Contacts of the helix formed by residues 159 - 180 (chain L) in PDB entry 3A2C
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 THR 159 (chain L).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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157L ALA 3.7 2.9 + - - -
158L PHE* 1.3 85.0 - - - +
160L GLU* 1.3 71.2 + - - +
161L ARG* 3.0 23.6 - - + +
162L GLU* 2.7 37.7 + - - +
163L ALA 3.5 4.0 + - - -
333L GLN* 3.2 39.4 + - + +
334L THR 4.1 3.4 - - - -
335L PRO* 5.0 0.9 - - - -
336L LEU* 3.0 15.2 - - - +
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Residues in contact with GLU 160 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159L THR* 1.3 73.5 - - - +
161L ARG* 1.3 65.2 + - - +
162L GLU 3.0 1.6 - - - -
163L ALA* 3.3 5.3 + - - +
164L SER* 3.1 22.3 + - - -
257L LEU* 3.7 16.8 - - + -
294L VAL* 3.8 22.3 - - - +
295L SER* 4.1 7.0 + - - -
298L VAL* 3.7 12.3 - - - +
324L TRP* 2.9 28.9 + - + +
331L VAL* 3.8 8.6 - - + +
332L PRO* 4.0 14.0 - - - +
334L THR* 3.2 35.9 + - + +
336L LEU* 3.1 12.2 - - + +
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Residues in contact with ARG 161 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159L THR* 3.0 17.6 - - + +
160L GLU* 1.3 77.2 - - - +
162L GLU* 1.3 56.0 + - + +
164L SER* 3.6 4.3 - - - -
165L GLU* 3.1 30.2 + - - +
328L SER 3.1 24.5 + - - +
329L THR* 3.0 27.3 + - - +
331L VAL* 2.6 41.0 + - - -
332L PRO* 3.2 17.4 + - - +
333L GLN* 2.8 54.9 + - - +
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Residues in contact with GLU 162 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153L ARG* 2.9 43.6 + - - -
157L ALA 3.7 1.7 - - - +
158L PHE* 3.5 18.4 - - + -
159L THR* 2.7 42.7 + - - +
160L GLU 3.0 0.6 - - - -
161L ARG* 1.3 76.8 - - + +
163L ALA* 1.3 58.7 + - - +
164L SER 2.9 2.0 - - - -
165L GLU* 2.7 52.5 + - - +
166L ILE* 3.1 8.2 + - + +
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Residues in contact with ALA 163 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158L PHE* 3.5 28.0 - - + -
159L THR 3.5 4.5 + - - +
160L GLU 3.3 8.2 + - - +
162L GLU* 1.3 77.7 - - - +
164L SER* 1.3 56.9 + - - +
166L ILE* 3.6 0.8 + - - +
167L MET* 3.0 34.7 + - - +
256L LEU* 3.7 21.5 - - + +
257L LEU* 4.3 14.6 - - + -
324L TRP* 3.8 11.7 - - + -
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Residues in contact with SER 164 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160L GLU 3.1 13.1 + - - -
161L ARG 3.6 10.5 - - - -
162L GLU 2.9 0.6 - - - -
163L ALA* 1.3 75.2 - - - +
165L GLU* 1.3 65.2 + - - +
167L MET* 3.8 0.9 - - - +
168L LYS* 3.0 25.9 + - - +
324L TRP* 2.7 44.2 + - - -
325L ILE* 4.2 1.6 - - - +
328L SER* 3.3 18.4 + - - -
331L VAL* 4.1 11.4 - - - +
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Residues in contact with GLU 165 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161L ARG* 3.1 26.3 - - + +
162L GLU* 2.7 38.0 + - - +
164L SER* 1.3 73.1 - - - +
166L ILE* 1.3 63.3 + - + +
168L LYS* 3.3 6.5 + - - +
169L SER* 3.1 21.8 + - - -
328L SER* 4.8 11.4 + - - +
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Residues in contact with ILE 166 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146L LEU* 3.7 23.3 - - + -
150L ILE* 4.2 6.5 - - + -
158L PHE* 4.0 29.8 - - + -
162L GLU* 3.1 6.4 + - + +
163L ALA 3.8 0.9 - - - +
165L GLU* 1.3 73.6 - - + +
167L MET* 1.3 53.6 + - - +
168L LYS 2.9 4.0 - - - -
169L SER* 2.7 30.3 + - - -
170L ILE* 2.7 43.3 + - + +
194L TYR* 4.2 13.2 - - - +
203L LEU* 3.8 13.0 - - + -
256L LEU* 3.7 19.5 - - + -
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Residues in contact with MET 167 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163L ALA* 3.0 21.3 + - + +
164L SER 3.9 0.7 - - - +
166L ILE* 1.3 78.2 - - - +
168L LYS* 1.3 56.2 + - - +
170L ILE* 4.4 7.0 - - + -
171L GLY 2.9 19.3 + - - -
249L LEU* 3.7 32.1 - - + +
252L ILE* 3.6 28.9 - - + -
253L MET* 3.6 32.5 - - + -
256L LEU* 3.9 9.6 - - + -
319L PHE* 3.3 36.0 - - + -
324L TRP* 3.9 3.6 - - + -
325L ILE* 3.7 19.7 - - + -
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Residues in contact with LYS 168 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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164L SER 3.0 17.1 + - - +
165L GLU* 3.5 5.4 - - - +
166L ILE 2.8 1.6 + - - -
167L MET* 1.3 78.8 - - - +
169L SER* 1.3 59.1 + - - +
172L GLU* 3.0 51.0 + - - +
320L MET* 3.3 6.7 - - + +
325L ILE* 3.5 27.3 + - + +
326L MET* 3.2 25.0 + - - +
328L SER* 3.4 21.8 + - - +
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Residues in contact with SER 169 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116L HIS* 3.8 34.8 - - - +
165L GLU 3.1 13.9 + - - -
166L ILE* 2.7 29.0 + - - +
168L LYS* 1.3 71.6 - - - +
170L ILE* 1.3 64.7 + - - +
172L GLU* 3.2 18.1 + - - +
173L ALA* 3.4 7.4 + - - +
203L LEU* 4.4 18.7 - - - +
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Residues in contact with ILE 170 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146L LEU* 4.1 3.4 - - + -
166L ILE* 2.7 44.0 + - + +
167L MET* 4.1 8.5 - - + +
169L SER* 1.3 72.9 + - - +
171L GLY* 1.3 63.5 + - - +
172L GLU 3.0 1.2 + - - -
173L ALA* 3.1 17.7 + - + +
174L ILE* 3.4 13.9 + - + +
187L VAL* 4.9 4.3 - - + -
192L LEU* 3.7 39.5 - - + -
203L LEU* 3.8 12.6 - - + -
205L LEU* 5.9 1.1 - - + -
249L LEU* 4.0 24.0 - - + -
252L ILE* 3.8 23.1 - - + -
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Residues in contact with GLY 171 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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167L MET 2.9 21.7 + - - -
168L LYS 3.7 1.8 - - - -
169L SER 3.2 0.6 - - - -
170L ILE* 1.3 77.2 - - - +
172L GLU* 1.3 57.2 + - - +
173L ALA 3.4 0.2 - - - -
174L ILE* 3.5 4.4 + - - +
175L GLN* 3.1 22.5 + - - +
249L LEU* 4.4 13.2 - - - -
316L ILE* 3.8 4.7 - - - +
319L PHE* 3.9 11.2 - - - -
320L MET* 3.2 16.9 - - - +
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Residues in contact with GLU 172 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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114L CYS* 4.3 4.4 - - - -
116L HIS* 3.8 24.7 + - + -
168L LYS* 3.0 46.3 + - + +
169L SER* 3.5 7.9 - - - +
170L ILE 3.0 0.8 - - - -
171L GLY* 1.3 77.2 - - - +
173L ALA* 1.3 65.2 + - - +
175L GLN* 3.3 12.9 + - - +
176L TYR* 3.2 21.0 + - - +
320L MET* 3.4 15.0 - - + -
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Residues in contact with ALA 173 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114L CYS* 4.1 12.6 - - - -
116L HIS* 4.1 16.4 - - + +
117L ILE* 4.2 12.0 - - + +
169L SER 3.4 4.1 + - - +
170L ILE* 3.1 12.9 + - + +
172L GLU* 1.3 77.5 - - - +
174L ILE* 1.3 63.9 + - - +
176L TYR* 3.1 13.2 + - - +
177L LEU* 3.1 18.7 + - - +
205L LEU* 4.1 27.1 - - + +
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Residues in contact with ILE 174 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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170L ILE* 3.4 15.2 + - + +
171L GLY 3.8 6.3 - - - +
172L GLU 3.2 0.6 - - - -
173L ALA* 1.3 75.2 - - - +
175L GLN* 1.3 63.6 + - - +
177L LEU* 3.4 6.6 + - + -
178L HIS* 3.0 55.8 + - + +
187L VAL* 3.9 21.8 - - + -
205L LEU* 3.7 27.8 - - + -
245L ASP* 4.0 12.3 - - + +
246L MET* 4.3 2.9 - - - -
249L LEU* 4.1 22.0 - - + -
316L ILE* 4.0 15.9 - - + -
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Residues in contact with GLN 175 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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281K MET* 4.0 6.3 - - + +
283K GLN* 4.5 13.9 + - - +
171L GLY 3.1 14.9 + - - +
172L GLU* 3.5 16.8 + - - +
173L ALA 3.2 0.4 - - - -
174L ILE* 1.3 77.2 - - - +
176L TYR* 1.3 57.7 + - - +
178L HIS* 3.5 1.6 + - - +
179L SER* 3.0 29.2 + - - -
316L ILE* 3.8 21.0 - - + +
317L THR* 4.4 11.6 - - - +
320L MET* 3.2 37.7 - - - +
321L ASN* 5.7 0.2 + - - -
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Residues in contact with TYR 176 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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130E GLY* 4.8 5.5 + - - -
110L ARG 3.9 11.8 + - - -
111L ALA 3.9 3.6 - - - -
113L GLN* 3.2 28.7 + - + +
114L CYS* 3.1 44.6 - - + -
117L ILE* 4.5 4.0 - - + -
172L GLU 3.2 7.4 + - - +
173L ALA 3.1 9.2 + - - +
175L GLN* 1.3 78.2 - - - +
177L LEU* 1.3 66.4 + - - +
179L SER* 2.6 25.5 + - - -
180L ILE* 3.0 51.6 + - + +
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Residues in contact with LEU 177 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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111L ALA* 3.4 20.6 - - + -
117L ILE* 3.3 26.9 - - + -
173L ALA 3.1 12.1 + - - +
174L ILE* 3.8 10.5 - - + +
176L TYR* 1.3 75.2 - - + +
178L HIS* 1.3 56.0 + - + +
180L ILE* 3.0 12.7 + - + +
181L ASN 3.0 9.7 + - - -
182L ILE* 2.7 48.6 + - + +
184L HIS* 3.7 33.9 - - + +
205L LEU* 4.2 11.7 - - + -
208L PHE* 3.9 16.6 - - + -
245L ASP* 5.2 0.7 - - - +
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Residues in contact with HIS 178 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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281K MET* 3.6 24.1 - - + +
174L ILE* 3.0 40.4 + - + +
175L GLN 4.0 3.1 - - - +
177L LEU* 1.3 74.0 - - + +
179L SER* 1.3 64.5 + - - +
181L ASN* 3.3 10.4 + - - -
182L ILE 3.2 17.5 - - - -
242L LYS* 3.4 67.2 + - + +
245L ASP* 2.8 24.9 + - + -
246L MET* 4.4 7.2 - - + -
316L ILE* 4.0 13.4 + - + +
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Residues in contact with SER 179 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
277K THR* 3.8 29.2 + - - +
280K ARG* 5.6 2.4 + - - -
281K MET* 3.8 19.0 - - - +
283K GLN* 5.4 3.8 - - - -
175L GLN* 3.0 17.2 + - - -
176L TYR* 2.6 34.5 + - - -
178L HIS* 1.3 77.4 - - - +
180L ILE* 1.3 60.7 + - - +
181L ASN* 3.2 7.7 + - - +
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Residues in contact with ILE 180 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129E ALA 4.5 6.3 - - - +
130E GLY* 3.8 31.2 - - - +
110L ARG* 3.8 29.5 + - + +
111L ALA* 4.4 2.0 - - - -
176L TYR* 3.0 52.9 + - + +
177L LEU* 3.2 15.3 - - - +
179L SER* 1.3 78.1 - - - +
181L ASN* 1.3 70.0 + - - +
182L ILE* 3.2 26.1 + - + +
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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