Contacts of the helix formed by residues 178 - 200 (chain A) in PDB entry 4I6H
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 178 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174A ARG* 4.1 5.4 - - - +
177A LEU* 1.3 76.3 - - - +
179A GLU* 1.3 64.8 + - - +
180A PRO* 3.6 16.1 - - - +
181A GLU* 2.9 42.3 + - - +
182A VAL* 3.1 11.6 + - - +
351A VAL* 5.1 4.9 - - + -
352A PRO* 3.8 26.1 - - + +
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Residues in contact with GLU 179 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177A LEU 4.0 0.6 + - - -
178A THR* 1.3 70.7 - - - +
180A PRO* 1.4 65.3 - - + +
182A VAL* 3.2 8.2 + - - +
183A ARG* 2.8 51.5 + - - +
274A LEU* 3.8 15.7 - - + +
304A LEU* 3.6 37.6 + - - +
306A PRO* 5.7 0.9 - - - +
307A ALA* 3.5 23.7 + - - +
333A PHE* 3.8 22.8 - - + -
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Residues in contact with PRO 180 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
178A THR* 3.4 15.0 - - - +
179A GLU* 1.4 93.3 - - + +
181A GLU* 1.3 54.2 + - + +
183A ARG* 3.6 21.9 + - - +
184A TYR* 3.0 27.2 + - - +
338A PHE* 3.7 24.9 - - + +
340A PRO* 3.7 22.0 - - + +
343A LEU* 5.5 0.4 - - + -
355A HIS* 6.3 1.8 - - - +
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Residues in contact with GLU 181 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174A ARG* 2.6 44.3 + - - -
177A LEU* 4.1 18.1 - - + +
178A THR* 2.9 30.0 + - - +
180A PRO* 1.3 75.0 - - - +
182A VAL* 1.3 59.9 + - - +
184A TYR* 3.2 7.0 + - - +
185A TYR* 3.0 40.1 + - + -
343A LEU* 3.7 28.8 - - + +
347A CYS* 3.2 17.3 - - - +
352A PRO* 3.2 14.9 - - + +
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Residues in contact with VAL 182 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177A LEU* 4.0 13.2 - - + -
178A THR 3.1 13.8 + - - +
179A GLU 3.5 7.0 - - - +
181A GLU* 1.3 74.8 - - - +
183A ARG* 1.3 56.4 + - - +
185A TYR* 4.3 0.3 - - - +
186A LEU* 3.0 47.9 + - + +
270A MET* 4.4 4.0 - - + -
273A MET* 3.9 35.2 - - + -
274A LEU* 3.5 29.8 - - + -
333A PHE* 3.8 19.7 - - + -
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Residues in contact with ARG 183 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
179A GLU* 2.8 45.3 + - - +
180A PRO* 3.6 23.3 - - - +
182A VAL* 1.3 74.1 - - - +
184A TYR* 1.3 63.9 + - - +
187A ARG* 3.1 31.7 + - - +
333A PHE* 3.0 38.9 + - + +
334A PHE* 3.7 34.3 - - + +
337A GLY* 3.9 12.4 - - - -
338A PHE* 2.7 38.4 + - - +
339A THR* 3.0 24.5 + - + +
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Residues in contact with TYR 184 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
180A PRO 3.0 19.4 + - - +
181A GLU* 3.2 6.9 + - - +
183A ARG* 1.3 77.7 - - - +
185A TYR* 1.3 74.4 + + - +
187A ARG* 4.1 9.2 + - - +
188A GLN* 3.6 42.1 + - - +
217A MET* 2.5 34.9 + - + +
218A GLU* 4.9 1.9 - - - +
339A THR* 3.6 9.8 - - + +
340A PRO* 3.5 23.8 - - + -
341A ASP 3.3 23.2 + - - -
342A ARG* 4.5 5.7 - - - -
343A LEU* 3.6 48.2 + - + -
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Residues in contact with TYR 185 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167A MET* 3.6 31.0 - - + -
170A ILE* 3.7 24.2 - - + +
177A LEU* 4.0 15.5 - - + -
181A GLU* 3.0 32.4 + - + +
182A VAL 4.3 2.2 - - - +
184A TYR* 1.3 89.7 - + - +
186A LEU* 1.3 60.1 + - - +
187A ARG 3.4 0.2 - - - -
188A GLN* 3.4 10.8 + - - +
189A ILE* 3.1 30.2 + - - +
213A ILE* 3.7 23.1 - - + -
217A MET* 4.5 12.3 - - - -
219A LEU* 3.6 22.6 - - + +
273A MET* 4.3 6.5 - - + -
343A LEU* 3.5 27.8 - - + +
347A CYS* 5.1 4.0 + - - +
348A CYS* 5.4 0.3 - - - -
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Residues in contact with LEU 186 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182A VAL* 3.0 29.2 + - + +
185A TYR* 1.3 75.2 - - - +
187A ARG* 1.3 60.0 + - - +
189A ILE* 3.7 21.3 - - + +
190A VAL* 3.0 41.6 + - + +
266A LEU* 4.2 31.4 - - + +
269A VAL* 4.8 2.5 - - + -
270A MET* 3.5 44.0 - - + -
273A MET* 4.4 6.5 - - + -
314A MET* 5.6 3.6 - - + -
328A ILE* 6.0 1.8 - - + -
333A PHE* 4.8 0.2 - - + -
334A PHE* 3.8 18.8 - - + -
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Residues in contact with ARG 187 (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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183A ARG 3.1 23.1 + - - +
184A TYR* 4.2 11.4 + - - +
185A TYR 3.4 0.2 - - - -
186A LEU* 1.3 75.7 - - - +
188A GLN* 1.3 58.5 + - + +
190A VAL* 4.0 1.7 - - - +
191A SER* 3.1 28.5 + - - -
329A ILE* 4.6 17.5 - - + +
334A PHE* 3.6 25.5 - - + -
339A THR* 3.4 28.0 + - - +
340A PRO 3.2 26.5 + - - -
341A ASP* 4.7 9.9 + - - +
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Residues in contact with GLN 188 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140A LYS* 5.3 1.2 - - - +
141A HIS* 3.4 42.8 - - + +
184A TYR* 3.6 44.6 + - - +
185A TYR* 3.4 9.9 + - - +
186A LEU 3.3 0.4 - - - -
187A ARG* 1.3 75.0 - - + +
189A ILE* 1.3 63.4 + - - +
191A SER* 3.4 7.5 + - - -
192A GLY* 3.1 18.2 + - - -
217A MET 4.2 0.2 - - - +
218A GLU* 3.7 16.2 - - - +
219A LEU* 3.3 40.7 + - + +
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Residues in contact with ILE 189 (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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185A TYR 3.1 17.7 + - - +
186A LEU* 3.3 15.0 + - + +
188A GLN* 1.3 75.0 - - - +
190A VAL* 1.3 57.8 + - - +
192A GLY* 3.4 2.4 + - - -
193A LEU* 3.1 27.8 + - + +
206A LEU* 5.3 3.1 - - + -
211A PHE* 3.5 42.2 - - + -
219A LEU* 3.6 25.8 - - + -
221A VAL* 4.2 7.7 - - + +
266A LEU* 3.7 30.3 - - + -
269A VAL* 4.3 0.9 - - + -
273A MET* 3.6 24.2 - - + -
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Residues in contact with VAL 190 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
186A LEU* 3.0 29.7 + - + +
187A ARG 4.0 0.4 - - - +
189A ILE* 1.3 72.7 - - - +
191A SER* 1.3 60.8 + - - +
193A LEU* 4.0 1.5 - - - +
194A LYS* 2.9 31.0 + - + +
266A LEU* 4.1 19.5 - - + -
325A LEU* 3.6 43.2 - - + +
328A ILE* 4.0 20.4 - - + -
329A ILE* 3.6 24.2 - - + -
334A PHE* 5.5 0.4 - - + -
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Residues in contact with SER 191 (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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139A HIS* 3.1 28.8 + - - -
141A HIS* 3.2 15.2 - - - -
187A ARG 3.1 18.8 + - - -
188A GLN* 3.5 6.1 - - - -
189A ILE 3.3 0.2 - - - -
190A VAL* 1.3 76.7 - - - +
192A GLY* 1.3 61.7 + - - +
194A LYS* 3.5 6.9 + - - +
195A TYR 3.3 17.0 + - - -
329A ILE* 5.6 1.3 - - - +
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Residues in contact with GLY 192 (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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139A HIS* 4.0 8.3 - - - -
141A HIS* 3.8 28.7 - - - +
142A VAL* 3.5 8.2 - - - +
188A GLN 3.1 8.8 + - - -
189A ILE 3.4 3.1 + - - -
191A SER* 1.3 79.2 + - - +
193A LEU* 1.3 57.8 + - - +
195A TYR* 3.7 2.1 - - - +
196A LEU* 3.4 29.7 + - - +
221A VAL* 4.7 3.4 - - - -
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Residues in contact with LEU 193 (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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189A ILE* 3.1 16.9 + - + +
190A VAL* 4.0 4.5 - - - +
192A GLY* 1.3 76.1 - - - +
194A LYS* 1.3 56.2 + - - +
195A TYR 3.3 0.2 - - - -
196A LEU* 3.1 19.1 + - + +
197A HIS* 2.8 65.5 + - + +
203A HIS* 4.5 2.2 - - + +
206A LEU* 3.8 34.8 - - + -
221A VAL* 5.1 1.5 - - + +
262A ASP* 3.7 19.5 - - + +
263A ILE* 4.6 1.1 - - + -
266A LEU* 3.9 26.7 - - + -
325A LEU* 4.0 11.4 - - + -
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Residues in contact with LYS 194 (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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190A VAL* 2.9 22.1 + - + +
191A SER* 3.6 7.6 - - - +
193A LEU* 1.3 75.7 - - - +
195A TYR* 1.3 64.5 + - - +
197A HIS* 3.1 1.9 + - - +
198A GLU* 2.8 55.2 + - - +
325A LEU* 3.7 30.6 - - + +
326A ASP* 3.0 34.4 + - - +
329A ILE* 4.9 10.1 - - + -
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Residues in contact with TYR 195 (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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136A ILE 3.8 2.3 + - - -
137A LEU* 3.4 29.5 - - + -
138A HIS* 2.9 37.9 + - - +
139A HIS* 3.6 42.0 - + + +
142A VAL* 4.3 9.6 - - + -
191A SER 3.3 5.4 + - - +
192A GLY 3.7 8.1 - - - +
193A LEU 3.3 0.4 - - - -
194A LYS* 1.3 79.0 - - - +
196A LEU* 1.3 61.8 + - + +
198A GLU* 3.3 7.7 + - - +
199A GLN* 2.9 56.4 + - + +
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Residues in contact with LEU 196 (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 LEU* 3.5 27.8 - - + -
142A VAL* 4.2 10.3 - - + -
192A GLY 3.4 17.7 + - - +
193A LEU* 3.1 25.6 + - + +
195A TYR* 1.3 82.1 - - + +
197A HIS* 1.3 57.6 + - - +
199A GLN* 3.2 6.3 + - - +
200A GLU 2.9 9.0 + - - -
201A ILE* 2.8 43.7 + - + +
203A HIS* 4.6 13.2 - - + -
221A VAL* 4.8 6.5 - - + -
224A PHE* 3.5 38.6 - - + -
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Residues in contact with HIS 197 (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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193A LEU* 2.8 38.5 + - + +
194A LYS* 3.8 3.1 - - - +
196A LEU* 1.3 73.0 - - - +
198A GLU* 1.3 59.8 + - - +
200A GLU* 3.2 18.2 + - - +
201A ILE 3.6 18.2 - - - +
202A LEU* 4.1 10.1 - - + +
230A LEU* 5.6 2.9 - - - +
259A ALA* 3.4 43.4 - - + +
262A ASP* 2.9 29.2 + - + -
263A ILE* 4.8 3.3 - - + +
325A LEU* 3.9 18.2 - - + +
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Residues in contact with GLU 198 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
194A LYS* 2.8 49.8 + - - +
195A TYR* 3.7 7.0 - - - +
197A HIS* 1.3 74.6 - - - +
199A GLN* 1.3 60.5 + - - +
200A GLU* 3.0 12.0 + - - +
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Residues in contact with GLN 199 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136A ILE* 3.5 35.3 - - - +
137A LEU* 3.6 8.8 - - + +
195A TYR* 2.9 46.8 + - + +
196A LEU* 3.2 13.5 - - - +
198A GLU* 1.3 73.2 - - - +
200A GLU* 1.3 66.4 + - - +
201A ILE* 3.5 22.4 - - + +
229A ARG* 4.6 8.3 + - - +
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Residues in contact with GLU 200 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
196A LEU 2.9 2.4 + - - -
197A HIS* 3.2 13.4 + - - +
198A GLU 3.0 9.5 - - - +
199A GLN* 1.3 82.0 - - - +
201A ILE* 1.3 60.6 + - - +
202A LEU* 5.5 0.4 - - - -
229A ARG* 3.5 9.8 - - + +
230A LEU* 3.0 62.3 + - + +
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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