Contacts of the helix formed by residues 182 - 206 (chain F) in PDB entry 4XLN
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 PRO 182 (chain F).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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406D ASP* 4.4 2.5 - - - +
180F SER 4.4 2.7 - - - +
181F LEU* 1.3 90.5 - - + +
183F LYS* 1.3 56.5 + - + +
184F GLU* 3.6 3.4 - - + +
185F LEU* 3.3 23.4 + - + +
186F LYS* 2.7 35.6 + - - +
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Residues in contact with LYS 183 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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403D PHE* 4.2 16.8 - - - -
404D GLU 5.1 3.2 + - - -
406D ASP* 4.2 34.2 + - + +
439D LEU* 3.5 30.2 - - - +
442D ASN* 4.8 5.3 - - - +
182F PRO* 1.3 75.2 - - - +
184F GLU* 1.3 78.8 + - + +
185F LEU 3.0 0.2 + - - -
186F LYS 3.8 0.3 - - - -
187F ARG* 3.0 40.4 + - + +
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Residues in contact with GLU 184 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182F PRO* 3.6 3.6 - - + +
183F LYS* 1.3 90.4 - - + +
185F LEU* 1.3 62.7 + - + +
187F ARG* 3.3 20.9 + - - +
188F TYR* 3.0 32.3 - - + -
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Residues in contact with LEU 185 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130F LYS* 5.4 4.7 - - + +
131F LEU* 3.6 13.4 - - + +
134F ALA* 4.0 25.4 - - + +
181F LEU* 3.6 30.3 - - + -
182F PRO* 3.3 29.9 + - + +
183F LYS 3.1 0.6 - - - -
184F GLU* 1.3 77.4 - - + +
186F LYS* 1.3 67.3 + - - +
187F ARG 3.0 3.3 + - - -
188F TYR* 3.0 25.9 + - + +
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Residues in contact with LYS 186 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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406D ASP* 3.7 32.0 + - - +
407D VAL 4.6 5.1 + - - +
131F LEU* 5.6 0.4 - - - -
178F LEU 3.7 21.1 - - - +
179F LYS* 3.6 46.2 + - + +
181F LEU* 3.2 22.7 + - - +
182F PRO 2.7 20.8 + - - +
183F LYS 4.0 0.9 - - - +
185F LEU* 1.3 72.5 - - - +
187F ARG* 1.3 59.3 + - - +
188F TYR 3.4 0.2 - - - -
189F LEU* 3.3 38.2 - - + +
190F HIS* 3.3 13.0 + - + -
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Residues in contact with ARG 187 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
439D LEU* 3.5 40.7 - - + +
183F LYS* 3.0 29.9 + - + +
184F GLU* 3.3 34.8 + - - +
185F LEU 3.0 0.2 + - - -
186F LYS* 1.3 73.3 - - - +
188F TYR* 1.3 79.7 + - + +
189F LEU 3.0 5.6 - - - -
190F HIS* 3.0 12.3 + - - +
191F ILE* 3.0 50.2 + - - +
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Residues in contact with TYR 188 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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123F GLU 5.8 0.2 - - - -
126F GLU 5.3 0.4 - - - -
127F ALA* 3.4 37.2 - - + +
130F LYS* 3.4 43.2 + - + +
131F LEU* 3.5 20.6 - - + +
184F GLU* 3.0 30.1 - - + -
185F LEU* 3.0 15.7 + - + +
187F ARG* 1.3 96.6 + - + +
189F LEU* 1.3 57.0 + - - +
191F ILE* 3.8 18.6 - - + -
192F ALA* 2.9 27.9 + - - +
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Residues in contact with LEU 189 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
410D THR* 4.0 13.7 - - + -
131F LEU* 3.6 18.2 - - + +
146F VAL* 5.3 9.4 - - + +
178F LEU* 5.7 1.1 - - + +
179F LYS* 6.4 0.2 - - + -
185F LEU 3.9 1.2 + - - +
186F LYS* 3.3 31.1 + - + +
188F TYR* 1.3 75.7 - - - +
190F HIS* 1.3 82.7 + - + +
192F ALA* 3.1 4.8 + - - +
193F ARG* 3.0 59.4 + - - +
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Residues in contact with HIS 190 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
406D ASP* 5.2 0.9 - - - -
407D VAL* 4.1 11.2 - - + +
409D VAL 3.5 20.6 + - - -
410D THR* 3.9 11.8 - - + -
411D THR* 4.3 12.3 - - + +
437D VAL* 3.6 34.7 - - + +
439D LEU* 4.7 13.2 - - + +
186F LYS* 3.3 21.5 + - + -
187F ARG* 3.0 10.8 + - - +
189F LEU* 1.3 94.4 - - + +
191F ILE* 1.3 65.3 + - - +
193F ARG* 3.2 11.3 - - - +
194F GLU* 2.9 35.2 + - - +
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Residues in contact with ILE 191 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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439D LEU* 4.6 5.6 - - + -
120F LYS* 4.6 1.3 - - - +
123F GLU* 3.8 38.8 - - + +
124F GLY* 3.6 3.5 + - - +
127F ALA* 3.9 2.9 - - + -
187F ARG* 3.0 43.4 + - - +
188F TYR* 3.6 35.9 - - + +
190F HIS* 1.3 76.0 - - - +
192F ALA* 1.3 63.6 + - - +
194F GLU* 3.3 10.9 + - + +
195F GLY 3.0 18.0 + - - -
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Residues in contact with ALA 192 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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124F GLY* 3.7 16.2 - - - +
127F ALA* 4.1 1.3 - - + +
128F ILE* 3.8 28.4 - - + +
131F LEU* 4.5 5.2 - - + -
146F VAL* 4.5 10.1 - - + -
188F TYR 2.9 16.0 + - - +
189F LEU* 3.2 11.9 - - - +
191F ILE* 1.3 76.0 - - - +
193F ARG* 1.3 64.2 + - - +
195F GLY* 3.0 5.2 + - - -
196F GLU* 2.9 24.9 + - - +
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Residues in contact with ARG 193 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
410D THR* 4.1 19.4 - - - +
411D THR* 3.2 37.8 + - + +
146F VAL* 3.6 28.6 + - + +
149F LYS* 3.5 36.3 + - - +
150F ILE* 3.3 40.0 - - + +
189F LEU* 3.0 45.8 + - - +
190F HIS* 3.2 22.9 - - - +
192F ALA* 1.3 73.4 - - - +
194F GLU* 1.3 61.8 + - - +
196F GLU* 3.1 3.5 + - - +
197F ALA* 2.9 22.7 + - - +
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Residues in contact with GLU 194 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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411D THR* 5.3 4.5 - - - +
437D VAL 4.6 11.6 - - - +
438D ASP* 5.3 6.9 - - - +
439D LEU 5.8 0.9 + - - -
440D VAL* 6.1 0.7 - - - +
120F LYS* 3.8 30.5 + - + +
190F HIS* 2.9 26.1 + - - +
191F ILE* 3.3 9.2 - - - +
193F ARG* 1.3 78.6 - - + +
195F GLY* 1.3 62.7 + - - +
197F ALA* 3.2 8.9 + - - +
198F ALA* 3.0 21.3 + - - +
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Residues in contact with GLY 195 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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120F LYS* 3.2 32.2 + - - -
121F VAL* 3.6 13.4 - - - +
124F GLY* 4.3 4.0 - - - -
191F ILE 3.0 12.6 + - - -
192F ALA 3.0 3.8 + - - -
194F GLU* 1.3 74.8 - - - +
196F GLU* 1.3 57.1 + - - +
198F ALA* 3.1 3.6 + - - +
199F ARG* 2.9 26.0 + - - +
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Residues in contact with GLU 196 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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128F ILE* 5.1 3.8 - - + -
143F ARG* 2.9 48.5 + - - +
146F VAL* 3.6 21.2 - - + +
147F ARG* 3.2 22.5 + - + +
150F ILE* 5.5 7.0 - - + -
192F ALA 2.9 13.6 + - - +
193F ARG* 3.1 13.0 + - - +
195F GLY* 1.3 76.4 - - - +
197F ALA* 1.3 61.9 + - - +
199F ARG* 3.1 35.5 + - - +
200F GLN* 3.2 27.3 + - - +
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Residues in contact with ALA 197 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150F ILE* 5.3 13.1 - - + +
193F ARG 2.9 12.2 + - - +
194F GLU* 3.2 10.1 + - + +
196F GLU* 1.3 72.6 - - - +
198F ALA* 1.3 66.4 + - - +
200F GLN* 3.1 12.8 + - - +
201F HIS* 3.0 34.2 + - + +
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Residues in contact with ALA 198 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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117F LEU* 3.6 22.0 - - + +
120F LYS* 3.7 29.6 - - + +
121F VAL* 3.7 15.6 - - + +
194F GLU 3.0 14.3 + - - +
195F GLY 3.3 9.6 - - - +
197F ALA* 1.3 76.3 - - - +
199F ARG* 1.3 56.0 + - - +
201F HIS* 3.4 3.3 + - - -
202F LEU* 2.9 28.9 + - - +
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Residues in contact with ARG 199 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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560D GLN* 4.4 9.7 + - - -
561D GLY 4.4 8.9 + - - -
562D ALA* 5.4 1.6 - - - +
121F VAL* 3.6 17.2 - - + +
143F ARG* 3.7 15.3 - - - +
147F ARG* 3.2 36.1 - - - +
195F GLY 2.9 11.8 + - - +
196F GLU* 3.1 34.1 + - - +
198F ALA* 1.3 77.0 - - - +
200F GLN* 1.3 75.8 + - - +
202F LEU* 3.2 7.0 + - - +
203F ILE* 2.9 39.4 + - + +
236F ILE* 4.0 18.0 - - - +
239F VAL* 4.1 16.4 - - + -
240F GLU* 3.2 32.5 + - - +
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Residues in contact with GLN 200 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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561D GLY 3.8 8.5 + - - +
562D ALA 3.7 2.8 - - - -
563D PRO* 3.2 37.4 - - + +
147F ARG* 5.7 2.2 - - - +
150F ILE* 6.0 4.9 - - + -
151F LEU* 6.0 6.9 - - + +
196F GLU* 3.2 24.9 + - - +
197F ALA* 3.4 10.1 - - - +
199F ARG* 1.3 105.4 - - - +
201F HIS* 1.3 67.8 + - + +
203F ILE* 3.2 6.5 + - - +
204F GLU* 2.9 42.8 + - - +
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Residues in contact with HIS 201 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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106F VAL* 5.6 1.4 - - - +
117F LEU* 4.0 21.2 - - + +
120F LYS* 6.2 0.2 + - - -
197F ALA* 3.0 23.2 + - + +
198F ALA* 3.7 8.7 - - - +
200F GLN* 1.3 76.9 - - + +
202F LEU* 1.3 57.4 + - - +
204F GLU* 3.9 19.5 - - - +
205F ALA* 2.9 32.1 + - - +
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Residues in contact with LEU 202 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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109F LEU* 5.0 2.5 - - + -
114F GLU* 5.2 5.2 - - + +
117F LEU* 3.9 18.4 - - + +
118F ALA* 4.2 31.6 - - + +
121F VAL* 4.6 8.1 - - + -
198F ALA 2.9 12.5 + - - +
199F ARG* 3.3 9.4 - - - +
200F GLN 3.2 0.2 - - - -
201F HIS* 1.3 77.0 - - - +
203F ILE* 1.3 62.7 + - - +
205F ALA* 3.3 1.7 + - - +
206F ASN* 2.9 47.2 + - - +
239F VAL* 3.8 24.9 - - + +
242F PHE* 5.5 6.5 - - + -
250F PHE* 3.6 26.9 - - + -
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Residues in contact with ILE 203 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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563D PRO* 3.9 31.4 - - + -
566D ILE* 4.2 15.7 - - + -
199F ARG* 2.9 33.1 + - + +
200F GLN* 3.7 6.1 - - - +
202F LEU* 1.3 75.2 - - - +
204F GLU* 1.3 63.6 + - - +
207F LEU* 3.1 19.6 + - + +
235F LEU* 3.3 27.2 - - + +
236F ILE* 3.8 39.9 - - + -
239F VAL* 3.6 20.4 - - + -
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Residues in contact with GLU 204 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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563D PRO* 3.6 19.0 - - + +
564D GLU 5.0 0.5 + - - -
565D ILE* 3.6 33.0 - - + +
103F ILE* 5.5 2.6 - - - +
106F VAL* 4.6 28.8 - - + +
200F GLN* 2.9 39.5 + - - +
201F HIS* 3.9 17.0 + - - +
203F ILE* 1.3 76.2 - - - +
205F ALA* 1.3 62.4 + - - +
207F LEU* 3.3 26.5 + - + +
208F ARG* 4.6 4.7 + - - +
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Residues in contact with ALA 205 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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106F VAL* 4.6 6.7 - - + +
107F PRO 4.4 15.7 - - - +
108F LEU* 3.6 16.5 - - - +
109F LEU* 3.7 34.3 - - + -
117F LEU* 5.2 1.3 - - + -
201F HIS 2.9 19.5 + - - +
202F LEU 3.7 4.0 - - - +
203F ILE 3.3 0.2 - - - -
204F GLU* 1.3 77.1 - - - +
206F ASN* 1.3 59.6 + - - +
207F LEU 3.4 0.6 + - - -
208F ARG* 3.9 7.6 - - - -
30O T 3.5 9.7 - - - +
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Residues in contact with ASN 206 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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109F LEU* 3.6 19.5 - - - +
114F GLU* 4.4 1.8 + - - +
202F LEU* 2.9 42.7 + - - +
203F ILE 3.8 3.1 - - - +
204F GLU 3.3 0.2 - - - -
205F ALA* 1.3 75.4 - - - +
207F LEU* 1.3 64.2 + - - +
208F ARG 3.1 2.5 - - - -
209F LEU* 3.0 23.5 + - + +
210F VAL* 3.5 8.0 + - - +
235F LEU* 4.1 8.2 - - + +
250F PHE* 3.5 27.8 - - + -
251F SER* 5.0 1.9 + - - -
30O T 2.8 37.8 + - - +
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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