Contacts of the helix formed by residues 170 - 192 (chain C) in PDB entry 3A68
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 TYR 170 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56C GLU* 4.3 5.6 - - - -
94C HIS* 2.7 52.7 + + + -
97C LYS* 3.3 22.1 - - + +
98C LEU* 3.2 26.1 + - + +
147C LEU* 3.9 34.2 - - + +
165C PHE* 3.6 32.1 - + - -
166C VAL* 3.0 17.8 + - + +
168C THR 3.5 0.4 - - - -
169C GLU* 1.3 93.1 - - + +
171C LEU* 1.3 62.1 + - - +
172C GLY 3.5 1.8 - - - -
173C GLU* 3.4 7.4 + - - +
174C GLN* 2.9 31.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 171 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144C ASN* 4.4 9.4 - - - +
147C LEU* 3.9 28.9 - - + -
148C LEU* 4.0 23.3 - - + -
151C HIS* 4.4 5.6 - - + -
166C VAL* 3.2 19.3 + - + +
167C GLU* 3.4 25.5 + - + +
170C TYR* 1.3 76.3 - - - +
172C GLY* 1.3 63.0 + - - +
174C GLN* 3.3 5.2 + - - +
175C VAL* 3.1 26.0 + - - +
160S VAL* 3.4 32.3 - - + -
161S GLN* 3.7 19.9 - - + +
164S ASP* 5.6 0.4 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 172 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167C GLU 4.0 5.3 + - - -
170C TYR 3.5 0.2 - - - -
171C LEU* 1.3 77.2 - - - +
173C GLU* 1.3 67.9 + - - +
175C VAL* 3.2 4.9 + - - +
176C GLU* 3.0 28.7 + - - +
215C CA 4.7 4.5 - - - -
161S GLN* 3.6 25.1 - - - +
164S ASP* 5.5 1.3 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 173 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94C HIS* 5.7 9.4 - - + +
97C LYS* 5.8 0.7 + - - -
168C THR 3.7 1.9 - - - +
169C GLU* 3.3 31.1 - - - +
170C TYR* 3.6 7.4 - - - +
172C GLY* 1.3 79.4 + - - +
174C GLN* 1.3 58.0 + - - +
176C GLU* 3.3 10.9 + - - +
177C ALA* 2.9 27.9 + - - +
215C CA 2.6 29.9 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 174 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94C HIS* 5.4 3.6 - - - -
140C GLU* 2.7 56.4 + - - +
143C THR* 3.8 9.9 - - - -
144C ASN* 3.5 35.0 - - + +
147C LEU* 4.0 17.0 - - + +
170C TYR* 2.9 18.1 + - - +
171C LEU 3.5 6.1 - - - +
172C GLY 3.2 0.2 - - - -
173C GLU* 1.3 74.9 - - - +
175C VAL* 1.3 65.4 + - - +
177C ALA* 3.3 4.7 + - - +
178C ILE* 3.0 30.1 + - + +
214C CA 4.1 11.8 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 175 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144C ASN* 5.1 11.2 - - - +
171C LEU 3.1 15.6 + - - +
172C GLY* 3.2 9.2 + - - +
174C GLN* 1.3 76.5 - - - +
176C GLU* 1.3 62.3 + - + +
178C ILE* 3.4 8.6 + - + +
179C LYS* 3.0 22.0 + - - +
101S TYR* 5.3 2.2 - - + -
104S LYS* 3.9 32.3 - - + +
105S ARG* 3.7 29.6 - - - +
161S GLN* 3.7 28.0 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 176 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
172C GLY 3.0 20.1 + - - +
173C GLU* 3.3 8.9 + - - +
175C VAL* 1.3 77.4 - - + +
177C ALA* 1.3 62.2 + - - +
179C LYS* 3.3 6.0 + - - +
180C ARG* 3.0 25.0 + - - +
104S LYS* 2.7 44.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 177 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94C HIS* 6.6 0.2 - - + -
140C GLU* 4.0 23.6 - - + +
173C GLU 2.9 16.3 + - - +
174C GLN* 3.3 7.8 + - - +
176C GLU* 1.3 75.6 - - - +
178C ILE* 1.3 63.0 + - - +
180C ARG* 3.4 9.5 + - - +
181C ILE* 3.1 32.1 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 178 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137C LEU* 3.8 16.5 - - + +
140C GLU* 3.9 35.9 - - + +
141C LYS* 4.2 7.2 - - + +
144C ASN* 3.8 17.0 - - + +
174C GLN* 3.0 22.6 + - + +
175C VAL* 3.8 7.2 - - + +
176C GLU 3.2 0.2 - - - -
177C ALA* 1.3 74.7 - - - +
179C LYS* 1.3 65.2 + - - +
181C ILE* 3.4 0.6 + - - -
182C SER* 2.9 27.9 + - - -
37S ALA* 3.6 34.1 - - + +
39S GLN* 3.6 24.0 - - + +
104S LYS 5.7 0.4 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 179 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175C VAL 3.0 16.0 + - - +
176C GLU* 3.9 5.6 - - - +
178C ILE* 1.3 77.6 - - - +
180C ARG* 1.3 64.1 + - - +
182C SER* 3.3 0.9 + - - -
183C GLU* 2.9 49.3 + - - +
71M ASP* 3.0 47.2 + - - -
73M ASP* 3.9 18.4 - - + +
37S ALA* 4.2 8.2 - - + +
103S ASN* 3.8 21.1 - - - +
104S LYS* 3.9 30.7 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 180 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83C PHE* 3.6 30.9 - - - -
86C GLU* 5.2 6.5 + - - -
87C SER* 5.5 0.8 + - - -
176C GLU 3.0 16.8 + - - +
177C ALA* 3.6 9.4 - - - +
178C ILE 3.3 0.2 - - - -
179C LYS* 1.3 79.1 - - - +
181C ILE* 1.3 62.7 + - + +
183C GLU* 3.3 13.9 + - - +
184C TYR* 2.9 48.9 + - + +
207C GLU* 3.0 26.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 181 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63C TYR* 4.1 10.1 - - + +
83C PHE* 4.1 25.8 - - + -
133C MET* 3.5 35.9 - - - +
136C ALA* 4.1 9.2 - - + +
137C LEU* 3.7 16.4 - - + +
140C GLU* 3.5 33.2 - - + -
177C ALA* 3.1 15.4 + - + +
178C ILE 4.2 2.2 - - - +
180C ARG* 1.3 76.7 - - + +
182C SER* 1.3 64.7 + - - +
184C TYR* 3.0 8.8 + - + +
185C VAL* 2.9 21.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 182 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137C LEU* 3.4 17.2 - - - +
178C ILE 2.9 22.3 + - - -
179C LYS 3.5 4.7 - - - -
181C ILE* 1.3 76.5 - - - +
183C GLU* 1.3 57.0 + - - +
185C VAL* 3.2 1.9 + - - -
186C ALA* 2.9 25.6 + - - +
73M ASP* 3.5 27.8 - - - -
36S LEU* 3.4 17.8 - - - +
37S ALA* 3.2 23.0 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 183 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
179C LYS* 2.9 51.2 + - - +
180C ARG* 3.5 15.9 - - - +
181C ILE 3.2 0.2 - - - -
182C SER* 1.3 77.9 - - - +
184C TYR* 1.3 63.6 + - + +
186C ALA* 3.3 1.7 + - - +
187C GLN* 3.0 40.9 + - - +
71M ASP* 4.5 2.6 - - - +
72M ARG 5.2 0.3 - - - +
73M ASP* 3.7 24.2 - - - +
76M ALA* 3.9 10.8 - - + +
78M ARG* 5.0 16.6 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 184 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83C PHE* 3.7 24.9 - + - -
133C MET* 3.5 31.9 - - + -
180C ARG* 2.9 41.8 + - + -
181C ILE* 3.0 13.4 + - - +
183C GLU* 1.3 74.8 - - + +
185C VAL* 1.3 67.1 + - - +
187C GLN* 3.2 12.7 + - - +
188C LEU* 2.9 29.9 + - - +
200C PHE* 3.6 28.2 - + + -
203C MET* 4.8 4.7 - - + -
204C LEU* 3.4 18.6 - - + +
207C GLU* 2.4 35.4 + - - -
78M ARG* 6.2 1.3 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 185 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130C LEU* 3.9 13.6 - - + +
133C MET* 3.8 35.0 - - + +
134C GLU* 4.0 12.1 - - + +
137C LEU* 4.3 13.5 - - + -
181C ILE 2.9 17.4 + - - +
182C SER* 3.5 7.4 - - - +
184C TYR* 1.3 76.6 - - - +
186C ALA* 1.3 64.3 + - - +
188C LEU* 3.3 2.4 + - - +
189C ARG* 3.0 50.5 + - - +
28S VAL* 5.4 0.2 - - + -
36S LEU* 3.8 16.8 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 186 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182C SER 2.9 9.6 + - - +
183C GLU 3.6 4.0 - - - +
185C VAL* 1.3 78.0 - - - +
187C GLN* 1.3 57.6 + - - +
189C ARG* 3.3 8.7 + - - +
190C ARG* 3.0 27.8 + - - +
73M ASP 3.3 25.8 - - - +
74M ASN* 3.7 21.3 - - - +
75M VAL 4.8 2.2 - - - +
76M ALA* 3.8 8.3 - - + -
36S LEU* 4.0 7.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 187 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183C GLU* 3.0 40.1 + - - +
184C TYR* 3.8 17.6 - - - +
186C ALA* 1.3 73.2 - - - +
188C LEU* 1.3 65.1 + - - +
190C ARG* 3.1 6.8 + - - +
191C VAL* 3.0 30.3 + - - +
200C PHE* 3.8 14.1 - - + -
203C MET* 3.7 7.3 - - - +
76M ALA* 3.8 22.8 - - + +
78M ARG* 3.0 33.7 + - - +
198M TRP* 2.9 34.0 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 188 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80C LEU* 5.4 0.9 - - + -
129C ALA* 3.8 35.4 - - + +
130C LEU* 4.1 17.7 - - + +
133C MET* 3.6 33.7 - - + -
184C TYR 2.9 18.7 + - - +
185C VAL 3.8 3.4 - - - +
187C GLN* 1.3 75.6 - - - +
189C ARG* 1.3 62.7 + - - +
191C VAL* 3.6 4.3 - - - +
192C GLY* 3.2 22.2 + - - -
197C VAL* 4.0 22.1 - - + +
200C PHE* 3.6 38.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 189 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126C LYS* 5.5 1.2 - - - +
130C LEU* 3.9 20.1 - - + +
134C GLU* 2.8 27.5 + - - -
185C VAL* 3.0 32.8 + - - +
186C ALA* 3.7 8.1 - - - +
188C LEU* 1.3 76.5 - - - +
190C ARG* 1.3 63.4 + - - +
192C GLY* 3.8 7.8 + - - -
28S VAL* 3.6 16.8 + - - +
29S PRO 3.1 30.3 + - - -
30S THR* 4.1 15.5 + - - +
31S VAL 5.3 2.0 + - - -
32S PRO* 6.0 1.6 - - - +
36S LEU* 3.5 15.0 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 190 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
186C ALA 3.0 16.5 + - - +
187C GLN* 3.1 7.2 + - - +
189C ARG* 1.3 80.0 - - - +
191C VAL* 1.3 62.1 + - + +
192C GLY 3.6 0.2 + - - -
74M ASN 5.0 2.0 + - - -
75M VAL* 3.2 28.5 + - - +
76M ALA 5.4 0.2 + - - -
77M LEU* 3.7 26.4 - - - +
128M ASP* 3.2 37.4 + - - -
194M GLY* 3.3 47.6 - - - +
195M HIS 3.7 0.2 + - - -
197M VAL* 3.9 10.3 - - - +
198M TRP* 4.1 18.4 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 191 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187C GLN 3.0 23.4 + - - +
188C LEU* 3.6 12.6 - - + +
190C ARG* 1.3 76.9 - - - +
192C GLY* 1.3 67.9 + - - +
193C LYS 4.9 0.3 - - - +
196C GLY* 3.4 38.6 + - - +
197C VAL* 3.8 4.5 - - - +
200C PHE* 4.4 5.2 - - + -
195M HIS* 3.7 26.3 + - + +
198M TRP* 3.5 49.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 192 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
188C LEU 3.2 14.3 + - - -
189C ARG 3.8 5.6 + - - -
190C ARG 3.4 3.0 - - - -
191C VAL* 1.3 77.9 - - - +
193C LYS* 1.3 67.7 + - - +
196C GLY* 3.6 0.5 - - - -
197C VAL* 3.1 27.3 + - - +
----------------------------------------------------------
Back to top of page
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) + - + + + + + -
------------------------------------------------------------
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