Contacts of the helix formed by residues 174 - 196 (chain B) in PDB entry 3UVH
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 174 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36B LEU* 5.4 0.7 - - - -
96B LEU* 3.1 19.5 - - - +
97B ALA 4.3 2.5 - - - +
98B ALA* 4.1 13.9 - - - +
169B ASP* 4.0 28.9 + - + +
172B GLU* 3.8 12.6 - - + +
173B LEU* 1.3 76.8 - - - +
175B LEU* 1.3 66.4 + - - +
176B ALA* 3.5 19.1 + - - +
177B ASP* 2.9 24.4 + - - +
178B CYS* 3.2 15.9 + - - -
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Residues in contact with LEU 175 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29B ARG* 5.2 0.3 + - - -
33B VAL* 3.7 37.0 - - + -
37B LYS* 5.4 0.4 - - - -
81B MET* 3.8 44.9 - - + +
85B GLU* 4.1 21.8 - - + +
96B LEU* 3.0 32.1 + - + +
97B ALA* 3.9 24.2 - - + +
98B ALA 5.4 0.2 - - - +
104B ASN* 5.8 0.9 - - - +
174B THR* 1.3 74.8 - - - +
176B ALA* 1.3 61.4 + - - +
178B CYS* 3.0 18.7 + - - +
179B ASN* 3.2 12.6 + - - +
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Residues in contact with ALA 176 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98B ALA* 4.5 1.5 - - + +
103B SER* 3.4 31.9 - - - +
104B ASN* 3.6 23.9 + - - +
108B LEU* 6.0 0.2 - - - +
168B LEU* 3.7 9.0 - - + +
174B THR* 3.5 11.8 + - - +
175B LEU* 1.3 77.8 - - - +
177B ASP* 1.3 61.2 + - - +
179B ASN* 3.4 8.9 + - - +
180B LEU* 3.2 22.2 + - - +
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Residues in contact with ASP 177 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32B MET* 5.3 0.2 - - + -
167B PHE* 3.4 9.4 - - - +
168B LEU* 3.1 24.3 + - - +
169B ASP 5.0 0.2 + - - -
172B GLU 3.8 0.7 - - - +
173B LEU* 3.3 31.9 - - + -
174B THR* 2.9 34.1 + - - +
176B ALA* 1.3 75.1 - - - +
178B CYS* 1.3 67.3 + - - +
180B LEU 4.5 0.2 - - - +
181B LEU* 3.0 36.6 + - + +
209B TYR* 2.6 30.5 + - - -
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Residues in contact with CYS 178 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29B ARG* 3.4 21.1 - - + +
32B MET* 3.6 32.3 - - + -
33B VAL* 3.7 29.2 - - + -
36B LEU* 3.6 23.6 - - - -
174B THR 3.2 14.3 + - - -
175B LEU* 3.0 12.8 + - - +
177B ASP* 1.3 79.2 - - - +
179B ASN* 1.3 57.1 + - - +
182B PRO* 3.0 25.5 - - - +
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Residues in contact with ASN 179 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25B PRO* 5.4 1.0 - - - +
29B ARG* 3.8 46.0 + - - +
78B ASN* 5.4 0.4 + - - +
104B ASN 5.3 1.4 + - - -
108B LEU* 3.6 29.7 - - + +
175B LEU 3.2 8.8 + - - +
176B ALA* 3.6 11.0 - - - +
177B ASP 3.1 0.4 - - - -
178B CYS* 1.3 75.9 - - - +
180B LEU* 1.3 63.8 + - - +
182B PRO* 3.5 9.5 - - - +
183B LYS* 2.7 43.7 + - - +
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Residues in contact with LEU 180 (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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106B ALA 4.2 8.7 - - - +
107B GLY* 3.5 29.6 - - - +
108B LEU* 4.5 13.0 - - + -
110B ILE* 5.5 0.7 - - + -
140B LEU* 4.1 15.9 - - + -
168B LEU* 4.1 13.5 - - + -
176B ALA 3.2 13.6 + - - +
179B ASN* 1.3 77.8 - - - +
181B LEU* 1.3 63.0 + - - +
183B LYS* 2.9 14.1 + - + +
184B LEU* 2.8 48.5 + - + +
209B TYR* 3.8 31.2 - - + +
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Residues in contact with LEU 181 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32B MET* 4.0 16.2 - - + -
173B LEU* 4.1 9.6 - - + -
177B ASP* 3.0 36.1 + - + +
180B LEU* 1.3 76.4 - - - +
182B PRO* 1.3 65.9 - - + +
184B LEU* 3.3 5.0 + - + +
185B HIS* 2.9 24.3 + - - +
209B TYR* 3.5 34.3 - - + +
210B LEU* 4.3 13.2 - - + -
213B ALA* 3.5 35.2 - - + -
219B PHE* 3.7 20.5 - - + -
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Residues in contact with PRO 182 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25B PRO* 3.8 25.1 - - + +
28B GLN* 3.2 45.1 - - + +
29B ARG 4.1 5.2 - - - +
32B MET* 4.1 7.2 - - - -
178B CYS 3.0 29.4 - - - +
179B ASN 3.5 6.7 - - - +
181B LEU* 1.3 90.0 - - + +
183B LYS* 1.3 59.7 + - - +
185B HIS* 3.5 5.4 + - + +
186B ILE* 3.3 27.9 + - - +
219B PHE* 4.2 1.3 - - + -
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Residues in contact with LYS 183 (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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25B PRO* 4.0 17.7 - - + -
26B PHE* 4.6 21.9 - - - -
29B ARG* 5.4 1.8 - - - +
108B LEU* 4.3 14.4 + - + +
111B PHE* 3.6 43.4 - - + -
179B ASN* 2.7 44.1 + - - +
180B LEU* 2.9 13.7 + - + +
182B PRO* 1.3 74.7 - - - +
184B LEU* 1.3 65.4 + - - +
186B ILE* 3.6 2.7 + - - +
187B VAL* 3.2 27.7 + - - +
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Residues in contact with LEU 184 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110B ILE* 4.1 36.3 - - + -
137B LEU* 4.4 9.9 - - + -
140B LEU* 3.9 19.7 - - + -
180B LEU* 2.8 24.5 + - + +
181B LEU* 3.8 8.5 - - + +
183B LYS* 1.3 77.8 - - - +
185B HIS* 1.3 60.6 + - - +
187B VAL* 3.3 8.0 + - + +
188B GLN* 3.0 27.1 + - - +
199B ILE* 5.4 4.5 - - + -
206B VAL* 5.2 4.5 - - + -
209B TYR* 3.9 19.7 - - + -
210B LEU* 3.9 30.5 - - + -
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Residues in contact with HIS 185 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28B GLN* 5.1 1.3 - - - -
181B LEU 2.9 17.3 + - - +
182B PRO* 3.6 7.2 - - + +
183B LYS 3.2 0.2 - - - -
184B LEU* 1.3 74.5 - - - +
186B ILE* 1.3 64.0 + - + +
188B GLN* 3.5 2.7 + - - +
189B VAL* 3.1 42.7 + - + +
210B LEU* 5.7 0.4 - - - +
214B TYR* 2.8 43.2 + + - -
219B PHE* 3.8 11.2 - - + -
223B CYS* 3.7 26.1 - - + -
224B PRO* 3.8 13.9 + - + -
226B ASP* 4.1 8.7 + - - -
229B ILE* 3.3 34.0 - - + +
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Residues in contact with ILE 186 (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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23B ASN* 3.7 21.3 - - - +
25B PRO* 3.8 32.5 - - + -
111B PHE* 4.0 17.0 - - + -
114B PHE* 3.9 9.4 - - + -
182B PRO 3.3 16.5 + - - +
183B LYS 3.8 4.9 - - - +
185B HIS* 1.3 73.3 - - + +
187B VAL* 1.3 68.5 + - - +
189B VAL 3.3 0.3 + - - -
190B VAL* 2.8 32.5 + - + +
229B ILE* 4.0 17.0 - - + -
233B TYR* 3.6 33.9 - - + +
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Residues in contact with VAL 187 (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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110B ILE* 4.5 12.6 - - + -
111B PHE* 3.9 11.7 - - + -
114B PHE* 3.5 43.3 - - + -
133B LEU* 4.5 13.5 - - + -
137B LEU* 5.4 7.2 - - + -
183B LYS 3.2 16.6 + - - +
184B LEU* 3.3 14.6 + - + +
186B ILE* 1.3 76.7 - - - +
188B GLN* 1.3 65.1 + - - +
191B CYS* 3.0 43.9 + - - +
197B PHE* 5.8 1.6 - - + -
199B ILE* 5.5 6.1 - - + -
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Residues in contact with GLN 188 (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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184B LEU 3.0 12.4 + - - +
185B HIS* 3.6 8.5 - - - +
187B VAL* 1.3 76.0 - - - +
189B VAL* 1.3 67.3 + - + +
191B CYS* 4.3 2.3 - - - +
192B LYS* 3.2 28.3 + - - +
197B PHE 4.7 1.3 - - - +
198B THR* 6.0 2.2 - - - +
199B ILE* 3.7 31.5 - - + +
207B HIS* 4.8 11.5 + - - -
210B LEU* 4.0 23.9 - - + +
214B TYR* 3.2 26.3 + - - +
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Residues in contact with VAL 189 (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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185B HIS* 3.1 35.3 + - + +
186B ILE 3.9 2.0 - - - +
188B GLN* 1.3 80.2 - - + +
190B VAL* 1.3 64.4 + - - +
192B LYS* 3.5 5.5 + - - +
193B LYS* 3.2 22.7 + - - +
214B TYR* 5.7 0.2 - - - +
226B ASP* 3.4 40.6 - - + +
229B ILE* 3.8 28.0 - - + -
230B GLU* 4.1 16.5 - - + +
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Residues in contact with VAL 190 (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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114B PHE* 3.8 11.4 - - + -
118B ILE* 3.6 30.1 - - + -
186B ILE* 2.8 26.9 + - + +
189B VAL* 1.3 71.0 - - - +
191B CYS* 1.3 65.4 + - - +
192B LYS 3.0 1.6 - - - -
193B LYS* 3.2 1.3 + - - -
194B TYR* 3.1 41.5 + - + +
229B ILE* 3.6 17.9 - - + +
230B GLU* 5.1 0.9 - - - +
233B TYR* 3.5 40.8 - - + -
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Residues in contact with CYS 191 (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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114B PHE* 3.6 25.4 - - - -
117B TYR* 4.0 21.1 - - - -
118B ILE* 4.5 7.9 - - - -
133B LEU* 4.0 13.7 - - - -
187B VAL* 3.0 28.8 + - + +
188B GLN* 4.3 2.5 - - - +
190B VAL* 1.3 76.4 - - - +
192B LYS* 1.3 58.0 + - - +
195B ARG* 3.0 26.5 + - - +
197B PHE* 3.3 36.6 + - + +
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Residues in contact with LYS 192 (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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188B GLN 3.2 19.3 + - - +
189B VAL* 3.9 4.0 - - - +
190B VAL 3.0 1.0 - - - -
191B CYS* 1.3 80.7 - - - +
193B LYS* 1.3 63.4 + - - +
196B GLY* 3.8 13.4 + - - -
197B PHE 3.5 14.6 - - - +
198B THR* 4.8 18.3 - - + +
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Residues in contact with LYS 193 (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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189B VAL 3.2 17.3 + - - +
190B VAL 3.2 0.2 + - - -
192B LYS* 1.3 81.2 - - - +
194B TYR* 1.3 92.3 + - + +
195B ARG 3.7 0.2 - - - -
196B GLY 5.0 0.2 - - - -
230B GLU* 3.7 40.5 + - + +
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Residues in contact with TYR 194 (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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118B ILE* 4.4 7.4 - - + -
190B VAL* 3.1 38.3 + - + +
193B LYS* 1.3 103.5 - - + +
195B ARG* 1.3 74.8 + - + +
196B GLY 3.9 0.2 - - - -
230B GLU* 3.0 37.3 + - - +
233B TYR* 4.2 6.3 - - + -
234B GLU* 3.4 30.4 - - + +
237B ALA* 3.6 30.5 - - + -
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Residues in contact with ARG 195 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117B TYR* 3.1 54.0 + - + +
118B ILE* 3.6 37.0 + - + +
120B ASN* 3.3 22.8 + - - +
126B ASN* 4.4 15.1 + - - -
191B CYS 3.0 11.4 + - - +
194B TYR* 1.3 90.8 + - - +
196B GLY* 1.3 57.2 + - - +
197B PHE* 3.0 10.3 + - + +
237B ALA* 4.2 18.0 + - - +
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Residues in contact with GLY 196 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
191B CYS 3.3 2.6 + - - -
192B LYS* 3.8 15.4 + - - -
193B LYS 5.0 0.2 - - - -
194B TYR 3.9 0.2 - - - -
195B ARG* 1.3 73.8 - - - +
197B PHE* 1.3 60.9 + - - +
198B THR* 3.3 13.1 + - - +
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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) + - + + + + + -
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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