Contacts of the helix formed by residues 153 - 171 (chain C) in PDB entry 6XWQ
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 VAL 153 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60C VAL* 5.1 5.2 - - + -
61C MET* 3.8 22.7 - - + -
64C VAL* 4.9 5.3 - - + +
151C GLY 4.0 4.3 - - - +
152C GLU* 1.3 73.3 - - - +
154C LEU* 1.3 64.5 + - + +
155C PRO* 3.3 2.2 - - - +
156C VAL* 3.0 8.3 + - - +
157C ILE* 2.9 34.5 + - + +
311C THR* 3.5 34.3 - - + +
353C ILE 5.3 4.0 - - - +
354C GLY 4.8 12.4 + - - +
355C THR 5.0 2.7 - - - +
356C ALA* 3.9 31.0 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 154 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135C THR 5.6 2.2 - - - +
138C ASN 5.6 0.2 - - - +
139C ILE* 3.7 40.3 - - + +
153C VAL* 1.3 80.3 - - + +
155C PRO* 1.3 68.3 - - + +
157C ILE* 3.2 15.2 + - + +
158C PHE* 3.0 23.2 + - - +
312C ILE* 3.7 31.0 - - + -
353C ILE* 4.0 23.6 - - + +
354C GLY* 5.0 13.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PRO 155 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54A ARG* 6.2 0.4 - - - +
138C ASN 3.5 22.0 - - - +
139C ILE 3.1 15.0 - - - +
141C PRO* 3.6 20.5 - - + +
147C SER* 3.4 27.1 - - - +
152C GLU* 3.9 21.3 - - + -
153C VAL 3.6 4.3 - - - +
154C LEU* 1.3 93.8 - - + +
156C VAL* 1.3 56.9 + - - +
158C PHE 3.3 0.5 + - - -
159C PHE* 2.9 30.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 156 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61C MET* 3.7 15.3 - - - -
64C VAL* 4.3 4.5 - - + -
65C LEU* 3.9 26.1 - - + +
144C PRO* 4.8 2.2 - - - +
147C SER* 3.3 33.0 - - - +
148C LEU* 3.6 35.0 - - + -
152C GLU 3.4 9.0 - - - +
153C VAL 3.0 8.9 + - - +
155C PRO* 1.3 74.8 - - - +
157C ILE* 1.3 58.2 + - - +
159C PHE* 3.9 6.1 - - + +
160C ALA* 2.8 28.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 157 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64C VAL* 3.6 22.9 - - + -
68C LEU* 4.5 12.3 - - + +
153C VAL* 2.9 17.4 + - + +
154C LEU* 3.5 18.4 - - + +
156C VAL* 1.3 77.4 - - - +
158C PHE* 1.3 64.7 + - + +
160C ALA* 3.3 5.3 + - - +
161C ILE* 2.9 28.3 + - + +
308C LEU* 3.9 22.9 - - + -
311C THR* 3.6 25.1 - - + -
312C ILE* 3.6 28.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 158 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55A LEU* 4.2 7.2 - - + -
58A MET* 4.1 23.1 - - + -
139C ILE* 3.9 26.0 - - + +
140C VAL* 3.6 25.8 - - + -
141C PRO* 3.7 15.7 - - + -
154C LEU 3.0 15.4 + - - +
155C PRO 3.7 3.4 - - - +
157C ILE* 1.3 80.9 - - + +
159C PHE* 1.3 65.1 + - - +
161C ILE* 3.1 15.6 - - + +
162C ILE* 3.0 41.1 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 159 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58A MET* 3.8 23.1 - - + -
59A LEU* 5.3 0.2 - - + -
62A PRO* 4.7 3.1 - - + -
192A LEU* 5.6 2.0 - - + -
196A MET* 3.4 35.4 - - + -
199A ILE* 5.2 1.1 - - + -
65C LEU* 4.7 15.5 - - + -
141C PRO* 3.9 11.2 - - + -
144C PRO* 3.8 33.9 - - + -
145C PHE* 5.7 6.3 - + - -
148C LEU* 5.6 6.5 - - + -
155C PRO 2.9 16.9 + - - +
156C VAL* 3.9 6.3 - - + +
158C PHE* 1.3 80.2 - - - +
160C ALA* 1.3 60.2 + - - +
162C ILE* 3.2 14.4 - - + +
163C LEU* 2.9 48.2 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 160 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65C LEU* 3.6 27.1 - - + +
68C LEU* 3.8 13.2 - - + -
69C VAL* 3.3 34.5 - - + +
156C VAL 2.8 19.4 + - - +
157C ILE* 3.8 3.4 - - - +
159C PHE* 1.3 78.9 - - - +
161C ILE* 1.3 57.0 + - - +
163C LEU* 3.4 1.5 + - - -
164C GLY 2.9 23.4 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 161 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68C LEU* 4.9 8.2 - - + +
72C ALA* 3.7 21.2 - - + +
80C LEU* 5.1 6.7 - - + -
157C ILE* 2.9 18.7 + - + +
158C PHE* 3.1 26.7 - - + +
160C ALA* 1.3 76.9 - - - +
162C ILE* 1.3 64.6 + - + +
164C GLY* 3.3 1.4 + - - -
165C ILE* 3.0 34.2 + - + +
304C PHE* 3.5 34.5 - - + -
308C LEU* 5.2 4.9 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 162 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58A MET* 4.8 6.1 - - + -
199A ILE* 3.6 31.8 - - + +
158C PHE* 3.0 38.2 + - + +
159C PHE* 3.2 25.6 - - + +
161C ILE* 1.3 77.3 - - + +
163C LEU* 1.3 63.7 + - - +
165C ILE* 3.4 22.4 + - + +
166C ALA* 2.9 28.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 163 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
192A LEU* 4.2 23.1 - - + -
195A ALA* 3.8 28.0 - - + -
196A MET* 4.2 15.0 - - + -
199A ILE* 4.2 8.3 - - + -
65C LEU* 6.0 0.7 - - + -
69C VAL* 4.3 7.9 - - + -
159C PHE* 2.9 34.6 + - + +
160C ALA* 3.7 4.0 - - - +
162C ILE* 1.3 75.3 - - - +
164C GLY* 1.3 59.8 + - - +
166C ALA* 3.3 1.5 + - - +
167C ILE* 2.9 43.7 + - + +
185C LEU* 5.1 2.0 - - + -
189C PHE* 3.7 32.3 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 164 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69C VAL* 3.8 24.4 - - - +
72C ALA* 3.5 9.8 - - - +
73C ALA* 3.3 17.6 - - - +
160C ALA 2.9 15.3 + - - -
161C ILE 3.3 3.6 + - - -
163C LEU* 1.3 77.6 - - - +
165C ILE* 1.3 55.9 + - - +
167C ILE* 3.3 1.2 + - - -
168C THR* 2.9 24.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 165 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72C ALA 4.0 0.4 + - - -
77C PRO* 5.5 6.7 - - + +
80C LEU* 3.6 29.8 - - + -
161C ILE* 3.0 24.5 + - + +
162C ILE* 3.7 22.7 - - + +
164C GLY* 1.3 76.4 - - - +
166C ALA* 1.3 64.1 + - - +
168C THR* 3.1 11.0 - - + +
169C TYR* 2.9 42.6 + - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 166 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
195A ALA* 3.6 34.8 - - + +
198A LEU* 4.4 9.5 - - + +
199A ILE* 3.7 11.2 - - + -
162C ILE 2.9 17.8 + - - +
163C LEU 3.6 5.4 - - - +
164C GLY 3.3 0.2 - - - -
165C ILE* 1.3 78.5 - - - +
167C ILE* 1.3 57.1 + - - +
169C TYR* 3.1 9.6 + - - +
170C LEU* 2.9 30.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 167 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
191A GLY 5.6 0.2 - - - +
195A ALA* 4.4 14.1 - - + -
69C VAL* 4.3 18.4 - - + -
73C ALA* 3.9 14.6 - - + -
163C LEU* 2.9 31.3 + - + +
164C GLY 3.8 3.8 - - - +
166C ALA* 1.3 76.7 - - - +
168C THR* 1.3 58.6 + - - +
170C LEU* 2.8 23.7 + - + +
171C MET* 3.1 17.7 + - + +
182C ALA* 4.1 16.4 - - + +
185C LEU* 4.0 31.2 - - + -
186C LEU* 4.1 26.5 - - + +
189C PHE* 4.9 0.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with THR 168 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72C ALA 4.2 2.7 - - - +
73C ALA* 3.3 22.8 + - - -
75C ILE 3.1 22.4 + - - +
76C SER* 4.6 0.9 - - - -
77C PRO* 3.8 29.2 - - + +
80C LEU* 5.4 0.4 - - + -
164C GLY 2.9 15.7 + - - +
165C ILE* 3.1 20.0 - - + +
167C ILE* 1.3 77.5 - - - +
169C TYR* 1.3 57.3 - - - +
171C MET* 4.2 12.3 + - - +
172C ASN* 2.9 22.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 169 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
198A LEU* 5.0 17.5 - - + +
77C PRO* 3.5 35.9 - - + +
165C ILE* 2.9 35.5 + - + +
166C ALA* 3.5 11.4 - - - +
168C THR* 1.3 75.2 - - - +
170C LEU* 1.3 65.7 + - - +
172C ASN* 3.7 15.6 + - + +
173C ARG* 4.2 4.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 170 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
191A GLY* 3.9 7.6 - - - +
194A GLU* 3.7 12.6 - - + +
195A ALA* 3.6 31.0 - - + +
198A LEU* 3.6 29.8 - - + -
166C ALA 2.9 13.1 + - - +
167C ILE* 2.8 13.3 + - + +
169C TYR* 1.3 74.9 - - - +
171C MET* 1.3 56.0 + - - +
172C ASN 2.9 4.9 - - - -
173C ARG* 2.8 38.0 + - - +
178C VAL* 3.7 23.3 - - + +
179C ARG* 4.5 6.6 + - - -
182C ALA* 3.6 25.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with MET 171 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73C ALA 4.1 15.0 - - - +
74C SER* 6.0 0.4 - - - -
167C ILE* 3.1 13.5 + - + +
168C THR* 4.2 15.0 + - - +
169C TYR 3.5 0.4 - - - -
170C LEU* 1.3 74.1 - - - +
172C ASN* 1.3 64.9 + - - +
173C ARG 3.4 0.8 + - - -
179C ARG* 3.9 29.7 + - + +
182C ALA* 4.0 17.0 - - + -
183C GLU* 4.1 31.6 - - - +
186C LEU* 3.8 31.0 - - + -
----------------------------------------------------------
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