Contacts of the helix formed by residues 142 - 159 (chain A) in PDB entry 2OAT
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 GLY 142 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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141A THR* 1.3 70.7 - - - +
143A VAL* 1.4 61.8 + - - +
145A ALA 3.0 11.1 + - - -
146A GLY* 3.1 9.7 + - - -
265A ILE* 3.4 34.4 - - - +
291A GLY* 5.5 2.1 - - - -
292A LYS 6.0 0.6 - - - +
302A SER* 4.3 5.3 - - - -
440A PFM 2.8 32.2 + - - -
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Residues in contact with VAL 143 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141A THR* 3.6 10.5 - - - +
142A GLY* 1.4 72.9 - - - +
144A GLU* 1.3 62.9 + - + +
146A GLY* 3.2 2.7 + - - +
147A GLU* 2.9 27.3 + - - +
178A TRP* 3.3 26.9 - - + +
179A GLY* 3.6 12.8 - - - -
180A ARG 3.9 4.3 - - - +
181A THR* 3.5 42.8 - - + +
184A ALA* 3.9 5.6 - - + -
440A PFM 2.8 23.5 + - - +
144B GLU* 3.7 12.1 - - + +
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Residues in contact with GLU 144 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139A MET* 3.8 23.7 - - + +
140A ASN* 2.9 41.2 + - - +
141A THR* 3.1 21.3 + - - +
143A VAL* 1.3 77.9 - - + +
145A ALA* 1.3 59.0 + - - +
147A GLU* 3.9 7.8 - - - +
148A THR* 2.7 35.3 + - - -
321A SER* 4.4 3.3 + - - -
141B THR* 2.9 31.9 + - - +
143B VAL* 3.8 16.3 - - + +
144B GLU* 4.8 2.0 - - + +
181B THR* 5.6 4.5 - - + -
440B PFM 4.5 1.4 + - - -
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Residues in contact with ALA 145 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139A MET* 4.7 1.8 - - - -
141A THR 3.2 4.9 + - - -
142A GLY 3.0 10.3 + - - +
144A GLU* 1.3 76.5 - - - +
146A GLY* 1.3 63.5 + - - +
148A THR* 3.3 3.7 + - - -
149A ALA* 2.9 23.9 + - - +
265A ILE* 4.3 11.4 - - + -
289A LEU* 4.2 7.0 - - + -
290A LEU 4.5 0.2 - - - +
302A SER* 3.9 20.1 + - - +
303A ALA 4.0 12.3 - - - +
304A VAL* 3.5 24.0 - - + +
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Residues in contact with GLY 146 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142A GLY 3.1 11.6 + - - -
143A VAL 3.2 3.6 + - - -
145A ALA* 1.3 78.4 - - - +
147A GLU* 1.3 55.6 + - - +
149A ALA* 3.2 3.2 + - - +
150A CYS* 2.9 32.4 + - - -
178A TRP* 3.5 21.5 - - - -
228A MET* 4.5 3.9 - - - +
265A ILE* 5.7 0.4 - - - -
289A LEU* 3.9 18.3 - - - +
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Residues in contact with GLU 147 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143A VAL* 2.9 25.4 + - + +
144A GLU* 3.9 7.2 - - - +
145A ALA 3.3 0.2 - - - -
146A GLY* 1.3 68.5 - - - +
148A THR* 1.3 61.7 + - - +
150A CYS* 3.2 6.4 + - - +
151A LYS* 2.9 34.2 + - + +
178A TRP* 3.5 8.9 - - + -
181A THR* 2.7 32.5 + - + +
183A SER* 3.2 18.7 + - - -
319A HIS* 6.0 1.1 - - - +
147B GLU* 4.1 0.7 - - - +
180B ARG 5.4 1.3 - - - +
181B THR* 3.6 31.3 - - + -
182B LEU* 2.8 33.8 + - - +
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Residues in contact with THR 148 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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137A LEU* 3.7 29.4 - - + -
139A MET* 3.5 7.6 - - - +
144A GLU 2.7 23.1 + - - -
145A ALA 3.5 4.9 - - - -
147A GLU* 1.3 77.7 - - - +
149A ALA* 1.3 58.2 + - - +
151A LYS* 3.1 7.9 + - - +
152A LEU* 2.8 35.7 + - + +
304A VAL* 3.9 13.7 - - + -
314A ILE* 4.9 2.2 - - + +
319A HIS* 3.1 35.8 + - + +
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Residues in contact with ALA 149 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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145A ALA 2.9 17.7 + - - +
146A GLY* 3.2 6.5 + - - +
148A THR* 1.3 76.8 - - - +
150A CYS* 1.3 58.4 + - - +
152A LEU* 3.4 12.9 + - - +
153A ALA* 2.9 29.3 + - - +
228A MET* 5.5 0.7 - - - -
261A ILE* 3.9 25.1 - - + +
287A ILE* 4.1 8.2 - - + +
289A LEU* 3.7 22.2 - - + -
304A VAL* 4.7 1.3 - - + -
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Residues in contact with CYS 150 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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146A GLY 2.9 17.8 + - - +
147A GLU* 3.5 8.5 - - - +
148A THR 3.2 0.2 - - - -
149A ALA* 1.3 78.3 - - - +
151A LYS* 1.4 57.0 + - - +
153A ALA* 3.3 2.2 + - - +
154A ARG* 3.0 35.0 + - - +
170A ILE* 3.8 26.0 - - + +
172A PHE* 4.2 11.7 - - - -
178A TRP* 3.9 25.4 - - - -
204A PHE* 4.3 5.2 - - - -
228A MET* 4.6 8.1 - - - -
261A ILE* 5.0 2.2 - - - -
182B LEU* 3.9 17.0 - - + -
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Residues in contact with LYS 151 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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147A GLU 2.9 16.1 + - - +
148A THR* 3.5 8.5 - - - +
150A CYS* 1.4 74.3 - - - +
152A LEU* 1.3 60.1 + - - +
154A ARG* 3.5 2.1 + - - -
155A LYS* 2.9 32.2 + - - +
314A ILE* 4.5 5.2 - - + -
318A GLU 3.9 7.7 + - - -
319A HIS* 2.8 31.3 - - + +
180B ARG* 2.8 36.2 + - - +
182B LEU* 3.3 29.2 - - + +
185B ILE* 3.8 21.9 - - + +
193B SER 4.7 0.6 + - - -
197B PHE* 3.5 36.9 - - + -
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Residues in contact with LEU 152 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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137A LEU* 5.1 0.9 - - + -
148A THR* 2.8 29.3 + - + +
149A ALA* 3.5 6.3 - - - +
151A LYS* 1.3 79.3 - - - +
153A ALA* 1.3 56.7 + - - +
155A LYS* 4.0 0.3 - - - +
156A TRP* 2.8 34.4 + - - +
259A LEU* 5.0 1.3 - - - -
287A ILE* 4.2 7.9 - - + -
304A VAL* 3.8 28.5 - - + -
306A CYS* 4.3 9.9 - - - -
310A ILE* 3.7 31.9 - - + +
311A MET* 3.8 20.2 - - - +
313A THR* 3.9 3.9 + - - +
314A ILE* 3.5 30.1 - - + -
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Residues in contact with ALA 153 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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149A ALA 2.9 18.5 + - - +
150A CYS 3.6 5.6 - - - +
152A LEU* 1.3 77.1 - - - +
154A ARG* 1.3 57.2 + - - +
156A TRP* 3.8 2.4 - - - +
157A GLY* 2.8 27.4 + - - -
170A ILE* 4.2 9.4 - - + -
225A ALA* 3.5 9.0 - - + +
226A ALA* 3.6 30.5 - - + -
259A LEU* 4.0 14.3 - - + +
261A ILE* 4.2 6.7 - - + -
287A ILE* 4.8 0.4 - - + +
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Residues in contact with ARG 154 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150A CYS 3.0 22.7 + - - +
151A LYS* 3.9 3.6 - - - +
153A ALA* 1.3 74.3 - - - +
155A LYS* 1.3 65.8 + - - +
157A GLY* 3.0 1.7 + - - -
158A TYR* 2.9 41.4 + - + -
168A ALA* 4.3 19.6 + - + -
170A ILE* 4.1 18.4 - - + +
201A MET* 3.8 4.2 - - - -
202A PRO 3.1 26.5 + - - -
203A GLY* 4.7 2.8 + - - -
204A PHE* 3.6 20.5 - - - -
225A ALA* 4.8 0.4 - - - -
182B LEU* 3.7 20.1 - - - +
196B GLY 4.0 5.2 - - - +
197B PHE* 2.9 21.4 + - - -
198B GLY 3.3 17.5 + - - +
199B PRO* 2.9 34.2 + - - +
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Residues in contact with LYS 155 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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151A LYS 2.9 18.7 + - - +
152A LEU* 4.0 1.1 - - - +
154A ARG* 1.3 77.3 - - - +
156A TRP* 1.3 53.4 + - - +
158A TYR* 4.0 2.0 - - - -
159A THR* 2.7 54.5 + - + +
313A THR* 2.9 39.3 + - - +
314A ILE* 4.6 1.6 - - + +
315A LYS* 4.7 3.8 - - - +
318A GLU* 2.9 29.8 + - - -
195B ASP 3.6 17.3 - - - -
196B GLY* 3.5 27.0 + - - +
197B PHE* 3.6 20.4 - - + -
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Residues in contact with TRP 156 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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152A LEU 2.8 17.8 + - - +
153A ALA 3.8 3.6 - - - +
155A LYS* 1.3 75.9 - - - +
157A GLY* 1.3 77.8 + - - +
159A THR* 4.1 0.2 - - - -
160A VAL* 2.7 54.3 + - + +
161A LYS* 3.0 28.4 + - + -
225A ALA 3.6 21.1 - - - -
257A GLN* 3.4 46.0 - - + -
259A LEU* 3.7 39.2 - - + +
309A ASP* 3.6 30.7 + - - -
310A ILE* 4.1 15.1 - - + +
313A THR* 3.7 15.4 + - + +
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Residues in contact with GLY 157 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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153A ALA 2.8 16.9 + - - -
154A ARG 3.0 4.7 + - - -
156A TRP* 1.3 87.1 - - - +
158A TYR* 1.3 55.2 + - - +
161A LYS* 3.3 6.0 - - - +
162A GLY 3.0 11.4 + - - -
163A ILE* 2.9 43.4 + - - +
168A ALA* 5.3 0.7 - - - -
225A ALA* 4.2 2.9 - - - -
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Residues in contact with TYR 158 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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154A ARG* 2.9 27.3 + - + +
155A LYS 4.1 1.6 - - - +
157A GLY* 1.3 76.2 - - - +
159A THR* 1.3 68.5 + - + +
162A GLY* 3.6 17.5 - - - -
163A ILE* 3.3 26.3 - - + +
164A GLN 3.4 18.8 - - - -
165A LYS* 3.6 26.5 - - + -
166A TYR* 3.2 22.4 - + - -
168A ALA* 3.2 34.3 + - + +
196B GLY* 3.3 29.6 - - - -
198B GLY 2.7 29.3 + - - -
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Residues in contact with THR 159 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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155A LYS* 2.7 46.9 + - + +
158A TYR* 1.3 78.4 - - + +
160A VAL* 1.3 63.8 + - - +
162A GLY 4.7 0.2 - - - -
165A LYS* 6.4 0.2 - - - +
313A THR* 3.7 20.7 - - - +
196B GLY* 6.1 1.3 - - - -
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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
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Atomic class I II III IV V VI VII VIII
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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