2 19.1 - - + -
326A PHE* 3.9 28.7 - - + +
329A ALA* 4.5 13.0 - - + +
331A TYR* 3.9 29.6 - - + -
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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 GLU* 2.8 45.8 + - + +
209A VAL* 1.3 72.4 - - - +
211A GLU* 1.3 59.2 + - - +
213A LEU* 4.4 5.8 - - + +
214A ASN* 2.8 41.6 + - - +
225A VAL* 3.6 30.5 - - + +
227A MET* 3.8 29.8 - - + -
239A ILE* 4.7 0.7 - - + -
241A PHE* 3.5 25.6 - - + -
326A PHE* 3.8 28.7 - - + -
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Residues in contact with GLU 211 (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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207A ILE* 2.9 36.7 + - - +
208A GLN* 3.6 16.7 - - - +
210A LEU* 1.3 74.7 - - - +
212A HIS* 1.3 60.0 + - - +
214A ASN* 4.9 1.8 - - - -
215A THR* 2.8 37.7 + - + +
227A MET* 3.6 15.2 - - + +
230A TRP* 4.3 9.5 + - - -
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Residues in contact with HIS 212 (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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208A GLN 3.2 10.5 + - - +
209A VAL 3.4 7.0 - - - +
211A GLU* 1.3 75.1 - - - +
213A LEU* 1.3 68.0 + - + +
215A THR* 3.0 7.1 + - - -
216A THR* 2.8 50.7 + - - -
282A ASN* 4.1 32.4 + - + -
284A LEU* 4.2 6.7 - - + +
331A TYR* 2.9 41.4 + + - +
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Residues in contact with LEU 213 (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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209A VAL* 2.9 40.7 + - + +
210A LEU* 4.1 4.9 - - + +
212A HIS* 1.3 78.3 - - + +
214A ASN* 1.3 67.4 + - - +
216A THR* 3.3 4.9 + - - -
217A ASP* 2.9 32.2 + - - +
224A CYS* 4.3 8.7 - - + -
278A PHE* 3.8 26.6 - - + -
279A LEU* 3.5 30.1 - - + -
282A ASN* 4.9 9.0 - - + -
284A LEU* 3.9 17.9 - - + -
326A PHE* 3.9 19.3 - - + -
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Residues in contact with ASN 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* 2.8 26.0 + - - +
211A GLU* 4.3 2.2 - - - +
213A LEU* 1.3 86.7 - - - +
215A THR* 1.3 60.8 + - + +
217A ASP 4.4 4.4 + - - -
218A PRO* 3.3 27.7 - - - +
224A CYS* 4.6 6.7 + - - +
225A VAL 3.1 22.3 + - - +
226A GLN* 4.0 11.7 - - + +
227A MET* 2.9 40.2 + - - +
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Residues in contact with THR 215 (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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211A GLU* 2.8 26.0 + - + +
212A HIS* 3.0 12.6 + - - -
214A ASN* 1.3 76.2 - - + +
216A THR* 1.3 64.2 + - - +
218A PRO* 3.6 12.2 - - - +
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Residues in contact with THR 216 (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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212A HIS* 2.8 41.7 + - - -
213A LEU* 3.3 5.4 + - - -
215A THR* 1.3 77.3 + - - +
217A ASP* 1.3 58.4 + - - +
218A PRO* 3.5 5.5 - - - +
278A PHE* 3.8 25.7 - - + -
282A ASN* 4.1 16.8 - - - +
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Residues in contact with ASP 217 (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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213A LEU 2.9 10.0 + - - +
214A ASN* 3.4 9.4 + - - +
216A THR* 1.3 77.3 - - - +
218A PRO* 1.3 65.5 - - - +
219A ASN* 3.9 2.4 + - - +
220A SER* 3.1 13.7 + - - -
221A THR* 2.9 30.5 + - - -
222A PHE* 2.8 42.9 + - + +
223A ARG 4.2 0.2 + - - -
224A CYS* 5.2 2.1 + - - +
226A GLN* 4.9 1.9 + - - +
278A PHE* 3.6 23.1 - - + -
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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