Contacts of the helix formed by residues 206 - 226 (chain C) in PDB entry 6V3O
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 THR 206 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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204C ASP 4.7 5.6 - - - +
205C ILE* 1.3 80.3 - - - +
207C ASP* 1.3 62.6 + - - +
208C ASP* 4.0 5.7 + - - +
209C ASP* 2.7 36.7 + - - +
210C LYS* 3.0 27.6 + - - +
262D ARG* 5.1 2.3 + - - -
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Residues in contact with ASP 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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205C ILE 4.7 2.4 - - - +
206C THR* 1.3 79.0 - - - +
208C ASP* 1.3 61.4 + - - +
210C LYS* 3.4 27.1 + - - +
211C GLN* 2.9 32.7 + - - +
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Residues in contact with ASP 208 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
206C THR* 3.2 4.2 + - - +
207C ASP* 1.3 78.1 + - - +
209C ASP* 1.3 65.3 + - - +
211C GLN* 3.2 7.6 + - - +
212C GLU* 2.9 27.5 + - - +
144D GLU* 2.8 40.3 - - - +
262D ARG* 3.5 39.7 - - - +
265D THR* 3.7 15.5 - - + +
269D ASN* 5.0 2.0 + - - -
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Residues in contact with ASP 209 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
205C ILE* 4.5 9.6 - - + -
206C THR* 2.7 28.4 + - - +
208C ASP* 1.3 76.7 - - - +
210C LYS* 1.3 56.6 + - - +
212C GLU* 3.3 4.8 + - - +
213C LEU* 2.8 43.7 + - + +
262D ARG* 2.7 28.6 + - - +
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Residues in contact with LYS 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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200C LEU* 3.6 21.8 - - + +
205C ILE* 3.8 32.8 + - + +
206C THR 3.0 15.8 + - - +
207C ASP* 3.6 29.6 + - - +
209C ASP* 1.3 76.3 - - - +
211C GLN* 1.3 62.6 + - - +
213C LEU 3.4 0.2 + - - -
214C ASP* 2.9 27.1 + - + +
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Residues in contact with GLN 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 ASP* 2.9 20.3 + - - +
208C ASP* 3.2 7.0 + - - +
210C LYS* 1.3 77.0 - - - +
212C GLU* 1.3 58.0 + - + +
214C ASP* 3.4 5.9 - - - +
215C GLU* 3.2 48.0 + - + +
265D THR* 3.2 29.1 - - + +
268D LYS* 4.7 7.6 - - - +
269D ASN* 3.7 27.0 + - - +
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Residues in contact with GLU 212 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
208C ASP 2.9 13.5 + - - +
209C ASP* 3.9 5.0 - - - +
211C GLN* 1.3 74.8 - - - +
213C LEU* 1.3 60.5 + - - +
215C GLU* 3.4 12.7 + - - +
216C ALA* 2.9 28.1 + - - +
219C ARG* 5.2 1.2 + - - -
258D LYS 5.2 2.1 - - - +
261D ARG* 3.3 24.5 - - + +
262D ARG* 2.8 55.3 + - - +
265D THR* 2.6 29.8 + - + +
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Residues in contact with LEU 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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196C CYS* 4.2 20.5 - - - +
199C GLN* 3.3 59.0 - - + +
200C LEU* 3.7 17.3 - - + +
205C ILE* 4.1 15.5 - - + -
209C ASP* 2.8 31.1 + - + +
212C GLU* 1.3 69.2 - - + +
214C ASP* 1.3 60.5 + - - +
216C ALA* 3.3 6.8 + - + +
217C LEU* 2.9 29.2 + - - +
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Residues in contact with ASP 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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40C LEU* 5.7 0.2 - - - -
44C ARG* 2.7 39.6 + - - +
200C LEU* 4.2 13.5 - - + +
210C LYS* 2.9 21.9 + - + +
211C GLN* 3.4 9.0 - - + +
213C LEU* 1.3 75.5 - - - +
215C GLU* 1.3 57.4 + - + +
217C LEU* 2.9 25.0 + - - +
218C GLN* 2.9 37.9 + - - +
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Residues in contact with GLU 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 GLN* 3.2 37.3 + - + +
212C GLU* 3.4 12.4 + - - +
214C ASP* 1.3 76.8 - - + +
216C ALA* 1.3 57.0 + - - +
218C GLN* 3.6 18.2 + - - +
219C ARG* 3.0 42.5 + - - +
261D ARG* 5.4 1.9 + - - +
265D THR* 5.2 4.1 + - - -
268D LYS* 5.9 4.0 - - - +
275D ARG* 3.4 25.7 + - - +
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Residues in contact with ALA 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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196C CYS* 3.9 17.0 - - - -
212C GLU 2.9 17.6 + - - +
213C LEU* 3.5 9.0 - - + +
215C GLU* 1.3 74.3 - - - +
217C LEU* 1.3 64.4 + - - +
219C ARG* 3.2 24.4 + - - +
220C GLU* 3.0 28.4 + - + +
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Residues in contact with LEU 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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40C LEU* 3.9 30.1 - - + -
41C LEU* 3.9 15.7 - - + -
44C ARG* 5.5 4.7 - - + -
193C ILE* 3.9 42.2 - - + +
196C CYS* 4.0 13.2 - - + -
197C LEU* 4.7 5.2 - - + +
200C LEU* 4.1 14.1 - - + -
213C LEU 2.9 14.3 + - - +
214C ASP* 2.9 14.3 + - - +
216C ALA* 1.3 77.2 - - - +
218C GLN* 1.3 62.5 + - + +
220C GLU* 3.3 5.1 + - - +
221C ILE* 3.1 36.2 + - + +
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Residues in contact with GLN 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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44C ARG* 4.1 27.8 - - + +
48C ILE* 3.3 25.0 - - + +
214C ASP* 2.9 45.8 + - - +
215C GLU* 3.9 16.5 - - - +
217C LEU* 1.3 75.7 - - + +
219C ARG* 1.3 63.2 + - - +
221C ILE* 3.3 4.3 + - - -
222C GLN* 3.0 23.2 + - - +
430D ALA* 6.1 0.7 - - + -
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Residues in contact with ARG 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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212C GLU 5.2 0.8 + - - -
215C GLU* 3.0 35.6 + - - +
216C ALA* 3.3 31.4 - - - +
217C LEU 3.2 0.2 - - - -
218C GLN* 1.3 76.7 - - - +
220C GLU* 1.3 62.7 + - + +
222C GLN* 3.3 6.7 + - - +
223C ALA* 2.9 28.8 + - - +
261D ARG* 3.3 34.7 - - - +
275D ARG* 4.1 9.1 - - - +
329D GLU* 6.0 1.8 - - - +
430D ALA* 3.1 38.0 + - + +
431D ILE* 4.0 9.6 - - - +
433D ASP* 3.9 4.1 + - - +
434D GLY* 3.4 25.0 - - - -
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Residues in contact with GLU 220 (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 LYS* 4.1 13.0 - - - +
192C ARG* 2.8 63.4 + - + +
193C ILE* 3.7 22.9 - - + +
196C CYS* 5.4 2.0 - - - -
216C ALA* 3.0 21.4 + - + +
217C LEU* 3.3 4.5 + - - +
219C ARG* 1.3 79.7 - - + +
221C ILE* 1.3 63.6 + - - +
223C ALA* 3.3 4.1 + - - +
224C ALA* 3.0 24.4 + - - +
329D GLU* 3.3 16.4 - - - +
435D SER* 5.7 0.3 + - - -
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Residues in contact with ILE 221 (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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41C LEU* 3.7 42.8 - - + +
44C ARG* 4.9 4.5 - - + -
45C PHE* 3.7 35.7 - - + +
48C ILE* 3.7 10.8 - - + -
104C HIS* 5.6 0.2 + - - -
108C LEU* 4.0 21.8 - - + -
193C ILE* 4.5 11.4 - - + -
217C LEU* 3.1 26.5 + - + +
218C GLN* 3.8 7.0 - - - +
220C GLU* 1.3 76.0 - - - +
222C GLN* 1.3 63.0 + - - +
224C ALA* 3.3 5.4 + - - +
225C PHE* 3.0 21.1 + - - +
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Residues in contact with GLN 222 (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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48C ILE* 3.8 33.7 - - + +
51C ASP* 5.1 8.6 + - - +
52C LEU* 5.1 6.0 - - + +
218C GLN 3.0 16.6 + - - +
219C ARG* 3.6 5.4 - - - +
221C ILE* 1.3 77.1 - - - +
223C ALA* 1.3 63.7 + - - +
225C PHE* 3.0 15.9 + - + +
226C ARG* 3.0 29.1 + - + +
427D GLY 3.6 13.7 + - - -
428D ASP* 3.2 27.7 + - - +
430D ALA* 3.4 25.9 - - - +
431D ILE* 4.0 11.3 - - + +
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Residues in contact with ALA 223 (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 LYS* 3.9 18.8 - - + -
219C ARG 2.9 14.2 + - - +
220C GLU* 3.5 10.3 - - - +
222C GLN* 1.3 75.9 - - - +
224C ALA* 1.3 60.0 + - - +
226C ARG* 3.2 6.8 + - - -
227C THR* 2.9 27.7 + - - +
329D GLU* 4.2 16.8 - - + +
332D MET* 3.9 9.8 - - + +
431D ILE* 3.9 19.2 - - + +
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Residues in contact with ALA 224 (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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104C HIS* 2.9 25.8 + - + +
108C LEU* 6.6 0.2 - - + -
186C LEU* 4.7 13.7 - - + +
189C LYS* 3.9 21.2 - - + +
190C ASN* 6.1 0.9 - - - +
193C ILE* 5.0 8.5 - - + -
220C GLU 3.0 16.7 + - - +
221C ILE* 3.8 6.5 - - - +
222C GLN 3.2 0.2 - - - -
223C ALA* 1.3 76.3 - - - +
225C PHE* 1.3 60.5 + - - +
227C THR* 3.4 16.8 + - - +
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Residues in contact with PHE 225 (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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45C PHE* 3.6 33.0 - + + -
48C ILE* 5.1 9.0 - - + -
49C LEU* 3.8 22.9 - - + -
52C LEU* 3.8 30.5 - - + -
53C HIS* 3.9 11.4 - + - -
97C LEU* 4.1 13.7 - - + -
100C SER* 3.9 19.7 - - - -
101C SER* 4.0 4.9 - - - -
104C HIS* 3.6 27.5 + + + +
221C ILE 3.0 12.3 + - - +
222C GLN* 3.0 11.0 + - - +
224C ALA* 1.3 78.4 - - - +
226C ARG* 1.3 63.7 + - + +
227C THR 3.4 4.1 + - - +
228C ASP* 5.8 0.3 - - - -
334D ARG* 4.8 6.1 + - - -
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Residues in contact with ARG 226 (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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52C LEU* 3.2 43.9 - - + +
53C HIS* 4.6 8.5 + - - -
222C GLN* 3.0 22.9 + - + +
223C ALA 3.2 2.9 + - - +
225C PHE* 1.3 87.9 - - + +
227C THR* 1.3 64.1 + - - +
228C ASP 4.0 1.4 + - - -
332D MET* 3.2 27.0 - - + +
333D TRP* 4.0 1.0 + - - -
334D ARG* 2.8 68.0 + - - +
426D CYS 3.0 27.5 + - - -
427D GLY 4.6 0.6 - - - -
428D ASP* 2.9 33.4 + - - +
431D ILE* 4.7 0.4 - - + -
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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