Contacts of the helix formed by residues 150 - 179 (chain F) in PDB entry 4DVQ
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 150 (chain F).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145F ASN 3.1 9.5 + - - -
146F PRO* 2.7 29.7 + - - +
148F VAL 3.9 0.2 - - - -
149F LEU* 1.3 82.1 - - - +
151F PRO* 1.3 74.2 - - - +
152F LYS* 3.2 11.7 + - - +
153F ALA* 3.0 14.9 + - - +
154F VAL* 3.2 20.4 + - - +
454F ARG* 4.1 1.8 - - - +
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Residues in contact with PRO 151 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150F SER* 1.3 88.0 - - - +
152F LYS* 1.3 62.0 + - + +
154F VAL* 3.3 10.9 + - + +
155F GLN* 3.0 32.5 + - - +
454F ARG* 4.2 24.6 - - - +
603F SO4 5.6 1.6 - - - +
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Residues in contact with LYS 152 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146F PRO 5.2 0.7 - - - +
150F SER* 3.1 10.7 + - - +
151F PRO* 1.3 82.8 - - + +
153F ALA* 1.3 60.3 + - - +
155F GLN* 3.6 27.1 + - - +
156F ARG* 3.2 23.9 - - - +
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Residues in contact with ALA 153 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146F PRO 3.4 17.0 + - - +
147F ASP* 3.2 31.2 - - - +
148F VAL 4.4 0.9 - - - +
150F SER* 3.0 13.8 + - - +
152F LYS* 1.3 74.8 - - - +
154F VAL* 1.3 56.7 - - - +
156F ARG* 3.0 12.8 + - - +
157F PHE* 3.0 38.6 + - + -
286F TYR* 4.2 3.7 + - + +
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Residues in contact with VAL 154 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149F LEU 4.2 1.3 - - - +
150F SER 3.2 16.7 + - - +
151F PRO* 3.5 9.6 - - + +
153F ALA* 1.3 73.2 - - - +
155F GLN* 1.3 60.9 + - - +
157F PHE* 3.7 22.0 - - + -
158F LEU* 2.9 59.1 + - + +
359F THR* 4.7 11.2 - - + +
454F ARG* 3.5 43.1 - - + +
458F ALA* 5.3 1.1 - - + -
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Residues in contact with GLN 155 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151F PRO* 3.0 23.9 + - - +
152F LYS* 3.6 29.6 + - - +
153F ALA 3.4 0.2 - - - -
154F VAL* 1.3 75.8 - - - +
156F ARG* 1.3 62.4 + - + +
159F PRO* 3.5 5.5 - - - +
356F GLN* 3.3 42.1 + - + -
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Residues in contact with ARG 156 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152F LYS* 3.2 20.4 - - - +
153F ALA* 3.0 9.9 + - - +
155F GLN* 1.3 83.5 - - + +
157F PHE* 1.3 60.0 + - - +
159F PRO* 3.7 9.1 - - - +
160F MET* 4.2 5.5 - - - +
284F GLN 5.4 1.2 + - - -
285F HIS* 4.5 4.6 - - - +
286F TYR* 3.4 65.6 - - + +
292F GLU* 3.7 24.7 + - - -
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Residues in contact with PHE 157 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148F VAL 3.9 13.5 - - - -
153F ALA* 3.0 36.3 + - + -
154F VAL* 3.7 28.3 - - + -
156F ARG* 1.3 74.7 - - - +
158F LEU* 1.3 71.7 + - - +
159F PRO 3.3 2.7 - - - -
160F MET* 2.9 30.8 + - + +
161F VAL* 3.1 14.6 + - + +
203F ALA* 4.4 6.5 - - + -
286F TYR* 3.5 24.0 - - - +
289F ILE* 3.8 22.9 - - + -
454F ARG 4.3 3.8 - - - -
455F LEU* 3.9 42.4 - - + -
458F ALA* 4.4 7.9 - - + -
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Residues in contact with LEU 158 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154F VAL* 2.9 32.1 + - + +
155F GLN* 6.0 0.2 - - - -
157F PHE* 1.3 83.0 - - + +
159F PRO* 1.3 63.0 - - + +
160F MET 3.2 0.3 + - - -
161F VAL* 3.3 6.9 + - - +
162F ASP* 2.9 24.4 + - - +
355F PRO* 3.2 33.7 - - + +
356F GLN* 4.2 13.2 - - + -
358F ALA* 4.7 1.3 - - + -
359F THR* 3.6 37.0 - - + +
458F ALA* 4.6 9.9 - - + -
461F LEU* 6.3 0.2 - - + -
462F LEU* 3.5 26.2 - - + -
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Residues in contact with PRO 159 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
155F GLN 3.5 14.4 - - - +
156F ARG 3.7 8.1 - - - +
157F PHE 3.5 3.6 - - - -
158F LEU* 1.3 94.0 - - + +
160F MET* 1.3 61.2 + - + +
162F ASP* 3.4 9.7 + - + +
163F ALA* 3.2 20.3 + - - +
166F ARG* 5.3 1.2 + - - -
355F PRO* 4.1 16.1 - - + +
356F GLN* 3.2 30.3 - - - +
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Residues in contact with MET 160 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
180B ALA* 5.3 4.9 - - - -
156F ARG 4.2 9.4 - - - +
157F PHE* 2.9 15.0 + - + +
159F PRO* 1.3 73.2 - - + +
161F VAL* 1.3 67.8 + - - +
163F ALA* 3.0 22.5 + - - +
164F VAL 3.4 1.4 + - - -
202F LEU* 3.3 63.0 - - + +
203F ALA* 3.6 18.4 - - - +
206F GLY* 5.0 2.0 - - - -
286F TYR* 3.4 40.2 - - + +
287F THR* 4.9 3.4 - - - -
288F GLY* 3.9 8.3 - - - -
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Residues in contact with VAL 161 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157F PHE* 3.1 16.0 + - + +
158F LEU* 3.5 8.3 - - - +
160F MET* 1.3 77.3 - - - +
162F ASP* 1.3 62.2 + - - +
164F VAL* 3.1 11.1 + - - +
165F ALA* 3.0 19.6 + - - +
195F TYR* 3.9 8.2 + - - +
199F ALA* 4.5 9.6 - - + +
202F LEU* 4.5 0.6 - - - +
203F ALA* 4.3 11.0 - - + -
455F LEU* 4.3 24.5 - - + -
458F ALA* 4.0 4.3 - - + +
459F GLU* 3.8 32.1 - - + +
462F LEU* 3.6 18.2 - - + -
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Residues in contact with ASP 162 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158F LEU 2.9 17.1 + - - +
159F PRO 3.4 10.3 - - - +
160F MET 3.2 0.2 - - - -
161F VAL* 1.3 72.4 - - - +
163F ALA* 1.3 53.8 + - - +
165F ALA* 3.2 3.6 + - - +
166F ARG* 2.8 55.3 + - - +
351F ILE* 4.8 6.5 - - - +
352F SER* 5.9 0.7 - - - -
355F PRO* 3.6 33.0 - - + +
462F LEU* 3.6 20.5 - - + +
466F HIS* 2.8 32.6 + - - -
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Residues in contact with ALA 163 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159F PRO 3.2 7.8 + - - +
160F MET* 3.0 13.8 + - - +
162F ASP* 1.3 79.7 - - - +
164F VAL* 1.3 57.1 + - - +
166F ARG* 3.3 26.8 + - - +
167F ASP* 2.9 36.0 + - - +
202F LEU* 4.9 3.4 - - + -
208F ARG* 4.7 11.0 - - - +
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Residues in contact with VAL 164 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160F MET 3.9 2.5 - - - +
161F VAL* 3.1 7.2 + - - +
163F ALA* 1.3 74.8 - - - +
165F ALA* 1.3 57.1 + - - +
167F ASP* 3.2 2.3 + - - +
168F PHE* 2.9 27.7 + - - +
195F TYR* 3.7 23.1 - - + -
198F GLU* 3.7 26.5 - - + -
199F ALA* 4.0 18.6 - - - +
202F LEU* 3.6 29.8 - - + -
208F ARG* 3.9 24.2 - - - +
212F VAL* 3.8 8.9 - - + +
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Residues in contact with ALA 165 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161F VAL 3.0 11.7 + - - +
162F ASP 3.4 7.6 - - - +
164F VAL* 1.3 74.0 - - - +
166F ARG* 1.3 66.2 + - - +
168F PHE* 3.3 6.3 + - - +
169F SER* 3.2 19.8 + - - -
195F TYR* 3.7 18.0 - - - +
462F LEU* 3.6 37.2 - - + +
463F LEU* 3.8 8.1 - - - +
466F HIS* 4.0 7.7 - - - +
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Residues in contact with ARG 166 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159F PRO 5.3 1.0 + - - -
162F ASP* 2.8 36.2 + - - +
163F ALA* 3.4 33.0 - - - +
165F ALA* 1.3 71.3 - - - +
167F ASP* 1.3 67.8 + - - +
169F SER* 3.1 5.8 + - - -
170F GLN* 3.0 27.9 + - - +
352F SER* 6.4 2.0 - - - +
466F HIS* 3.3 33.2 + - + +
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Residues in contact with ASP 167 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163F ALA* 2.9 19.6 + - - +
164F VAL 3.5 4.9 - - - +
165F ALA 3.2 0.2 - - - -
166F ARG* 1.3 86.2 + - - +
168F PHE* 1.3 64.6 + - - +
170F GLN* 3.4 13.9 + - - +
171F ALA* 2.9 26.7 + - - +
208F ARG* 3.0 40.0 + - - +
212F VAL* 3.7 9.1 - - + +
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Residues in contact with PHE 168 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
164F VAL 2.9 13.1 + - - +
165F ALA 3.5 9.2 - - - +
167F ASP* 1.3 75.4 - - - +
169F SER* 1.3 63.0 + - - +
171F ALA* 3.8 2.4 - - - +
172F LEU* 3.0 53.0 + - + +
188F VAL* 4.8 7.2 - - + -
191F SER* 3.8 34.8 - - - -
192F ILE* 3.7 24.0 - - + -
195F TYR* 4.0 14.1 - - + -
212F VAL* 3.4 19.6 - - + +
327F LEU* 6.1 0.7 - - + -
463F LEU* 3.6 30.1 - - + -
467F VAL* 4.1 16.2 - - + -
499F PHE* 5.7 2.0 - + - -
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Residues in contact with SER 169 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165F ALA 3.2 8.4 + - - -
166F ARG 3.1 9.0 + - - -
168F PHE* 1.3 87.3 - - - +
170F GLN* 1.3 57.8 + - - +
172F LEU* 3.8 4.4 - - - +
173F LYS* 3.0 29.9 + - - +
466F HIS* 3.3 37.7 + - - -
467F VAL* 3.5 11.4 + - - +
470F HIS* 4.0 13.1 + - - -
471F PHE* 3.8 12.8 - - - -
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Residues in contact with GLN 170 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166F ARG 3.0 15.5 + - - +
167F ASP* 3.9 14.4 - - - +
169F SER* 1.3 75.6 - - - +
171F ALA* 1.3 65.1 + - - +
173F LYS* 3.2 6.1 + - - +
174F LYS* 3.0 24.0 + - + +
470F HIS* 6.1 0.2 - - - -
506F HIS* 4.5 23.7 + - + +
507F HIS* 4.7 18.8 - - - +
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Residues in contact with ALA 171 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167F ASP 2.9 17.6 + - - +
168F PHE* 3.8 4.0 - - - +
170F GLN* 1.3 75.8 - - - +
172F LEU* 1.3 63.5 + - - +
174F LYS* 3.3 15.1 + - - +
175F LYS* 3.3 23.2 + - - +
213F GLY* 3.4 35.0 - - - +
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Residues in contact with LEU 172 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168F PHE* 3.0 42.9 + - + +
169F SER 3.8 4.0 - - - +
171F ALA* 1.3 78.6 - - - +
173F LYS* 1.3 56.8 + - - +
175F LYS* 3.3 8.2 + - + +
176F VAL* 3.0 31.9 + - + +
184F LEU* 3.8 25.8 - - + -
186F LEU* 4.7 12.8 - - + -
188F VAL* 5.5 1.8 - - + -
467F VAL* 5.4 0.2 - - + -
471F PHE* 3.8 23.3 - - + -
499F PHE* 3.9 31.9 - - + -
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Residues in contact with LYS 173 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
169F SER 3.0 17.4 + - - +
170F GLN* 3.2 4.9 + - - +
172F LEU* 1.3 74.7 - - - +
174F LYS* 1.3 66.2 + - - +
176F VAL* 4.2 0.9 - - - -
177F LEU* 2.8 42.6 + - + +
470F HIS* 3.2 49.9 + - + +
471F PHE* 3.7 14.3 - - + -
501F ALA* 4.2 9.0 - - + -
503F ASN* 3.3 17.6 + - - +
505F HIS 2.9 25.5 + - - +
506F HIS* 3.6 17.3 - - + +
508F HIS 3.1 18.6 + - - -
509F HIS* 4.0 3.6 - - - +
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Residues in contact with LYS 174 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
170F GLN* 3.0 14.0 + - + +
171F ALA* 3.3 12.8 + - - +
173F LYS* 1.3 77.1 - - - +
175F LYS* 1.3 63.6 + - + +
177F LEU* 3.4 2.3 + - - +
178F GLN* 3.3 43.9 + - + +
506F HIS* 3.7 27.3 + - + +
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Residues in contact with LYS 175 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171F ALA* 3.3 15.8 + - - +
172F LEU* 3.3 12.7 + - + +
173F LYS 3.2 0.4 - - - -
174F LYS* 1.3 77.7 - - + +
176F VAL* 1.3 64.7 + - - +
178F GLN* 3.2 28.8 + - - +
179F ASN* 3.7 11.5 + - - +
184F LEU* 4.0 27.3 - - + +
186F LEU* 6.3 0.2 - - + -
213F GLY* 4.8 18.2 + - - -
214F HIS* 6.0 1.0 - - - +
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Residues in contact with VAL 176 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
172F LEU* 3.0 26.4 + - + +
173F LYS* 3.1 7.6 + - - +
175F LYS* 1.3 76.5 - - - +
177F LEU* 1.3 59.3 + - - +
179F ASN* 3.1 26.3 + - - +
182F GLY* 2.9 36.2 - - - +
183F SER* 3.7 6.7 - - - +
184F LEU* 3.5 30.1 - - + +
471F PHE* 4.1 12.1 - - + -
499F PHE* 3.6 9.0 - - + +
501F ALA* 3.9 21.8 - - + +
----------------------------------------------------------
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Residues in contact with LEU 177 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
173F LYS* 2.8 27.4 + - + +
176F VAL* 1.3 69.8 - - + +
178F GLN* 1.3 62.4 + - - +
179F ASN 3.1 8.5 + - - +
182F GLY* 5.0 2.7 - - - -
501F ALA* 4.1 14.1 - - + -
504F HIS* 3.7 39.7 - - + +
505F HIS* 3.5 37.2 - - - +
506F HIS* 3.6 37.2 - - + +
----------------------------------------------------------
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Residues in contact with GLN 178 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
202D LEU* 5.1 2.4 - - - +
206D GLY 4.8 0.5 - - - +
208D ARG* 3.6 37.6 - - + +
210D GLY* 6.0 5.3 - - - -
214D HIS* 6.4 0.4 - - - -
174F LYS* 3.3 32.6 + - + +
175F LYS* 3.2 30.9 + - - +
177F LEU* 1.3 76.5 - - - +
179F ASN* 1.3 62.4 + - - +
180F ALA 4.0 0.7 + - - -
506F HIS* 6.0 2.0 - - + -
----------------------------------------------------------
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Residues in contact with ASN 179 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
206D GLY 3.8 4.5 - - - +
207D GLU* 3.1 34.8 + - + +
208D ARG* 3.1 30.3 + - - +
175F LYS 4.0 9.2 + - - +
176F VAL 3.1 6.7 + - - +
177F LEU 3.1 7.7 - - - +
178F GLN* 1.3 82.0 - - - +
180F ALA* 1.3 61.8 + - - +
181F ARG* 3.4 2.2 - - + +
182F GLY* 3.1 20.3 + - - +
183F SER 2.9 28.9 + - - +
184F LEU* 3.6 14.8 - - - +
----------------------------------------------------------
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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