Contacts of the helix formed by residues 158 - 185 (chain A) in PDB entry 1H7B
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 ASP 158 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156A ILE* 3.5 5.3 - - + +
157A ALA* 1.3 76.0 - - + +
159A ALA* 1.3 50.5 + - - +
160A LEU 3.8 0.4 + - - -
161A ASN* 2.9 42.4 + - + +
162A TYR* 2.7 37.1 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 159 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148A ILE* 4.2 7.2 - - + +
151A ALA* 4.1 22.7 - - + +
156A ILE 4.0 9.4 - - - +
157A ALA 3.0 10.8 + - - +
158A ASP* 1.3 67.5 - - - +
160A LEU* 1.3 68.5 + - + +
162A TYR* 2.7 26.5 + - - +
163A ALA* 3.1 10.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 160 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144A TYR* 3.6 18.3 + - - +
148A ILE* 4.3 11.7 - - + -
158A ASP 3.8 0.2 - - - -
159A ALA* 1.3 88.6 - - + +
161A ASN* 1.3 56.6 + - - +
163A ALA 4.0 0.7 - - - -
164A GLN* 3.3 24.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 161 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158A ASP* 2.9 42.3 + - + +
159A ALA 2.8 1.0 + - - -
160A LEU* 1.3 77.0 - - - +
162A TYR* 1.3 63.9 + - - +
163A ALA 3.3 0.4 - - - -
164A GLN* 3.8 10.7 - - - +
165A SER* 3.3 23.8 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 162 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147A HIS* 3.4 34.9 + - + -
150A ASP* 4.6 11.6 + - + +
151A ALA* 3.8 5.6 - - + -
154A TRP* 5.8 1.0 - - - -
156A ILE* 3.5 47.5 - - + +
158A ASP* 2.7 17.2 + - + +
159A ALA* 2.7 10.8 + - - +
161A ASN* 1.3 70.9 - - - +
163A ALA* 1.3 63.8 + - - +
165A SER* 4.0 2.8 - - - -
166A LYS* 3.0 64.2 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 163 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144A TYR* 3.1 36.3 - - + +
147A HIS* 3.9 17.9 - - + -
148A ILE* 3.4 26.5 - - + -
159A ALA 3.1 4.4 + - - -
160A LEU 3.9 1.6 - - - +
162A TYR* 1.3 75.7 - - - +
164A GLN* 1.3 68.4 + - - +
165A SER 2.8 0.9 + - - -
166A LYS 3.0 1.6 + - - -
167A THR* 2.8 26.2 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 164 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144A TYR* 3.5 14.0 + - + -
160A LEU 3.3 15.8 + - - +
161A ASN* 3.8 14.4 - - - +
163A ALA* 1.3 77.1 - - - +
165A SER* 1.3 58.1 + - - +
167A THR* 4.0 2.1 - - - -
168A GLU* 2.8 63.4 + - - +
205A TRP* 5.4 10.1 - - - -
209A MET* 5.3 3.2 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 165 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161A ASN* 3.3 14.8 + - - -
162A TYR* 4.0 4.3 - - - -
163A ALA 2.8 3.6 + - - -
164A GLN* 1.3 75.7 - - - +
166A LYS* 1.3 77.4 + - - +
168A GLU* 3.0 9.2 + - - +
169A LYS* 2.9 30.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 166 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147A HIS* 3.3 39.5 - - + +
162A TYR* 3.0 53.4 + - + +
163A ALA 3.0 1.2 + - - -
165A SER* 1.3 87.0 - - - +
167A THR* 1.3 55.1 + - - +
169A LYS* 2.9 29.5 + - - +
170A ASP* 2.7 36.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 167 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140A VAL* 4.0 14.1 - - + +
143A THR* 4.0 19.5 - - + -
144A TYR* 3.1 41.7 - - + -
147A HIS* 3.6 7.2 - - - -
163A ALA 2.8 18.4 + - - -
164A GLN* 4.0 3.8 - - - -
166A LYS* 1.3 71.8 - - - +
168A GLU* 1.3 61.8 + - - +
170A ASP* 3.2 1.2 + - - +
171A VAL* 2.9 24.9 + - + +
205A TRP* 4.4 2.2 - - + -
209A MET* 3.3 27.8 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 168 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
164A GLN* 2.8 52.0 + - - +
165A SER* 3.0 7.4 + - - +
167A THR* 1.3 76.5 - - - +
169A LYS* 1.3 62.4 + - - +
171A VAL* 3.4 3.0 + - - +
172A TYR* 3.1 23.0 + - - +
209A MET* 3.6 28.5 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 169 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165A SER* 2.9 18.4 + - - +
166A LYS* 2.9 30.3 + - - +
168A GLU* 1.3 74.0 - - - +
170A ASP* 1.3 67.7 + - - +
172A TYR* 3.2 6.0 + - + +
173A ASP* 3.0 50.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 170 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104A SER* 5.1 3.6 + - - -
105A ILE* 3.8 8.8 - - + +
106A GLY* 4.9 1.7 + - - -
143A THR* 3.3 22.8 + - + +
147A HIS* 3.1 31.6 + - - -
166A LYS* 2.7 14.2 + - - +
167A THR 3.4 9.0 - - - +
169A LYS* 1.3 74.7 - - - +
171A VAL* 1.3 56.6 + - - +
173A ASP* 4.3 5.0 - - - +
174A ALA* 3.2 26.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 171 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105A ILE* 4.0 13.0 - - + -
140A VAL* 3.8 21.8 - - + -
167A THR* 2.9 21.0 + - + +
168A GLU 3.7 4.5 - - - +
170A ASP* 1.3 76.3 - - - +
172A TYR* 1.3 64.2 + - - +
174A ALA* 3.8 3.8 - - - +
175A PHE* 3.1 35.2 + - + -
209A MET* 3.6 36.3 - - + +
210A ILE* 4.3 6.3 - - + -
213A ALA* 3.6 20.6 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 172 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168A GLU 3.1 16.1 + - - +
169A LYS* 3.2 7.4 + - + +
171A VAL* 1.3 74.5 - - - +
173A ASP* 1.3 79.6 + - - +
175A PHE* 3.0 6.1 + - - +
176A GLN* 2.9 47.3 + - - +
213A ALA* 4.2 22.9 - - + -
216A LYS* 4.2 15.2 + - + -
217A ASN* 3.7 28.0 + - + -
220A LYS* 3.7 30.0 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 173 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
169A LYS* 3.0 35.9 + - - +
170A ASP* 4.3 5.0 - - - +
172A TYR* 1.3 95.0 - - - +
174A ALA* 1.3 55.4 + - - +
176A GLN* 3.6 21.3 + - - +
177A ALA* 2.9 30.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 174 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105A ILE* 4.1 7.6 - - + +
106A GLY* 3.8 18.8 - - - +
109A THR* 3.2 32.9 + - + +
170A ASP 3.2 19.6 + - - +
171A VAL* 3.8 8.1 - - - +
172A TYR 3.1 0.8 - - - -
173A ASP* 1.3 79.4 - - - +
175A PHE* 1.3 57.8 + - + +
177A ALA* 3.5 5.8 + - - +
178A TYR* 3.0 21.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 175 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105A ILE* 4.3 8.3 - - + -
109A THR* 4.0 13.2 - - + -
112A MET* 4.4 11.4 - - + -
132A VAL* 4.7 3.8 - - + -
136A LEU* 3.5 33.4 - - + -
171A VAL* 3.1 29.8 - - + +
172A TYR 3.0 5.8 + - - +
174A ALA* 1.3 75.4 - - + +
176A GLN* 1.3 58.3 + - - +
177A ALA 3.1 1.8 - - - -
178A TYR* 3.4 9.8 - + + +
179A GLU* 2.7 37.0 + - - +
197A ILE* 6.0 0.9 - - + -
210A ILE* 3.7 31.9 - - + -
213A ALA* 4.2 11.2 - - + +
214A ILE* 3.5 40.2 - - + +
217A ASN* 4.1 4.2 + - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 176 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
172A TYR* 2.9 40.5 + - + +
173A ASP* 3.6 24.5 + - - +
175A PHE* 1.3 76.0 - - - +
177A ALA* 1.3 59.1 + - - +
179A GLU* 3.6 1.7 + - - +
180A TYR* 2.9 54.5 + - + -
217A ASN* 2.9 30.5 + - - +
220A LYS* 5.3 4.0 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 177 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109A THR* 5.7 0.4 - - - +
173A ASP 2.9 18.6 + - - +
174A ALA* 3.7 6.5 - - - +
176A GLN* 1.3 78.1 - - + +
178A TYR* 1.3 64.4 + - - +
180A TYR* 3.8 7.3 - - - +
181A GLU* 3.0 25.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 178 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109A THR* 3.7 21.3 - - - -
112A MET* 3.5 32.8 - - + -
113A ALA* 3.7 18.4 - - + -
116A THR* 2.8 27.9 + - - -
129A PHE* 3.6 5.5 - - - -
174A ALA 3.0 15.6 + - - +
175A PHE* 3.1 16.1 + + + +
177A ALA* 1.3 74.7 - - - +
179A GLU* 1.3 69.2 + - + +
181A GLU* 3.1 6.6 + - - +
182A VAL* 3.0 44.0 + - + +
195A VAL* 3.4 20.1 - - - +
197A ILE* 3.9 14.6 - - + -
232A PRO* 3.8 16.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 179 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175A PHE* 2.7 21.2 + - - +
176A GLN 3.8 2.0 - - - +
178A TYR* 1.3 79.5 - - + +
180A TYR* 1.3 59.7 + - + +
182A VAL* 3.5 1.7 + - - +
183A ASN* 2.9 34.0 + - - +
214A ILE* 4.5 11.3 - - - +
217A ASN* 3.3 26.8 + - - +
218A ARG* 3.0 49.9 + - - -
221A GLY 5.6 1.6 - - - -
222A LEU* 4.4 9.8 - - + +
229A PRO* 3.5 10.0 - - + +
231A PHE 4.7 0.7 - - - +
232A PRO* 3.8 18.6 - - + +
234A LEU* 5.2 0.7 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 180 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
176A GLN* 2.9 48.0 + - + +
177A ALA* 3.8 7.9 - - - +
179A GLU* 1.3 76.2 - - + +
181A GLU* 1.3 62.7 + - - +
183A ASN* 3.1 8.1 + - - +
184A THR* 2.8 34.5 - - + +
217A ASN* 5.5 1.1 - - - -
221A GLY 4.7 5.1 + - - -
222A LEU* 4.2 21.3 - - + -
223A GLY* 2.7 43.0 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 181 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110A ALA* 4.6 6.9 - - - +
113A ALA* 3.4 32.5 - - + +
114A GLN* 5.2 5.1 - - - +
177A ALA 3.0 18.5 + - - +
178A TYR 3.1 3.6 + - - +
180A TYR* 1.3 74.3 - - - +
182A VAL* 1.3 60.0 + - - +
184A THR* 4.0 10.5 + - - -
185A LEU* 2.8 52.9 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 182 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116A THR* 4.4 8.1 - - + -
178A TYR* 3.0 52.3 + - + +
179A GLU 3.6 8.3 - - - +
181A GLU* 1.3 77.1 - - + +
183A ASN* 1.3 63.1 + - - +
184A THR 3.6 0.2 + - - -
185A LEU* 3.7 9.6 - - + +
192A THR* 3.5 13.4 + - + +
193A PRO* 3.7 15.7 - - + +
195A VAL* 3.8 24.2 - - + -
231A PHE* 4.0 14.6 - - + +
232A PRO* 3.8 20.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 183 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
179A GLU* 2.9 23.1 + - - +
180A TYR* 3.1 8.8 + - + +
181A GLU 3.1 0.6 - - - -
182A VAL* 1.3 81.7 - - - +
184A THR* 1.3 61.1 + - + +
186A PHE* 4.7 4.5 - - - -
192A THR* 3.8 18.9 + - - +
222A LEU* 3.6 35.4 - - + +
229A PRO* 4.3 5.4 - - - +
230A ILE* 4.6 3.6 + - - +
231A PHE 2.9 33.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 184 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
180A TYR* 2.8 29.1 + - + +
181A GLU* 3.5 14.6 + - - -
183A ASN* 1.3 81.4 - - + +
185A LEU* 1.3 72.5 + - - +
186A PHE* 3.1 18.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 185 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113A ALA* 3.6 23.3 - - + +
114A GLN* 5.6 0.2 - - - -
116A THR* 4.9 3.8 - - - -
117A ALA* 3.8 26.7 - - + +
181A GLU* 2.8 47.1 + - + +
182A VAL* 3.7 10.3 - - - +
184A THR* 1.3 83.6 + - - +
186A PHE* 1.3 69.2 + - - +
192A THR* 3.8 0.9 + - - -
193A PRO* 3.2 41.0 - - + +
----------------------------------------------------------
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