Contacts of the helix formed by residues 182 - 206 (chain L) 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 L).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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406J ASP* 5.4 1.1 - - - -
180L SER 4.4 2.7 - - - +
181L LEU* 1.3 90.2 - - + +
183L LYS* 1.3 57.5 + - + +
184L GLU* 4.8 2.2 - - + +
185L LEU* 3.3 24.9 + - + +
186L LYS* 2.7 35.0 + - - +
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Residues in contact with LYS 183 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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403J PHE* 4.5 10.7 - - - -
404J GLU 3.9 10.7 + - - -
405J ASP* 5.2 1.8 - - - -
406J ASP* 3.3 54.7 + - + +
442J ASN* 4.8 6.3 + - - -
182L PRO* 1.3 76.3 - - + +
184L GLU* 1.3 78.0 + - + +
185L LEU 3.0 0.3 + - - -
186L LYS 3.8 0.2 - - - -
187L ARG* 3.0 44.7 + - - +
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Residues in contact with GLU 184 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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182L PRO* 3.6 4.1 - - + +
183L LYS* 1.3 90.6 - - + +
185L LEU* 1.3 62.3 + - + +
187L ARG* 3.3 22.8 + - - +
188L TYR* 3.0 31.0 - - + -
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Residues in contact with LEU 185 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130L LYS* 5.4 4.9 - - + +
131L LEU* 3.6 13.3 - - + +
134L ALA* 4.0 26.0 - - + +
181L LEU* 3.6 31.2 - - + -
182L PRO* 3.3 30.1 + - + +
183L LYS 3.1 0.4 - - - -
184L GLU* 1.3 77.2 - - + +
186L LYS* 1.3 67.0 + - - +
187L ARG 3.0 3.5 + - - -
188L TYR* 3.0 26.4 + - + +
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Residues in contact with LYS 186 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
406J ASP* 3.1 30.6 + - - +
407J VAL 4.6 5.5 + - - +
131L LEU* 5.6 0.2 - - - -
178L LEU 3.7 20.4 - - - +
179L LYS* 3.6 47.4 + - + +
181L LEU* 3.2 22.5 + - - +
182L PRO 2.7 20.6 + - - +
185L LEU* 1.3 73.3 - - - +
187L ARG* 1.3 60.2 + - - +
188L TYR 3.4 0.2 - - - -
189L LEU* 3.3 37.8 - - + +
190L HIS* 3.3 12.3 + - + -
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Residues in contact with ARG 187 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
406J ASP* 4.2 9.1 + - - +
439J LEU* 5.3 10.9 - - + +
183L LYS* 3.0 31.0 + - - +
184L GLU* 3.3 35.9 + - - +
185L LEU 3.0 0.2 + - - -
186L LYS* 1.3 73.8 - - - +
188L TYR* 1.3 80.0 + - + +
189L LEU 3.0 5.4 - - - -
190L HIS* 3.0 13.3 + - + +
191L ILE* 3.0 51.1 + - - +
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Residues in contact with TYR 188 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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123L GLU 5.8 0.2 - - - -
126L GLU 5.3 0.4 - - - -
127L ALA* 3.4 38.0 - - + +
130L LYS* 3.4 44.2 + - + +
131L LEU* 3.5 20.2 - - + +
184L GLU* 3.0 31.2 - - + -
185L LEU* 3.0 15.7 + - + +
187L ARG* 1.3 97.2 + - + +
189L LEU* 1.3 56.7 + - - +
191L ILE* 3.8 17.9 - - + -
192L ALA* 2.9 28.4 + - - +
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Residues in contact with LEU 189 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
410J THR* 3.8 13.9 - - + -
131L LEU* 3.6 17.4 - - + +
146L VAL* 5.3 9.4 - - + -
178L LEU* 5.7 1.3 - - + +
179L LYS* 6.4 0.4 - - + -
185L LEU 3.9 1.6 + - - +
186L LYS* 3.3 30.7 + - + +
188L TYR* 1.3 75.7 - - - +
190L HIS* 1.3 84.1 + - + +
192L ALA* 3.1 5.1 + - - +
193L ARG* 3.0 58.4 + - - +
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Residues in contact with HIS 190 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
406J ASP* 5.2 1.8 - - - -
407J VAL* 3.3 30.3 - - + +
409J VAL 3.5 9.7 + - - -
410J THR* 3.8 7.3 - - + -
411J THR* 3.8 19.7 + - - +
437J VAL* 3.8 23.1 - - + -
439J LEU* 3.8 19.7 - - + -
186L LYS* 3.3 22.1 + - + -
187L ARG* 3.0 9.9 + - - +
189L LEU* 1.3 93.1 - - + +
191L ILE* 1.3 66.9 + - - +
193L ARG* 3.2 11.8 - - + +
194L GLU* 2.9 31.0 + - - +
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Residues in contact with ILE 191 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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439J LEU* 4.1 18.6 - - + +
120L LYS* 4.6 1.1 - - - +
123L GLU* 3.8 38.6 - - + +
124L GLY* 3.6 3.4 - - - +
127L ALA* 3.9 3.1 - - + -
187L ARG* 3.0 41.4 + - - +
188L TYR* 3.6 35.4 - - + +
190L HIS* 1.3 76.5 - - - +
192L ALA* 1.3 61.9 + - - +
194L GLU* 3.3 7.6 + - - +
195L GLY* 3.0 18.9 + - - -
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Residues in contact with ALA 192 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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124L GLY* 3.7 16.5 - - - +
127L ALA* 4.1 0.9 - - + +
128L ILE* 3.8 27.7 - - + +
131L LEU* 4.5 4.9 - - + -
146L VAL* 4.5 9.9 - - + -
188L TYR 2.9 15.4 + - - +
189L LEU* 3.2 12.6 - - - +
191L ILE* 1.3 75.7 - - - +
193L ARG* 1.3 63.6 + - - +
195L GLY* 3.0 5.2 + - - -
196L GLU* 2.9 24.7 + - - +
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Residues in contact with ARG 193 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
410J THR* 3.7 20.4 - - - +
411J THR* 4.0 34.4 + - - +
146L VAL* 3.6 27.8 + - + +
149L LYS* 3.5 35.8 + - - +
150L ILE* 3.3 42.2 - - + +
189L LEU* 3.0 45.5 + - - +
190L HIS* 3.2 22.8 - - - +
192L ALA* 1.3 72.6 - - - +
194L GLU* 1.3 62.4 + - - +
196L GLU* 3.1 3.0 + - - +
197L ALA* 2.9 23.6 + - - +
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Residues in contact with GLU 194 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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411J THR* 5.1 3.5 + - - +
437J VAL 4.3 8.5 - - - +
439J LEU* 3.3 40.0 + - - +
120L LYS* 3.8 29.2 + - + +
190L HIS* 2.9 18.5 + - - +
191L ILE* 3.3 6.5 - - + +
193L ARG* 1.3 78.6 - - - +
195L GLY* 1.3 61.7 + - - +
197L ALA* 3.2 9.0 + - - +
198L ALA* 3.0 21.0 + - - +
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Residues in contact with GLY 195 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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120L LYS* 3.2 31.5 - - - +
121L VAL* 3.6 13.6 - - - +
124L GLY* 4.3 4.3 - - - -
191L ILE 3.0 12.2 + - - -
192L ALA 3.0 4.7 + - - -
194L GLU* 1.3 76.3 - - - +
196L GLU* 1.3 56.9 + - - +
198L ALA* 3.1 3.5 + - - +
199L ARG* 2.9 26.0 + - - +
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Residues in contact with GLU 196 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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128L ILE* 5.1 4.3 - - + -
143L ARG* 2.9 48.4 + - - +
146L VAL* 3.6 22.1 - - + +
147L ARG* 3.2 22.7 + - + +
150L ILE* 5.5 7.0 - - + -
192L ALA 2.9 13.0 + - - +
193L ARG* 3.1 12.3 + - - +
195L GLY* 1.3 76.1 - - - +
197L ALA* 1.3 60.1 + - - +
199L ARG* 3.1 34.6 + - - +
200L GLN* 3.2 27.3 + - - +
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Residues in contact with ALA 197 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150L ILE* 5.3 13.0 - - + +
193L ARG 2.9 12.4 + - - +
194L GLU* 3.2 9.6 + - + +
196L GLU* 1.3 73.6 - - - +
198L ALA* 1.3 66.7 + - - +
200L GLN* 3.1 12.7 + - - +
201L HIS* 3.0 33.8 + - + +
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Residues in contact with ALA 198 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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117L LEU* 3.6 21.7 - - + +
120L LYS* 3.7 30.0 - - + +
121L VAL* 3.7 15.2 - - + +
194L GLU 3.0 13.8 + - - +
195L GLY 3.1 9.8 + - - +
197L ALA* 1.3 76.3 - - - +
199L ARG* 1.3 55.7 + - - +
201L HIS* 3.4 3.4 + - - -
202L LEU* 2.9 30.3 + - - +
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Residues in contact with ARG 199 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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560J GLN* 4.4 9.3 + - - -
561J GLY 4.4 9.1 + - - -
562J ALA* 5.4 1.2 - - - +
121L VAL* 3.6 18.1 - - + +
143L ARG* 3.7 15.4 - - - +
147L ARG* 3.2 35.6 - - - +
195L GLY 2.9 11.8 + - - +
196L GLU* 3.1 34.3 + - - +
197L ALA 3.2 0.2 - - - -
198L ALA* 1.3 77.0 - - - +
200L GLN* 1.3 75.8 + - - +
202L LEU* 3.2 6.8 + - - +
203L ILE* 2.9 39.7 + - + +
236L ILE* 4.0 18.6 - - - +
239L VAL* 4.1 15.2 - - + +
240L GLU* 3.2 31.7 + - - +
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Residues in contact with GLN 200 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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561J GLY 4.0 8.3 + - - -
562J ALA 3.7 2.6 - - - -
563J PRO* 3.2 38.3 - - + +
147L ARG* 6.0 1.4 - - - +
150L ILE* 6.0 4.7 - - + -
151L LEU* 6.0 6.3 - - + -
196L GLU* 3.2 25.4 + - - +
197L ALA* 3.1 10.5 + - - +
199L ARG* 1.3 104.3 - - - +
201L HIS* 1.3 66.3 + - + +
203L ILE* 3.2 7.4 + - - +
204L GLU* 2.9 43.1 + - - +
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Residues in contact with HIS 201 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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106L VAL* 5.6 1.2 - - - +
117L LEU* 4.0 21.6 - - + +
197L ALA* 3.0 22.9 + - + +
198L ALA* 3.7 7.8 - - - +
200L GLN* 1.3 76.8 - - + +
202L LEU* 1.3 58.0 + - - +
204L GLU* 3.5 19.6 + - - +
205L ALA* 2.9 31.7 + - - +
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Residues in contact with LEU 202 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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109L LEU* 5.0 2.9 - - + -
114L GLU* 5.2 4.7 - - + +
117L LEU* 3.9 17.9 - - + +
118L ALA* 4.2 32.1 - - + +
121L VAL* 4.6 8.7 - - + -
198L ALA 2.9 13.3 + - - +
199L ARG 3.3 10.1 - - - +
201L HIS* 1.3 76.3 - - - +
203L ILE* 1.3 61.6 - - - +
205L ALA* 3.3 1.5 + - - -
206L ASN* 2.9 46.6 + - - +
239L VAL* 3.8 24.0 - - + +
242L PHE* 5.5 6.5 - - + -
250L PHE* 3.6 28.0 - - + -
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Residues in contact with ILE 203 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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563J PRO* 3.9 31.2 - - + -
566J ILE* 4.2 14.6 - - + -
199L ARG* 2.9 32.8 + - + +
200L GLN* 3.2 6.5 + - - +
202L LEU* 1.3 75.9 - - - +
204L GLU* 1.3 63.6 + - - +
207L LEU* 3.1 20.1 + - + +
235L LEU* 3.3 27.3 - - + +
236L ILE* 3.8 40.2 - - + -
239L VAL* 3.6 19.7 - - + -
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Residues in contact with GLU 204 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
563J PRO* 3.6 18.8 - - + +
564J GLU 5.0 0.5 + - - -
565J ILE* 3.6 32.8 - - + +
103L ILE* 5.5 2.6 - - - +
106L VAL* 4.6 28.8 - - + +
200L GLN* 2.9 38.4 + - - +
201L HIS* 3.9 20.2 + - - +
203L ILE* 1.3 76.3 - - - +
205L ALA* 1.3 62.1 + - - +
207L LEU* 3.3 26.4 + - + +
208L ARG* 4.6 5.2 + - - +
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Residues in contact with ALA 205 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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106L VAL* 4.6 6.9 - - + +
107L PRO 4.4 15.0 - - - +
108L LEU* 3.6 16.6 - - - +
109L LEU* 3.7 35.0 - - + -
117L LEU* 5.2 1.3 - - + -
201L HIS 2.9 18.4 + - - +
202L LEU 3.7 4.7 - - - +
203L ILE 3.3 0.2 - - - -
204L GLU* 1.3 77.7 - - - +
206L ASN* 1.3 59.2 + - - +
207L LEU 3.4 0.7 + - - -
208L ARG* 3.9 7.6 - - - -
30R T 3.4 9.0 - - - +
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Residues in contact with ASN 206 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109L LEU* 3.6 19.8 - - - +
114L GLU* 4.4 2.0 + - - +
202L LEU* 2.9 43.9 + - - +
203L ILE 3.8 3.1 - - - +
204L GLU 3.3 0.2 - - - -
205L ALA* 1.3 75.8 - - - +
207L LEU* 1.3 63.7 + - - +
208L ARG 3.1 2.2 - - - -
209L LEU* 3.0 23.8 + - + +
210L VAL* 3.5 7.8 + - - +
235L LEU* 4.1 7.6 - - + -
250L PHE* 3.5 28.4 - - + +
251L SER* 5.0 1.6 + - - -
30R T 2.8 40.5 + - + +
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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