Contacts of the helix formed by residues 147 - 163 (chain D) in PDB entry 1UNH
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 SER 147 (chain D).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148D THR* 1.3 67.0 + - - +
149D SER* 4.3 8.7 - - - -
150D GLU* 3.0 48.7 + - - +
151D LEU* 3.2 17.7 + - - +
198D PRO* 4.7 9.6 - - - +
286D PHE* 6.1 1.2 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with THR 148 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156A ARG* 5.6 1.6 + - - -
147D SER* 1.3 70.8 - - - +
149D SER* 1.3 67.3 + - - +
151D LEU* 3.2 5.2 + - - +
152D LEU* 3.1 30.1 + - + +
179D ARG* 4.3 10.3 - - - +
196D ILE* 3.6 41.9 + - + +
197D THR* 3.9 8.3 - - - -
198D PRO* 3.6 27.0 - - - +
201D VAL* 4.3 3.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 149 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147D SER* 3.2 6.2 - - - -
148D THR* 1.3 81.2 - - - +
150D GLU* 1.3 63.0 + - - +
152D LEU* 3.5 9.3 + - - +
153D ARG* 3.5 17.4 + - - +
179D ARG* 4.5 14.5 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 150 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147D SER* 3.0 45.0 + - - +
149D SER* 1.3 79.2 + - - +
151D LEU* 1.3 80.8 + - - +
153D ARG* 3.2 12.4 + - - +
154D CYS* 3.0 27.9 + - - -
286D PHE* 4.9 7.6 - - - -
290D LYS* 5.1 10.7 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 151 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147D SER 3.2 19.5 + - - +
148D THR* 3.2 3.8 + - - +
150D GLU* 1.3 93.3 - - - +
152D LEU* 1.3 64.8 + - - +
154D CYS* 3.3 11.8 + - - +
155D LEU* 3.1 21.5 + - - +
198D PRO* 3.6 45.5 - - + +
201D VAL* 3.8 18.3 - - + +
202D VAL* 4.5 3.6 - - + -
286D PHE* 3.9 28.3 - - + -
289D LEU* 4.1 19.4 - - + +
290D LYS* 5.0 8.5 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 152 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148D THR* 3.1 21.1 + - + +
149D SER* 3.9 4.3 - - - +
151D LEU* 1.3 74.9 - - - +
153D ARG* 1.3 58.3 + - - +
155D LEU* 3.2 6.4 + - + +
156D GLY 2.9 23.2 + - - -
175D VAL* 3.4 31.5 - - + +
178D LEU* 4.0 30.7 - - + -
179D ARG* 3.7 37.9 - - + +
196D ILE* 3.8 19.3 - - + -
201D VAL* 3.9 27.8 - - + -
204D LEU* 5.7 0.7 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 153 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149D SER* 3.5 12.0 + - - +
150D GLU* 3.2 13.9 + - - +
152D LEU* 1.3 76.7 - - - +
154D CYS* 1.3 59.0 + - - +
156D GLY* 3.3 1.4 + - - +
157D GLU* 2.8 46.9 + - - +
171D PRO* 4.5 14.0 - - - +
172D THR* 4.8 12.8 + - - -
175D VAL* 4.5 9.9 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with CYS 154 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150D GLU* 3.0 26.2 + - - -
151D LEU* 3.3 14.8 + - - +
153D ARG* 1.3 76.0 - - - +
155D LEU* 1.3 57.2 + - - +
157D GLU* 3.5 8.1 - - - +
158D PHE* 2.9 25.6 + - - +
289D LEU* 3.3 33.0 - - + +
290D LYS* 4.1 10.8 - - - -
292D GLU* 3.6 8.8 - - + +
293D SER* 3.8 26.7 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 155 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151D LEU 3.1 12.4 + - - +
152D LEU* 3.4 11.0 - - + +
154D CYS* 1.3 73.4 - - - +
156D GLY* 1.3 60.7 + - - +
157D GLU 3.2 1.3 - - - -
158D PHE* 3.1 23.3 + - + +
159D LEU* 3.0 46.8 + - + +
174D PRO* 6.0 0.7 - - + -
178D LEU* 3.6 31.4 - - + -
201D VAL* 4.5 13.0 - - + -
204D LEU* 3.7 15.5 - - + -
205D TYR* 4.3 25.6 - - + -
208D CYS* 4.4 11.0 - - + -
226D LEU* 4.9 1.6 - - + -
289D LEU* 3.8 8.0 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 156 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152D LEU 2.9 14.0 + - - -
153D ARG 3.3 1.8 + - - -
155D LEU* 1.3 76.9 - - - +
157D GLU* 1.3 60.0 + - - +
159D LEU* 3.5 3.0 + - - +
160D CYS* 3.4 27.4 + - - -
171D PRO* 3.5 28.4 - - - +
174D PRO* 4.1 18.7 - - - +
175D VAL* 4.8 0.2 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 157 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153D ARG* 2.8 31.0 + - - +
154D CYS* 3.5 8.2 - - - +
156D GLY* 1.3 74.1 - - - +
158D PHE* 1.3 67.4 + - - +
160D CYS* 3.2 7.4 + - + +
161D ARG* 3.1 22.8 + - - +
171D PRO* 3.7 24.8 - - - +
292D GLU* 3.8 10.8 - - - +
293D SER* 3.7 26.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 158 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154D CYS 2.9 10.2 + - - +
155D LEU* 3.1 26.7 + - + +
157D GLU* 1.3 77.6 - - - +
159D LEU* 1.3 75.0 + - + +
161D ARG* 3.2 5.5 + - + +
162D ARG* 2.9 63.4 + - + +
205D TYR* 4.1 13.0 - + + -
208D CYS* 4.1 17.5 - - + -
209D ARG* 3.6 25.8 - - + -
212D ILE* 5.2 0.2 - - + -
292D GLU* 3.2 42.8 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 159 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
155D LEU* 3.0 29.8 + - + +
156D GLY 4.0 4.5 - - - +
157D GLU 3.2 0.6 - - - -
158D PHE* 1.3 94.8 - - + +
160D CYS* 1.3 54.1 + - - +
162D ARG* 4.3 2.7 - - - -
163D CYS* 2.8 39.0 + - - +
169D LEU* 5.5 3.4 - - + -
174D PRO* 3.6 33.4 - - + -
208D CYS* 4.7 3.1 - - + -
212D ILE* 4.1 24.5 - - + -
222D LEU* 4.1 25.6 - - + -
226D LEU* 4.2 26.7 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with CYS 160 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156D GLY 3.4 15.4 + - - -
157D GLU* 3.2 10.0 + - + +
159D LEU* 1.3 78.9 - - - +
161D ARG* 1.3 58.4 + - - +
162D ARG 3.6 0.3 + - - -
163D CYS 4.0 15.4 + - - +
164D TYR* 4.2 5.5 + - - +
166D LEU 5.3 6.2 - - - +
169D LEU* 3.6 42.0 - - + +
170D SER 4.2 0.2 - - - -
171D PRO* 4.0 21.8 - - + -
174D PRO* 5.7 0.2 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 161 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157D GLU* 3.1 12.5 + - + +
158D PHE* 3.6 10.1 - - + +
160D CYS* 1.3 77.0 - - - +
162D ARG* 1.3 59.5 + - - +
164D TYR* 5.0 5.6 + - - +
291D ASN 5.3 5.8 + - - -
292D GLU* 3.3 35.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 162 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158D PHE* 2.9 46.7 + - + +
159D LEU* 3.8 5.8 - - - +
160D CYS 3.2 0.2 - - - -
161D ARG* 1.3 78.2 - - - +
163D CYS* 1.3 59.4 + - - +
164D TYR* 3.2 8.9 + - - -
208D CYS 3.7 4.6 + - - -
209D ARG* 2.7 37.6 + - - +
210D ASP 5.1 0.6 - - - -
211D VAL 4.9 0.2 - - - +
212D ILE* 3.0 45.5 + - + +
213D SER 4.4 1.6 - - - +
214D SER* 3.2 39.7 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with CYS 163 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159D LEU* 2.8 25.0 + - - +
160D CYS* 4.1 6.5 - - - +
162D ARG* 1.3 70.5 - - - +
164D TYR* 1.3 50.4 + - - +
165D ARG 3.0 5.8 - - - -
166D LEU* 2.8 51.8 + - + +
169D LEU* 5.8 0.7 - - + -
212D ILE* 3.7 30.5 - - - -
213D SER 4.3 5.2 - - - -
214D SER 4.0 7.6 - - - -
216D VAL* 4.3 11.7 - - + +
222D LEU* 4.1 20.6 - - + -
----------------------------------------------------------
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