Contacts of the helix formed by residues 212 - 240 (chain A) 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 ASN 212 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
210A ASP* 5.2 0.2 + - - -
211A LEU* 1.3 75.8 - - - +
213A MET* 1.3 64.2 + - - +
214A LYS* 3.6 10.2 + - + +
215A THR* 2.8 39.8 + - - -
216A LYS* 3.2 12.0 + - - +
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Residues in contact with MET 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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30A MET* 6.4 0.7 - - + -
31A ALA* 4.4 25.6 - - + +
36A LEU* 4.0 17.7 - - + -
211A LEU 4.1 0.6 + - - -
212A ASN* 1.3 73.9 - - - +
214A LYS* 1.3 62.7 + - - +
216A LYS* 3.4 28.3 + - - +
217A GLU* 3.2 41.0 + - - +
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Residues in contact with LYS 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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212A ASN* 3.2 11.1 - - + +
213A MET* 1.3 79.9 - - - +
215A THR* 1.3 62.8 + - - +
217A GLU* 3.6 20.0 + - - +
218A ARG* 3.6 27.2 + - - +
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Residues in contact with THR 215 (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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147A GLU* 3.5 33.5 - - + +
148A LEU* 4.2 0.9 - - + -
211A LEU* 4.5 9.6 - - + -
212A ASN* 2.8 33.6 + - - -
214A LYS* 1.3 74.5 - - - +
216A LYS* 1.3 57.4 + - - +
217A GLU 3.1 1.8 - - - -
218A ARG* 2.6 49.2 + - - +
219A ILE* 2.8 25.1 + - + -
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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
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31A ALA 3.7 18.0 + - - -
32A ASP* 5.0 1.0 - - - +
33A LEU* 4.3 26.2 - - + +
36A LEU* 3.8 27.6 - - + -
207A ASN* 5.6 6.2 + - - +
209A LEU 5.9 0.9 - - - -
211A LEU* 3.8 36.3 + - + -
212A ASN 3.2 9.5 + - - +
213A MET* 3.4 24.5 + - - +
215A THR* 1.3 76.3 - - - +
217A GLU* 1.3 57.0 + - - +
219A ILE* 2.7 32.8 + - - +
220A VAL* 2.8 18.4 + - - +
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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
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36A LEU* 5.8 1.1 - - + +
213A MET* 3.2 30.2 + - + +
214A LYS* 3.6 23.1 + - - +
215A THR 3.1 0.6 - - - -
216A LYS* 1.3 75.9 - - + +
218A ARG* 1.3 57.9 + - + +
220A VAL* 3.4 7.6 + - - +
221A GLU* 2.9 47.2 + - - +
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Residues in contact with ARG 218 (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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145A GLU* 2.7 30.5 + - - +
147A GLU* 2.6 30.5 + - - +
148A LEU* 3.6 22.8 - - + +
214A LYS* 4.0 21.5 - - - +
215A THR* 2.6 47.3 + - - +
217A GLU* 1.3 72.5 - - + +
219A ILE* 1.3 57.1 + - - -
221A GLU* 3.8 13.3 - - - +
222A GLU* 3.0 28.2 + - - +
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Residues in contact with ILE 219 (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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33A LEU* 3.9 14.8 - - + -
37A LEU* 3.9 17.9 - - + -
147A GLU 3.3 26.5 - - - +
148A LEU* 3.6 10.1 - - + -
150A VAL* 3.7 25.8 - - + -
151A ALA* 3.5 10.1 - - + +
211A LEU* 3.5 29.2 - - + -
215A THR* 2.8 16.1 + - + +
216A LYS* 2.7 21.7 + - - +
218A ARG* 1.3 69.6 - - - +
220A VAL* 1.3 66.0 + - - +
222A GLU* 2.8 15.2 + - - +
223A ALA* 2.8 12.1 + - - +
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Residues in contact with VAL 220 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33A LEU* 4.7 2.9 - - + -
36A LEU* 3.8 15.0 - - + +
37A LEU* 3.3 44.0 - - + +
40A GLY* 3.7 30.1 - - - +
41A THR* 4.7 0.2 - - + -
216A LYS 2.8 21.4 + - - +
217A GLU* 3.8 7.6 - - - +
219A ILE* 1.3 71.5 - - - +
221A GLU* 1.3 62.4 - - + +
223A ALA* 3.1 12.6 + - - +
224A ASN* 2.9 26.5 + - - +
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Residues in contact with GLU 221 (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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217A GLU* 2.9 37.4 + - - +
218A ARG* 3.8 13.3 - - - +
220A VAL* 1.3 78.1 - - + +
222A GLU* 1.3 61.8 + - - +
224A ASN* 3.7 10.8 + - - +
225A LYS* 3.3 19.1 + - - +
144B ASN* 5.1 8.0 - - - +
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Residues in contact with GLU 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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137A ARG* 2.7 38.9 + - - -
141A ILE* 4.4 4.3 - - + -
148A LEU* 4.0 23.2 - - + +
151A ALA* 3.6 17.4 - - + +
152A HIS* 3.2 24.7 + - - +
218A ARG 3.0 18.0 + - - +
219A ILE* 2.8 9.7 + - - +
221A GLU* 1.3 77.1 - - - +
223A ALA* 1.3 62.4 + - - +
224A ASN 3.2 0.2 - - - -
225A LYS* 3.2 16.7 + - - +
226A ALA* 3.0 22.2 + - - +
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Residues in contact with ALA 223 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37A LEU* 3.9 15.0 - - + -
41A THR* 3.7 15.5 - - + -
151A ALA* 3.6 12.1 - - + +
154A TYR* 4.3 7.0 - - + -
155A THR* 3.6 17.7 - - - +
219A ILE 2.8 11.1 + - - +
220A VAL 3.5 8.1 - - - +
222A GLU* 1.3 76.2 - - - +
224A ASN* 1.3 58.1 + - - +
226A ALA* 3.1 5.2 + - - +
227A PHE* 3.0 33.7 + - - -
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Residues in contact with ASN 224 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40A GLY 2.8 29.4 + - - +
41A THR* 3.4 19.4 - - - +
44A ALA* 3.6 15.5 + - + +
47A ARG* 5.5 0.3 + - - -
220A VAL* 2.9 27.9 + - - +
221A GLU* 3.7 9.3 - - - +
223A ALA* 1.3 76.4 - - - +
225A LYS* 1.3 66.1 + - - +
227A PHE* 3.2 8.9 + - - +
228A GLU 3.2 16.1 + - - -
140B TYR* 3.7 10.1 - - - -
144B ASN* 3.3 31.4 + - - +
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Residues in contact with LYS 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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137A ARG* 3.5 27.4 - - - +
221A GLU 3.3 11.1 + - - +
222A GLU* 3.2 28.6 + - - +
224A ASN* 1.3 77.7 - - - +
226A ALA* 1.3 63.9 + - - +
228A GLU* 2.9 16.6 + - + +
229A TYR* 2.9 52.8 + - + -
140B TYR* 3.4 20.8 + - - +
145B GLU* 3.1 26.0 + - - +
218B ARG* 6.1 0.2 - - - +
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Residues in contact with ALA 226 (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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134A TYR* 4.3 4.2 + - - +
151A ALA 4.2 2.7 - - - +
152A HIS* 3.8 22.6 - - + +
155A THR* 3.8 20.2 - - + +
222A GLU 3.0 12.8 + - - +
223A ALA* 3.1 14.1 + - - +
225A LYS* 1.3 73.1 - - - +
227A PHE* 1.3 63.7 + - - +
229A TYR* 2.9 25.3 + - - +
230A ASN* 3.0 19.3 + - - -
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Residues in contact with PHE 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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41A THR* 3.9 28.7 - - + -
44A ALA* 3.9 29.2 - - + +
45A HIS* 3.7 24.7 - + + -
47A ARG* 6.0 0.4 - - - +
48A ALA* 4.5 5.6 - - + -
154A TYR* 4.6 4.7 - + - -
155A THR* 3.6 20.6 - - + -
223A ALA 3.0 28.2 + - - -
224A ASN* 3.2 10.3 + - - +
226A ALA* 1.3 75.0 - - - +
228A GLU* 1.3 50.9 + - - +
230A ASN* 2.9 13.0 + - - +
231A MET* 2.6 40.7 + - + +
300A HEM 3.4 53.8 - + + -
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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
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47A ARG* 4.1 4.9 + - - +
224A ASN 3.2 1.6 + - - -
225A LYS* 2.9 13.2 + - + +
227A PHE* 1.3 76.5 - - - +
229A TYR* 1.3 59.8 + - - +
231A MET* 3.7 20.5 - - - +
232A GLN* 2.8 44.7 + - + +
136B GLU 5.2 0.5 - - - +
137B ARG* 2.8 43.3 + - - +
140B TYR* 3.1 53.6 - - + +
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Residues in contact with TYR 229 (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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130A ALA* 4.7 3.1 - - - +
133A LYS* 4.0 25.5 + - + -
134A TYR* 3.5 43.4 - + + -
137A ARG* 3.4 33.2 - - + +
152A HIS* 4.5 2.7 - + - -
225A LYS* 2.9 62.6 + - + -
226A ALA* 2.9 16.9 + - - +
228A GLU* 1.3 76.3 - - - +
230A ASN* 1.3 62.2 - - - +
232A GLN* 3.3 10.7 + - + +
233A ILE* 3.2 25.8 + - - +
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Residues in contact with ASN 230 (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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134A TYR* 3.0 32.3 + - - -
155A THR* 4.1 4.8 - - - +
156A ARG* 2.8 37.6 + - - +
226A ALA 3.0 22.8 + - - -
227A PHE* 2.9 7.7 + - - +
229A TYR* 1.3 74.3 - - - +
231A MET* 1.3 66.2 + - - +
232A GLN 3.1 0.4 - - - -
233A ILE* 3.1 9.4 + - - +
234A PHE* 2.9 40.2 + - + -
300A HEM 3.6 19.9 - - + +
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Residues in contact with MET 231 (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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44A ALA* 4.8 2.9 - - + +
47A ARG* 3.4 46.0 - - + +
48A ALA* 3.7 25.4 - - - -
51A THR* 4.1 15.0 + - - +
227A PHE* 2.6 26.9 + - + +
228A GLU* 3.4 33.7 - - - +
230A ASN* 1.3 75.2 - - - +
232A GLN* 1.3 59.7 + - - +
234A PHE* 3.3 13.7 + - - +
235A ASN* 2.9 29.2 + - - +
136B GLU* 4.3 12.1 - - + +
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Residues in contact with GLN 232 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130A ALA* 3.6 18.8 - - + +
228A GLU* 2.8 41.0 + - + +
229A TYR* 3.7 11.2 - - + +
230A ASN 3.1 0.2 - - - -
231A MET* 1.3 78.3 + - - +
233A ILE* 1.3 62.7 + - - +
235A ASN* 3.3 17.5 + - - +
236A GLU* 3.0 23.2 + - - +
137B ARG* 3.3 15.5 - - - +
225B LYS* 2.7 30.8 + - - +
229B TYR* 3.3 19.6 + - - -
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Residues in contact with ILE 233 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73A ALA* 4.2 21.5 - - + +
77A THR* 4.7 2.2 - - - +
128A PRO* 4.8 5.2 - - + -
130A ALA* 3.8 6.1 - - + -
131A ALA* 3.6 37.5 - - + +
134A TYR* 3.5 34.8 - - + -
229A TYR 3.2 8.4 + - - +
230A ASN* 3.1 11.7 + - - +
232A GLN* 1.3 76.3 - - - +
234A PHE* 1.3 65.2 + - + +
236A GLU* 3.2 4.4 + - - +
237A LEU* 2.9 48.9 + - + +
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Residues in contact with PHE 234 (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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48A ALA* 4.9 2.5 - - + -
51A THR* 3.8 32.5 - - + +
53A PHE* 3.4 42.5 - + + +
54A VAL* 3.7 13.7 - - + -
156A ARG* 4.8 11.2 - - - -
230A ASN* 2.9 31.7 + - + +
231A MET* 3.6 11.4 - - - +
233A ILE* 1.3 80.5 - - + +
235A ASN* 1.3 62.1 + - - +
237A LEU* 3.5 9.0 + - + +
238A ASP* 3.2 19.2 + - - +
300A HEM 3.5 31.2 - - + -
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Residues in contact with ASN 235 (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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51A THR* 5.3 2.9 + - - +
231A MET 2.9 17.3 + - - +
232A GLN* 3.3 25.0 + - - +
234A PHE* 1.3 77.6 - - - +
236A GLU* 1.3 64.1 + - - +
238A ASP 3.5 0.7 + - - -
239A GLN* 3.5 7.3 + - - +
133B LYS* 2.9 52.3 + - + +
225B LYS* 4.5 2.8 - - - +
229B TYR* 3.5 26.1 + - - +
232B GLN* 4.5 2.8 + - - +
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Residues in contact with GLU 236 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128A PRO* 3.2 18.5 - - + +
129A LYS* 2.8 42.2 + - - +
130A ALA* 3.5 18.7 + - + +
232A GLN 3.0 16.5 + - - +
233A ILE* 3.8 5.8 - - - +
235A ASN* 1.3 76.9 - - - +
237A LEU* 1.3 64.7 + - - +
239A GLN* 3.6 9.6 + - + +
240A ALA* 3.3 19.2 + - - +
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Residues in contact with LEU 237 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53A PHE* 3.8 41.1 - - + -
66A LEU* 3.3 32.6 - - + +
69A LEU* 4.3 11.2 - - + +
70A ALA* 4.2 29.6 - - + +
73A ALA* 5.5 0.4 - - + -
128A PRO* 4.9 12.6 - - + -
233A ILE* 2.9 41.7 + - + +
234A PHE* 3.8 6.3 - - + +
236A GLU* 1.3 74.1 - - - +
238A ASP* 1.3 61.9 + - - +
240A ALA* 3.0 23.3 - - + +
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Residues in contact with ASP 238 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52A GLN* 4.1 24.8 - - - +
53A PHE* 4.3 17.4 + - + +
56A ASP* 4.5 4.5 - - - +
66A LEU* 5.2 1.5 - - - +
234A PHE 3.2 16.4 + - - +
237A LEU* 1.3 73.3 - - - +
239A GLN* 1.3 55.9 + - - +
240A ALA 3.0 1.1 - - - -
241A GLY* 2.7 28.4 + - - -
242A SER 4.1 1.6 + - - -
129B LYS* 5.6 4.3 - - - +
133B LYS* 2.6 38.5 + - - +
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Residues in contact with GLN 239 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
235A ASN 3.5 5.0 + - - +
236A GLU* 3.9 12.0 - - - +
237A LEU 3.5 0.4 - - - -
238A ASP* 1.3 80.4 + - - +
240A ALA* 1.3 52.6 + - - +
241A GLY 2.8 7.8 + - - -
242A SER* 2.5 37.6 + - - +
133B LYS* 4.1 4.0 - - - +
232B GLN* 3.0 38.5 - - + +
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Residues in contact with ALA 240 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66A LEU* 3.7 18.2 - - + -
69A LEU* 5.5 7.4 - - + -
236A GLU 3.3 9.4 + - - +
237A LEU* 3.0 21.5 + - + +
238A ASP 3.0 0.2 - - - -
239A GLN* 1.3 76.6 - - - +
241A GLY* 1.3 61.7 + - - +
242A SER* 4.4 1.3 + - - -
----------------------------------------------------------
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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
------------------------------------------------------------
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