Contacts of the helix formed by residues 157 - 171 (chain C) in PDB entry 2O1S
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 ALA 157 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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124C SER* 3.2 31.4 - - - +
154C ALA 3.4 3.2 + - - -
156C THR* 1.3 80.8 - - - +
158C GLY* 1.3 67.0 + - - +
159C MSE 3.1 4.9 - - + +
160C ALA* 3.2 11.8 + - - +
161C PHE* 3.1 15.8 - - - -
368C ILE* 3.3 21.5 - - + +
398C ARG* 4.2 13.5 - - - +
162D GLU* 3.8 3.4 - - - +
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Residues in contact with GLY 158 (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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157C ALA* 1.3 72.0 - - - +
159C MSE 1.3 63.9 + - - +
161C PHE* 2.9 9.6 + - - +
162C GLU* 2.9 25.8 + - - +
158D GLY* 3.3 38.1 - - - -
162D GLU* 2.9 19.2 + - - +
371D GLN* 4.4 2.7 - - - -
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Residues in contact with MSE 159 (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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124C SER* 3.5 29.2 - - - +
125C THR* 3.7 18.4 - - + -
128C SER* 3.6 21.4 + - - +
157C ALA* 4.1 1.5 - - + +
158C GLY* 1.3 75.7 - - - +
160C ALA* 1.3 56.9 + - - +
162C GLU* 3.3 12.5 + - - +
163C ALA* 2.9 29.5 + - - +
398C ARG* 3.6 26.0 - - - +
371D GLN* 3.6 24.3 - - + +
372D HIS* 4.7 0.6 - - - +
375D THR* 3.4 27.6 - - - +
402D GLN* 3.4 28.3 - - + +
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Residues in contact with ALA 160 (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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124C SER* 4.3 7.6 + - - +
127C ILE* 4.4 12.3 - - + -
150C ILE* 4.5 3.4 - - + -
154C ALA 4.4 4.9 - - - +
155C ILE* 3.9 31.0 - - + +
157C ALA 3.2 11.3 + - - +
158C GLY 3.2 0.4 - - - -
159C MSE 1.3 81.2 - - - +
161C PHE* 1.3 57.7 + - - +
163C ALA* 3.3 5.8 + - - +
164C MSE 2.9 42.3 + - + +
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Residues in contact with PHE 161 (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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155C ILE 4.1 9.6 - - - -
156C THR* 3.5 26.7 - - - -
157C ALA 3.1 22.9 - - - -
158C GLY* 2.9 5.5 + - - +
160C ALA* 1.3 72.9 - - - +
162C GLU* 1.3 66.6 + - - +
164C MSE 3.9 17.6 - - + +
165C ASN* 2.9 30.7 + - - +
242C LEU* 5.0 12.1 - - + -
246C LEU* 4.9 9.5 - - + +
161D PHE* 3.2 55.2 - + + -
165D ASN* 2.8 31.9 - - - -
242D LEU* 6.0 0.7 - - + -
246D LEU* 4.6 10.8 - - + -
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Residues in contact with GLU 162 (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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158C GLY 2.9 18.6 + - - +
159C MSE 3.5 6.3 - - - +
161C PHE* 1.3 74.9 - - - +
163C ALA* 1.3 58.4 + - - +
165C ASN* 3.2 6.7 + - - +
166C HIS* 2.9 28.8 + - - +
156D THR 4.1 9.9 - - - +
157D ALA* 4.0 0.7 - - - +
158D GLY* 3.0 30.8 + - - +
161D PHE* 5.0 0.2 - - - -
366D VAL 5.7 0.7 - - - +
368D ILE 4.1 1.0 - - - +
369D ALA* 3.1 38.8 - - + +
370D GLU 4.4 0.7 + - - -
371D GLN* 3.5 19.1 + - - +
372D HIS* 2.9 35.2 + - + +
398D ARG* 6.1 1.0 - - - -
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Residues in contact with ALA 163 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124C SER 6.1 0.2 - - - +
127C ILE* 3.8 12.8 - - + -
128C SER* 3.5 31.9 - - - +
131C ILE* 3.1 11.2 - - + +
159C MSE 2.9 17.6 + - - +
160C ALA* 3.6 4.7 - - - +
162C GLU* 1.3 75.3 - - - +
164C MSE 1.3 58.8 + - - +
166C HIS* 2.8 3.6 + - - +
167C ALA 2.8 25.6 + - - -
372D HIS* 3.6 16.1 - - + -
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Residues in contact with MSE 164 (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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127C ILE* 4.0 20.4 - - + +
155C ILE* 3.9 35.0 - - + +
160C ALA* 2.9 32.9 + - + +
161C PHE* 4.1 16.4 - - + +
163C ALA* 1.3 72.2 - - - +
165C ASN* 1.3 55.7 + - - +
167C ALA* 3.8 1.8 - - - -
168C GLY 2.9 22.2 + - - -
242C LEU* 5.4 0.2 - - + -
243C PHE* 4.0 19.3 - - + -
246C LEU* 3.5 42.2 - - + +
248C PHE* 3.6 26.8 - - + -
277C PHE* 4.3 10.8 - - - -
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Residues in contact with ASN 165 (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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161C PHE 2.9 19.6 + - - +
162C GLU* 3.3 7.9 - - - +
163C ALA 3.0 0.2 + - - -
164C MSE 1.3 75.2 - - - +
166C HIS* 1.3 65.4 + - - +
168C GLY* 3.2 2.9 + - - -
169C ASP* 3.2 32.2 + - - +
246C LEU* 3.8 23.7 - - - +
156D THR* 5.7 9.6 - - - +
161D PHE* 3.2 34.6 - - - -
242D LEU* 5.5 1.0 - - - +
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Residues in contact with HIS 166 (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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131C ILE* 4.0 4.0 - - + +
162C GLU 2.9 8.1 + - - +
163C ALA 2.8 7.9 + - - +
165C ASN* 1.3 76.8 - - - +
167C ALA* 1.3 63.6 + - - +
169C ASP* 3.0 10.7 + - + +
170C ILE* 3.0 63.6 + - + +
364D PHE* 4.5 9.3 - + - +
365D ASP 4.5 7.7 + - - -
366D VAL* 3.8 34.4 - - + +
372D HIS* 2.9 32.0 - + + +
376D PHE* 3.9 20.9 - + - -
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Residues in contact with ALA 167 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131C ILE* 3.8 17.8 - - + +
163C ALA 2.8 14.3 + - - +
164C MSE 3.6 5.8 - - - +
166C HIS* 1.3 77.9 - - - +
168C GLY* 1.3 57.0 + - - +
170C ILE* 4.3 1.1 - - - -
171C ARG* 2.6 35.5 + - - -
172C PRO* 3.5 20.1 - - + +
174C MSE 4.7 1.3 - - - -
248C PHE* 3.8 23.8 - - + -
275C PRO* 3.7 5.6 - - + +
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Residues in contact with GLY 168 (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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164C MSE 2.9 11.9 + - - -
165C ASN 3.2 4.4 + - - -
167C ALA* 1.3 76.0 - - - +
169C ASP* 1.3 61.1 + - - +
171C ARG* 3.8 14.8 - - - +
246C LEU 3.3 24.5 - - - -
247C GLY* 4.2 14.5 - - - -
248C PHE* 4.6 1.0 - - - -
275C PRO* 4.8 2.2 - - - -
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Residues in contact with ASP 169 (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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165C ASN* 3.2 20.9 + - - +
166C HIS* 3.0 15.8 + - + +
168C GLY* 1.3 80.5 - - - +
170C ILE* 1.3 68.9 + - + +
171C ARG* 3.5 6.8 + - - +
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Residues in contact with ILE 170 (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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131C ILE* 3.8 19.7 - - + -
135C VAL* 4.0 18.2 - - + -
166C HIS* 3.0 61.2 + - + +
169C ASP* 1.3 73.3 - - + +
171C ARG* 1.3 72.4 + - - +
172C PRO* 3.7 11.1 - - + +
364D PHE* 5.0 13.0 - - + -
376D PHE* 5.0 0.7 - - + -
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Residues in contact with ARG 171 (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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167C ALA 2.6 19.3 + - - -
168C GLY 3.8 15.3 - - - +
169C ASP 3.6 11.9 - - - +
170C ILE* 1.3 77.4 - - - +
172C PRO* 1.3 68.6 - - - +
173C ASP* 3.9 2.9 + - - +
247C GLY 3.6 21.0 + - - -
249C ASN 6.0 0.2 - - - +
273C LYS* 4.7 6.1 + - - +
274C GLY* 4.3 16.7 - - - +
275C PRO* 3.7 25.6 + - + +
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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