Contacts of the helix formed by residues 210 - 230 (chain A) in PDB entry 3EHN
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 ASN 210 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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198A SER* 5.3 1.8 - - - +
204A ASP* 4.1 0.4 + - - -
207A TYR* 3.2 16.8 + - - +
208A ASN 3.1 4.4 + - - +
209A GLY* 1.3 72.6 - - - +
211A VAL* 1.3 62.0 + - - +
212A GLN* 3.1 26.9 + - - +
213A ASN* 3.1 36.5 + - + +
214A TRP* 3.4 13.7 + - - -
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Residues in contact with VAL 211 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138A ILE* 4.8 4.9 - - + -
192A LEU* 3.3 49.1 - - + +
195A ILE* 3.9 16.8 - - + +
196A SER 5.9 0.4 - - - -
197A TYR 3.7 12.6 - - - +
198A SER* 5.3 0.6 - - - +
199A VAL* 3.5 34.3 - - + -
209A GLY 2.9 9.1 + - - +
210A ASN* 1.3 72.7 + - - +
212A GLN* 1.3 63.7 + - - +
214A TRP* 3.2 10.0 + - - +
215A VAL* 3.2 19.8 + - - +
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Residues in contact with GLN 212 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
192A LEU 4.9 1.6 - - - +
193A ASN* 5.4 6.5 - - - +
195A ILE 3.9 17.0 + - - +
196A SER* 5.2 9.1 + - - +
210A ASN* 3.1 12.2 + - - +
211A VAL* 1.3 81.3 - - - +
213A ASN* 1.3 66.4 + - - +
215A VAL* 3.2 11.6 + - + +
216A LYS* 3.2 27.6 + - + +
250A GLY 5.3 0.2 - - - +
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Residues in contact with ASN 213 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
207A TYR* 3.4 49.3 - - + +
210A ASN* 3.1 28.8 + - - +
212A GLN* 1.3 82.9 - - - +
214A TRP* 1.3 56.5 + - - +
216A LYS* 3.3 18.5 + - - +
217A LEU 3.0 21.3 + - - -
257A SER 4.7 6.4 - - - +
258A SER* 3.8 24.2 + - - -
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Residues in contact with TRP 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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43A PHE* 4.1 7.4 - + - -
47A GLN* 5.1 0.4 - - + -
138A ILE* 3.8 37.9 - - + +
141A ILE* 4.0 21.6 - - + +
142A VAL* 3.5 34.3 - - + -
192A LEU* 4.3 15.5 - - + -
199A VAL 5.8 0.2 + - - -
204A ASP* 2.8 42.4 + - - -
206A ILE* 3.7 24.0 - - + -
207A TYR* 3.8 10.0 - + - +
209A GLY* 5.0 1.7 - - - -
210A ASN 3.4 24.8 + - - -
211A VAL* 3.2 8.8 + - - +
213A ASN* 1.3 74.5 - - - +
215A VAL* 1.3 66.7 + - - +
217A LEU* 3.2 29.4 + - + +
218A ALA* 3.0 23.2 + - - +
355A TRP* 4.1 2.2 - + - -
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Residues in contact with VAL 215 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
189A VAL* 3.7 14.6 - - + +
192A LEU* 3.7 32.5 - - + +
193A ASN* 3.8 20.4 - - - +
211A VAL 3.2 15.5 + - - +
212A GLN* 3.2 13.4 + - + +
214A TRP* 1.3 76.2 - - - +
216A LYS* 1.3 58.8 + - - +
218A ALA* 3.3 7.3 + - - +
219A ASN* 3.0 31.2 + - - +
249A ASN 3.3 25.8 - - - +
250A GLY* 4.0 8.1 - - - -
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Residues in contact with LYS 216 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
212A GLN* 3.2 14.5 + - - +
213A ASN* 3.5 25.3 - - - +
214A TRP 3.2 0.4 - - - -
215A VAL* 1.3 76.2 - - - +
217A LEU* 1.3 59.2 + - - +
219A ASN* 3.4 1.6 + - - +
220A SER* 2.8 35.4 + - - -
250A GLY 3.5 26.5 - - - +
251A GLY* 3.6 10.3 - - - +
252A VAL* 3.6 25.6 + - - +
253A ILE* 4.1 7.4 - - + -
254A GLU* 5.2 1.8 + - - +
255A ASP* 4.1 10.7 + - - -
258A SER* 4.1 18.1 + - - +
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Residues in contact with LEU 217 (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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141A ILE* 4.7 3.6 - - + -
145A ILE* 3.4 35.4 - - + -
206A ILE* 4.8 0.2 - - + -
207A TYR* 4.0 9.4 - - + +
213A ASN 3.0 13.9 + - - +
214A TRP* 3.2 34.1 + - + +
216A LYS* 1.3 76.4 - - - +
218A ALA* 1.3 58.9 + - - +
220A SER* 3.2 1.2 + - - -
221A LEU* 2.9 28.7 + - + +
253A ILE* 4.1 10.3 - - + +
260A ALA* 3.9 24.2 - - + -
355A TRP* 3.9 10.5 - - + -
356A PHE* 4.0 22.0 - - + -
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Residues in contact with ALA 218 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141A ILE* 3.8 24.6 - - + +
185A LEU* 4.2 22.7 - - + +
189A VAL* 3.9 19.5 - - + -
214A TRP 3.0 12.2 + - - +
215A VAL* 3.5 8.7 - - - +
217A LEU* 1.3 75.3 - - - +
219A ASN* 1.3 65.9 + - - +
221A LEU* 3.1 6.6 + - - +
222A MET* 3.0 22.5 + - - +
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Residues in contact with ASN 219 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
189A VAL* 3.8 18.5 - - - +
215A VAL* 3.0 24.0 + - - +
218A ALA* 1.3 75.9 - - - +
220A SER* 1.3 57.5 + - - +
222A MET* 3.0 15.0 + - - +
223A LEU* 2.8 26.0 + - - +
243A LYS 3.9 5.5 - - - +
244A ALA* 3.5 32.7 + - - +
249A ASN* 2.9 28.6 + - - +
251A GLY 3.0 28.7 + - - +
252A VAL* 3.8 3.4 - - + -
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Residues in contact with SER 220 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
216A LYS 2.8 15.7 + - - -
217A LEU* 3.4 6.3 - - - -
218A ALA 3.1 0.2 - - - -
219A ASN* 1.3 77.0 - - - +
221A LEU* 1.3 60.9 + - - +
223A LEU* 3.6 5.3 + - - +
224A ARG 3.3 11.3 + - - -
252A VAL* 3.3 10.2 - - - +
253A ILE* 2.8 42.3 + - - +
356A PHE* 3.1 40.0 - - - -
361A THR* 4.2 2.4 + - - -
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Residues in contact with LEU 221 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141A ILE* 5.1 1.3 - - + +
144A ASN* 4.3 8.7 - - + +
145A ILE* 4.0 44.0 - - + +
148A LEU* 4.0 15.3 - - + -
181A MET* 4.9 0.2 - - - -
185A LEU* 4.0 25.4 - - + -
217A LEU* 2.9 16.0 + - + +
218A ALA* 3.1 7.6 + - - +
220A SER* 1.3 75.1 - - - +
222A MET* 1.3 61.2 + - - +
224A ARG* 3.3 32.7 + - - +
225A ILE* 2.9 42.5 + - + +
356A PHE* 4.3 6.0 - - + -
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Residues in contact with MET 222 (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 LEU* 4.1 10.1 - - + +
185A LEU* 3.8 20.8 - - + +
186A SER* 3.6 34.3 - - - +
189A VAL* 4.1 5.4 - - + -
218A ALA 3.0 8.7 + - - +
219A ASN* 3.0 26.2 - - - +
221A LEU* 1.3 75.1 - - - +
223A LEU* 1.3 60.4 + - - +
224A ARG 3.1 0.3 + - - -
225A ILE* 3.1 5.6 + - - +
226A VAL* 2.8 34.5 + - - +
240A TYR* 4.0 34.3 - - + +
243A LYS* 4.3 7.4 - - + -
244A ALA* 4.0 26.7 - - + -
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Residues in contact with LEU 223 (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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219A ASN 2.8 15.1 + - - +
220A SER* 3.7 7.9 - - - +
222A MET* 1.3 76.6 - - - +
224A ARG* 1.3 59.4 + - - +
226A VAL* 2.8 22.3 - - + +
227A VAL* 3.1 23.0 - - + +
241A ILE* 3.8 30.5 - - + -
244A ALA* 4.0 7.6 - - + +
245A LEU* 4.2 25.1 - - + -
252A VAL* 4.8 4.7 - - + -
356A PHE* 5.6 0.4 - - + -
361A THR* 4.1 25.4 - - + +
364A LEU* 3.8 28.5 - - + -
365A LYS* 4.4 8.7 - - + -
368A ALA* 5.2 2.7 - - + -
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Residues in contact with ARG 224 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145A ILE* 4.7 10.1 + - - +
148A LEU* 4.1 13.7 - - + +
149A ARG* 5.9 4.6 - - - +
220A SER 3.3 12.2 + - - +
221A LEU* 3.3 27.4 - - - +
222A MET 3.0 0.8 - - - -
223A LEU* 1.3 76.6 - - - +
225A ILE* 1.3 65.8 + - - +
227A VAL* 3.2 5.4 + - - +
228A ARG* 3.0 33.0 + - - +
355A TRP 3.7 17.0 + - - -
356A PHE* 3.2 16.9 - - + -
360A GLU* 2.7 58.7 + - - -
364A LEU* 3.9 14.5 - - + +
462A ASN* 4.8 4.4 - - - +
465A GLU* 3.1 38.9 + - - +
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Residues in contact with ILE 225 (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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148A LEU* 4.0 19.3 - - + -
178A TYR* 3.2 31.9 - - + +
181A MET* 4.0 25.6 - - + -
182A LEU* 3.6 26.7 - - + -
185A LEU* 3.5 28.0 - - + -
221A LEU* 2.9 21.5 + - + +
222A MET 3.6 3.6 - - - +
224A ARG* 1.3 75.6 - - - +
226A VAL* 1.3 63.0 + - - +
228A ARG* 3.2 10.8 + - - +
229A VAL* 3.2 22.1 + - + +
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Residues in contact with VAL 226 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182A LEU* 4.3 6.5 - - + -
222A MET 2.8 24.2 + - - +
223A LEU* 2.8 37.2 - - + +
225A ILE* 1.3 69.9 - - - +
227A VAL* 1.3 66.7 + - + +
229A VAL* 3.3 7.9 + - - +
230A HIS* 3.2 18.2 + - - +
236A LEU 4.8 0.4 - - - +
237A ALA* 3.4 26.5 - - - +
240A TYR* 3.3 35.7 - - + -
241A ILE* 3.4 26.7 - - + +
373A LEU* 5.4 1.1 - - + -
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Residues in contact with VAL 227 (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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223A LEU* 3.1 23.3 - - + +
224A ARG 3.2 5.2 + - - +
226A VAL* 1.3 82.2 - - + +
228A ARG* 1.3 63.8 + - - +
229A VAL 3.3 0.5 + - - -
230A HIS* 3.3 25.7 + - + -
241A ILE* 5.4 0.2 - - + -
364A LEU* 3.9 39.7 - - + +
367A GLU* 3.5 37.9 - - + +
368A ALA* 4.8 8.7 - - + +
373A LEU* 5.1 4.0 - - + -
469A GLU* 5.1 0.4 - - - +
472A ARG* 3.5 12.0 + - - +
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Residues in contact with ARG 228 (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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148A LEU* 3.9 18.0 - - - +
152A ASP* 2.7 23.7 + - - -
178A TYR* 3.1 27.8 + - + +
224A ARG* 3.0 24.2 + - - +
225A ILE* 3.2 14.1 - - - +
226A VAL 3.2 0.2 - - - -
227A VAL* 1.3 78.5 - - - +
229A VAL* 1.3 58.9 + - + +
231A PHE* 4.8 2.9 + - - +
232A ILE* 5.5 0.7 + - - +
465A GLU* 2.7 40.0 + - - -
468A THR* 3.5 19.1 - - - +
469A GLU* 2.8 24.7 + - - -
472A ARG* 3.3 35.9 + - - +
535A TRP* 3.7 27.6 - - + +
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Residues in contact with VAL 229 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
178A TYR* 3.6 28.7 - - + -
182A LEU* 5.4 1.6 - - + -
225A ILE* 3.2 14.8 + - + +
226A VAL* 3.4 16.4 - - - +
228A ARG* 1.3 78.0 - - + +
230A HIS* 1.3 58.9 + - - +
231A PHE 3.4 2.5 - - - -
232A ILE* 3.1 7.4 + - - +
233A ASP* 2.8 31.9 + - + +
236A LEU* 4.1 15.9 - - + -
237A ALA* 3.9 21.8 - - - +
534A TRP* 3.6 28.9 - - + -
535A TRP* 5.1 1.1 - - + -
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Residues in contact with HIS 230 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
226A VAL 3.2 8.7 + - - +
227A VAL* 3.3 23.8 + - + -
229A VAL* 1.3 76.3 - - - +
231A PHE* 1.3 94.3 + + - +
233A ASP 4.1 0.2 - - - -
234A GLU* 2.8 57.1 + - - +
237A ALA* 3.5 21.3 - - + -
367A GLU* 3.1 28.0 + - + -
371A TYR* 3.3 41.4 - + + +
373A LEU* 3.9 14.6 - - + -
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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