Contacts of the helix formed by residues 157 - 174 (chain E) in PDB entry 3HYW
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 PHE 157 (chain E).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150E ALA* 3.4 34.3 - - + -
154E VAL* 3.2 34.3 - - + -
155E SER* 4.1 5.8 + - - -
156E CSS 1.3 74.7 - - - -
158E GLY* 1.3 67.3 + - - +
159E PRO* 3.4 1.8 - - - -
160E ALA* 3.0 19.4 + - + +
161E TYR* 3.3 26.5 - + + -
184E PHE* 6.0 0.9 - + - -
186E THR* 3.6 7.9 - - - -
187E SER* 3.5 17.5 - - - -
188E GLU* 3.6 20.9 - - + -
194E PHE* 3.6 30.7 - - + -
195E GLY* 3.9 4.0 - - - -
251E MET* 4.9 0.2 - - - -
308E THR* 3.5 27.4 - - + -
800E PS9 3.8 3.8 - - - -
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Residues in contact with GLY 158 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157E PHE* 1.3 76.2 - - - +
159E PRO* 1.4 63.5 - - - +
161E TYR* 3.2 12.1 + - - +
162E GLU* 3.0 29.8 + - - +
194E PHE* 4.7 0.6 - - - -
349E ALA* 4.9 1.3 - - - +
800E PS9 3.1 43.5 - - - -
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Residues in contact with PRO 159 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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46E PRO* 4.2 3.0 - - + +
123E ILE* 3.7 13.8 - - + +
156E CSS 3.9 11.7 - - - -
157E PHE 3.5 2.9 - - - -
158E GLY* 1.4 90.3 - - - +
160E ALA* 1.3 56.9 + - - +
162E GLU* 3.6 13.3 - - - +
163E PHE* 2.9 30.8 + - - +
251E MET* 3.9 17.5 - - - -
441E FAD 3.8 41.5 - - + -
800E PS9 3.4 20.6 - - - -
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Residues in contact with ALA 160 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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148E ILE* 3.6 7.4 - - + +
149E GLY 4.1 11.2 - - - +
150E ALA* 5.6 1.3 - - + -
157E PHE* 3.0 12.2 + - + +
159E PRO* 1.3 75.7 - - - +
161E TYR* 1.3 60.7 + - - +
163E PHE* 3.5 0.5 + - - +
164E ALA* 3.0 29.6 + - - +
184E PHE* 3.6 22.0 - - + -
249E MET* 4.2 4.5 - - - -
251E MET* 3.8 31.1 - - + +
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Residues in contact with TYR 161 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157E PHE* 3.3 25.9 + - + -
158E GLY* 3.2 7.3 + - - +
160E ALA* 1.3 75.3 - - - +
162E GLU* 1.3 64.7 + - - +
164E ALA* 3.4 2.9 + - - +
165E LEU* 2.9 36.2 + - + +
184E PHE* 3.5 28.8 - + - -
188E GLU* 2.6 37.4 + - - -
191E LEU* 3.4 11.4 - - + +
192E GLY 3.1 19.7 + - - -
194E PHE* 3.7 24.2 - + + -
206E VAL* 3.5 29.6 - - + -
210E PHE* 3.6 21.3 - + - -
349E ALA* 5.5 3.4 - - + -
351E PHE* 5.0 4.3 - - + -
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Residues in contact with GLU 162 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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43E PRO 4.6 1.0 - - - +
46E PRO* 3.7 19.6 - - + +
158E GLY 3.0 16.3 + - - +
159E PRO* 3.6 14.9 - - - +
161E TYR* 1.3 75.1 - - - +
163E PHE* 1.3 58.7 + - - +
165E LEU* 3.2 1.4 + - - -
166E MET* 2.8 45.1 + - + +
348E ILE 3.4 3.4 - - - +
349E ALA* 3.6 13.7 - - + -
350E ASP* 2.7 47.0 + - - +
351E PHE* 4.6 3.6 - - - -
382E LYS* 3.2 22.5 - - - -
441E FAD 4.3 11.5 + - - -
800E PS9 4.6 2.8 - - - -
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Residues in contact with PHE 163 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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46E PRO* 4.4 11.2 - - + -
49E ALA* 3.9 20.4 - - + -
50E MET* 3.7 22.9 - - + -
123E ILE* 4.0 16.6 - - + -
132E THR* 3.9 20.0 - - + -
136E LEU* 3.9 15.7 - - + -
148E ILE* 3.8 17.0 - - + -
159E PRO 2.9 19.6 + - - +
160E ALA 3.8 0.9 - - - +
162E GLU* 1.3 76.3 - - - +
164E ALA* 1.3 52.1 + - - +
166E MET* 3.3 7.2 + - - +
167E LEU* 2.8 43.1 + - + +
247E PHE* 3.8 14.1 - + - -
249E MET* 3.7 42.0 - - + -
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Residues in contact with ALA 164 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148E ILE* 3.7 23.1 - - + -
160E ALA 3.0 18.3 + - - +
161E TYR* 3.6 5.4 - - - +
163E PHE* 1.3 78.0 - - - +
165E LEU* 1.3 57.6 + - + +
168E HIS* 3.0 25.6 + - - +
182E MET* 3.3 14.2 - - + +
184E PHE* 4.1 19.1 - - + -
210E PHE* 4.8 4.5 - - + -
215E ILE* 4.2 11.8 - - + +
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Residues in contact with LEU 165 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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161E TYR* 2.9 32.7 + - + +
162E GLU 3.8 0.7 - - - +
164E ALA* 1.3 72.8 - - - +
166E MET* 1.3 60.7 + - - +
168E HIS* 3.5 6.2 + - + +
169E TYR* 2.9 24.1 + - - +
206E VAL* 6.0 0.2 - - + -
209E LEU* 4.4 9.9 - - + -
210E PHE* 3.7 25.4 - - + -
213E ARG* 3.6 26.6 + - - +
215E ILE* 3.5 24.9 - - + -
351E PHE* 3.3 58.1 - - + +
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Residues in contact with MET 166 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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46E PRO* 4.0 24.2 - - + -
47E HIS* 3.3 42.0 - - + +
50E MET* 3.6 25.7 - - + +
52E TRP* 3.6 26.6 - - + -
162E GLU* 2.8 27.2 + - + +
163E PHE* 3.6 4.5 - - - +
165E LEU* 1.3 71.1 - - - +
167E LEU* 1.3 58.0 + - - +
169E TYR* 3.3 3.5 - - - +
170E GLU* 2.9 28.2 + - - +
350E ASP* 3.5 29.4 - - + +
351E PHE 3.5 11.9 + - - -
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Residues in contact with LEU 167 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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50E MET* 3.8 12.7 - - + +
136E LEU* 3.8 32.5 - - + -
139E LEU* 4.3 6.3 - - + -
140E TYR* 3.8 13.5 - - + +
146E VAL* 3.9 29.2 - - + -
148E ILE* 4.0 10.3 - - + -
163E PHE* 2.8 28.2 + - + +
164E ALA 3.8 3.4 - - - +
166E MET* 1.3 70.9 - - - +
168E HIS* 1.3 60.2 + - - +
170E GLU* 3.2 1.3 + - + -
171E LEU* 2.8 56.2 + - + +
182E MET* 4.1 3.4 - - + -
247E PHE* 4.2 2.7 - - + -
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Residues in contact with HIS 168 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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367A ARG 5.0 1.1 - - - -
368A GLU 4.8 3.6 - - - -
164E ALA 3.0 14.5 + - - +
165E LEU* 3.5 9.6 - - - +
166E MET 3.4 0.2 - - - -
167E LEU* 1.3 74.6 - - - +
169E TYR* 1.3 70.6 + - + +
171E LEU* 3.3 2.3 + - - +
172E LYS* 2.9 53.3 + - + +
177E ARG* 3.2 38.8 + - + +
182E MET* 3.8 17.3 - - - +
213E ARG* 3.3 55.2 + - + +
215E ILE* 4.2 7.6 - - + -
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Residues in contact with TYR 169 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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52E TRP* 3.5 29.6 - + - -
165E LEU 2.9 15.6 + - - +
166E MET 3.3 7.2 - - - +
167E LEU 3.3 0.2 - - - -
168E HIS* 1.3 82.7 - - + +
170E GLU* 1.3 61.7 + - - +
172E LYS* 3.4 5.5 + - - +
173E LYS* 3.0 76.5 + - + +
351E PHE 3.6 8.7 - - - +
352E GLY* 4.2 8.0 - - - -
353E GLU* 3.9 37.4 - - + +
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Residues in contact with GLU 170 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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50E MET* 3.5 23.3 - - + -
52E TRP* 3.2 29.5 + - + -
140E TYR* 3.4 25.4 - - + +
166E MET 2.9 7.4 + - - +
167E LEU* 3.2 4.5 + - + +
169E TYR* 1.3 79.3 - - - +
171E LEU* 1.3 61.5 + - - +
173E LYS* 3.1 8.1 + - - +
174E ARG* 2.7 66.1 + - - +
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Residues in contact with LEU 171 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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139E LEU* 4.6 6.7 - - + -
140E TYR* 3.7 29.4 - - + -
146E VAL* 5.2 0.2 - - + -
167E LEU* 2.8 37.6 + - + +
168E HIS 3.6 3.6 - - - +
170E GLU* 1.3 73.2 - - - +
172E LYS* 1.3 57.3 + - - +
174E ARG* 3.3 1.5 + - - -
175E GLY 3.1 7.3 + - - -
176E ILE* 3.0 49.7 + - + +
177E ARG* 3.9 15.3 - - - -
180E VAL* 3.7 36.3 - - + -
182E MET* 3.9 22.9 - - + -
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Residues in contact with LYS 172 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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368A GLU* 3.0 53.6 + - + +
369A ARG* 3.9 12.6 - - - +
431A SO4 2.8 41.6 + - - -
168E HIS* 2.9 42.8 + - + +
169E TYR* 3.6 6.3 - - - +
171E LEU* 1.3 74.5 - - - +
173E LYS* 1.3 67.8 + - + +
175E GLY* 3.2 9.9 + - - -
177E ARG* 3.9 6.2 - - + +
213E ARG* 5.7 1.6 - - - +
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Residues in contact with LYS 173 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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431A SO4 4.9 10.3 + - - -
169E TYR* 3.0 64.5 + - + +
170E GLU* 3.1 13.9 + - - +
172E LYS* 1.3 79.4 - - - +
174E ARG* 1.3 61.3 + - + +
175E GLY 3.2 0.4 + - - -
353E GLU* 5.3 4.0 + - - -
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Residues in contact with ARG 174 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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137E GLN* 4.0 14.1 + - - +
140E TYR* 3.4 55.9 - - - +
170E GLU* 2.7 48.1 + - - +
171E LEU 3.8 4.7 - - - +
172E LYS 3.2 0.4 - - - -
173E LYS* 1.3 77.6 - - + +
175E GLY* 1.3 62.0 + - - +
176E ILE* 3.3 21.5 + - + +
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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