Contacts of the helix formed by residues 193 - 214 (chain B) in PDB entry 7CAL
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 193 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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186B GLU* 3.9 36.5 + - + -
191B PHE 3.9 0.2 + - - -
192B ASN* 1.3 82.8 + - - +
194B PHE* 1.3 63.8 + - + +
195B TRP 3.3 1.8 - - - -
196B ILE* 4.0 1.3 - - - +
197B ARG* 3.3 54.4 + - + +
297B ASN* 5.1 3.3 + - - -
298B LEU* 4.6 10.5 - - + +
301B HIS* 3.8 31.6 - + + -
303C THR* 4.4 13.3 + - - +
306C THR* 4.4 20.0 - - + -
307C ARG* 4.3 26.2 + - + +
310C ARG* 4.1 29.5 - - + +
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Residues in contact with PHE 194 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
192B ASN* 3.6 16.0 + - - -
193B TYR* 1.3 78.4 - - + +
195B TRP* 1.3 71.5 + - + +
196B ILE 3.5 0.7 - - - -
197B ARG 4.3 0.7 - - - -
198B CYS* 3.2 30.6 + - - +
298B LEU* 4.0 20.4 - - + -
301B HIS* 3.2 64.6 - + + -
302B TRP* 3.9 51.1 - + + +
314C ARG* 3.9 18.2 - - - -
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Residues in contact with TRP 195 (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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192B ASN* 3.2 35.6 - - + +
193B TYR 3.3 2.4 - - - +
194B PHE* 1.3 90.1 - - + +
196B ILE* 1.3 68.1 + - - +
198B CYS* 4.4 18.6 - - + +
199B THR* 2.8 20.6 + - - -
302B TRP* 4.4 25.2 - + - -
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Residues in contact with ILE 196 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182B PHE* 4.3 27.4 - - + +
185B LEU* 4.0 36.8 - - + +
186B GLU* 3.8 28.3 - - + +
191B PHE* 4.6 9.6 - - + -
192B ASN* 3.2 24.0 + - + +
193B TYR* 3.8 4.3 + - - +
195B TRP* 1.3 83.0 - - - +
197B ARG* 1.3 60.4 + - - +
198B CYS 3.3 1.3 - - - -
199B THR* 3.3 7.6 + - + +
200B LYS* 3.0 27.9 + - + +
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Residues in contact with ARG 197 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
186B GLU* 2.8 39.6 + - + -
193B TYR* 3.3 48.2 + - + +
194B PHE 4.8 0.2 - - - +
196B ILE* 1.3 79.4 - - - +
198B CYS* 1.3 56.8 + - - +
200B LYS* 3.3 31.7 + - - +
201B LEU* 3.3 33.3 + - - +
290B TYR* 4.5 4.2 + - - -
294B ASN* 3.0 32.1 - - - +
297B ASN* 6.0 1.2 - - - +
298B LEU* 4.1 21.9 - - + +
701B 3PE 3.1 25.3 + - - -
303C THR* 4.4 11.4 - - - +
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Residues in contact with CYS 198 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
194B PHE* 3.2 23.7 + - - +
195B TRP* 4.6 20.9 - - + -
196B ILE 3.3 0.6 - - - -
197B ARG* 1.3 72.9 - - - +
199B THR* 1.3 61.4 + - - +
200B LYS 3.2 0.2 - - - -
201B LEU* 3.2 8.1 + - + +
202B ILE* 2.9 42.8 + - + +
295B MET* 4.6 16.8 - - + -
298B LEU* 3.7 23.1 - - - -
302B TRP* 6.1 2.5 - - - -
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Residues in contact with THR 199 (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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182B PHE* 4.1 21.4 - - + -
195B TRP* 2.8 21.8 + - - -
196B ILE* 3.3 12.6 + - + +
198B CYS* 1.3 77.0 - - - +
200B LYS* 1.3 58.4 + - - +
202B ILE* 4.1 7.0 - - + +
203B SER* 2.9 39.2 + - - +
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Residues in contact with LYS 200 (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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179B SER 5.6 1.1 - - - -
182B PHE* 4.0 40.8 - - + +
183B ALA* 5.9 1.6 - - - +
186B GLU* 4.0 6.3 + - - +
196B ILE 3.0 16.3 + - - +
197B ARG* 3.3 33.6 - - - +
198B CYS 3.2 0.2 - - - -
199B THR* 1.3 76.0 - - - +
201B LEU* 1.3 64.0 + - + +
203B SER* 4.5 1.2 - - - +
204B VAL* 3.3 31.7 + - + +
290B TYR* 4.7 6.1 - - - +
701B 3PE 1.3 82.8 + - + +
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Residues in contact with LEU 201 (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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197B ARG* 3.3 22.2 + - + +
198B CYS* 3.2 10.3 + - - +
200B LYS* 1.3 79.0 - - + +
202B ILE* 1.3 60.6 + - + +
204B VAL* 4.2 1.9 - - - +
205B THR* 3.3 27.7 + - - +
290B TYR* 3.7 37.2 - - + +
291B LEU* 4.0 26.5 - - + +
294B ASN* 3.8 31.2 - - + +
295B MET* 4.6 20.4 - - + +
298B LEU* 4.8 8.1 - - + -
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Residues in contact with ILE 202 (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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701A 3PE 3.8 41.5 - - + -
198B CYS* 2.9 25.7 + - + +
199B THR* 4.1 7.4 - - + +
201B LEU* 1.3 78.6 - - + +
203B SER* 1.3 62.6 + - - +
204B VAL 3.2 0.4 - - - -
205B THR* 3.1 7.9 + - - -
206B LEU* 2.9 48.7 + - + +
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Residues in contact with SER 203 (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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182B PHE* 4.5 8.3 - - - -
199B THR* 2.9 25.8 + - - +
200B LYS* 4.5 3.6 - - - -
201B LEU 3.5 0.2 - - - -
202B ILE* 1.3 79.2 - - - +
204B VAL* 1.3 61.0 + - - +
206B LEU* 4.0 9.4 - - - +
207B PHE* 3.3 16.6 + - - +
701B 3PE 3.4 42.5 - - - +
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Residues in contact with VAL 204 (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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200B LYS* 3.3 20.3 + - + +
201B LEU* 4.4 5.2 - - - +
202B ILE 3.2 1.0 - - - -
203B SER* 1.3 79.9 - - - +
205B THR* 1.3 61.8 + - + +
207B PHE* 3.4 6.2 + - - +
208B ALA* 3.0 25.2 + - + +
283B PHE* 6.0 1.1 - - + -
287B LEU* 4.0 24.2 - - + -
290B TYR* 4.7 11.7 - - + +
291B LEU* 5.5 0.2 - - + -
701B 3PE 3.8 58.1 - - + +
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Residues in contact with THR 205 (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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285A LEU* 5.1 6.6 - - + +
701A 3PE 4.3 14.0 - - - +
201B LEU 3.3 17.4 + - - +
202B ILE* 3.1 10.8 + - - -
204B VAL* 1.3 78.0 - - + +
206B LEU* 1.3 63.7 + - - +
208B ALA* 3.7 7.4 - - - +
209B ILE* 2.9 40.8 + - - +
258B LEU* 5.0 5.2 - - - -
287B LEU* 4.4 12.8 - - + -
291B LEU* 3.7 34.8 - - + -
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Residues in contact with LEU 206 (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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701A 3PE 1.5 80.8 - - + -
202B ILE* 2.9 35.4 + - + +
203B SER* 4.3 8.1 - - - +
205B THR* 1.3 78.1 + - - +
207B PHE* 1.3 60.4 + - - +
209B ILE* 4.2 1.8 - - - +
210B HIS* 3.3 16.6 + - - +
701B 3PE 3.3 41.1 - - + +
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Residues in contact with PHE 207 (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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74B ALA* 3.2 31.2 - - + -
78B PRO* 5.0 4.3 - - + -
172B LEU* 3.7 33.9 - - + -
175B LEU* 4.1 15.5 - - + -
203B SER 3.3 18.0 + - - +
204B VAL* 3.8 4.5 - - - +
205B THR 3.2 0.6 - - - -
206B LEU* 1.3 79.2 - - - +
208B ALA* 1.3 60.3 + - - +
210B HIS* 3.9 3.1 - + + -
211B CYS* 3.0 46.3 + - + +
701B 3PE 3.9 38.8 - - + +
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Residues in contact with ALA 208 (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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204B VAL 3.0 16.7 + - - +
205B THR* 3.2 8.6 + - - +
207B PHE* 1.3 75.8 - - - +
209B ILE* 1.3 64.5 + - - +
211B CYS* 5.0 1.8 - - - -
212B ALA* 3.3 25.6 + - - +
258B LEU* 4.0 16.5 - - + +
280B PHE* 4.4 1.7 - - - -
283B PHE* 4.0 29.8 - - + -
287B LEU* 4.3 4.5 - - + -
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Residues in contact with ILE 209 (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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278A ILE* 6.2 3.1 - - + -
282A MET* 4.5 2.0 - - + -
285A LEU* 5.6 1.6 - - + -
701A 3PE 3.9 30.3 - - + -
205B THR* 2.9 24.5 + - - +
206B LEU* 4.2 3.8 - - - +
208B ALA* 1.3 77.4 - - - +
210B HIS* 1.3 58.2 + - - +
213B GLY* 3.0 26.7 + - - -
251B LEU* 3.8 32.3 - - + +
254B SER* 3.8 15.5 - - - -
255B ILE* 3.7 35.2 - - + +
258B LEU* 3.9 21.3 - - + -
701B 3PE 5.4 0.9 - - + -
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Residues in contact with HIS 210 (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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74B ALA 4.7 6.5 - - - -
75B TRP* 3.0 57.3 + + - -
78B PRO* 3.5 24.6 - - + +
79B PHE* 4.1 6.1 - - + +
206B LEU 3.3 17.1 + - - +
207B PHE* 4.1 3.8 - + - +
209B ILE* 1.3 81.5 - - - +
211B CYS* 1.3 62.6 + - + +
213B GLY 3.3 1.0 + - - -
214B CYS* 3.2 43.9 + - - -
247B TYR* 3.6 20.6 + + - -
251B LEU* 4.5 7.1 - - - +
701B 3PE 3.7 21.5 - - + +
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Residues in contact with CYS 211 (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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78B PRO* 4.4 11.4 - - + -
172B LEU* 4.7 8.3 - - - -
207B PHE* 3.0 45.5 + - + +
208B ALA* 5.0 1.8 - - - +
210B HIS* 1.3 80.4 - - - +
212B ALA* 1.3 57.6 + - - +
214B CYS 4.2 1.3 - - - -
215B PHE* 3.1 60.3 - - - +
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Residues in contact with ALA 212 (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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208B ALA 3.3 20.2 + - - +
210B HIS 3.2 0.4 - - - -
211B CYS* 1.3 76.2 - - - +
213B GLY* 1.3 60.7 + - - +
214B CYS 3.4 0.9 - - - -
215B PHE* 4.0 7.2 - - - +
216B ASN* 3.6 10.2 + - - +
253B TRP* 3.6 13.5 - - - -
254B SER* 3.1 9.7 + - - +
276B PHE* 4.2 10.2 - - + -
280B PHE* 3.6 34.5 - - + -
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Residues in contact with GLY 213 (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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83B PHE* 4.3 1.6 - - - -
209B ILE 3.0 15.5 + - - -
210B HIS 3.3 1.5 + - - -
212B ALA* 1.3 76.9 - - - +
214B CYS* 1.3 60.9 + - - +
215B PHE 3.6 0.2 - - - -
216B ASN* 4.2 4.7 - - - +
217B TYR* 3.9 10.4 + - - +
250B ALA* 3.3 38.6 - - - +
251B LEU* 4.6 4.5 - - - -
254B SER* 3.3 11.7 - - - -
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Residues in contact with CYS 214 (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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78B PRO* 3.4 31.9 - - + +
79B PHE* 4.4 2.7 - - - -
82B ALA* 3.3 21.2 - - + +
83B PHE* 3.6 28.9 - - + -
210B HIS* 3.2 39.5 + - - +
211B CYS 4.8 0.4 - - - +
213B GLY* 1.3 78.3 - - - +
215B PHE* 1.3 65.2 + - + +
216B ASN 3.3 1.8 - - - -
217B TYR 4.0 1.8 - - - +
218B LEU* 3.7 8.3 + - - +
247B TYR* 4.5 8.3 - - - -
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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
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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