Contacts of the helix formed by residues 213 - 243 (chain B) in PDB entry 2RGZ
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 MET 213 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30B MET* 3.6 59.7 - - + -
36B LEU* 4.1 3.6 - - + -
212B ASN* 1.3 76.1 - - - +
214B LYS* 1.3 57.6 + - - +
215B THR 2.7 4.3 - - - -
216B LYS* 2.8 52.5 + - + -
217B GLU* 3.2 19.1 + - + +
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Residues in contact with LYS 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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212B ASN* 4.5 2.8 - - + +
213B MET* 1.3 79.2 - - - +
215B THR* 1.3 52.8 + - - +
216B LYS 3.2 0.2 - - - -
217B GLU* 3.5 23.3 + - + +
218B ARG* 2.5 85.6 + - + +
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Residues in contact with THR 215 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147B GLU* 4.5 17.0 - - + -
148B LEU* 5.6 0.4 - - + -
211B LEU* 3.3 36.3 - - + -
212B ASN* 2.6 48.6 + - - +
214B LYS* 1.3 80.1 - - - +
216B LYS* 1.3 56.4 + - - +
218B ARG* 3.5 19.4 + - - +
219B ILE* 2.8 37.6 + - + +
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Residues in contact with LYS 216 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30B MET 5.4 2.2 - - - +
31B ALA 2.6 26.8 + - - +
32B ASP* 4.5 1.0 - - - +
33B LEU* 3.8 34.7 - - + +
36B LEU* 3.5 26.0 - - + -
207B ASN 5.8 2.0 + - - -
209B LEU 5.3 8.9 + - - -
211B LEU* 5.2 12.6 - - + +
212B ASN 4.0 12.6 - - - +
213B MET* 2.8 31.8 + - + +
215B THR* 1.3 73.4 - - - +
217B GLU* 1.3 56.8 + - - +
219B ILE* 3.1 5.4 + - - +
220B VAL* 2.8 38.8 + - - +
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Residues in contact with GLU 217 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30B MET* 4.9 7.5 - - + +
36B LEU* 6.1 4.3 - - + -
213B MET* 3.2 23.0 + - + +
214B LYS* 3.2 29.4 + - + +
216B LYS* 1.3 78.5 - - + +
218B ARG* 1.3 55.9 + - - +
220B VAL* 3.4 7.0 + - - +
221B GLU* 2.8 28.5 + - - +
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Residues in contact with ARG 218 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
225A LYS* 6.1 0.2 - - - +
145B GLU* 4.1 15.0 + - - -
147B GLU* 2.9 34.6 + - - +
148B LEU* 4.1 16.2 - - + +
212B ASN* 4.8 6.7 - - - +
214B LYS* 2.5 72.7 + - + +
215B THR* 3.5 25.1 + - - +
217B GLU* 1.3 70.3 - - - +
219B ILE* 1.3 65.6 + - - +
221B GLU* 2.8 19.5 + - - +
222B GLU* 3.0 14.6 + - - +
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Residues in contact with ILE 219 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33B LEU* 4.0 26.2 - - + -
37B LEU* 4.2 12.6 - - + -
147B GLU 3.4 19.3 - - - +
148B LEU* 3.6 22.2 - - + +
150B VAL* 3.5 20.9 - - + -
151B ALA* 3.2 27.6 - - + +
211B LEU* 3.7 24.7 - - + -
215B THR* 2.8 20.2 + - + +
216B LYS* 3.1 8.0 + - - +
218B ARG* 1.3 75.4 - - - +
220B VAL* 1.3 62.8 + - - +
222B GLU* 3.4 0.9 + - - +
223B ALA* 3.1 16.8 + - - +
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Residues in contact with VAL 220 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33B LEU* 4.8 2.2 - - + -
36B LEU* 3.3 37.2 - - + +
37B LEU* 3.6 18.2 - - + +
40B GLY* 3.7 34.8 - - - +
41B THR* 4.2 3.6 - - + +
216B LYS 2.8 22.4 + - - +
217B GLU* 3.7 6.5 - - - +
219B ILE* 1.3 69.8 - - - +
221B GLU* 1.3 68.5 + - - +
223B ALA* 3.0 11.3 + - - +
224B ASN* 3.1 14.9 + - - +
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Residues in contact with GLU 221 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133A LYS* 3.5 25.0 + - - +
217B GLU 2.8 15.5 + - - +
218B ARG* 2.8 15.7 + - - +
220B VAL* 1.3 78.9 - - - +
222B GLU* 1.3 55.6 + - - +
224B ASN* 3.3 13.0 + - - +
225B LYS* 2.9 24.1 + - + +
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Residues in contact with GLU 222 (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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137B ARG* 2.5 42.5 + - - -
141B ILE* 3.2 17.0 - - - +
148B LEU* 4.5 14.5 - - + +
151B ALA* 4.2 7.9 - - + -
152B HIS* 3.0 35.4 + - + +
218B ARG 3.0 10.1 + - - +
219B ILE* 3.8 8.3 - - - +
221B GLU* 1.3 74.2 - - - +
223B ALA* 1.3 54.8 + - - +
224B ASN 3.0 2.0 - - - -
225B LYS* 3.3 18.0 - - + +
226B ALA* 2.4 34.3 + - - +
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Residues in contact with ALA 223 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37B LEU* 3.4 33.7 - - + -
41B THR* 3.4 17.3 - - + -
151B ALA* 4.0 6.2 - - - +
154B TYR* 4.9 2.5 - - + -
155B THR* 3.7 18.6 + - - +
219B ILE 3.1 7.6 + - - +
220B VAL 3.0 4.7 + - - +
222B GLU* 1.3 75.0 - - - +
224B ASN* 1.3 58.8 + - - +
226B ALA* 3.3 3.0 + - - +
227B PHE* 2.9 33.9 + - + -
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Residues in contact with ASN 224 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40B GLY 3.0 25.9 + - - +
41B THR* 3.3 19.3 - - - +
43B GLU* 5.0 2.3 + - - +
44B ALA* 2.9 31.5 + - - +
47B ARG* 5.7 1.2 + - - -
220B VAL* 3.1 14.5 + - - +
221B GLU* 3.3 15.0 + - - +
222B GLU 3.0 0.2 - - - -
223B ALA* 1.3 76.6 - - - +
225B LYS* 1.3 64.9 + - - +
227B PHE* 3.1 6.2 + - - +
228B GLU* 3.0 27.3 + - - +
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Residues in contact with LYS 225 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
232A GLN* 2.7 45.0 + - - +
235A ASN* 4.5 3.2 - - - +
137B ARG* 3.7 15.5 - - - +
221B GLU* 2.9 11.3 + - + +
222B GLU* 3.0 36.8 + - + +
224B ASN* 1.3 76.1 - - - +
226B ALA* 1.3 62.2 + - - +
228B GLU* 3.5 8.0 + - - +
229B TYR* 3.2 39.3 + - + -
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Residues in contact with ALA 226 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134B TYR* 3.9 3.8 - - - +
152B HIS* 3.6 25.5 - - + +
155B THR* 3.7 22.4 - - + +
222B GLU 2.4 21.2 + - - +
223B ALA* 3.4 6.1 - - - +
225B LYS* 1.3 71.6 - - - +
227B PHE* 1.3 59.5 + - - +
229B TYR* 3.1 24.0 - - - +
230B ASN* 2.7 23.4 + - - -
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Residues in contact with PHE 227 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41B THR* 4.6 12.3 - - + -
44B ALA* 3.3 35.7 - - + -
45B HIS* 3.5 39.9 - + + -
48B ALA* 4.0 8.1 - - + -
154B TYR* 5.5 3.4 - + - -
155B THR* 3.9 20.9 - - + -
223B ALA* 2.9 28.0 + - + -
224B ASN 3.1 7.8 + - - +
226B ALA* 1.3 75.7 - - - +
228B GLU* 1.3 56.7 + - - +
230B ASN* 2.5 34.2 + - + +
231B MET* 2.9 16.5 + - + +
265B HEM 3.3 43.5 - + + -
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Residues in contact with GLU 228 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44B ALA* 5.6 0.9 - - - +
47B ARG* 2.9 41.1 + - - +
224B ASN 3.0 12.1 + - - +
225B LYS* 3.7 10.8 - - + +
226B ALA 3.4 0.2 - - - -
227B PHE* 1.3 79.3 - - - +
229B TYR* 1.3 64.2 + - + +
231B MET* 2.9 20.0 + - - +
232B GLN* 2.8 26.1 + - - +
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Residues in contact with TYR 229 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
232A GLN* 3.3 24.8 + - - -
235A ASN* 3.5 27.4 + - - +
130B ALA 4.2 2.4 - - - +
133B LYS* 4.2 11.5 + - + -
134B TYR* 3.3 49.6 - + + -
137B ARG* 3.7 34.0 - - + +
152B HIS* 4.9 1.8 - + - -
225B LYS* 3.2 31.9 + - + -
226B ALA* 3.1 15.2 + - - +
227B PHE 3.0 0.2 - - - -
228B GLU* 1.3 79.2 - - + +
230B ASN* 1.3 57.2 + - - +
232B GLN* 3.6 12.9 + - - +
233B ILE* 3.1 30.2 + - - +
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Residues in contact with ASN 230 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77B THR* 5.8 0.2 - - - +
134B TYR* 3.9 18.2 - - - -
155B THR* 3.9 5.9 - - - +
156B ARG* 3.8 18.7 + - - -
226B ALA 2.7 28.7 + - - -
227B PHE* 2.5 21.2 + - + +
229B TYR* 1.3 70.0 - - - +
231B MET* 1.3 52.8 + - + +
233B ILE* 2.8 14.9 + - - +
234B PHE* 2.7 55.0 + - + -
265B HEM 3.8 26.1 - - + +
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Residues in contact with MET 231 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44B ALA 5.3 1.3 - - - +
47B ARG* 3.0 48.7 - - + +
48B ALA* 4.4 8.5 - - - -
51B THR* 3.5 25.8 - - + -
227B PHE* 2.9 19.4 + - + +
228B GLU* 3.1 31.9 - - - +
230B ASN* 1.3 74.7 - - + +
232B GLN* 1.3 65.3 + - - +
234B PHE* 2.7 24.6 + - - +
235B ASN* 3.3 23.0 + - - +
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Residues in contact with GLN 232 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
235A ASN* 4.5 3.3 + - - +
239A GLN* 3.0 45.2 - - + +
130B ALA* 3.6 18.1 + - + +
133B LYS* 3.2 42.1 + - - +
228B GLU 2.8 14.7 + - - +
229B TYR* 3.7 16.4 - - - +
231B MET* 1.3 73.1 - - - +
233B ILE* 1.3 57.7 + - - +
235B ASN* 3.1 14.5 - - - +
236B GLU* 2.8 24.9 - - - +
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Residues in contact with ILE 233 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73B ALA* 4.1 22.7 - - + -
77B THR* 4.4 5.6 - - + +
128B PRO* 6.1 0.9 - - + -
130B ALA* 3.2 34.5 - - + +
131B ALA* 3.9 16.4 - - + -
134B TYR* 4.1 21.1 - - + -
229B TYR 3.1 16.1 + - - +
230B ASN* 2.8 19.0 + - - +
232B GLN* 1.3 75.8 - - - +
234B PHE* 1.3 69.6 + - + +
236B GLU* 3.4 2.6 - - - +
237B LEU* 3.3 26.5 + - + +
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Residues in contact with PHE 234 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48B ALA* 5.1 0.9 - - + -
51B THR* 3.9 24.7 - - + -
53B PHE* 3.5 44.1 - + + +
54B VAL* 4.0 15.9 - - + -
156B ARG* 4.8 6.5 - - - -
230B ASN* 2.7 33.5 + - + -
231B MET* 2.7 22.4 + - - +
233B ILE* 1.3 73.5 - - + +
235B ASN* 1.3 55.3 + - - +
236B GLU 3.0 0.2 - - - -
237B LEU* 2.6 33.4 + - + +
238B ASP* 2.9 8.0 + - - +
265B HEM 3.6 33.9 - - + -
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Residues in contact with ASN 235 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51B THR* 5.9 3.9 - - + +
52B GLN* 6.2 2.0 - - + -
53B PHE* 4.8 1.1 - - - +
231B MET* 3.5 22.1 + - - +
232B GLN* 3.1 14.1 - - - +
234B PHE* 1.3 75.7 - - + +
236B GLU* 1.3 78.3 + - - +
238B ASP* 3.3 16.6 - - + +
239B GLN* 2.8 44.3 + - + +
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Residues in contact with GLU 236 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69B LEU* 5.6 0.5 - - - +
128B PRO* 4.5 10.4 - - - +
129B LYS* 4.4 19.1 + - + +
130B ALA* 3.7 21.9 + - + +
232B GLN 2.8 19.5 + - - +
233B ILE 3.4 7.9 - - - +
234B PHE 3.0 0.4 - - - -
235B ASN* 1.3 84.6 + - - +
237B LEU* 1.3 69.9 + - - +
239B GLN* 4.3 7.8 - - - +
240B ALA* 3.3 22.6 + - - +
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Residues in contact with LEU 237 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53B PHE* 3.9 22.7 - - + -
66B LEU* 3.2 17.1 - - + +
69B LEU* 3.4 37.9 - - + +
70B ALA* 3.4 35.0 - - + +
73B ALA* 5.7 2.0 - - + -
128B PRO* 5.9 5.4 - - + -
233B ILE* 3.3 26.0 - - + +
234B PHE* 2.6 11.7 + - + +
236B GLU* 1.3 87.8 - - - +
238B ASP* 1.3 52.7 + - - +
239B GLN 3.3 0.4 - - - -
240B ALA* 2.9 3.4 + - - +
241B GLY* 2.6 32.7 + - - -
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Residues in contact with ASP 238 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52B GLN* 3.0 43.3 + - - +
53B PHE* 3.6 20.3 + - + +
56B ASP* 4.5 5.4 - - - +
66B LEU* 5.1 2.9 - - - +
234B PHE 2.9 6.5 + - - +
235B ASN* 3.0 22.4 + - + +
237B LEU* 1.3 75.8 - - - +
239B GLN* 1.3 65.4 + - + +
241B GLY* 3.1 2.9 + - - -
242B SER* 3.0 28.7 + - - -
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Residues in contact with GLN 239 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
242A SER 6.0 1.8 + - - -
235B ASN* 2.8 31.2 + - + +
236B GLU* 4.4 6.5 - - - +
238B ASP* 1.3 78.4 - - + +
240B ALA* 1.3 60.5 + - - +
242B SER* 3.3 9.1 + - - -
243B THR* 2.8 28.7 + - - -
246B ARG* 5.0 0.2 + - - -
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Residues in contact with ALA 240 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66B LEU* 4.6 0.9 - - - -
69B LEU* 3.7 27.0 - - + +
236B GLU* 3.3 19.2 + - - +
237B LEU* 2.9 9.3 + - - +
239B GLN* 1.3 80.1 - - - +
241B GLY* 1.3 60.7 + - - +
243B THR* 3.3 18.2 + - - -
244B LEU* 3.4 11.3 + - - +
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Residues in contact with GLY 241 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63B LYS* 5.9 1.3 - - - +
66B LEU* 3.6 25.1 - - - +
237B LEU 2.6 18.3 + - - -
238B ASP 3.1 3.3 + - - -
240B ALA* 1.3 70.9 - - - +
242B SER* 1.3 60.6 + - - +
244B LEU* 3.1 27.9 - - - +
245B ALA* 3.2 11.1 + - - +
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Residues in contact with SER 242 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
238B ASP* 3.0 17.5 + - - -
239B GLN* 3.6 12.0 - - - -
240B ALA 3.2 0.2 - - - -
241B GLY* 1.3 72.9 - - - +
243B THR* 1.3 54.8 + - - +
244B LEU 2.8 4.7 - - - -
245B ALA* 2.7 10.6 + - - +
246B ARG* 2.5 53.9 + - - +
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Residues in contact with THR 243 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
239B GLN* 2.8 20.1 + - - +
240B ALA* 3.3 13.2 + - - -
242B SER* 1.3 75.7 - - - +
244B LEU* 1.3 56.5 + - - +
246B ARG* 3.4 19.3 + - - +
247B GLU* 4.1 18.0 + - - +
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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).
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