Contacts of the helix formed by residues 203 - 218 (chain C) in PDB entry 2WQT
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 HIS 203 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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123C PHE* 3.8 12.6 - + - -
127C TYR* 4.6 6.3 + - - -
178C LEU* 3.6 22.2 + - + +
179C LYS* 3.6 35.6 + - + +
197C GLY 3.8 2.0 + - - -
200C CYS 3.0 12.1 + - - +
201C LEU 3.1 2.0 + - - -
202C GLY* 1.3 78.7 - - - +
204C PRO* 1.3 67.4 - - + +
205C LEU* 3.1 46.5 + - + +
206C ASN* 2.8 39.4 + - - +
207C ALA 3.7 0.3 + - - -
90D ASP* 3.7 27.0 + - + +
168D GLY* 5.6 4.6 - - - -
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Residues in contact with PRO 204 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108C ILE* 3.9 26.7 - - + -
110C LEU* 6.1 0.2 - - + -
178C LEU* 3.4 28.9 - - + +
197C GLY* 3.3 20.9 - - - +
200C CYS* 3.7 17.9 - - + +
203C HIS* 1.3 89.3 - - + +
205C LEU* 1.3 66.6 + - + +
207C ALA* 3.2 15.6 + - - +
208C ALA 3.2 8.1 + - - -
230C THR* 3.7 26.4 - - + +
233C LEU* 4.9 1.6 - - + -
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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
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110C LEU* 3.7 22.4 - - + -
123C PHE* 3.5 25.8 - - + +
126C LEU* 3.7 11.9 - - + -
127C TYR* 3.6 50.3 - - + -
130C ILE* 3.5 24.7 - - + -
178C LEU* 4.2 11.4 - - + -
203C HIS* 3.1 16.8 + - + -
204C PRO* 1.3 78.0 - - + +
206C ASN* 1.3 60.1 + - - +
208C ALA* 3.6 3.1 - - - +
209C VAL* 2.8 31.9 + - - +
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Residues in contact with ASN 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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123C PHE* 3.4 20.5 - - - -
201C LEU* 2.9 34.2 + - + +
202C GLY* 4.0 0.8 - - - -
203C HIS* 2.8 18.0 + - - +
205C LEU* 1.3 76.0 - - - +
207C ALA* 1.3 59.7 + - - +
209C VAL* 3.3 6.4 + - - +
210C TRP* 2.8 30.5 + - - +
89D GLY* 3.5 6.2 - - - -
90D ASP 3.1 24.2 + - - -
91D ASN 4.7 0.2 + - - -
92D GLU* 3.4 30.0 + - - +
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Residues in contact with ALA 207 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61C VAL* 3.9 20.3 - - + +
64C THR* 4.5 4.3 - - + -
200C CYS* 4.6 3.8 - - - -
201C LEU* 3.9 18.2 - - + +
203C HIS 3.7 1.2 + - - -
204C PRO 3.2 9.5 + - - +
206C ASN* 1.3 78.9 - - - +
208C ALA* 1.3 56.8 + - - +
210C TRP* 3.4 3.5 + - - +
211C LEU* 3.0 30.1 + - - +
230C THR* 3.2 31.0 - - - +
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Residues in contact with ALA 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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110C LEU* 3.8 22.4 - - + -
126C LEU* 3.5 32.0 - - + +
204C PRO 3.2 7.2 + - - +
205C LEU* 3.6 2.9 - - - +
207C ALA* 1.3 76.0 - - - +
209C VAL* 1.3 59.1 + - - +
211C LEU* 3.3 5.8 + - - +
212C ALA* 2.9 30.7 + - - +
228C ILE* 4.6 16.8 - - + +
230C THR* 4.5 3.9 - - + +
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Residues in contact with VAL 209 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121C ILE* 3.6 14.1 - - + +
122C THR 4.3 0.9 - - - -
123C PHE* 3.8 33.7 - - + +
126C LEU* 4.1 18.8 - - + -
205C LEU 2.8 24.0 + - - +
206C ASN* 3.7 6.7 - - - +
208C ALA* 1.3 71.4 - - - +
210C TRP* 1.3 67.7 + - - +
212C ALA* 3.2 4.2 + - - +
213C ARG* 3.1 58.1 + - - +
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Residues in contact with TRP 210 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39C TYR* 4.4 6.7 - - - -
61C VAL* 4.2 5.4 - - + -
76C GLN* 3.7 31.3 + - - +
77C PRO* 3.5 39.7 - - + +
78C ASP* 3.7 36.8 - - - -
79C PHE* 4.3 12.3 - + + -
201C LEU* 4.5 8.1 - - + -
206C ASN 2.8 17.8 + - - +
207C ALA* 3.7 8.7 - - - +
209C VAL* 1.3 78.7 - - - +
211C LEU* 1.3 91.0 + - + +
213C ARG* 3.5 9.9 + - + +
214C LYS* 3.1 44.4 + - + +
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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
----------------------------------------------------------
59C ARG* 3.7 25.1 - - + -
61C VAL* 3.9 15.5 - - + -
79C PHE* 3.7 29.6 - - + -
207C ALA 3.0 18.0 + - - +
208C ALA 3.7 2.9 - - - +
210C TRP* 1.3 82.8 - - + +
212C ALA* 1.3 65.1 + - - +
214C LYS* 3.1 2.7 + - - +
215C MET* 2.9 45.9 + - + +
222C LEU* 4.1 6.1 - - + -
228C ILE* 3.7 40.6 - - + -
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Residues in contact with ALA 212 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116C LEU* 4.1 33.4 - - + +
118C ALA 4.6 0.8 - - - +
121C ILE* 3.8 18.4 - - + -
126C LEU* 4.4 4.3 - - + -
208C ALA 2.9 18.1 + - - +
209C VAL 3.6 4.0 - - - +
211C LEU* 1.3 75.7 - - - +
213C ARG* 1.3 58.0 + - - +
215C MET* 3.7 1.9 + - - +
216C ALA* 3.1 29.5 + - - +
222C LEU* 3.9 15.0 - - + +
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Residues in contact with ARG 213 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118C ALA 4.6 0.7 - - - -
119C THR* 3.4 26.1 - - - +
120C ASP* 4.0 7.6 + - - +
121C ILE* 2.8 41.2 + - + +
122C THR* 4.2 7.3 - - - +
123C PHE 5.2 0.4 - - - +
209C VAL* 3.1 35.9 + - - +
210C TRP* 3.6 8.0 - - - +
212C ALA* 1.3 73.7 - - - +
214C LYS* 1.3 66.1 + - - +
216C ALA* 3.2 6.3 + - - +
217C SER* 2.9 25.4 + - - -
84D ALA 5.4 3.4 + - - -
87D CYS 4.9 9.9 + - - -
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Residues in contact with LYS 214 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39C TYR* 4.3 24.7 + - - -
76C GLN* 4.4 20.6 - - - +
79C PHE* 4.5 7.4 - - + -
210C TRP* 3.1 38.2 + - + +
211C LEU* 3.1 10.3 + - - +
213C ARG* 1.3 78.0 - - - +
215C MET* 1.3 75.1 + - + +
217C SER* 3.0 12.4 + - - +
218C LEU* 2.9 46.1 + - + +
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Residues in contact with MET 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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59C ARG* 3.8 33.2 - - - -
79C PHE* 3.2 46.9 - - + -
211C LEU* 2.9 25.1 + - + +
212C ALA 4.0 3.4 - - - +
214C LYS* 1.3 84.5 - - + +
216C ALA* 1.3 60.8 + - - +
218C LEU* 3.3 14.4 + - + +
220C GLU* 2.9 49.3 + - - +
222C LEU* 3.9 31.2 - - + +
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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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116C LEU 4.0 4.5 - - - +
117C PRO 3.4 29.1 - - - +
118C ALA 3.9 9.2 - - - +
119C THR* 3.8 13.8 - - + +
212C ALA 3.1 19.0 + - - +
213C ARG 3.6 4.7 - - - +
215C MET* 1.3 76.0 - - - +
217C SER* 1.3 57.8 + - - +
219C GLY* 3.1 18.0 + - - -
221C PRO* 4.2 12.9 - - - +
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Residues in contact with SER 217 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119C THR* 3.9 16.8 - - - +
213C ARG 2.9 14.4 + - - -
214C LYS* 3.0 18.6 + - - +
216C ALA* 1.3 76.0 - - - +
218C LEU* 1.3 66.2 + - - +
219C GLY 3.1 3.4 + - - -
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Residues in contact with LEU 218 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39C TYR* 5.9 2.9 - - + -
79C PHE* 4.0 18.6 - - + -
214C LYS* 2.9 27.9 + - + +
215C MET* 3.7 31.2 - - + +
216C ALA 3.2 0.6 - - - -
217C SER* 1.3 85.7 + - - +
219C GLY* 1.3 60.9 + - - +
220C GLU* 3.5 20.7 + - + +
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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
------------------------------------------------------------
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