Contacts of the helix formed by residues 146 - 166 (chain C) in PDB entry 2AYN
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 146 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147C SER* 1.3 68.9 + - - +
148C ALA* 3.0 15.0 - - + +
149C GLN* 3.1 32.5 + - - +
150C TYR* 3.5 16.0 + - - -
213C LYS* 5.1 8.4 - - - +
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Residues in contact with SER 147 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146C ALA* 1.3 72.9 - - - +
148C ALA* 1.3 68.1 + - - +
150C TYR* 3.1 22.1 + - - +
151C ILE* 3.3 11.8 + - - +
180C MET* 4.6 5.7 + - - +
181C ALA* 3.7 34.0 + - - +
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Residues in contact with ALA 148 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146C ALA* 4.0 10.9 - - + +
147C SER* 1.3 77.4 - - - +
149C GLN* 1.3 66.7 + - - +
151C ILE* 2.8 20.2 + - - +
152C THR* 2.9 12.6 + - - -
181C ALA* 5.2 0.4 - - - +
209C VAL* 3.3 31.9 - - + +
212C GLN* 5.0 12.8 - - + +
213C LYS* 4.5 12.3 - - + -
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Residues in contact with GLN 149 (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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135C TYR* 3.4 23.5 + - + +
137C GLY* 3.8 4.7 - - - -
138C ALA 3.0 45.6 + - - +
139C LEU* 4.1 3.4 - - - +
146C ALA 3.1 22.7 + - - +
148C ALA* 1.3 77.7 - - - +
150C TYR* 1.3 71.0 + - + +
152C THR* 3.0 9.6 + - - -
153C ALA* 2.8 24.0 + - + +
213C LYS* 3.7 25.8 + - - +
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Residues in contact with TYR 150 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139C LEU* 3.9 28.2 - - + +
146C ALA 3.5 23.5 + - - -
147C SER* 3.1 12.4 + - - +
148C ALA 3.1 0.2 + - - -
149C GLN* 1.3 84.0 - - + +
151C ILE* 1.3 56.3 + - - +
153C ALA* 3.3 8.1 + - + +
154C ALA* 2.8 30.3 + - - +
177C PHE* 3.1 40.2 - + + -
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Residues in contact with ILE 151 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147C SER 3.3 7.2 + - - +
148C ALA* 2.8 15.3 + - - +
150C TYR* 1.3 69.3 - - - +
152C THR* 1.3 68.8 + - - +
154C ALA* 3.8 6.5 - - - +
155C LEU* 2.9 23.7 + - + +
174C LEU* 4.2 6.9 - - + +
177C PHE* 3.5 27.1 - - + +
178C LEU* 3.7 15.7 - - + +
181C ALA* 3.4 31.4 - - + -
182C PHE* 3.9 14.4 - - + -
206C MET* 4.2 23.8 - - + -
209C VAL* 4.4 17.3 - - + -
210C LEU* 6.6 0.4 - - + -
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Residues in contact with THR 152 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132C LEU* 3.8 18.8 - - + +
135C TYR* 3.6 33.4 - - + -
148C ALA 2.9 12.7 + - - -
149C GLN* 3.3 7.6 - - - -
151C ILE* 1.3 79.9 - - - +
153C ALA* 1.3 67.6 + - - +
155C LEU* 3.1 15.4 + - - +
156C ARG* 3.3 3.8 + - - +
209C VAL* 3.6 14.3 - - - +
210C LEU* 4.2 15.7 + - + -
213C LYS* 3.7 23.5 - - + +
214C LEU* 4.7 3.6 - - + -
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Residues in contact with ALA 153 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135C TYR* 4.3 7.3 - - + -
149C GLN* 2.8 14.7 + - + +
150C TYR* 3.3 13.2 - - + +
152C THR* 1.3 75.1 - - - +
154C ALA* 1.3 65.6 + - - +
156C ARG* 2.7 51.0 + - - +
157C ASP* 3.3 8.3 + - - +
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Residues in contact with ALA 154 (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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150C TYR 2.8 20.4 + - - +
151C ILE* 3.8 6.1 - - - +
153C ALA* 1.3 72.8 - - - +
155C LEU* 1.3 61.2 + - - +
157C ASP* 3.5 9.6 + - - +
158C LEU* 3.1 23.9 + - - +
173C ILE* 4.6 16.2 - - + -
174C LEU* 4.0 28.0 - - + +
177C PHE* 4.7 10.1 - - + -
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Residues in contact with LEU 155 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119C VAL* 4.0 27.8 - - + -
122C ILE* 4.6 6.7 - - + -
132C LEU* 4.1 17.0 - - + -
151C ILE* 2.9 20.0 + - + +
152C THR* 3.3 6.7 - - - +
153C ALA 2.8 1.2 + - - -
154C ALA* 1.3 78.0 - - - +
156C ARG* 1.3 61.2 + - - +
158C LEU* 3.5 3.8 + - + +
159C PHE* 3.2 36.3 + - + -
174C LEU* 4.0 20.6 - - + +
206C MET* 4.1 22.9 - - + -
210C LEU* 4.2 25.8 - - + -
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Residues in contact with ARG 156 (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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132C LEU* 3.9 37.4 + - + +
133C LYS* 4.5 7.0 + - + +
135C TYR* 3.3 45.6 + - + +
136C ALA* 4.8 6.3 - - - +
137C GLY 5.3 2.0 - - - +
152C THR 3.3 2.9 + - - +
153C ALA* 2.7 45.3 + - - +
155C LEU* 1.3 70.5 - - - +
157C ASP* 1.3 81.4 + - - +
159C PHE* 2.7 10.9 + - - +
160C ASP* 2.6 48.2 + - - +
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Residues in contact with ASP 157 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
191B GLN* 4.4 21.3 - - - +
153C ALA* 3.3 9.2 + - - +
154C ALA* 3.7 11.0 - - - +
156C ARG* 1.3 108.3 + - - +
158C LEU* 1.3 58.4 + - - +
160C ASP* 3.1 9.2 + - - +
161C SER* 2.9 34.9 + - - +
173C ILE* 6.1 4.7 - - + -
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Residues in contact with LEU 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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106C LEU* 3.7 13.2 - - + -
119C VAL* 4.2 17.3 - - + -
154C ALA 3.1 14.0 + - - +
155C LEU* 3.6 6.7 - - + +
156C ARG 3.1 0.4 - - - -
157C ASP* 1.3 80.8 - - - +
159C PHE* 1.3 60.6 + - + +
161C SER* 3.6 5.1 + - - -
162C MET* 2.7 59.4 + - + +
169C ILE* 4.8 11.2 - - + -
171C PRO* 3.9 24.5 - - + -
174C LEU* 3.8 31.2 - - + -
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Residues in contact with PHE 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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119C VAL* 3.7 24.9 - - + -
122C ILE* 4.6 5.8 - - + -
123C ARG* 3.1 66.0 - - + +
128C LEU* 5.8 1.6 - - + -
129C LYS* 4.7 15.7 - - + -
132C LEU* 3.3 37.5 - - + -
155C LEU* 3.2 25.9 + - + -
156C ARG* 2.7 13.9 + - - +
158C LEU* 1.3 75.7 - - + +
160C ASP* 1.3 62.7 + - - +
162C MET* 2.8 19.2 + - - +
163C ASP* 2.8 21.9 + - - +
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Residues in contact with ASP 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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133C LYS* 5.0 19.6 - - - +
156C ARG* 2.6 35.8 + - - +
157C ASP* 3.3 11.1 - - - +
159C PHE* 1.3 71.4 - - - +
161C SER* 1.3 55.8 + - - +
163C ASP* 2.7 42.7 + - - +
164C LYS* 3.7 25.8 + - - +
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Residues in contact with SER 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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157C ASP* 2.9 19.2 + - - +
158C LEU* 4.1 4.0 - - - -
160C ASP* 1.3 74.2 - - - +
162C MET* 1.3 59.5 + - - +
164C LYS* 4.0 10.1 - - - +
165C THR* 3.1 34.2 + - - -
169C ILE* 3.4 18.1 - - - +
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Residues in contact with MET 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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104C CYS* 2.9 67.2 + - - +
106C LEU* 3.7 21.3 - - + -
119C VAL* 5.3 0.9 - - - -
120C GLN* 3.4 19.1 - - - +
123C ARG* 3.5 29.9 + - - +
158C LEU* 2.7 44.4 + - + +
159C PHE* 2.8 19.9 + - - +
161C SER* 1.3 74.9 - - - +
163C ASP* 1.3 54.6 + - - +
164C LYS 2.9 14.1 + - - -
166C SER* 4.4 1.9 + - - -
169C ILE* 4.1 3.1 - - + -
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Residues in contact with ASP 163 (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 ARG* 2.8 26.8 + - - -
129C LYS* 4.7 8.5 + - - +
133C LYS* 4.1 22.3 + - - -
159C PHE* 2.8 17.7 + - - +
160C ASP* 2.7 19.4 + - - +
162C MET* 1.3 73.8 - - - +
164C LYS* 1.3 69.9 + - + +
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Residues in contact with LYS 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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160C ASP* 3.7 34.2 + - - +
161C SER* 3.9 8.3 - - - +
162C MET 2.9 5.3 + - - -
163C ASP* 1.3 90.5 - - - +
165C THR* 1.3 54.8 + - - +
166C SER* 2.3 33.1 + - - -
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Residues in contact with THR 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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104C CYS* 4.9 2.0 - - - -
161C SER* 3.1 19.7 + - - -
164C LYS* 1.3 75.6 - - - +
166C SER* 1.3 56.8 + - - -
167C SER* 2.8 51.9 + - - +
168C SER 3.4 19.5 - - - +
169C ILE* 3.7 14.1 - - + +
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Residues in contact with SER 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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100C MET 5.0 9.9 + - - +
101C GLU* 5.8 0.9 - - - -
102C LEU* 4.2 16.9 + - - +
103C PRO 5.4 1.1 - - - +
104C CYS* 4.7 14.6 - - - +
162C MET 4.4 6.5 + - - -
164C LYS 2.3 23.9 + - - -
165C THR* 1.3 67.7 - - - +
167C SER* 1.3 57.3 + - - +
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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