Contacts of the helix formed by residues 141 - 164 (chain A) in PDB entry 4FLL
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 141 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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139A LEU 3.4 3.4 + - - -
140A LEU* 1.3 77.1 - - - +
142A SER* 1.3 60.5 + - - +
143A GLU* 3.4 10.8 + - - +
144A ASP* 2.9 36.8 + - - -
145A ILE* 2.8 29.5 + - - +
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Residues in contact with SER 142 (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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141A SER* 1.3 73.8 - - - +
143A GLU* 1.3 57.0 + - - +
145A ILE* 3.3 10.6 + - - +
146A GLU* 3.0 34.6 + - - +
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Residues in contact with GLU 143 (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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141A SER* 3.4 8.6 + - - +
142A SER* 1.3 75.9 - - - +
144A ASP* 1.3 67.6 + - - +
146A GLU* 3.3 8.0 + - + +
147A GLY* 3.1 18.7 + - - -
237A TYR* 4.0 12.3 + - + +
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Residues in contact with ASP 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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138A LYS* 3.9 19.4 - - - -
139A LEU 4.7 0.3 - - - +
140A LEU* 3.6 26.2 - - + -
141A SER* 2.9 38.2 + - - +
143A GLU* 1.3 78.4 - - - +
145A ILE* 1.3 58.6 + - - +
147A GLY* 3.1 1.4 + - - -
148A MET* 2.7 33.3 + - - +
237A TYR* 2.6 38.4 + - + +
307A LYS* 4.2 11.1 + - - -
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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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140A LEU* 3.8 26.7 - - + +
141A SER 2.8 22.2 + - - +
142A SER* 3.3 8.7 + - - +
143A GLU 3.2 0.2 - - - -
144A ASP* 1.3 77.6 - - - +
146A GLU* 1.3 57.5 + - - +
148A MET* 3.2 6.3 + - + +
149A ARG* 2.7 62.5 + - + +
330A GLY* 4.8 6.5 - - - -
332A VAL* 5.5 0.2 - - + -
371A LEU* 3.9 36.3 - - + -
380A LEU* 6.0 0.2 - - + -
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Residues in contact with GLU 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 SER 3.0 17.3 + - - +
143A GLU* 3.6 10.5 - - + +
144A ASP 3.3 0.2 - - - -
145A ILE* 1.3 77.3 - - - +
147A GLY* 1.3 57.3 + - - +
149A ARG* 2.7 43.2 + - - +
150A LEU* 3.0 30.3 + - - +
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Residues in contact with GLY 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 GLU 3.1 9.9 + - - -
144A ASP 3.1 6.5 + - - -
146A GLU* 1.3 74.2 - - - +
148A MET* 1.3 59.7 + - - +
150A LEU* 3.4 8.1 + - - +
151A VAL* 3.1 30.3 + - - +
234A ARG* 5.1 1.0 - - - +
235A ASN* 6.0 2.5 - - - -
237A TYR* 3.8 28.4 - - - +
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Residues in contact with MET 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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140A LEU* 3.7 19.7 - - + -
144A ASP 2.7 19.1 + - - +
145A ILE* 3.7 6.3 - - - +
147A GLY* 1.3 75.1 - - - +
149A ARG* 1.3 67.3 + - - +
151A VAL* 4.0 1.1 - - - -
152A CYS* 3.0 34.6 + - - +
237A TYR* 3.8 17.7 - - + -
238A HIS 3.1 28.0 - - - +
305A ILE 3.4 23.6 - - - +
306A HIS* 3.7 15.0 - - - -
332A VAL* 3.5 16.6 - - + -
369A THR* 4.0 13.2 - - + -
380A LEU* 4.0 13.9 - - + -
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Residues in contact with ARG 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 ILE* 2.7 39.6 + - + +
146A GLU* 2.7 44.4 + - - +
148A MET* 1.3 73.4 - - - +
150A LEU* 1.4 62.4 + - - +
152A CYS* 4.1 1.4 - - - +
153A ARG* 3.2 23.4 + - - +
371A LEU* 4.3 3.6 - - - +
378A GLU* 2.8 43.7 + - - +
380A LEU* 3.9 17.5 - - + +
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Residues in contact with LEU 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 GLU 3.0 17.6 + - - +
147A GLY* 3.7 7.2 - - - +
148A MET 3.2 0.2 - - - -
149A ARG* 1.4 73.7 - - - +
151A VAL* 1.3 67.6 + - - +
153A ARG* 3.2 32.3 + - - +
154A LEU* 3.0 40.6 + - + +
234A ARG* 4.2 15.3 - - + +
235A ASN* 4.0 23.8 - - + +
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Residues in contact with VAL 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 GLY 3.1 20.2 + - - +
148A MET* 3.6 8.5 - - - +
150A LEU* 1.3 78.4 - - - +
152A CYS* 1.3 59.3 + - - +
154A LEU* 3.3 7.8 + - - +
155A ALA* 2.9 26.9 + - - +
188A CYS* 5.0 0.7 - - - -
232A LEU* 3.2 39.5 - - + +
234A ARG* 3.8 18.4 - - + +
237A TYR* 3.4 21.3 - - + +
238A HIS 3.6 24.5 - - - +
239A GLY* 3.6 4.0 - - - +
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Residues in contact with CYS 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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148A MET* 3.0 25.4 + - - +
149A ARG 4.2 1.1 - - - +
151A VAL* 1.3 80.1 - - - +
153A ARG* 1.3 55.8 + - - +
155A ALA* 3.4 5.7 + - - +
156A ARG* 2.9 27.9 + - - +
239A GLY* 3.6 22.2 - - - -
369A THR* 3.9 14.8 - - - -
380A LEU* 3.3 44.6 - - + +
381A THR* 3.7 17.5 - - + +
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Residues in contact with ARG 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 ARG 3.2 18.2 + - - +
150A LEU* 3.2 27.3 + - - +
152A CYS* 1.3 75.6 - - - +
154A LEU* 1.3 76.4 + - - +
156A ARG* 3.2 8.5 + - + +
157A GLU* 2.7 60.6 + - + +
380A LEU 4.0 5.5 + - - +
382A ARG 6.0 0.7 - - - -
384A LEU* 4.0 29.2 - - + -
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Residues in contact with LEU 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 LEU* 3.0 35.9 + - + +
151A VAL* 3.8 6.5 - - - +
153A ARG* 1.3 98.0 - - - +
155A ALA* 1.3 60.9 - - - +
157A GLU* 3.2 23.3 + - - +
158A VAL* 3.0 26.2 + - - +
186A ARG* 4.1 23.1 - - + +
188A CYS* 3.6 23.8 - - - -
232A LEU* 3.6 12.8 - - + -
234A ARG* 4.3 9.2 - - + +
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Residues in contact with ALA 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 VAL 2.9 17.4 + - - +
152A CYS* 3.7 5.2 - - - +
154A LEU* 1.3 74.9 - - - +
156A ARG* 1.3 59.6 + - - +
158A VAL* 3.1 4.0 + - - +
159A LEU 2.9 24.1 + - - -
230A ILE* 3.8 2.2 - - + +
232A LEU* 3.7 22.1 - - + +
239A GLY 3.7 23.1 - - - +
241A LEU* 3.5 25.6 - - + +
381A THR* 5.0 0.2 - - + -
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Residues in contact with ARG 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 CYS 2.9 16.7 + - - +
153A ARG* 3.2 8.7 + - + +
155A ALA* 1.3 76.5 - - - +
157A GLU* 1.4 66.4 + - + +
159A LEU* 3.2 9.8 + - - +
160A ASP* 2.9 49.9 + - - +
241A LEU* 3.6 24.3 - - + +
243A GLU* 2.9 30.9 + - - +
367A GLU 5.8 0.2 + - - -
368A HIS* 3.7 17.0 - - - -
381A THR 2.9 31.3 + - - +
382A ARG 3.6 13.7 - - - +
383A ARG* 3.5 32.4 - - - +
384A LEU* 5.3 2.5 - - + +
390A HIS* 4.0 1.2 + - - -
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Residues in contact with GLU 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 ARG* 2.7 54.7 + - + +
154A LEU* 3.2 14.5 + - - +
156A ARG* 1.4 79.1 - - + +
158A VAL* 1.3 61.8 + - - +
160A ASP* 3.3 10.2 + - - +
161A VAL* 3.1 26.2 + - - +
186A ARG* 2.8 37.6 + - - +
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Residues in contact with VAL 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 LEU 3.0 16.8 + - - +
155A ALA 3.1 6.7 + - - +
157A GLU* 1.3 75.3 - - - +
159A LEU* 1.3 66.3 + - - +
161A VAL* 3.1 16.3 + - - +
162A ALA* 3.1 12.1 + - - +
179A VAL* 3.9 37.4 - - + +
182A ALA* 4.0 22.9 - - + +
183A CYS* 4.2 3.6 - - - +
186A ARG* 3.7 22.2 - - - +
230A ILE* 4.0 15.5 - - + -
232A LEU* 3.8 13.9 - - + -
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Residues in contact with LEU 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 ALA 2.9 13.9 + - - +
156A ARG* 3.7 18.2 - - - +
158A VAL* 1.3 77.3 - - - +
160A ASP* 1.3 58.8 + - - +
162A ALA* 3.1 5.0 + - + +
163A ALA* 2.8 26.2 + - - +
228A VAL* 3.4 32.5 - - + +
230A ILE* 3.8 20.6 - - + +
241A LEU* 3.7 25.1 - - + +
242A ASN* 4.7 1.1 - - - -
243A GLU* 3.7 32.8 - - + +
245A PHE* 3.9 17.7 - - + -
390A HIS* 5.0 1.1 - - + -
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Residues in contact with ASP 160 (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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156A ARG* 2.9 49.0 + - - +
157A GLU* 3.6 10.8 - - - +
159A LEU* 1.3 78.3 - - - +
161A VAL* 1.3 61.9 + - - +
163A ALA* 3.3 2.4 + - - +
164A GLY* 3.2 18.4 + - - -
383A ARG* 4.2 9.4 + - - -
385A ASP* 4.8 8.3 - - - +
390A HIS* 2.7 37.4 + - + +
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Residues in contact with VAL 161 (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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157A GLU 3.1 16.3 + - - +
158A VAL* 3.1 12.9 + - + +
160A ASP* 1.3 77.0 - - - +
162A ALA* 1.3 64.4 + - - +
164A GLY* 3.2 11.3 + - - -
165A MET* 3.6 14.7 + - + +
178A ALA* 4.6 22.4 - - + +
179A VAL* 5.4 0.9 - - + +
182A ALA* 4.3 21.1 - - + -
186A ARG* 4.4 12.8 - - - +
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Residues in contact with ALA 162 (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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158A VAL 3.1 7.2 + - - +
159A LEU* 3.1 11.3 + - + +
161A VAL* 1.3 81.4 - - - +
163A ALA* 1.3 63.2 + - - +
165A MET* 3.0 27.3 + - - +
166A ILE* 3.5 13.4 - - - +
175A ILE* 4.0 8.0 - - + +
179A VAL* 4.0 16.6 - - + +
228A VAL* 3.8 31.4 - - + -
245A PHE* 5.2 0.2 - - - -
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Residues in contact with ALA 163 (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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159A LEU 2.8 14.1 + - - +
160A ASP 3.5 9.2 - - - +
161A VAL 3.3 0.2 - - - -
162A ALA* 1.3 73.4 - - - +
164A GLY* 1.3 61.5 + - - +
165A MET 3.2 1.4 + - - -
166A ILE* 3.4 20.4 + - - +
245A PHE* 3.5 33.8 - - + -
390A HIS* 3.6 28.7 - - + +
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Residues in contact with GLY 164 (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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160A ASP 3.2 9.4 + - - -
161A VAL 3.2 5.1 + - - -
162A ALA 3.1 1.4 - - - -
163A ALA* 1.3 78.7 - - - +
165A MET* 1.3 60.1 + - - +
166A ILE 3.5 1.7 + - - +
167A LYS* 5.8 1.9 - - - +
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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