Contacts of the helix formed by residues 167 - 196 (chain B) in PDB entry 1F45
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 TYR 167 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41B PRO* 5.1 9.9 - - + +
168B LYS* 1.3 72.9 + - - +
169B THR* 3.0 6.6 - - - +
170B LYS* 2.8 30.8 + - + +
171B ILE* 2.8 56.2 + - + +
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Residues in contact with LYS 168 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167B TYR* 1.3 84.2 - - - +
169B THR* 1.3 65.0 + - - +
171B ILE* 3.2 13.6 + - - +
172B LYS* 3.2 13.1 + - + +
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Residues in contact with THR 169 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119B MET* 3.9 8.3 - - + +
122B LYS* 3.3 32.5 + - + +
123B LEU* 3.0 34.8 - - + -
167B TYR 3.0 3.8 - - - +
168B LYS* 1.3 82.6 - - - +
170B LYS* 1.3 65.2 + - + +
172B LYS* 3.4 10.5 + - - +
173B LEU* 3.2 21.0 + - - +
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Residues in contact with LYS 170 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40B TYR* 5.9 1.0 - - - -
123B LEU* 4.9 14.1 - - + -
126B ASP* 3.4 27.9 + - - -
128B LYS* 5.4 3.8 - - - +
131B ILE* 5.7 10.3 - - + -
167B TYR* 2.8 33.7 + - + +
169B THR* 1.3 79.5 - - + +
171B ILE* 1.3 61.7 + - - +
173B LEU* 3.4 15.4 - - + +
174B CYS* 3.1 20.8 + - - +
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Residues in contact with ILE 171 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41B PRO* 4.7 17.7 - - + -
42B CYS* 4.7 13.9 - - + +
167B TYR* 2.8 49.6 + - + +
168B LYS* 3.4 11.2 - - - +
170B LYS* 1.3 75.8 - - - +
172B LYS* 1.3 63.6 + - - +
173B LEU 2.9 4.0 - - - -
174B CYS* 2.8 16.7 + - + +
175B ILE* 3.0 31.6 + - + +
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Residues in contact with LYS 172 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115B GLU* 3.3 24.3 + - - -
118B THR* 4.7 5.7 - - - +
119B MET* 4.0 18.1 - - - +
122B LYS* 3.3 31.2 - - - +
168B LYS* 3.2 10.2 + - + +
169B THR* 3.4 15.2 + - - +
171B ILE* 1.3 82.1 - - - +
173B LEU* 1.3 60.3 + - - +
175B ILE* 3.7 12.6 - - + +
176B LEU* 3.4 25.2 + - - +
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Residues in contact with LEU 173 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40B TYR* 4.9 6.1 - - + -
116B PHE* 5.0 4.7 - - + -
119B MET* 3.7 30.9 - - + -
123B LEU* 3.4 26.5 - - + -
130B GLN* 4.5 8.5 - - - +
131B ILE* 4.6 10.1 - - + -
134B ASP* 4.2 25.8 - - + +
169B THR 3.2 11.7 + - - +
170B LYS* 3.4 18.6 - - + +
171B ILE 2.9 0.4 - - - -
172B LYS* 1.3 76.5 - - - +
174B CYS* 1.3 64.6 + - - +
175B ILE 3.2 0.2 - - - -
176B LEU* 3.2 4.1 + - + +
177B LEU* 3.0 44.2 + - + +
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Residues in contact with CYS 174 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40B TYR* 3.1 42.4 - - + -
41B PRO* 3.5 4.0 - - + -
42B CYS* 2.1 45.8 - - + +
170B LYS 3.1 10.2 + - - +
171B ILE* 2.8 13.8 + - + +
173B LEU* 1.3 79.4 - - - +
175B ILE* 1.3 63.7 + - - +
176B LEU 3.2 0.9 + - - -
177B LEU* 3.4 9.2 + - - +
178B HIS* 2.8 31.9 + - - -
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Residues in contact with ILE 175 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42B CYS* 3.9 19.5 - - + -
171B ILE* 3.0 32.5 + - + +
172B LYS* 3.7 14.4 - - + +
174B CYS* 1.3 78.3 - - - +
176B LEU* 1.3 61.2 + - + +
178B HIS* 3.5 5.2 - - - +
179B ALA* 3.1 26.1 + - + +
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Residues in contact with LEU 176 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112B TYR* 4.3 14.8 - - + -
115B GLU* 3.8 42.4 - - + +
116B PHE* 3.5 38.6 - - + +
119B MET* 4.6 11.0 - - + -
172B LYS* 3.4 16.5 + - + +
173B LEU* 3.2 10.4 + - + +
175B ILE* 1.3 80.9 - - + +
177B LEU* 1.3 66.0 + - - +
178B HIS 3.0 1.8 - - - -
179B ALA* 3.8 4.6 - - + +
180B PHE* 2.9 26.0 + - - +
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Residues in contact with LEU 177 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37B LEU* 4.0 13.9 - - + +
40B TYR* 3.5 46.0 - - + -
116B PHE* 3.9 15.9 - - + -
133B LEU* 4.4 7.9 - - + -
134B ASP* 3.9 22.4 - - + +
137B MET* 3.4 40.2 - - + +
173B LEU* 3.0 29.9 + - + +
174B CYS* 3.4 4.7 + - - +
176B LEU* 1.3 76.1 - - - +
178B HIS* 1.3 62.0 + - - +
181B ARG* 3.1 20.3 + - - +
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Residues in contact with HIS 178 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37B LEU* 3.6 44.9 - - + +
40B TYR 3.2 22.0 + - - -
41B PRO 4.7 3.8 - - - -
42B CYS* 3.7 6.7 - - - -
174B CYS* 2.8 34.0 + - - -
175B ILE* 3.5 9.2 - - - +
176B LEU 3.0 0.2 - - - -
177B LEU* 1.3 80.2 - - - +
179B ALA* 1.3 65.8 + - - +
181B ARG* 3.0 14.8 + - - +
182B ILE* 3.3 19.9 + - + +
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Residues in contact with ALA 179 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112B TYR* 3.4 22.3 + - + +
175B ILE* 3.1 17.4 + - + +
176B LEU* 3.2 9.1 + - + +
178B HIS* 1.3 79.3 - - - +
180B PHE* 1.3 60.4 + - - +
182B ILE* 3.7 9.4 - - - +
183B ARG* 3.4 15.9 + - - +
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Residues in contact with PHE 180 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29B MET* 4.5 7.2 - - + -
109B LEU* 4.3 15.3 - - + -
112B TYR* 3.7 39.0 + + + -
116B PHE* 4.0 10.3 - + + -
137B MET* 3.6 43.3 - - + -
140B VAL* 5.9 1.6 - - + -
141B ILE* 3.4 31.4 - - + -
144B LEU* 5.9 2.5 - - + -
176B LEU 2.9 16.3 + - - +
177B LEU 4.1 1.8 - - - +
179B ALA* 1.3 76.5 - - - +
181B ARG* 1.3 56.2 + - - +
182B ILE 3.1 0.4 - - - -
183B ARG* 3.0 6.1 + - + +
184B ALA* 2.6 61.1 + - + +
187B ILE* 5.1 1.6 - - + -
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Residues in contact with ARG 181 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
208A ARG* 6.1 0.2 - - - +
292A TYR 3.1 24.7 + - - -
293A TYR* 3.3 33.1 - - - +
29B MET* 5.8 0.4 - - - -
30B LEU* 3.8 14.7 + - + +
33B ALA* 3.5 26.0 - - + -
34B ARG* 3.8 26.2 - - - +
37B LEU* 3.8 25.9 - - + +
137B MET* 4.6 4.5 - - + -
177B LEU 3.1 18.7 + - - +
178B HIS* 3.0 8.3 + - - +
180B PHE* 1.3 77.2 - - - +
182B ILE* 1.3 62.8 - - - +
184B ALA* 4.6 1.3 - - - -
185B VAL* 2.9 46.0 + - - +
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Residues in contact with ILE 182 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181A GLU* 3.9 31.5 - - + +
182A GLU 4.2 5.4 - - - +
183A SER* 5.9 1.6 - - - -
208A ARG* 3.2 44.0 - - - +
293A TYR* 3.7 17.2 + - + +
178B HIS* 3.3 18.2 - - + +
179B ALA* 3.7 10.5 - - - +
181B ARG* 1.3 82.7 - - - +
183B ARG* 1.3 60.3 + - - +
185B VAL* 3.4 14.7 - - - +
186B THR* 3.4 10.9 + - - -
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Residues in contact with ARG 183 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181A GLU* 2.5 46.9 + - - -
58B SER* 5.6 1.8 - - - +
59B THR* 3.8 18.1 + - - +
60B VAL* 5.3 2.4 - - - +
108B ASP* 3.0 38.3 + - + +
112B TYR* 4.6 17.5 + - + +
179B ALA 3.4 11.1 + - - +
180B PHE* 3.0 14.6 + - + +
182B ILE* 1.3 77.7 - - - +
184B ALA* 1.3 66.0 + - - +
185B VAL 3.0 1.6 - - - -
186B THR* 3.2 8.5 + - - -
187B ILE* 3.0 32.7 + - + +
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Residues in contact with ALA 184 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26B VAL* 5.0 4.6 - - + +
29B MET* 3.7 30.5 - - + -
30B LEU* 3.7 12.8 - - + -
180B PHE* 2.6 35.8 + - + +
181B ARG 4.6 0.2 - - - -
183B ARG* 1.3 71.1 - - - +
185B VAL* 1.3 51.4 + - - +
187B ILE* 3.1 14.1 + - - +
188B ASP* 2.6 37.4 + - - +
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Residues in contact with VAL 185 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
292A TYR* 3.9 31.2 - - + -
293A TYR* 3.7 24.5 - - + +
30B LEU* 3.8 20.0 - - + -
181B ARG* 2.9 27.9 + - - +
182B ILE 3.4 10.1 - - - +
184B ALA* 1.3 77.2 - - - +
186B THR* 1.3 54.5 + - - +
188B ASP* 3.0 5.1 + - - +
189B ARG* 2.8 58.9 + - - +
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Residues in contact with THR 186 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
179A ALA 5.5 1.3 + - - +
181A GLU* 2.6 39.7 + - - +
246A TYR* 4.5 8.3 - - - +
59B THR* 4.8 6.7 - - + -
60B VAL* 4.1 26.5 - - + +
182B ILE 3.4 3.6 + - - -
183B ARG* 3.2 12.0 + - - -
185B VAL* 1.3 81.2 - - - +
187B ILE* 1.3 63.3 + - - +
189B ARG* 2.8 23.6 + - - +
190B VAL* 2.9 28.0 + - + +
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Residues in contact with ILE 187 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26B VAL* 5.7 1.3 - - + -
59B THR* 5.1 3.4 - - + -
105B ILE* 3.6 43.3 - - + +
108B ASP* 5.1 3.4 - - + +
109B LEU* 3.9 24.9 - - + -
144B LEU* 3.9 22.0 - - + -
180B PHE* 5.1 1.8 - - + -
183B ARG* 3.0 28.4 + - + +
184B ALA* 3.3 14.4 - - - +
186B THR* 1.3 73.4 - - - +
188B ASP* 1.3 60.6 + - - +
190B VAL* 3.0 10.0 + - - +
191B MET* 2.8 45.5 + - + +
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Residues in contact with ASP 188 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
291A ARG* 5.3 0.3 - - - +
292A TYR* 2.7 29.8 + - - +
23B LEU* 4.5 9.4 - - - +
26B VAL* 3.6 22.6 - - + +
27B SER* 3.6 19.1 + - - -
30B LEU* 3.7 14.1 - - + +
184B ALA 2.6 21.3 + - - +
185B VAL 3.3 4.7 - - - +
187B ILE* 1.3 75.3 - - - +
189B ARG* 1.3 61.5 + - - +
191B MET* 3.8 15.1 - - - +
192B SER* 3.0 24.4 + - - -
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Residues in contact with ARG 189 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114A TYR* 2.8 36.9 + - - -
245A SER 4.0 2.3 - - - +
246A TYR* 3.2 67.2 + - + +
247A PHE* 3.6 23.0 - - - +
248A SER 4.3 0.4 - - - +
290A ASP* 4.8 0.8 + - - -
292A TYR* 3.5 36.0 - - + -
293A TYR* 4.0 15.2 - - - -
185B VAL* 2.8 25.1 + - - +
186B THR* 2.8 18.2 + - - +
188B ASP* 1.3 72.1 - - - +
190B VAL* 1.3 57.6 + - - +
192B SER* 3.1 5.4 + - - -
193B TYR* 2.8 28.4 + - - +
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Residues in contact with VAL 190 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
246A TYR* 4.4 11.4 - - + +
59B THR* 5.7 0.7 - - + -
63B CYS* 3.8 23.8 - - + +
82B ILE* 4.1 15.9 - - + -
101B CYS* 4.2 11.2 - - - -
102B LEU* 5.5 1.6 - - + -
105B ILE* 3.7 26.0 - - + -
186B THR* 2.9 25.9 + - + +
187B ILE* 3.9 5.4 - - - +
189B ARG* 1.3 71.8 - - - +
191B MET* 1.3 75.8 + - + +
193B TYR* 3.2 6.0 + - - -
194B LEU* 2.8 34.9 + - + +
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Residues in contact with MET 191 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22B LEU* 4.5 4.0 - - - -
23B LEU* 3.4 35.0 - - + -
26B VAL* 4.2 24.5 - - + -
105B ILE* 5.6 2.9 - - + -
144B LEU* 4.0 21.1 - - + -
187B ILE* 2.8 26.6 + - + +
188B ASP* 3.8 22.4 - - - +
190B VAL* 1.3 87.4 - - + +
192B SER* 1.3 59.8 + - - +
194B LEU* 3.3 11.5 + - - +
195B ASN* 3.3 21.7 + - - +
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Residues in contact with SER 192 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
245A SER* 2.4 36.0 + - - -
248A SER* 3.6 11.9 + - - -
292A TYR* 4.9 4.5 - - - -
23B LEU* 4.9 12.1 - - - +
188B ASP* 3.0 20.4 + - - -
189B ARG* 3.1 2.7 + - - -
191B MET* 1.3 73.8 - - - +
193B TYR* 1.3 66.2 + - - +
195B ASN* 3.5 3.5 + - - +
196B ALA* 3.4 16.8 + - - -
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Residues in contact with TYR 193 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
243A PRO* 4.0 15.5 - - + -
245A SER* 3.3 25.5 + - - +
246A TYR* 4.3 10.3 - - + +
65B PRO* 3.6 19.1 - - + -
66B LEU 3.3 0.3 + - - -
67B GLU* 2.5 33.4 + - - -
82B ILE* 3.1 46.6 + - + -
83B THR* 3.2 21.8 - - - +
84B ASN* 3.2 28.6 + - - +
189B ARG 2.8 15.9 + - - +
190B VAL* 3.7 4.7 - - - +
192B SER* 1.3 77.1 + - - +
194B LEU* 1.3 69.3 + - + +
195B ASN 3.6 0.5 - - - +
196B ALA* 2.9 26.2 - - - +
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Residues in contact with LEU 194 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82B ILE* 4.3 12.3 - - + -
83B THR 3.3 26.2 - - - +
84B ASN 4.4 1.1 - - - -
85B GLY 4.4 3.8 - - - +
86B SER* 3.1 36.4 + - - -
98B MET* 3.9 33.2 - - + -
101B CYS* 5.6 0.9 - - - -
102B LEU* 4.9 10.3 - - + -
190B VAL* 2.8 28.1 + - + +
191B MET* 3.7 7.2 - - - +
192B SER 3.2 0.4 - - - -
193B TYR* 1.3 90.0 - - + +
195B ASN* 1.3 63.7 + - - +
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Residues in contact with ASN 195 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20B GLN* 3.0 35.0 - - - +
23B LEU* 4.2 16.2 - - - +
84B ASN 3.7 6.8 - - - +
86B SER 5.3 1.8 - - - -
191B MET 3.3 15.3 + - - +
192B SER* 4.1 5.4 - - - +
193B TYR 3.2 1.2 - - - +
194B LEU* 1.3 84.5 - - - +
196B ALA* 1.3 73.1 + - - +
197B SER* 3.0 4.7 + - - -
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Residues in contact with ALA 196 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
245A SER* 3.7 24.0 - - - +
84B ASN* 4.3 8.1 - - - +
192B SER 3.4 6.5 + - - -
193B TYR 2.9 23.1 - - - +
195B ASN* 1.3 79.7 - - - +
197B SER* 1.3 78.8 + - - +
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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).
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