Contacts of the helix formed by residues 159 - 179 (chain C) in PDB entry 7A62
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 CYS 159 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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157C GLY* 3.2 8.1 - - - -
158C ASP* 1.3 79.5 + - - +
160C SER* 1.3 59.9 + - - +
161C LYS* 3.3 3.6 - - - +
162C GLY 3.2 4.0 + - - +
163C PHE* 2.9 28.1 + - - +
220C HIS 4.0 16.4 - - - +
221C VAL* 4.0 13.5 - - + -
222C ASN* 3.7 27.1 - - - -
225C ALA* 3.6 23.8 - - + -
226C PHE* 5.2 0.7 - - - +
230C LEU* 4.3 0.9 - - + -
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Residues in contact with SER 160 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150C VAL* 5.0 0.2 - - - -
153C SER* 2.7 31.3 + - - -
154C PHE* 5.2 0.9 - - - -
158C ASP* 2.5 38.3 + - - -
159C CYS* 1.3 69.7 - - - +
161C LYS* 1.3 65.6 + - - +
164C PHE* 2.9 53.9 + - - -
230C LEU* 3.9 17.0 - - - -
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Residues in contact with LYS 161 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137C LYS* 4.1 15.8 - - - +
145C TYR* 3.8 28.4 + - - +
148C MET 3.6 24.7 + - - -
149C ASP* 3.8 22.1 + - - +
150C VAL* 3.9 18.5 - - + +
153C SER* 5.5 1.6 - - - +
159C CYS* 3.3 0.8 - - - -
160C SER* 1.3 81.7 + - - +
162C GLY* 1.3 63.3 + - - +
165C LEU* 3.0 45.7 + - + +
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Residues in contact with GLY 162 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145C TYR* 3.7 6.8 + - - -
159C CYS* 3.2 6.2 + - - +
161C LYS* 1.3 79.8 - - - +
163C PHE* 1.3 61.8 + - - +
166C VAL* 3.1 30.7 + - - +
220C HIS* 3.6 35.1 + - - -
221C VAL* 3.7 7.1 - - - +
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Residues in contact with PHE 163 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126C TYR* 6.0 0.4 - + - -
129C CYS* 5.9 0.9 - - - -
130C VAL* 5.0 4.9 - - + -
159C CYS 2.9 16.1 + - - +
162C GLY* 1.3 75.7 - - - +
164C PHE* 1.3 84.8 + + - +
166C VAL* 4.5 0.2 - - - +
167C SER* 2.9 40.2 + - - -
217C ILE* 4.3 4.4 - - + +
221C VAL* 3.5 12.5 - - + +
226C PHE* 3.9 21.1 - + + -
230C LEU* 3.7 21.1 - - + -
234C LEU* 4.1 17.9 - - + -
262C GLY 5.7 0.7 - - - -
263C SER 5.6 0.9 - - - -
264C ALA* 3.7 29.8 - - + -
504C HEM 3.5 43.7 - + + -
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Residues in contact with PHE 164 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129C CYS* 3.2 50.0 - - + +
130C VAL* 3.6 16.6 - - + +
133C ASN* 3.4 21.8 - - - +
150C VAL* 3.7 14.8 - - + -
152C PHE 4.1 6.1 - - - -
154C PHE* 4.7 9.2 - + - -
160C SER* 2.9 40.6 + - - +
163C PHE* 1.3 101.5 - + - +
165C LEU* 1.3 59.2 + - + +
167C SER* 3.3 4.0 + - - -
168C LEU* 2.8 28.9 + - - +
230C LEU* 4.5 11.0 - - + -
234C LEU* 4.5 10.1 - - + -
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Residues in contact with LEU 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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133C ASN 5.0 0.2 - - - +
134C TRP* 4.2 3.8 - - + -
145C TYR* 3.9 20.4 - - + +
148C MET* 3.7 40.4 - - + +
149C ASP* 3.8 13.0 - - - +
150C VAL* 3.8 16.4 - - + -
161C LYS* 3.0 41.0 + - + +
164C PHE* 1.3 78.3 - - + +
166C VAL* 1.3 57.7 + - - +
168C LEU* 3.2 25.8 + - + +
169C LEU* 2.8 37.2 + - + +
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Residues in contact with VAL 166 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145C TYR* 4.2 9.4 - - + -
162C GLY 3.1 20.6 + - - +
165C LEU* 1.3 73.1 - - - +
167C SER* 1.3 65.0 + - - +
169C LEU* 3.3 6.9 + - + +
170C VAL* 3.3 23.7 + - + +
213C VAL 4.4 8.1 - - - +
214C PHE* 4.5 8.7 - - + +
216C GLN* 3.9 31.6 - - + +
217C ILE* 3.7 36.8 - - + +
220C HIS* 4.0 17.0 - - + +
504C HEM 5.2 0.9 - - + -
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Residues in contact with SER 167 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126C TYR* 3.6 22.5 + - - -
130C VAL* 4.0 10.1 - - - -
163C PHE* 2.9 39.1 + - - -
164C PHE 3.5 2.9 - - - -
166C VAL* 1.3 74.3 - - - +
168C LEU* 1.3 65.1 + - - +
170C VAL* 3.0 25.2 - - - +
171C GLU* 3.2 11.4 + - - +
217C ILE* 5.4 0.5 - - - +
264C ALA* 4.6 0.2 - - - +
504C HEM 3.6 20.0 - - - +
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Residues in contact with LEU 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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24C ALA* 3.7 30.7 - - + -
130C VAL* 3.8 17.9 - - + +
131C LEU* 4.7 3.1 - - + -
134C TRP* 3.4 45.8 - - + +
148C MET* 3.4 23.3 - - + -
164C PHE 2.8 14.5 + - - +
165C LEU* 3.2 16.6 + - + +
167C SER* 1.3 77.8 - - - +
169C LEU* 1.3 58.3 + - - +
171C GLU* 3.0 7.7 + - - +
172C ILE* 2.8 42.7 + - + +
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Residues in contact with LEU 169 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143C LEU 3.8 22.7 - - - +
144C THR* 4.5 0.7 - - - -
145C TYR* 3.9 38.4 - - + +
148C MET* 4.1 17.7 - - + -
165C LEU* 2.8 25.5 + - + +
166C VAL* 3.8 6.3 - - - +
167C SER 3.3 0.4 - - - -
168C LEU* 1.3 74.9 - - + +
170C VAL* 1.3 58.3 + - - +
172C ILE* 3.4 15.0 + - + +
173C ALA* 2.9 25.8 + - - +
213C VAL* 3.7 20.7 - - + +
216C GLN* 3.8 17.7 - - - +
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Residues in contact with VAL 170 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166C VAL 3.3 13.6 + - - +
167C SER* 3.0 25.1 - - - +
169C LEU* 1.3 73.0 - - - +
171C GLU* 1.3 61.1 + - - +
173C ALA* 3.1 6.2 + - - +
174C ALA* 2.8 30.3 + - - +
210C ALA* 4.0 14.0 - - + +
213C VAL* 3.6 18.8 - - + -
214C PHE* 3.8 32.5 - - + +
269C VAL* 5.8 0.4 - - - -
342C LEU* 6.5 0.7 - - + -
504C HEM 3.2 31.6 - - + -
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Residues in contact with GLU 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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21C VAL 4.0 9.6 - - - +
22C GLY* 4.9 1.6 - - - -
23C PHE* 3.8 21.9 + - - +
24C ALA* 4.9 2.5 - - + -
126C TYR* 2.7 35.8 + - - +
131C LEU* 3.9 17.4 - - + +
167C SER 3.3 7.9 - - - +
168C LEU* 3.0 9.6 + - - +
170C VAL* 1.3 78.9 - - - +
172C ILE* 1.3 60.8 + - - +
174C ALA* 3.1 9.1 + - - +
175C ALA* 3.1 20.3 + - - +
178C ILE* 5.1 1.0 - - - +
267C SER* 2.5 29.9 + - - -
268C SER 5.2 0.8 + - - -
269C VAL* 3.4 17.5 - - - +
504C HEM 3.9 3.6 - - + +
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Residues in contact with ILE 172 (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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20C GLU 3.8 13.9 - - - +
21C VAL* 4.0 33.2 - - + +
134C TRP* 5.6 1.6 - - + -
143C LEU* 4.3 27.1 - - + +
148C MET* 4.3 15.9 - - + -
168C LEU* 2.8 43.9 + - + +
169C LEU* 3.7 13.0 - - + +
171C GLU* 1.3 72.0 - - - +
173C ALA* 1.3 67.1 + - - +
175C ALA* 3.2 16.2 + - - +
176C SER* 4.0 2.6 + - - -
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Residues in contact with ALA 173 (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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169C LEU 2.9 14.5 + - - +
170C VAL* 3.1 8.9 + - - +
172C ILE* 1.3 77.8 - - - +
174C ALA* 1.3 59.4 + - - +
176C SER* 2.7 27.0 + - - -
177C ALA 4.1 1.0 + - - -
206C CYS* 4.6 6.0 - - - +
209C LYS* 4.8 3.4 - - + -
210C ALA* 3.8 29.8 - - + +
213C VAL* 4.2 12.3 - - + -
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Residues in contact with ALA 174 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
170C VAL 2.8 16.9 + - - +
171C GLU 3.1 8.7 + - - +
173C ALA* 1.3 72.9 - - - +
175C ALA* 1.3 63.2 + - - +
177C ALA* 2.8 20.2 + - - +
178C ILE* 2.9 19.4 + - + +
206C CYS 5.6 0.4 - - - -
207C LEU* 5.0 6.3 - - + -
210C ALA* 4.5 7.5 - - + +
269C VAL* 3.8 36.3 - - + -
273C PHE* 4.9 4.0 - - + -
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Residues in contact with ALA 175 (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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18C ASP 4.3 1.5 - - - +
19C GLU 4.0 6.5 - - - +
20C GLU 3.5 15.9 - - - +
21C VAL 3.6 3.1 - - - -
22C GLY* 3.3 32.3 - - - +
171C GLU 3.1 6.1 + - - +
172C ILE 3.2 14.1 - - - +
173C ALA 3.1 1.0 - - - -
174C ALA* 1.3 77.6 - - - +
176C SER* 1.3 57.2 + - - +
178C ILE* 3.8 12.5 - - - +
179C LYS* 3.1 30.0 + - - +
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Residues in contact with SER 176 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19C GLU 5.2 0.4 - - - -
172C ILE 4.0 2.1 + - - -
173C ALA* 2.7 24.0 + - - -
175C ALA* 1.3 77.3 - - - +
177C ALA* 1.3 59.3 + - - +
179C LYS* 3.5 35.5 - - - +
180C VAL* 3.6 11.6 - - - +
202C GLU* 4.9 1.3 - - - +
206C CYS* 3.7 24.4 - - - +
209C LYS* 5.8 1.4 - - - +
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Residues in contact with ALA 177 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174C ALA* 2.8 10.0 + - - +
176C SER* 1.3 80.0 + - - +
178C ILE* 1.3 65.2 + - - +
179C LYS 3.2 0.2 - - - -
180C VAL* 3.1 17.8 + - - +
181C ILE* 3.9 4.5 + - - +
203C ILE* 3.6 26.2 - - - +
206C CYS* 3.7 21.9 - - + +
207C LEU* 4.3 8.3 - - + -
273C PHE* 3.7 22.9 - - + -
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Residues in contact with ILE 178 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11C GLY 4.6 2.1 + - - +
12C SER* 6.5 0.2 - - - -
17C ILE* 3.8 32.8 - - + -
22C GLY* 4.6 6.7 - - - -
23C PHE* 3.5 33.9 - - + +
171C GLU 5.1 0.4 - - - +
174C ALA* 2.9 33.0 + - + +
175C ALA* 3.3 10.5 + - - +
177C ALA* 1.3 78.0 - - - +
179C LYS* 1.3 57.9 + - - +
180C VAL 3.1 0.2 - - - -
181C ILE* 3.1 37.1 + - + +
182C PRO* 4.0 2.4 - - - +
269C VAL* 4.6 1.8 - - + -
272C CYS* 4.3 6.7 - - - -
273C PHE* 4.0 16.8 - - + -
306C PHE* 4.6 7.4 - - + -
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Residues in contact with LYS 179 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11C GLY* 3.4 29.7 - - - +
19C GLU* 3.8 39.2 + - + +
20C GLU* 6.0 0.4 - - - +
175C ALA 3.1 8.5 + - - +
176C SER* 3.5 36.3 - - - +
178C ILE* 1.3 75.9 - - - +
180C VAL* 1.3 64.4 + - + +
181C ILE 3.3 0.2 - - - -
182C PRO* 3.5 12.8 - - - +
183C THR* 4.8 2.8 + - - -
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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