Contacts of the helix formed by residues 211 - 241 (chain A) in PDB entry 3N3B
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 SER 211 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
210A ILE* 1.3 78.8 - - - +
212A LEU* 1.3 64.5 + - - +
213A GLY* 4.0 3.1 + - - -
214A GLN* 3.2 36.8 + - - +
215A ARG* 3.2 12.5 + - - +
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Residues in contact with LEU 212 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
210A ILE 3.9 0.2 + - - -
211A SER* 1.3 74.0 - - - +
213A GLY* 1.3 63.3 + - - +
215A ARG* 3.5 37.2 + - + +
216A GLU* 3.3 38.2 + - + +
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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
----------------------------------------------------------
211A SER* 3.2 4.9 + - - -
212A LEU* 1.3 78.4 - - - +
214A GLN* 1.3 62.8 + - - +
216A GLU* 3.4 10.9 + - - +
217A GLU* 3.3 26.8 + - - +
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Residues in contact with GLN 214 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146A ASP* 5.8 1.8 + - - -
148A LEU* 6.0 1.0 - - - +
210A ILE* 4.0 34.3 - - + +
211A SER* 3.2 27.0 + - - +
213A GLY* 1.3 74.7 - - - +
215A ARG* 1.3 64.5 + - - +
216A GLU 3.3 0.2 - - - -
217A GLU* 3.5 13.8 + - + +
218A LEU* 3.2 33.3 + - + +
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Residues in contact with ARG 215 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
207A MET* 2.8 53.4 + - + +
208A GLU* 3.9 14.5 + - - +
210A ILE* 3.2 26.7 + - + -
211A SER 3.2 12.0 + - - +
212A LEU* 3.5 46.3 - - + +
213A GLY 3.3 0.4 - - - -
214A GLN* 1.3 77.2 - - - +
216A GLU* 1.3 60.0 + - + +
218A LEU* 3.5 1.7 + - - +
219A LYS* 3.0 28.2 + - - +
267A TYR* 4.6 0.3 + - - -
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Residues in contact with GLU 216 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
212A LEU* 3.3 35.1 - - + +
213A GLY* 3.4 10.1 + - - +
214A GLN 3.3 0.4 - - - -
215A ARG* 1.3 78.4 - - - +
217A GLU* 1.3 64.1 + - + +
219A LYS* 3.5 19.8 + - - +
220A SER* 3.1 23.0 + - - -
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Residues in contact with GLU 217 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
213A GLY 3.3 13.1 + - - +
214A GLN* 3.7 17.8 - - + +
215A ARG 3.4 0.2 - - - -
216A GLU* 1.3 79.7 - - + +
218A LEU* 1.3 58.7 + - + +
220A SER* 3.3 7.9 + - - -
221A PHE* 2.9 26.9 + - - +
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Residues in contact with LEU 218 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146A ASP* 4.3 9.6 - - - +
148A LEU* 3.7 36.8 - - + -
149A LYS* 4.2 22.2 - - + -
152A ILE* 4.1 22.4 - - + +
203A TYR* 3.9 12.1 + - - +
207A MET* 4.1 4.0 - - + -
210A ILE* 3.8 13.0 - - + -
214A GLN* 3.2 29.7 + - + +
215A ARG 4.0 3.6 - - - +
216A GLU 3.3 0.2 - - - -
217A GLU* 1.3 77.3 - - + +
219A LYS* 1.3 60.4 + - - +
221A PHE* 3.6 9.9 - - + +
222A ALA* 3.0 29.3 + - - +
267A TYR* 4.1 3.3 + - - -
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Residues in contact with LYS 219 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
215A ARG 3.0 19.0 + - - +
216A GLU* 3.7 19.4 + - - +
218A LEU* 1.3 74.6 - - - +
220A SER* 1.3 61.8 + - - +
222A ALA* 3.4 1.4 + - - +
223A PHE* 3.1 51.5 + - + -
267A TYR* 3.6 39.4 + - + -
268A GLU* 5.9 7.9 - - - +
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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 GLU 3.1 13.8 + - - -
217A GLU* 3.5 10.5 - - - -
219A LYS* 1.3 75.9 - - - +
221A PHE* 1.3 63.9 + - - +
223A PHE* 3.7 4.6 + - - +
224A ASP* 3.1 35.1 + - - +
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Residues in contact with PHE 221 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141A HIS* 3.4 35.2 - + - -
149A LYS* 3.6 50.5 - - + -
152A ILE* 3.7 24.2 - - + -
217A GLU 2.9 16.9 + - - +
218A LEU* 3.6 8.7 - - + +
219A LYS 3.3 0.4 - - - -
220A SER* 1.3 73.9 - - - +
222A ALA* 1.3 56.7 + - - +
224A ASP* 3.2 9.9 + - + +
225A LEU* 2.8 60.2 + - + +
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Residues in contact with ALA 222 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152A ILE* 4.3 18.6 - - + -
156A PHE* 3.2 22.1 - - + -
218A LEU 3.0 17.0 + - - +
219A LYS 3.6 5.6 - - - +
220A SER 3.4 0.2 - - - -
221A PHE* 1.3 81.2 - - - +
223A PHE* 1.3 60.5 + - + +
225A LEU* 3.3 0.9 + - - -
226A LEU* 2.8 25.6 + - - +
262A LEU* 5.3 1.1 - - + -
265A LEU* 5.1 0.7 - - + -
267A TYR* 4.1 24.9 - - + -
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Residues in contact with PHE 223 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
219A LYS* 3.1 51.5 + - + +
220A SER* 4.2 4.5 - - - +
222A ALA* 1.3 77.8 - - + +
224A ASP* 1.3 60.7 + - - +
226A LEU* 3.8 5.0 - - + +
227A LEU* 3.1 39.4 + - + +
262A LEU* 3.9 19.7 - - + -
267A TYR* 4.2 18.2 - + + -
268A GLU* 3.6 22.2 - - + -
270A LEU* 3.7 49.1 - - + -
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Residues in contact with ASP 224 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
220A SER* 3.1 32.7 + - - +
221A PHE* 3.2 10.6 + - + +
223A PHE* 1.3 76.4 - - - +
225A LEU* 1.3 58.9 + - - +
227A LEU* 3.5 7.2 + - - +
228A GLU* 3.0 28.8 + - - +
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Residues in contact with LEU 225 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137A ILE* 3.8 13.5 - - + -
138A ILE* 5.4 0.7 - - + -
141A HIS* 3.7 28.9 - - + +
149A LYS 5.0 0.2 - - - +
152A ILE* 3.9 17.5 - - + -
153A ALA* 4.5 13.0 - - + +
156A PHE* 4.0 5.8 - - + -
221A PHE* 2.8 50.4 + - + +
222A ALA 3.7 3.8 - - - +
224A ASP* 1.3 71.1 - - - +
226A LEU* 1.3 60.9 + - - +
228A GLU* 3.3 19.5 + - - +
229A LEU* 2.9 49.3 + - + +
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Residues in contact with LEU 226 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156A PHE* 3.7 31.3 - - + -
160A PHE* 3.8 30.0 - - + -
222A ALA 2.8 18.1 + - - +
223A PHE* 3.8 6.5 - - + +
224A ASP 3.3 0.2 - - - -
225A LEU* 1.3 75.7 - - - +
227A LEU* 1.3 50.8 + - - +
229A LEU* 3.3 4.0 + - - +
230A TYR* 2.7 36.5 + - + +
258A ALA* 4.1 14.1 - - + +
262A LEU* 3.7 31.6 - - + -
270A LEU* 3.9 24.2 - - + -
271A PHE* 4.4 12.8 - - + -
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Residues in contact with LEU 227 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
223A PHE* 3.1 24.0 + - + +
224A ASP* 4.1 7.9 - - - +
226A LEU* 1.3 76.5 - - - +
228A GLU* 1.3 59.4 + - - +
230A TYR* 3.9 19.9 - - + +
231A ASP* 3.0 40.5 + - - +
270A LEU* 3.9 29.2 - - + -
271A PHE* 4.6 8.3 - - + -
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Residues in contact with GLU 228 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137A ILE* 3.8 31.9 - - + +
141A HIS* 5.3 0.9 + - - -
224A ASP 3.0 17.7 + - - +
225A LEU* 3.6 23.9 - - - +
227A LEU* 1.3 78.1 - - - +
229A LEU* 1.3 60.6 + - - +
231A ASP* 3.7 5.3 + - - +
232A ASN* 3.4 21.1 + - - +
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Residues in contact with LEU 229 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134A LYS* 4.7 10.5 - - + -
137A ILE* 4.1 29.6 - - + -
138A ILE* 3.9 27.1 - - + -
156A PHE* 4.0 18.8 - - + -
160A PHE* 4.5 3.1 - - + -
161A LEU* 3.9 36.1 - - + +
225A LEU* 2.9 38.7 + - + +
226A LEU 3.8 2.9 - - - +
228A GLU* 1.3 74.4 - - - +
230A TYR* 1.3 59.0 + - - +
232A ASN* 3.4 5.8 + - - +
233A GLU* 2.9 30.5 + - - +
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Residues in contact with TYR 230 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160A PHE* 4.1 24.7 - + + -
226A LEU* 2.7 22.6 + - + +
227A LEU* 3.9 17.0 - - + +
228A GLU 3.3 0.2 - - - -
229A LEU* 1.3 71.3 - - - +
231A ASP* 1.3 76.5 + - - +
233A GLU* 3.2 3.6 + - + +
234A LEU* 3.0 64.5 + - + +
251A LYS* 5.0 3.3 - - - +
254A LEU* 5.2 5.8 - - + -
255A CYS* 3.7 23.0 - - - -
271A PHE* 3.8 31.0 - + + -
275A MET* 3.6 21.5 - - + +
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Residues in contact with ASP 231 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
227A LEU* 3.0 23.5 + - - +
228A GLU* 4.0 5.3 - - - +
230A TYR* 1.3 90.5 - - - +
232A ASN* 1.3 61.9 + - - +
234A LEU* 3.6 16.6 + - - +
235A GLN* 3.6 16.6 + - - +
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Residues in contact with ASN 232 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130A PRO* 2.8 31.4 + - - +
133A ARG* 3.1 45.9 - - - +
134A LYS* 3.6 17.3 + - - +
137A ILE* 5.4 6.5 - - + -
228A GLU 3.4 14.9 + - - +
229A LEU* 3.7 8.7 - - + +
230A TYR 3.2 0.6 - - - -
231A ASP* 1.3 78.9 - - - +
233A GLU* 1.3 60.7 + - - +
235A GLN* 3.3 6.7 + - - +
236A TYR* 3.1 22.9 + - - +
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Residues in contact with GLU 233 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134A LYS* 2.9 42.6 + - - +
160A PHE* 4.9 1.8 - - + -
161A LEU* 3.1 23.6 - - + +
164A SER* 2.7 25.9 + - - -
229A LEU 2.9 16.7 + - - +
230A TYR* 3.2 7.2 + - + +
232A ASN* 1.3 76.3 - - - +
234A LEU* 1.3 55.9 + - - +
236A TYR* 3.3 11.7 - - - +
237A THR* 2.7 37.7 + - - -
254A LEU* 3.8 31.6 - - + -
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Residues in contact with LEU 234 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
230A TYR* 3.0 63.2 + - + +
231A ASP* 3.7 17.7 - - - +
233A GLU* 1.3 78.3 - - - +
235A GLN* 1.3 57.8 + - - +
237A THR* 3.5 6.1 + - - -
238A ASP* 3.0 35.7 + - - +
251A LYS* 3.7 37.4 - - + +
254A LEU* 5.1 3.1 - - + -
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Residues in contact with GLN 235 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130A PRO* 3.7 12.8 - - + -
133A ARG* 4.6 9.9 - - - +
231A ASP 3.6 8.3 + - - +
232A ASN* 3.3 11.6 + - - +
233A GLU 3.3 0.2 - - - -
234A LEU* 1.3 78.0 - - - +
236A TYR* 1.3 58.9 + - - +
238A ASP* 3.3 12.9 + - - +
239A GLU* 2.8 62.4 + - - +
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Residues in contact with TYR 236 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58A ARG 4.4 6.2 + - - -
59A VAL* 4.9 2.4 + - - -
62A GLY* 3.9 15.2 - - - -
63A LEU* 6.1 1.9 - - + +
124A TRP* 4.8 3.0 - + - -
128A ASN* 3.2 33.7 - - - -
130A PRO* 3.7 14.3 - - + +
131A LEU* 3.5 29.5 - - + +
134A LYS* 3.4 20.4 - - - -
164A SER* 4.0 9.4 - - - -
165A GLY* 5.9 0.7 - - - -
232A ASN* 3.1 14.2 + - - +
233A GLU* 3.3 31.6 - - + +
235A GLN* 1.3 78.4 - - - +
237A THR* 1.3 56.0 + - - +
239A GLU* 3.6 2.3 + - + +
240A LEU* 3.1 61.4 + - + +
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Residues in contact with THR 237 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
164A SER* 4.1 9.6 - - - -
233A GLU 2.7 21.6 + - - -
234A LEU* 3.7 5.8 - - - -
235A GLN 3.3 0.2 - - - -
236A TYR* 1.3 75.0 - - - +
238A ASP* 1.3 60.2 + - - +
240A LEU* 4.6 1.3 - - - -
241A TYR* 2.9 43.9 + - + +
247A ALA* 3.8 17.8 - - - +
250A VAL* 3.8 29.8 - - + -
251A LYS* 4.2 12.1 - - + -
254A LEU* 3.5 17.3 - - - +
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Residues in contact with ASP 238 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
234A LEU* 3.0 23.8 + - - +
235A GLN* 3.3 17.5 + - - +
237A THR* 1.3 74.5 - - - +
239A GLU* 1.3 62.1 + - + +
241A TYR 4.0 0.2 - - - -
242A ALA* 3.3 27.4 + - - +
247A ALA* 4.4 11.2 - - - +
251A LYS* 2.8 28.8 + - - -
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Residues in contact with GLU 239 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58A ARG* 5.1 2.9 + - - -
124A TRP* 3.9 17.6 - - + -
128A ASN* 3.0 26.4 - - - +
129A ALA* 4.9 1.0 + - - +
130A PRO* 3.4 18.9 - - - +
235A GLN* 2.8 49.0 + - - +
236A TYR* 4.1 3.6 - - - +
238A ASP* 1.3 76.2 - - + +
240A LEU* 1.3 65.1 + - - +
242A ALA* 4.0 11.9 - - - +
----------------------------------------------------------
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Residues in contact with LEU 240 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55A LEU* 3.3 20.1 - - + +
58A ARG* 3.9 35.1 + - + +
59A VAL* 4.3 15.9 - - + +
124A TRP* 3.7 27.8 - - + -
164A SER* 5.1 6.7 - - - +
165A GLY* 5.8 1.1 - - - +
236A TYR* 3.1 58.1 + - + +
237A THR* 5.1 0.4 - - - -
239A GLU* 1.3 79.2 - - - +
241A TYR* 1.3 79.8 + - + +
242A ALA* 3.3 3.6 + - - +
243A GLU 5.0 1.2 + - - -
244A THR* 5.9 0.2 - - - +
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Residues in contact with TYR 241 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55A LEU* 3.7 30.5 - - + -
59A VAL* 4.2 5.2 - - + +
164A SER 2.7 29.3 + - - -
167A TRP* 3.9 24.3 - + - -
168A LEU* 3.9 20.0 + - + +
237A THR* 2.9 32.0 + - + +
238A ASP* 4.0 2.7 - - - -
240A LEU* 1.3 91.6 - - + +
242A ALA* 1.3 61.7 + - - +
243A GLU 3.3 2.7 - - - -
244A THR* 2.7 41.6 + - - +
246A TRP* 4.2 6.7 - + + -
247A ALA* 4.4 19.2 - - + +
250A VAL* 3.8 21.1 - - + -
----------------------------------------------------------
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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) + - + + + + + -
------------------------------------------------------------
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