Contacts of the helix formed by residues 138 - 159 (chain B) in PDB entry 2C47
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 THR 138 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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137B PHE* 1.3 75.9 - - - +
139B LEU* 1.3 65.4 + - - +
140B LYS* 4.0 7.1 + - - +
141B THR* 3.2 12.3 + - - -
142B VAL* 3.0 21.5 + - - +
328B ASP* 2.5 39.9 + - - +
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Residues in contact with LEU 139 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137B PHE 4.0 0.6 + - - -
138B THR* 1.3 71.1 - - - +
140B LYS* 1.3 66.5 + - - +
142B VAL* 3.4 2.4 + - + -
143B LEU* 2.9 54.7 + - + +
246B LEU* 4.1 28.7 - - + +
284B PRO* 3.9 33.2 - - + -
287B MET* 5.0 2.0 - - - -
315B LEU* 4.4 8.3 - - + -
319B SER* 4.2 10.5 - - - +
321B PHE* 4.0 21.8 - - + -
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Residues in contact with LYS 140 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138B THR* 3.3 8.2 + - - +
139B LEU* 1.3 80.0 - - - +
141B THR* 1.3 58.6 - - - +
143B LEU* 3.2 2.9 + - - +
144B MET* 2.9 46.1 + - - +
316B PHE* 3.8 14.7 - - + -
321B PHE* 3.8 37.1 - - + +
322B VAL* 3.0 28.7 - - - +
324B ASP* 2.7 31.7 + - - +
326B GLU* 3.6 25.0 + - - +
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Residues in contact with THR 141 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137B PHE* 4.0 13.2 - - + -
138B THR* 3.2 7.7 + - - -
140B LYS* 1.3 76.8 - - - +
142B VAL* 1.3 68.5 + - - +
144B MET* 3.2 8.9 + - - +
145B ILE* 2.9 42.3 + - + +
326B GLU 4.6 1.7 + - - -
327B TYR* 3.5 12.8 - - + -
328B ASP* 2.8 39.2 + - - +
329B TRP* 3.7 22.0 - - + -
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Residues in contact with VAL 142 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137B PHE* 3.6 22.0 - - + +
138B THR 3.0 19.8 + - - +
139B LEU* 3.8 4.9 - - + +
141B THR* 1.3 76.0 - - - +
143B LEU* 1.3 59.6 + - + +
145B ILE* 3.3 9.1 + - - +
146B ALA* 2.8 27.8 + - + +
242B PHE* 4.0 36.3 - - + +
245B PHE* 3.7 18.2 - - + -
246B LEU* 3.9 27.1 - - + -
287B MET* 5.0 4.3 - - + -
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Residues in contact with LEU 143 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139B LEU* 2.9 42.3 + - + +
140B LYS 3.6 3.8 - - - +
142B VAL* 1.3 75.5 - - + +
144B MET* 1.3 61.9 + - - +
146B ALA* 4.2 2.9 - - + -
147B ILE* 3.0 40.9 + - + +
287B MET* 4.6 7.2 - - + -
312B PHE* 3.9 45.1 - - + +
315B LEU* 3.8 30.7 - - + -
316B PHE* 4.0 24.5 - - + -
321B PHE* 4.5 4.0 - - + -
323B PHE* 5.1 0.2 - - - -
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Residues in contact with MET 144 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140B LYS* 2.9 38.0 + - - +
141B THR* 3.2 6.0 + - - +
143B LEU* 1.3 76.3 - - - +
145B ILE* 1.3 63.0 + - - +
148B GLN* 2.9 32.5 + - - +
316B PHE* 3.8 11.7 - - + -
322B VAL 4.1 1.8 - - - +
323B PHE* 3.2 59.6 - - + -
324B ASP 3.4 1.3 - - - +
325B TYR* 3.1 39.5 - - - +
326B GLU 4.2 7.4 - - - +
327B TYR* 4.0 19.5 - - + -
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Residues in contact with ILE 145 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126B LEU* 4.0 15.9 - - + -
137B PHE* 3.9 24.2 - - + -
141B THR* 2.9 35.9 + - + +
142B VAL* 3.4 9.0 - - - +
144B MET* 1.3 77.1 - - - +
146B ALA* 1.3 60.8 + - - +
148B GLN* 3.1 6.6 + - - +
149B LEU* 2.9 50.2 + - + +
184B ILE* 3.4 26.2 - - + +
242B PHE* 4.4 4.3 - - + -
245B PHE* 4.3 13.2 - - + -
327B TYR* 4.4 5.4 - - + -
329B TRP* 4.2 6.7 - - + -
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Residues in contact with ALA 146 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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142B VAL* 2.8 21.6 + - + +
143B LEU* 3.7 7.6 - - + +
145B ILE* 1.3 70.3 - - - +
147B ILE* 1.3 66.5 + - - +
149B LEU* 4.0 0.4 - - - +
150B ILE* 2.9 31.9 + - - +
242B PHE* 3.4 38.8 - - + -
287B MET* 6.1 0.2 - - + -
312B PHE* 3.8 18.4 - - + -
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Residues in contact with ILE 147 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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143B LEU* 3.0 26.9 + - + +
144B MET 4.3 3.1 - - - +
146B ALA* 1.3 76.6 - - - +
148B GLN* 1.3 60.9 + - + +
150B ILE* 3.7 7.8 + - - +
151B THR* 2.9 28.3 + - - +
309B ARG* 4.3 19.9 - - + +
312B PHE* 3.8 25.4 - - + +
313B THR* 3.8 38.1 - - + +
316B PHE* 4.8 4.9 - - + -
323B PHE* 4.0 26.7 - - + -
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Residues in contact with GLN 148 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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144B MET 2.9 23.0 + - - +
145B ILE* 3.1 8.7 + - - +
147B ILE* 1.3 78.9 - - + +
149B LEU* 1.3 53.1 + - - +
151B THR* 3.2 8.9 + - - -
152B ARG* 2.8 53.1 + - - +
183B ALA* 3.7 7.6 - - - +
184B ILE* 3.1 37.1 + - + +
323B PHE* 4.3 10.8 - - + -
325B TYR* 3.6 21.7 - - + +
327B TYR* 2.9 25.4 + - - -
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Residues in contact with LEU 149 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126B LEU* 4.4 2.7 - - + -
145B ILE* 2.9 35.5 + - + +
146B ALA 3.3 2.9 + - - +
148B GLN* 1.3 73.6 - - - +
150B ILE* 1.3 61.6 + - - +
152B ARG* 3.6 14.9 - - + +
153B MET* 2.8 31.9 + - - +
171B PHE* 3.7 30.7 - - + -
184B ILE* 3.7 28.5 - - + +
238B LEU* 3.9 19.4 - - + +
241B MET* 3.6 31.9 - - + -
242B PHE* 4.3 4.7 - - + -
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Residues in contact with ILE 150 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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146B ALA 2.9 22.0 + - - +
147B ILE* 3.9 3.8 - - - +
149B LEU* 1.3 75.8 - - - +
151B THR* 1.3 53.5 + - - +
153B MET* 3.2 3.0 + - - +
154B GLU* 2.7 32.9 + - - +
235B LEU* 5.1 4.5 - - + -
238B LEU* 4.4 8.9 - - + +
242B PHE* 4.8 2.7 - - + -
290B TYR* 4.0 24.7 - - + +
305B TYR* 4.0 32.3 - - + +
308B LEU* 4.2 4.9 - - + -
309B ARG* 4.0 34.5 - - + +
312B PHE* 3.8 32.8 - - + -
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Residues in contact with THR 151 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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147B ILE* 2.9 12.0 + - - +
148B GLN* 3.2 11.1 + - - -
149B LEU 3.2 0.2 - - - -
150B ILE* 1.3 77.0 - - - +
152B ARG* 1.3 75.3 + - - +
154B GLU* 3.4 2.9 + - - +
155B TYR* 3.0 22.5 + - - +
309B ARG* 2.9 36.6 + - - +
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Residues in contact with ARG 152 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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99B THR* 4.9 7.5 + - - -
101B GLY* 3.6 31.2 - - - +
102B VAL* 5.8 0.2 - - - -
148B GLN* 2.8 54.6 + - - +
149B LEU* 3.6 17.2 - - + +
150B ILE 3.3 0.2 - - - -
151B THR* 1.3 90.4 - - - +
153B MET* 1.3 62.2 + - - +
155B TYR* 3.1 17.1 + - - +
156B VAL* 3.1 18.8 + - - +
171B PHE* 6.1 0.2 - - + -
183B ALA* 4.9 5.1 - - - +
184B ILE 2.9 28.4 + - - +
186B ILE* 3.7 33.2 - - + +
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Residues in contact with MET 153 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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149B LEU 2.8 23.3 + - - +
150B ILE 3.7 2.7 - - - +
152B ARG* 1.3 70.8 - - - +
154B GLU* 1.3 66.6 + - - +
156B VAL* 3.3 6.3 + - - +
157B HIS* 3.0 52.9 + - + +
163B TYR* 3.8 31.2 - - + -
166B VAL* 3.6 31.4 - - + -
171B PHE* 4.7 3.6 - - + -
186B ILE* 4.4 13.0 - - + -
234B ASP* 3.9 15.3 - - + -
235B LEU* 4.0 9.4 - - + -
238B LEU* 4.1 21.8 - - + -
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Residues in contact with GLU 154 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150B ILE 2.7 21.0 + - - +
151B THR 3.6 5.2 - - - +
153B MET* 1.3 74.3 - - - +
155B TYR* 1.3 49.8 + - - +
157B HIS* 3.3 1.9 + - - +
158B THR* 2.7 52.8 + - - +
302B LYS* 5.7 2.6 - - - -
305B TYR* 3.4 49.6 - - + +
306B ASP* 4.9 1.9 - - - +
309B ARG* 2.5 35.1 + - - +
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Residues in contact with TYR 155 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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95B GLN 4.7 0.7 + - - -
96B LEU* 3.9 19.3 + - + -
98B ALA* 3.5 28.7 + - - +
99B THR* 3.5 43.1 - - + +
151B THR 3.0 13.9 + - - +
152B ARG* 3.1 13.4 + - - +
154B GLU* 1.3 74.2 - - - +
156B VAL* 1.3 70.9 + - + +
158B THR* 3.2 14.0 + - + -
159B LYS* 3.0 53.0 + - + +
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Residues in contact with VAL 156 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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96B LEU* 3.9 18.2 - - + -
102B VAL* 6.0 0.4 - - + -
152B ARG 3.1 15.0 + - - +
153B MET* 3.6 11.2 - - - +
154B GLU 3.3 0.2 - - - -
155B TYR* 1.3 77.6 - - + +
157B HIS* 1.3 61.7 + - + +
159B LYS* 2.9 21.0 + - - +
161B LEU* 3.3 43.1 + - + +
162B ILE 4.6 1.1 - - - +
163B TYR* 4.7 10.8 - - + -
186B ILE* 4.3 28.9 - - + -
189B PHE* 4.4 19.5 - - + -
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Residues in contact with HIS 157 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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153B MET* 3.0 35.2 + - + +
154B GLU 3.6 2.0 - - - +
156B VAL* 1.3 82.8 - - + +
158B THR* 1.3 57.4 + - - +
160B SER 2.9 15.2 + - - -
161B LEU 3.2 17.9 - - - -
162B ILE* 4.1 7.9 - - + -
195B TYR* 2.8 28.1 + - - +
231B ARG* 3.5 34.4 - - + +
234B ASP* 2.7 29.0 + - + -
235B LEU* 4.4 2.7 - - + -
305B TYR* 2.7 37.2 + + + +
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Residues in contact with THR 158 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154B GLU* 2.7 42.3 + - - +
155B TYR* 3.2 17.0 + - + +
157B HIS* 1.3 72.6 - - - +
159B LYS* 1.3 68.5 + - + +
160B SER* 3.2 6.5 + - - -
305B TYR* 5.7 0.3 - - - -
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Residues in contact with LYS 159 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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95B GLN* 3.4 34.0 + - + +
96B LEU* 3.9 13.7 - - + -
98B ALA* 6.2 0.4 - - - -
155B TYR* 3.0 45.7 + - + +
156B VAL 2.9 10.8 + - - +
158B THR* 1.3 83.7 - - - +
160B SER* 1.3 68.2 + - - -
161B LEU* 3.2 13.6 + - + +
194B GLU* 5.6 0.2 - - - +
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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
------------------------------------------------------------
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