Contacts of the helix formed by residues 138 - 159 (chain A) 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 A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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137A PHE* 1.3 76.8 - - - +
139A LEU* 1.3 65.0 + - - +
140A LYS* 4.1 7.5 + - - +
141A THR* 3.2 12.6 + - - -
142A VAL* 3.0 21.6 + - - +
328A ASP* 2.5 38.8 + - - +
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Residues in contact with LEU 139 (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 PHE 4.0 0.6 + - - -
138A THR* 1.3 71.7 - - - +
140A LYS* 1.3 67.4 + - - +
142A VAL* 3.3 1.9 + - + -
143A LEU* 2.9 53.4 + - + +
246A LEU* 4.1 23.4 - - + +
283A PHE* 6.0 0.2 - - + -
284A PRO* 4.0 35.7 - - + -
287A MET* 4.4 7.9 - - + -
315A LEU* 4.5 3.4 - - + -
319A SER* 4.2 11.9 - - - +
321A PHE* 4.0 21.1 - - + -
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Residues in contact with LYS 140 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138A THR* 3.3 7.3 - - - +
139A LEU* 1.3 78.0 - - - +
141A THR* 1.3 58.8 + - - +
143A LEU* 3.3 2.5 + - - +
144A MET* 3.0 41.4 + - - +
316A PHE* 3.9 8.4 - - + -
321A PHE* 3.7 45.1 - - + -
322A VAL* 3.3 21.0 + - - +
324A ASP* 2.7 38.1 + - - -
326A GLU* 3.6 22.8 + - - +
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Residues in contact with THR 141 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137A PHE* 3.8 24.5 - - + -
138A THR* 3.2 7.9 + - - -
140A LYS* 1.3 76.6 - - - +
142A VAL* 1.3 66.2 + - - +
144A MET* 3.4 7.6 + - - +
145A ILE* 3.0 41.1 + - + +
326A GLU 4.5 2.1 + - - -
327A TYR* 3.4 13.5 - - + -
328A ASP* 2.9 38.4 + - - -
329A TRP* 3.9 12.6 - - + -
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Residues in contact with VAL 142 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137A PHE* 3.5 22.2 - - + +
138A THR 3.0 16.8 + - - +
139A LEU* 3.8 4.3 - - + +
141A THR* 1.3 76.6 - - - +
143A LEU* 1.3 57.0 + - + +
145A ILE* 3.4 9.0 + - - +
146A ALA* 2.8 34.1 + - + +
242A PHE* 4.0 35.2 - - + +
245A PHE* 3.5 21.5 - - + -
246A LEU* 3.7 24.2 - - + -
287A MET* 5.3 2.9 - - - -
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Residues in contact with LEU 143 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139A LEU* 2.9 33.2 + - + +
140A LYS 3.6 4.0 - - - +
142A VAL* 1.3 76.3 - - + +
144A MET* 1.3 61.9 + - - +
146A ALA* 3.8 3.3 - - + +
147A ILE* 2.9 41.9 + - + +
287A MET* 3.6 30.5 - - + -
312A PHE* 4.0 24.2 - - + +
315A LEU* 3.9 27.1 - - + -
316A PHE* 3.8 34.1 - - + +
321A PHE* 4.5 4.9 - - + -
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Residues in contact with MET 144 (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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140A LYS* 3.0 35.3 + - - +
141A THR* 3.8 4.3 - - - +
142A VAL 3.4 0.2 - - - -
143A LEU* 1.3 72.2 - - - +
145A ILE* 1.3 66.6 + - - +
148A GLN* 2.8 32.3 + - - +
316A PHE* 3.8 9.2 - - + -
322A VAL 3.7 5.6 - - - +
323A PHE* 3.5 40.6 - - + -
324A ASP* 3.3 18.6 - - - +
325A TYR* 3.1 40.4 - - - +
326A GLU 4.5 5.6 - - - +
327A TYR* 4.1 22.0 - - + -
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Residues in contact with ILE 145 (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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126A LEU* 3.9 27.1 - - + -
137A PHE* 4.4 5.2 - - + -
141A THR* 3.0 37.8 + - + +
142A VAL* 3.4 9.6 - - - +
144A MET* 1.3 77.1 - - - +
146A ALA* 1.3 59.4 + - - +
148A GLN* 3.1 6.1 + - - +
149A LEU* 2.9 49.5 + - + +
184A ILE* 3.3 26.2 - - + -
242A PHE* 4.5 4.7 - - + -
245A PHE* 4.2 23.8 - - + -
327A TYR* 4.3 6.1 - - + -
329A TRP* 4.1 5.2 - - + -
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Residues in contact with ALA 146 (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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142A VAL* 2.8 22.3 + - + +
143A LEU* 3.3 7.8 + - + +
145A ILE* 1.3 73.9 - - - +
147A ILE* 1.3 58.8 + - - +
149A LEU* 4.1 0.6 - - - +
150A ILE* 2.9 38.0 + - - +
242A PHE* 3.7 38.3 - - + -
287A MET* 6.3 0.2 - - + -
312A PHE* 3.9 18.6 - - + -
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Residues in contact with ILE 147 (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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143A LEU* 2.9 27.9 + - + +
144A MET 4.3 2.2 - - - +
146A ALA* 1.3 76.5 - - - +
148A GLN* 1.3 63.4 + - + +
150A ILE* 4.0 7.6 - - - +
151A THR* 3.2 26.2 + - - +
309A ARG* 3.8 25.0 - - + +
312A PHE* 3.9 38.4 - - + +
313A THR* 4.4 15.9 - - - +
316A PHE* 4.6 5.4 - - + -
323A PHE* 3.7 28.9 - - + -
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Residues in contact with GLN 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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144A MET* 2.8 26.3 + - - +
145A ILE* 3.1 8.2 + - - +
147A ILE* 1.3 78.0 - - + +
149A LEU* 1.3 58.0 + - - +
151A THR* 3.3 8.9 + - - -
152A ARG* 2.8 43.5 + - - +
183A ALA* 3.8 6.2 - - - +
184A ILE* 3.1 39.0 + - + +
323A PHE* 4.2 9.2 - - + -
325A TYR* 3.9 18.6 - - + +
327A TYR* 2.8 25.7 + - - -
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Residues in contact with LEU 149 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126A LEU* 4.5 2.7 - - + -
145A ILE* 2.9 40.0 + - + +
146A ALA* 4.1 4.3 - - - +
148A GLN* 1.3 73.3 - - - +
150A ILE* 1.3 60.3 + - - +
151A THR 3.2 0.2 - - - -
152A ARG* 3.6 16.8 - - + +
153A MET* 2.8 32.2 + - - +
171A PHE* 3.6 40.4 - - + -
184A ILE* 3.7 22.9 - - + +
238A LEU* 3.9 18.0 - - + +
241A MET* 3.8 23.6 - - + -
242A PHE* 4.6 2.0 - - + -
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Residues in contact with ILE 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 ALA* 2.9 23.3 + - + +
147A ILE* 4.0 5.2 - - - +
149A LEU* 1.3 76.8 - - - +
151A THR* 1.3 53.2 + - - +
153A MET* 3.7 4.9 - - - +
154A GLU* 2.8 33.6 + - - +
235A LEU* 5.2 3.8 - - + -
238A LEU* 4.5 4.4 - - + +
242A PHE* 5.0 5.2 - - + -
290A TYR* 4.0 23.8 - - + +
305A TYR* 4.0 30.0 - - + +
308A LEU* 4.2 18.4 - - + +
309A ARG* 4.0 21.1 - - - +
312A PHE* 3.7 33.7 - - + -
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Residues in contact with THR 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 ILE* 3.2 10.4 + - - +
148A GLN* 3.3 11.0 + - - -
149A LEU 3.2 0.2 - - - -
150A ILE* 1.3 75.1 - - - +
152A ARG* 1.3 73.7 + - - +
154A GLU* 3.3 4.4 + - - +
155A TYR* 2.9 29.1 + - + +
309A ARG* 3.0 34.9 + - - +
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Residues in contact with ARG 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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99A THR* 5.1 8.7 + - - +
101A GLY* 3.4 41.1 - - - +
148A GLN* 2.8 42.2 + - - +
149A LEU* 3.6 18.3 - - + +
151A THR* 1.3 90.3 - - - +
153A MET* 1.3 61.6 + - - +
155A TYR* 3.1 10.0 + - - +
156A VAL* 3.0 25.9 + - + +
171A PHE* 6.0 0.2 - - + -
183A ALA* 5.4 3.4 - - - +
184A ILE* 2.7 34.7 + - - +
186A ILE* 3.6 30.5 - - + +
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Residues in contact with MET 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 LEU 2.8 21.5 + - - +
150A ILE 3.7 3.1 - - - +
152A ARG* 1.3 70.1 - - - +
154A GLU* 1.3 66.5 + - - +
156A VAL* 3.2 9.8 + - + +
157A HIS* 2.9 54.8 + - + +
163A TYR* 3.2 32.1 - - + +
166A VAL* 4.8 4.5 - - - -
171A PHE* 6.0 1.3 - - - -
186A ILE* 4.6 9.4 - - - -
234A ASP* 2.7 45.5 - - + +
235A LEU* 4.0 16.8 - - + -
238A LEU* 4.2 11.2 - - + -
305A TYR* 4.9 0.2 - - - -
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Residues in contact with GLU 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 ILE 2.8 21.1 + - - +
151A THR* 3.6 6.9 - - - +
153A MET* 1.3 73.3 - - - +
155A TYR* 1.3 53.2 + - - +
157A HIS* 3.1 2.9 + - - +
158A THR* 2.7 44.8 + - - +
302A LYS* 5.7 2.1 - - - -
305A TYR* 3.4 49.5 - - + +
306A ASP* 4.8 4.2 - - - +
309A ARG* 2.5 34.8 + - - +
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Residues in contact with TYR 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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96A LEU* 3.8 19.7 + - + -
98A ALA* 3.5 28.4 + - - +
99A THR* 3.5 44.2 + - + +
102A VAL* 6.3 0.4 - - + -
151A THR* 2.9 14.8 + - + +
152A ARG* 3.1 11.6 + - - +
154A GLU* 1.3 72.5 - - - +
156A VAL* 1.3 69.6 + - + +
158A THR* 3.3 11.6 + - + -
159A LYS* 3.1 58.7 + - + +
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Residues in contact with VAL 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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96A LEU* 4.0 16.8 - - + -
152A ARG* 3.0 15.6 + - + +
153A MET* 3.2 23.1 + - + +
155A TYR* 1.3 76.8 - - + +
157A HIS* 1.3 62.2 + - - +
159A LYS* 3.0 14.0 + - - +
161A LEU* 3.2 43.2 + - + +
162A ILE 4.7 0.2 - - - -
163A TYR* 4.6 5.8 - - + +
186A ILE* 4.4 19.7 - - + -
189A PHE* 4.2 28.9 - - + -
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Residues in contact with HIS 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 MET* 2.9 39.5 + - + +
154A GLU 3.6 2.9 - - - +
156A VAL* 1.3 75.4 - - - +
158A THR* 1.3 58.7 + - - +
160A SER* 2.9 15.8 + - - -
161A LEU 3.3 19.1 - - - -
162A ILE* 4.0 7.6 - - + +
195A TYR* 2.4 28.8 + - - +
196A ILE* 5.3 0.2 - - - +
231A ARG* 3.3 39.9 - - + +
234A ASP* 2.9 26.2 + - - -
235A LEU* 4.6 2.7 - - + -
305A TYR* 2.7 36.5 + + + +
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Residues in contact with THR 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 GLU* 2.7 39.3 + - - +
155A TYR* 3.5 14.2 - - + -
156A VAL 3.3 0.2 - - - -
157A HIS* 1.3 72.6 - - - +
159A LYS* 1.3 67.9 + - + +
160A SER* 3.2 7.3 + - - -
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Residues in contact with LYS 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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95A GLN* 3.1 41.5 - - + +
96A LEU* 3.9 13.0 - - + -
98A ALA* 5.3 5.4 - - - +
155A TYR* 3.1 52.8 + - + +
156A VAL 3.0 10.1 + - - +
158A THR* 1.3 84.4 - - + +
160A SER* 1.3 67.3 - - - +
161A LEU* 3.3 6.8 + - + +
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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