Contacts of the helix formed by residues 170 - 192 (chain G) in PDB entry 3A68
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 TYR 170 (chain G).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56G GLU* 4.2 7.2 - - - -
94G HIS* 2.7 52.6 + + + -
97G LYS* 3.3 21.3 - - + +
98G LEU* 3.3 25.0 + - + +
147G LEU* 3.8 33.8 - - + +
165G PHE* 3.6 33.0 - + - -
166G VAL* 3.0 18.0 + - + +
168G THR 3.5 0.4 - - - -
169G GLU* 1.3 93.2 - - + +
171G LEU* 1.3 62.3 + - - +
172G GLY 3.5 2.2 - - - -
173G GLU* 3.5 5.5 + - + +
174G GLN* 2.9 30.3 + - - +
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Residues in contact with LEU 171 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160F VAL* 3.5 37.0 - - + -
161F GLN* 3.7 20.9 - - + +
164F ASP* 5.8 0.2 - - - +
144G ASN* 4.4 8.0 - - - +
147G LEU* 3.8 31.2 - - + -
148G LEU* 4.2 19.3 - - + -
151G HIS* 4.5 2.5 - - + -
166G VAL* 3.1 24.4 + - + +
167G GLU* 3.6 22.1 + - + +
170G TYR* 1.3 77.1 - - - +
172G GLY* 1.3 63.1 + - - +
174G GLN* 3.2 5.4 + - - +
175G VAL* 3.1 24.9 + - - +
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Residues in contact with GLY 172 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161F GLN* 3.7 23.4 - - - +
164F ASP* 5.3 2.4 + - - -
167G GLU 4.0 5.9 + - - -
168G THR 5.5 0.2 + - - -
170G TYR 3.5 0.2 - - - -
171G LEU* 1.3 75.7 - - - +
173G GLU* 1.3 70.2 + - - +
175G VAL* 3.2 4.9 + - - +
176G GLU* 3.0 29.0 + - - +
215G CA 4.5 5.4 - - - -
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Residues in contact with GLU 173 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94G HIS* 5.6 11.7 - - + +
97G LYS* 5.8 0.8 + - - +
168G THR 3.7 2.8 - - - +
169G GLU* 3.3 31.6 - - - +
170G TYR* 3.5 8.2 + - - +
172G GLY* 1.3 75.9 + - - +
174G GLN* 1.3 58.5 + - - +
176G GLU* 3.3 10.4 + - - +
177G ALA* 3.0 28.5 + - - +
215G CA 2.6 28.8 - - - -
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Residues in contact with GLN 174 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94G HIS* 6.0 0.3 - - - -
140G GLU* 2.7 56.4 + - - +
143G THR* 3.6 17.3 - - - +
144G ASN* 3.3 39.3 - - + +
147G LEU* 3.8 10.7 - - + +
170G TYR 2.9 19.6 + - - +
171G LEU 3.5 5.8 - - - +
173G GLU* 1.3 77.7 - - - +
175G VAL* 1.3 61.3 + - - +
177G ALA* 3.3 3.6 + - - +
178G ILE* 3.0 26.5 + - + +
214G CA 4.0 7.3 - - - -
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Residues in contact with VAL 175 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101F TYR* 5.3 1.3 - - + -
104F LYS* 3.9 31.0 - - + +
105F ARG* 3.8 28.7 - - + +
161F GLN* 3.6 31.2 - - + +
144G ASN* 5.2 11.4 - - - +
171G LEU 3.1 15.3 + - - +
172G GLY 3.2 8.7 + - - +
174G GLN* 1.3 77.5 - - - +
176G GLU* 1.3 62.9 + - + +
178G ILE* 3.4 7.8 + - + +
179G LYS* 3.0 21.8 + - - +
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Residues in contact with GLU 176 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104F LYS* 2.7 42.9 + - + +
172G GLY 3.0 17.9 + - - +
173G GLU* 3.3 9.2 + - - +
175G VAL* 1.3 78.5 - - + +
177G ALA* 1.3 57.9 + - - +
179G LYS* 3.3 6.1 + - - +
180G ARG* 3.0 29.5 + - - +
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Residues in contact with ALA 177 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140G GLU* 4.1 22.2 - - - +
173G GLU 3.0 16.2 + - - +
174G GLN* 3.6 7.2 - - - +
175G VAL 3.3 0.2 - - - -
176G GLU* 1.3 76.4 - - - +
178G ILE* 1.3 63.5 + - - +
180G ARG* 3.3 9.0 + - - +
181G ILE* 3.1 32.8 + - + +
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Residues in contact with ILE 178 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37F ALA* 3.6 33.9 - - + +
39F GLN* 3.6 24.9 - - + +
104F LYS 5.8 0.4 - - - +
137G LEU* 3.9 16.6 - - + +
140G GLU* 3.9 27.8 - - + +
141G LYS* 4.1 7.6 - - + +
144G ASN* 3.9 14.8 - - + +
174G GLN* 3.0 30.2 + - - +
175G VAL* 3.8 7.9 - - + +
177G ALA* 1.3 74.1 - - - +
179G LYS* 1.3 61.3 + - - +
181G ILE* 3.5 0.4 + - - -
182G SER* 2.8 32.9 + - - -
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Residues in contact with LYS 179 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71B ASP* 3.0 47.2 + - - -
73B ASP* 3.9 17.7 - - + +
37F ALA* 4.3 3.8 - - + +
100F GLU 5.3 0.2 + - - -
103F ASN* 3.7 22.0 - - - +
104F LYS* 3.9 30.4 - - + +
175G VAL 3.0 16.0 + - - +
176G GLU* 3.9 5.6 - - - +
178G ILE* 1.3 77.9 - - - +
180G ARG* 1.3 64.3 + - - +
182G SER* 3.3 5.3 + - - -
183G GLU* 2.9 54.2 + - - +
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Residues in contact with ARG 180 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83G PHE* 3.6 30.1 - - - -
86G GLU* 5.5 4.4 + - - -
87G SER* 5.4 1.0 + - - -
176G GLU 3.0 17.2 + - - +
177G ALA* 3.5 10.3 - - - +
178G ILE 3.2 0.2 - - - -
179G LYS* 1.3 76.9 - - - +
181G ILE* 1.3 61.7 + - - +
183G GLU* 3.3 16.8 + - - +
184G TYR* 2.8 57.6 + - + +
204G LEU* 5.1 1.4 - - - +
207G GLU* 4.2 6.7 + - - +
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Residues in contact with ILE 181 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63G TYR* 3.7 11.9 - - - +
83G PHE* 4.1 25.1 - - + -
133G MET* 3.5 36.1 - - - +
136G ALA* 4.1 8.7 - - + +
137G LEU* 3.7 17.5 - - + +
140G GLU* 3.5 33.7 - - + -
177G ALA* 3.1 17.1 + - + +
178G ILE* 4.2 2.5 - - - +
180G ARG* 1.3 75.0 - - + +
182G SER* 1.3 66.0 + - - +
184G TYR* 3.1 9.3 + - + +
185G VAL* 2.9 21.3 + - - +
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Residues in contact with SER 182 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73B ASP* 3.5 28.3 - - - -
36F LEU* 3.5 18.9 - - - +
37F ALA* 3.2 22.4 + - - -
137G LEU* 3.4 16.9 - - - +
178G ILE 2.8 24.7 + - - -
179G LYS 3.5 4.9 - - - -
180G ARG 3.3 0.2 - - - -
181G ILE* 1.3 76.7 - - - +
183G GLU* 1.3 55.9 + - - +
185G VAL* 3.2 2.3 + - - -
186G ALA* 3.0 24.4 + - - +
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Residues in contact with GLU 183 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71B ASP* 4.5 2.8 - - - +
72B ARG 5.1 0.5 - - - +
73B ASP* 3.7 24.9 - - + +
76B ALA* 3.9 10.9 - - + +
78B ARG* 4.9 20.0 - - - +
179G LYS* 2.9 51.7 + - - +
180G ARG* 3.5 16.0 - - - +
181G ILE 3.2 0.4 - - - -
182G SER* 1.3 76.1 - - - +
184G TYR* 1.3 59.9 + - + +
186G ALA* 3.3 1.7 + - - +
187G GLN* 2.9 47.3 + - - +
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Residues in contact with TYR 184 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83G PHE* 3.7 26.2 - + - -
133G MET* 3.5 32.1 - - + -
180G ARG* 2.8 44.8 + - + +
181G ILE* 3.1 12.2 + - - +
183G GLU* 1.3 75.0 - - + +
185G VAL* 1.3 65.1 + - - +
187G GLN* 3.3 12.1 + - - +
188G LEU* 2.9 30.4 + - - +
200G PHE* 3.7 26.9 - + + -
203G MET* 4.9 0.7 - - + -
204G LEU* 3.3 20.0 - - + +
207G GLU* 2.6 37.7 + - - -
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Residues in contact with VAL 185 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28F VAL* 5.2 0.7 - - + -
36F LEU* 3.9 17.5 - - + -
130G LEU* 3.9 13.4 - - + +
133G MET* 3.7 36.8 - - + +
134G GLU* 3.9 12.8 - - + +
137G LEU* 4.4 11.2 - - + -
181G ILE 2.9 17.8 + - - +
182G SER 3.2 7.2 + - - +
184G TYR* 1.3 73.9 - - - +
186G ALA* 1.3 64.3 + - - +
188G LEU* 3.3 3.3 + - - +
189G ARG* 3.0 49.7 + - - +
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Residues in contact with ALA 186 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73B ASP 3.4 26.0 - - - +
74B ASN* 3.6 23.3 - - - +
75B VAL 4.8 1.6 - - - +
76B ALA* 3.9 7.0 - - + -
36F LEU* 4.0 8.3 - - + +
182G SER 3.0 10.0 + - - +
183G GLU 3.7 3.4 - - - +
185G VAL* 1.3 77.2 - - - +
187G GLN* 1.3 62.5 + - - +
189G ARG* 3.3 8.8 + - - +
190G ARG* 3.0 23.6 + - - +
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Residues in contact with GLN 187 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76B ALA* 3.8 23.0 - - + +
78B ARG* 2.9 32.7 + - - +
198B TRP* 2.9 34.7 + - + +
183G GLU* 2.9 38.9 + - - +
184G TYR* 3.8 17.6 - - - +
186G ALA* 1.3 73.6 - - - +
188G LEU* 1.3 67.2 + - - +
190G ARG* 3.0 7.5 + - - +
191G VAL* 2.9 29.6 + - - +
200G PHE* 3.8 13.7 - - + -
203G MET* 3.8 7.0 - - - +
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Residues in contact with LEU 188 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80G LEU* 5.6 0.4 - - + -
129G ALA* 3.8 34.8 - - + +
130G LEU* 4.1 16.3 - - + +
133G MET* 3.6 31.9 - - + -
184G TYR 2.9 21.2 + - - +
185G VAL* 3.7 4.0 - - - +
187G GLN* 1.3 75.6 - - - +
189G ARG* 1.3 62.5 + - - +
191G VAL* 3.6 4.3 - - - +
192G GLY* 3.2 22.5 + - - -
197G VAL* 4.1 21.5 - - + +
200G PHE* 3.5 38.4 - - + -
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Residues in contact with ARG 189 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28F VAL* 3.7 14.8 - - - +
29F PRO 3.0 30.9 + - - -
30F THR* 4.0 15.9 + - - +
31F VAL 5.4 1.8 + - - -
32F PRO* 6.1 1.4 - - - +
36F LEU* 3.7 12.5 - - - +
126G LYS* 5.5 1.0 - - - +
130G LEU* 3.9 21.1 - - + +
134G GLU* 2.8 33.1 + - - -
185G VAL* 3.0 32.1 + - - +
186G ALA* 3.6 8.5 - - - +
188G LEU* 1.3 77.4 - - - +
190G ARG* 1.3 63.8 + - - +
191G VAL 3.6 0.2 + - - -
192G GLY* 3.8 7.1 + - - -
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Residues in contact with ARG 190 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74B ASN 5.0 1.4 + - - -
75B VAL* 3.2 28.3 + - - +
76B ALA 5.4 0.4 + - - -
77B LEU* 3.6 32.9 - - - +
128B ASP* 3.2 38.0 + - - -
194B GLY* 3.3 46.9 - - - +
197B VAL* 3.8 11.1 - - - +
198B TRP* 4.1 13.2 - - + +
186G ALA 3.0 15.0 + - - +
187G GLN* 3.0 10.2 + - - +
189G ARG* 1.3 80.3 - - - +
191G VAL* 1.3 63.0 + - + +
192G GLY* 3.5 0.7 + - - -
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Residues in contact with VAL 191 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
195B HIS* 3.7 26.6 + - + +
198B TRP* 3.5 49.4 - - + -
187G GLN 2.9 22.6 + - - +
188G LEU* 3.6 13.2 - - + +
190G ARG* 1.3 77.4 - - - +
192G GLY* 1.3 65.9 + - - +
193G LYS 4.9 0.5 - - - +
196G GLY* 3.4 39.1 + - - +
197G VAL* 3.8 4.3 - - - +
200G PHE* 4.4 5.8 - - + -
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Residues in contact with GLY 192 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
188G LEU 3.2 14.3 + - - -
189G ARG 3.8 5.8 + - - -
190G ARG 3.3 3.0 - - - -
191G VAL* 1.3 78.6 - - - +
193G LYS* 1.3 67.8 + - - +
196G GLY* 3.6 0.5 - - - -
197G VAL* 3.1 27.2 + - - +
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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
------------------------------------------------------------
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