Contacts of the helix formed by residues 203 - 218 (chain G) 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 G).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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123G PHE* 3.8 13.9 - + + -
127G TYR* 4.5 6.9 + - - -
178G LEU* 3.6 22.8 + - + +
179G LYS* 3.6 36.1 + - + +
197G GLY 3.8 2.0 + - - -
200G CYS 3.0 11.3 + - - +
201G LEU 3.1 2.0 + - - -
202G GLY* 1.3 80.1 - - - +
204G PRO* 1.3 68.6 - - + +
205G LEU* 3.1 46.3 + - + +
206G ASN* 2.8 38.1 + - - +
207G ALA 3.7 0.5 + - - -
90J ASP* 3.7 25.9 + - + +
168J GLY* 5.7 4.0 - - - -
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Residues in contact with PRO 204 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108G ILE* 3.9 26.7 - - + -
110G LEU* 6.0 0.2 - - + -
178G LEU* 3.4 30.7 - - + +
197G GLY* 3.4 18.6 - - - +
200G CYS* 4.0 17.3 - - + +
203G HIS* 1.3 89.0 - - + +
205G LEU* 1.3 65.0 + - + +
207G ALA* 3.2 8.5 + - - +
208G ALA 3.2 15.2 + - - -
230G THR* 3.7 27.2 - - + +
233G LEU* 4.9 1.6 - - + -
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Residues in contact with LEU 205 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110G LEU* 3.7 22.0 - - + -
123G PHE* 3.5 25.6 - - + +
126G LEU* 3.8 12.1 - - + -
127G TYR* 3.6 50.5 - - + -
130G ILE* 3.5 25.6 - - + -
178G LEU* 4.2 11.7 - - + -
203G HIS* 3.0 16.0 + - + +
204G PRO* 1.3 76.3 - - + +
206G ASN* 1.3 59.9 + - - +
208G ALA* 3.6 4.7 - - - +
209G VAL* 2.8 32.6 + - - +
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Residues in contact with ASN 206 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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123G PHE* 3.3 22.0 - - - -
201G LEU* 3.0 34.5 + - + +
202G GLY* 4.1 1.0 - - - -
203G HIS* 2.8 18.3 + - - +
205G LEU* 1.3 76.6 - - - +
207G ALA* 1.3 58.4 + - - +
209G VAL* 3.3 6.6 + - - +
210G TRP* 2.9 30.5 + - - +
89J GLY* 3.6 5.0 - - - -
90J ASP 3.1 24.4 + - - -
92J GLU* 3.5 30.2 + - - +
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Residues in contact with ALA 207 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61G VAL* 4.0 18.9 - - + +
64G THR* 4.6 2.7 - - + -
200G CYS* 4.5 5.8 - - - -
201G LEU* 3.9 18.2 - - + +
203G HIS 3.7 1.6 + - - -
204G PRO 3.2 9.7 + - - +
206G ASN* 1.3 78.6 - - - +
208G ALA* 1.3 57.3 + - - +
210G TRP* 3.4 3.9 + - - +
211G LEU* 3.0 30.0 + - - +
230G THR* 3.2 31.4 - - - +
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Residues in contact with ALA 208 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110G LEU* 3.8 23.3 - - + -
126G LEU* 3.4 30.5 - - + +
204G PRO 3.2 7.2 + - - +
205G LEU* 3.6 2.9 - - - +
207G ALA* 1.3 78.5 - - - +
209G VAL* 1.3 57.6 + - - +
211G LEU* 3.3 6.4 + - - +
212G ALA* 2.8 31.5 + - - +
228G ILE* 4.5 16.5 - - + +
230G THR* 4.5 3.5 - - + +
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Residues in contact with VAL 209 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121G ILE* 3.7 13.2 - - + +
122G THR 4.3 1.3 - - - -
123G PHE* 3.8 33.9 - - + +
126G LEU* 4.0 20.2 - - + -
205G LEU 2.8 25.9 + - - +
206G ASN* 3.7 6.7 - - - +
207G ALA 3.3 0.2 - - - -
208G ALA* 1.3 70.5 - - - +
210G TRP* 1.3 65.8 + - - +
212G ALA* 3.2 4.5 + - - +
213G ARG* 3.0 57.7 + - - +
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Residues in contact with TRP 210 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39G TYR* 4.4 5.8 - - - -
61G VAL* 4.2 7.0 - - + -
76G GLN* 3.7 30.5 + - - +
77G PRO* 3.5 39.3 - - + +
78G ASP* 3.7 37.7 - - - -
79G PHE* 4.3 13.2 - + + -
201G LEU* 4.5 7.2 - - + -
206G ASN 2.9 17.7 + - - +
207G ALA* 3.6 8.3 - - - +
209G VAL* 1.3 79.1 - - - +
211G LEU* 1.3 90.8 + - + +
213G ARG* 3.4 9.5 + - - +
214G LYS* 3.1 48.6 + - + +
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Residues in contact with LEU 211 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59G ARG* 3.7 24.9 - - + +
61G VAL* 3.9 15.3 - - + -
79G PHE* 3.7 29.8 - - + -
207G ALA 3.0 17.4 + - - +
208G ALA* 3.7 3.4 - - - +
210G TRP* 1.3 81.7 - - + +
212G ALA* 1.3 66.0 + - - +
213G ARG 3.2 0.2 + - - -
214G LYS* 3.2 2.2 + - - +
215G MET* 2.9 48.2 + - + +
222G LEU* 4.1 6.5 - - + -
228G ILE* 3.7 40.4 - - + -
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Residues in contact with ALA 212 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116G LEU* 4.0 33.2 - - + +
118G ALA 4.9 0.4 - - - -
121G ILE* 3.8 18.4 - - + -
126G LEU* 4.4 4.7 - - + -
208G ALA 2.8 20.5 + - - +
209G VAL 3.6 5.2 - - - +
211G LEU* 1.3 72.8 - - - +
213G ARG* 1.3 57.5 + - - +
215G MET* 3.6 1.9 + - - +
216G ALA* 3.1 29.3 + - - +
222G LEU* 3.9 15.1 + - + +
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Residues in contact with ARG 213 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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118G ALA 4.6 1.6 - - - -
119G THR* 3.4 25.0 - - - +
120G ASP* 4.0 6.9 + - - +
121G ILE* 2.7 41.7 + - + +
122G THR* 4.2 7.7 - - - +
123G PHE 5.2 0.4 - - - +
209G VAL* 3.0 33.0 + - - +
210G TRP* 3.6 10.3 - - - +
212G ALA* 1.3 73.4 - - - +
214G LYS* 1.3 66.4 + - - +
216G ALA* 3.2 6.4 + - - +
217G SER* 2.9 25.1 + - - -
84J ALA 5.6 2.0 + - - -
87J CYS 5.1 8.5 + - - -
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Residues in contact with LYS 214 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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39G TYR* 4.3 24.4 + - - -
76G GLN* 4.3 21.7 - - - +
79G PHE* 4.5 7.6 - - + -
210G TRP* 3.1 39.1 + - + +
211G LEU* 3.2 9.6 + - - +
213G ARG* 1.3 77.6 - - - +
215G MET* 1.3 74.0 + - + +
217G SER* 3.0 13.2 + - - +
218G LEU* 2.9 47.3 + - + +
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Residues in contact with MET 215 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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59G ARG* 3.8 33.7 - - - -
79G PHE* 3.2 47.3 - - + -
211G LEU* 2.9 25.6 + - + +
212G ALA 4.0 3.4 - - - +
214G LYS* 1.3 85.8 - - + +
216G ALA* 1.3 61.4 + - - +
218G LEU* 3.3 13.6 + - + +
220G GLU* 2.9 48.8 + - - +
222G LEU* 3.8 30.3 - - + +
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Residues in contact with ALA 216 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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116G LEU 4.0 3.8 - - - +
117G PRO 3.4 28.9 - - - +
118G ALA 3.9 9.6 - - - +
119G THR* 3.8 14.2 - - + +
212G ALA 3.1 19.1 + - - +
213G ARG 3.5 4.9 - - - +
215G MET* 1.3 77.6 - - - +
217G SER* 1.3 56.7 + - - +
219G GLY* 3.2 18.2 + - - -
221G PRO* 4.2 13.4 - - - +
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Residues in contact with SER 217 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119G THR* 3.8 17.0 - - - +
213G ARG 2.9 13.8 + - - -
214G LYS* 3.0 19.4 + - - +
216G ALA* 1.3 73.1 - - - +
218G LEU* 1.3 68.0 + - - +
219G GLY 3.1 5.2 + - - -
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Residues in contact with LEU 218 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39G TYR* 6.0 2.0 - - + -
79G PHE* 4.0 18.2 - - + -
214G LYS* 2.9 32.4 + - + +
215G MET* 3.7 28.0 - - + +
216G ALA 3.2 0.6 - - - -
217G SER* 1.3 84.9 + - - +
219G GLY* 1.3 60.7 + - - +
220G GLU* 3.5 21.4 + - + +
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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
------------------------------------------------------------
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