Contacts of the helix formed by residues 193 - 214 (chain A) 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 A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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186A GLU* 3.9 37.0 + - + -
191A PHE 3.9 0.2 + - - -
192A ASN* 1.3 82.4 + - - +
194A PHE* 1.3 64.1 + - + +
195A TRP 3.3 2.2 - - - -
196A ILE* 4.0 1.6 - - - +
197A ARG* 3.3 54.0 + - + +
297A ASN* 5.1 3.5 + - - -
298A LEU* 4.6 10.0 - - + +
301A HIS* 3.8 31.4 - + + -
303B THR* 4.5 13.5 + - - +
306B THR* 4.4 18.7 - - + -
307B ARG* 4.3 27.2 + - + +
310B ARG* 4.1 29.3 - - + +
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Residues in contact with PHE 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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192A ASN* 3.6 16.5 + - - -
193A TYR* 1.3 79.2 - - + +
195A TRP* 1.3 71.3 + - + +
196A ILE 3.5 0.2 - - - -
197A ARG 4.3 0.7 - - - -
198A CYS* 3.2 30.7 + - - +
298A LEU* 4.0 19.5 - - + -
301A HIS* 3.2 63.7 - + + -
302A TRP* 3.9 52.3 - + + +
314B ARG* 3.9 17.3 - - - -
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Residues in contact with TRP 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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192A ASN* 3.2 34.5 - - + +
193A TYR 3.3 2.4 - - - +
194A PHE* 1.3 90.2 - - + +
196A ILE* 1.3 65.6 + - - +
198A CYS* 4.4 19.3 - - + +
199A THR* 2.8 21.3 + - - -
302A TRP* 4.4 24.9 - + - -
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Residues in contact with ILE 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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182A PHE* 4.3 26.8 - - + +
185A LEU* 4.0 37.0 - - + +
186A GLU* 3.8 29.6 - - + +
191A PHE* 4.6 11.0 - - + -
192A ASN* 3.2 22.9 + - + +
193A TYR* 3.8 4.5 + - - +
194A PHE 3.5 0.2 - - - -
195A TRP* 1.3 83.2 - - - +
197A ARG* 1.3 59.2 + - - +
198A CYS 3.3 1.3 - - - -
199A THR* 3.3 7.4 + - + +
200A LYS* 3.0 27.4 + - - +
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Residues in contact with ARG 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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186A GLU* 2.8 38.9 + - - -
193A TYR* 3.3 47.6 + - + +
194A PHE 4.8 0.2 - - - +
196A ILE* 1.3 79.1 - - - +
198A CYS* 1.3 57.8 + - - +
200A LYS* 3.3 30.5 + - - +
201A LEU* 3.3 33.1 + - + +
290A TYR* 4.5 5.3 + - - -
294A ASN* 3.0 32.3 - - - +
297A ASN* 6.0 1.4 - - - +
298A LEU* 4.1 22.6 - - + +
701A 3PE 3.3 24.0 + - - -
303B THR* 4.4 11.5 - - - +
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Residues in contact with CYS 198 (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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194A PHE* 3.2 21.9 + - - +
195A TRP* 4.6 20.0 - - + -
196A ILE 3.3 0.6 - - - -
197A ARG* 1.3 74.8 - - - +
199A THR* 1.3 61.1 + - - +
200A LYS 3.2 0.4 - - - -
201A LEU* 3.6 7.3 - - + +
202A ILE* 2.9 41.3 + - + +
295A MET* 4.6 17.3 - - + -
298A LEU* 3.7 22.4 - - - -
302A TRP* 6.1 3.4 - - - -
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Residues in contact with THR 199 (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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182A PHE* 4.1 20.6 - - + -
195A TRP* 2.8 21.7 + - - -
196A ILE* 3.3 12.4 + - + +
198A CYS* 1.3 76.8 - - - +
200A LYS* 1.3 57.3 + - - +
202A ILE* 4.1 7.5 - - + +
203A SER* 2.9 39.5 + - - +
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Residues in contact with LYS 200 (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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179A SER 5.6 2.2 - - - -
182A PHE* 4.0 42.1 - - + +
183A ALA* 5.9 1.4 - - - +
186A GLU* 4.0 5.1 + - - +
196A ILE 3.0 17.6 + - - +
197A ARG* 3.3 28.6 - - - +
199A THR* 1.3 75.3 - - - +
201A LEU* 1.3 64.4 + - + +
202A ILE 3.3 0.2 - - - -
203A SER* 4.4 1.2 - - - -
204A VAL* 3.3 31.0 + - + +
290A TYR* 4.7 6.0 + - - +
701A 3PE 1.3 84.4 + - + +
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Residues in contact with LEU 201 (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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197A ARG* 3.3 21.3 + - + +
198A CYS* 3.2 9.6 + - + +
200A LYS* 1.3 77.7 - - + +
202A ILE* 1.3 62.3 + - + +
204A VAL* 4.2 1.9 - - - +
205A THR* 3.3 27.7 + - - +
290A TYR* 3.7 37.7 - - + +
291A LEU* 4.0 25.2 - - + +
294A ASN* 3.8 32.1 - - + +
295A MET* 4.6 20.4 - - + +
298A LEU* 4.8 8.5 - - + -
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Residues in contact with ILE 202 (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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198A CYS* 2.9 25.9 + - + +
199A THR* 4.1 7.0 - - + +
200A LYS 3.3 0.2 - - - -
201A LEU* 1.3 79.2 - - + +
203A SER* 1.3 61.6 + - - +
204A VAL 3.2 0.2 - - - -
205A THR* 3.1 8.7 + - - +
206A LEU* 2.9 48.1 + - + +
701D 3PE 4.1 42.6 - - + -
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Residues in contact with SER 203 (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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182A PHE* 4.5 9.1 - - - -
199A THR* 2.9 26.4 + - - +
200A LYS* 4.5 4.3 - - - -
202A ILE* 1.3 79.7 - - - +
204A VAL* 1.3 60.7 + - - +
206A LEU* 4.0 10.1 - - - +
207A PHE* 3.3 14.2 + - - +
701A 3PE 3.3 45.2 - - - +
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Residues in contact with VAL 204 (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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200A LYS* 3.3 21.8 + - + +
201A LEU* 4.4 4.9 - - - +
202A ILE 3.2 0.6 - - - -
203A SER* 1.3 78.9 - - - +
205A THR* 1.3 61.1 + - + +
207A PHE* 3.4 5.3 + - - +
208A ALA* 3.0 25.2 + - + +
283A PHE* 6.0 1.3 - - + -
287A LEU* 4.0 23.8 - - + -
290A TYR* 4.7 10.8 - - + +
701A 3PE 3.4 59.7 - - + +
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Residues in contact with THR 205 (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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201A LEU 3.3 18.4 + - - +
202A ILE* 3.1 11.3 + - - +
204A VAL* 1.3 76.5 - - + +
206A LEU* 1.3 66.2 + - - +
208A ALA* 3.7 7.2 - - - +
209A ILE* 2.9 42.8 + - - +
258A LEU* 4.8 5.6 - - - +
287A LEU* 4.4 11.9 - - + -
291A LEU* 3.7 33.7 - - + -
285D LEU* 5.1 7.2 - - + +
701D 3PE 6.0 2.1 - - - +
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Residues in contact with LEU 206 (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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202A ILE* 2.9 39.6 + - + +
203A SER* 4.3 8.1 - - - +
205A THR* 1.3 80.8 + - - +
207A PHE* 1.3 59.6 + - - +
209A ILE* 4.2 6.2 - - + +
210A HIS 3.3 15.6 + - - -
701A 3PE 3.4 46.2 - - + +
282D MET* 4.0 27.1 - - - -
701D 3PE 4.0 25.4 - - + -
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Residues in contact with PHE 207 (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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74A ALA* 3.2 28.0 - - + -
78A PRO* 5.0 4.9 - - + -
172A LEU* 3.7 33.9 - - + -
175A LEU* 4.1 18.8 - - + -
203A SER 3.3 18.4 + - - +
204A VAL* 3.8 4.7 - - - +
205A THR 3.2 0.4 - - - -
206A LEU* 1.3 77.8 - - - +
208A ALA* 1.3 61.7 + - - +
210A HIS* 4.5 4.5 - + + -
211A CYS* 3.0 46.7 + - + +
701A 3PE 3.8 36.3 - - + +
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Residues in contact with ALA 208 (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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204A VAL* 3.0 17.1 + - + +
205A THR* 3.2 8.2 + - - +
207A PHE* 1.3 75.5 - - - +
209A ILE* 1.3 65.7 + - - +
211A CYS* 5.0 1.8 - - - -
212A ALA* 3.3 25.8 + - - +
258A LEU* 4.0 16.9 - - + +
280A PHE* 4.4 1.4 - - - -
283A PHE* 4.0 30.1 - - + -
287A LEU* 4.3 4.3 - - + -
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Residues in contact with ILE 209 (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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205A THR* 2.9 28.3 + - - +
206A LEU* 4.2 7.6 - - + +
208A ALA* 1.3 79.0 - - - +
210A HIS* 1.3 58.7 + - - +
213A GLY* 3.0 26.9 + - - -
251A LEU* 3.8 32.3 - - + +
254A SER* 3.8 15.1 - - - -
255A ILE* 3.7 35.0 - - + +
258A LEU* 3.9 21.5 - - + -
701A 3PE 5.3 5.6 - - + -
278D ILE* 6.2 3.6 - - + -
282D MET* 4.5 17.0 - - + -
285D LEU* 5.7 2.0 - - + -
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Residues in contact with HIS 210 (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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74A ALA 4.7 5.8 - - - -
75A TRP* 3.0 57.8 + + - -
78A PRO* 3.5 24.6 - - + +
79A PHE* 4.1 6.1 - - + +
206A LEU 3.3 17.2 + - - +
207A PHE* 4.1 6.5 - + + +
209A ILE* 1.3 81.6 - - - +
211A CYS* 1.3 62.4 + - + +
213A GLY 3.3 0.9 + - - -
214A CYS* 3.2 44.1 + - - -
247A TYR* 3.6 20.6 + + - -
251A LEU* 4.5 6.7 - - - +
701A 3PE 3.8 17.1 - - + +
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Residues in contact with CYS 211 (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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78A PRO* 4.4 11.9 - - + -
172A LEU* 4.7 8.1 - - - -
207A PHE* 3.0 46.8 + - + +
208A ALA* 5.0 1.8 - - - +
210A HIS* 1.3 80.8 - - - +
212A ALA* 1.3 57.1 + - - +
214A CYS 4.2 1.6 - - - -
215A PHE* 3.1 60.2 - - - +
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Residues in contact with ALA 212 (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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208A ALA 3.3 20.0 + - - +
210A HIS 3.2 0.4 - - - -
211A CYS* 1.3 76.8 - - - +
213A GLY* 1.3 60.7 + - - +
214A CYS 3.4 0.9 - - - -
215A PHE* 4.0 7.4 - - - +
216A ASN* 3.6 10.2 + - - +
253A TRP* 3.6 13.5 - - - -
254A SER* 3.1 10.3 + - - +
276A PHE* 4.2 8.8 - - + -
280A PHE* 3.6 34.5 - - + -
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Residues in contact with GLY 213 (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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83A PHE* 4.3 1.4 - - - -
209A ILE 3.0 16.3 + - - -
210A HIS 3.9 1.6 - - - -
212A ALA* 1.3 76.5 - - - +
214A CYS* 1.3 62.0 + - - +
215A PHE 3.6 0.4 - - - -
216A ASN* 4.2 4.6 - - - +
217A TYR* 3.9 9.9 + - - +
230A TRP* 5.6 0.2 - - - -
250A ALA* 3.3 38.2 - - - +
251A LEU* 4.6 3.8 - - - -
254A SER* 3.2 12.1 + - - -
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Residues in contact with CYS 214 (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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78A PRO* 3.4 31.6 - - + +
79A PHE* 4.4 2.7 - - - -
81A PHE* 5.0 0.2 - - - -
82A ALA* 3.3 20.2 - - + +
83A PHE* 3.6 30.1 - - + -
210A HIS* 3.2 41.1 + - - +
213A GLY* 1.3 79.4 - - - +
215A PHE* 1.3 64.3 + - + +
216A ASN 3.3 2.2 - - - -
217A TYR 3.9 2.0 + - - +
218A LEU* 3.7 8.7 + - - +
247A TYR* 4.5 7.6 - - - -
251A LEU* 5.5 0.2 - - - -
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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
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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