Contacts of the helix formed by residues 180 - 206 (chain I) in PDB entry 4PHZ
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 GLY 180 (chain I).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
178I HIS 3.2 1.8 + - - -
179I TYR* 1.3 87.6 - - - +
181I ILE* 1.3 62.5 + - - +
182I SER* 3.2 4.0 - - - +
183I ARG* 3.1 21.1 + - - +
184I VAL* 3.1 13.5 + - - +
171J ALA* 4.7 7.8 - - - +
172J PHE* 3.8 19.9 - - - -
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Residues in contact with ILE 181 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177I GLU 3.7 21.3 - - - +
178I HIS* 3.4 18.5 + - - +
179I TYR 3.2 0.6 + - - +
180I GLY* 1.3 76.0 - - - +
182I SER* 1.3 61.2 + - - +
184I VAL* 3.3 9.5 + - - +
185I TYR* 3.3 49.8 + - + +
120J PRO* 4.4 2.2 - - + -
121J ILE* 4.0 20.4 - - + +
122J SER* 3.7 42.2 - - - +
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Residues in contact with SER 182 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
178I HIS 4.7 2.2 + - - -
180I GLY 3.2 1.7 + - - +
181I ILE* 1.3 74.7 - - - +
183I ARG* 1.3 61.7 + - - +
184I VAL 3.2 0.2 + - - -
185I TYR* 3.4 10.5 + - - +
186I ALA* 2.8 30.8 + - - +
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Residues in contact with ARG 183 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
180I GLY* 3.1 13.4 + - - +
182I SER* 1.3 80.8 - - - +
184I VAL* 1.3 62.3 + - + +
186I ALA* 3.4 9.2 + - + +
187I TRP* 3.1 22.5 + - - +
249I VAL* 5.3 4.8 - - - +
250I THR* 3.6 25.0 - - + +
253I THR* 3.7 26.1 + - - +
254I PHE* 3.5 33.6 - - - -
167J PRO 3.9 21.2 - - - +
168J ALA* 5.4 1.3 - - - +
171J ALA* 4.4 9.2 - - + -
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Residues in contact with VAL 184 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
180I GLY 3.1 14.6 + - - +
181I ILE* 3.4 11.9 - - - +
182I SER 3.1 0.4 - - - -
183I ARG* 1.3 74.3 - - + +
185I TYR* 1.4 53.4 - - + +
187I TRP* 2.9 9.2 + - - +
188I HIS* 2.8 37.0 + - + +
106J TRP* 3.8 31.4 - - + -
121J ILE* 4.8 4.5 - - + +
122J SER* 5.6 0.4 - - - -
125J PHE* 4.0 28.9 - - + -
168J ALA* 4.0 26.0 - - + +
172J PHE* 4.1 14.1 - - + -
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Residues in contact with TYR 185 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181I ILE* 3.3 35.1 + - + +
182I SER* 3.5 9.2 - - - +
184I VAL* 1.4 78.0 - - + +
186I ALA* 1.3 58.3 + - - +
188I HIS* 4.4 2.2 - - - +
189I LEU* 2.9 56.3 + - + +
190I PRO* 3.4 4.0 - - - +
106J TRP* 3.7 33.2 - + - -
110J TYR* 3.8 21.5 - + - -
121J ILE* 3.4 24.8 - - + +
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Residues in contact with ALA 186 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182I SER 2.8 20.8 + - - +
183I ARG* 3.5 11.2 - - + +
184I VAL 3.2 0.2 - - - -
185I TYR* 1.3 73.2 - - - +
187I TRP* 1.3 60.3 + - - +
190I PRO* 2.9 26.1 - - - +
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Residues in contact with TRP 187 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183I ARG 3.1 10.4 + - - +
184I VAL 2.9 8.7 + - - +
186I ALA* 1.3 79.3 - - - +
188I HIS* 1.3 72.3 + + + +
190I PRO* 3.7 3.3 - - + +
191I TRP* 3.0 67.5 + + - -
242I ALA* 3.8 21.5 - - + -
243I THR* 4.6 8.5 - - - -
246I GLY* 4.2 17.7 - - - -
128J ALA* 4.8 4.5 - - + +
163J PRO 5.2 0.2 - - - -
164J ASN* 2.6 37.6 + - + -
167J PRO* 3.7 40.1 - - + +
168J ALA* 4.3 17.3 - - + +
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Residues in contact with HIS 188 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
184I VAL* 2.8 28.3 + - + +
185I TYR 4.4 0.2 - - - +
187I TRP* 1.3 78.3 - + - +
189I LEU* 1.3 72.8 + - + +
191I TRP* 3.2 6.8 + - - +
192I MET* 3.1 23.4 + - - +
102J LEU* 4.5 6.0 - - + +
106J TRP* 3.0 43.8 + + + +
125J PHE* 4.5 3.0 - + - -
126J PRO* 3.1 29.2 + - + -
127J SER 3.9 14.6 - - - -
128J ALA* 4.0 17.4 + - + +
165J ASN* 5.0 1.0 + - - -
168J ALA* 4.1 23.6 - - + +
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Residues in contact with LEU 189 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
185I TYR* 2.9 46.5 + - + +
188I HIS* 1.3 82.6 - - + +
190I PRO* 1.4 70.0 - - + +
192I MET* 3.1 21.2 + - + +
193I ALA* 2.8 24.0 + - - +
106J TRP* 4.9 9.6 - - + -
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Residues in contact with PRO 190 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
185I TYR 3.4 5.4 - - - +
186I ALA* 2.9 30.1 - - - +
187I TRP* 3.7 4.9 - - + +
189I LEU* 1.4 89.0 - - + +
191I TRP* 1.3 55.5 + - + +
193I ALA* 3.3 8.4 + - + +
194I VAL* 2.7 40.6 + - + +
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Residues in contact with TRP 191 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187I TRP* 3.0 66.3 + + - +
188I HIS* 3.2 8.4 + - - +
189I LEU 3.2 1.0 - - - -
190I PRO* 1.3 76.7 - - + +
192I MET* 1.3 53.3 + - - +
194I VAL* 3.0 26.5 + - + +
195I GLY* 2.7 33.4 + - - -
239I THR* 3.6 36.8 - - + -
242I ALA* 4.0 28.7 - - + -
243I THR* 4.4 5.6 - - - -
130J ILE* 3.7 31.5 - - + +
131J VAL* 3.6 23.5 - - + +
134J ILE* 4.1 7.2 - - + -
164J ASN* 5.7 1.6 - - - -
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Residues in contact with MET 192 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
188I HIS* 3.1 16.5 + - + +
189I LEU* 3.6 19.3 - - + +
191I TRP* 1.3 73.7 - - - +
193I ALA* 1.3 58.0 + - - +
195I GLY* 3.1 1.0 + - - -
196I ALA* 2.9 30.0 + - - +
99J LEU* 3.7 21.3 - - + +
102J LEU* 4.3 6.1 - - + -
103J ILE* 3.4 45.3 - - + +
106J TRP* 3.6 34.3 - - + -
130J ILE* 3.9 12.7 - - + +
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Residues in contact with ALA 193 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
189I LEU 2.8 16.6 + - - +
190I PRO* 3.4 12.6 - - + +
192I MET* 1.3 72.4 - - - +
194I VAL* 1.3 57.0 + - - +
195I GLY 3.3 0.2 + - - -
196I ALA* 3.3 6.0 + - - +
197I ALA* 2.8 30.4 + - - +
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Residues in contact with VAL 194 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
190I PRO* 2.7 22.5 + - + +
191I TRP* 3.0 35.0 + - + +
193I ALA* 1.3 71.0 - - - +
195I GLY* 1.3 63.3 + - - +
197I ALA* 3.2 8.6 + - + +
198I TRP* 3.1 24.0 + - + +
235I VAL* 5.6 8.3 - - + -
239I THR* 5.6 1.6 - - - +
134J ILE* 4.4 13.2 - - + -
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Residues in contact with GLY 195 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
191I TRP 2.7 16.7 + - - -
192I MET* 3.1 4.9 + - - -
194I VAL* 1.3 75.2 - - - +
196I ALA* 1.3 62.6 + - - +
198I TRP* 3.3 5.2 + - - +
199I ILE* 3.2 24.6 + - - +
95J VAL* 3.7 22.0 - - - +
99J LEU* 4.1 6.1 - - - -
130J ILE* 4.4 11.2 - - - -
134J ILE* 5.6 1.3 - - - -
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Residues in contact with ALA 196 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
192I MET 2.9 18.2 + - - +
193I ALA* 3.7 7.2 - - - +
195I GLY* 1.3 69.4 - - - +
197I ALA* 1.3 66.1 + - - +
198I TRP 3.3 0.2 + - - -
199I ILE* 3.3 3.8 + - - +
200I PHE* 2.8 46.1 + - + -
99J LEU* 3.6 20.0 - - + +
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Residues in contact with ALA 197 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
193I ALA 2.8 17.2 + - - +
194I VAL* 3.2 13.4 + - + +
196I ALA* 1.3 72.9 - - - +
198I TRP* 1.3 50.7 + - - +
200I PHE* 3.0 5.4 + - - +
201I PHE* 2.7 36.4 + - - +
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Residues in contact with TRP 198 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
194I VAL* 3.1 10.8 + - + +
195I GLY* 3.5 8.5 - - - +
196I ALA 3.3 0.2 - - - -
197I ALA* 1.3 73.9 - - - +
199I ILE* 1.3 63.1 + - - +
201I PHE* 3.4 8.9 - + - +
202I TRP* 2.8 74.5 + + - -
231I ILE* 5.0 1.1 - - + -
232I GLY* 4.1 10.3 - - - -
235I VAL* 3.9 42.8 - - + -
91J PRO* 3.2 32.8 + - + -
92J PHE* 3.6 17.7 - - + +
95J VAL* 4.1 26.9 - - + +
134J ILE* 5.7 9.0 - - + -
137J ASP* 4.4 6.2 + - + +
138J VAL* 3.8 25.8 - - + -
141J LEU* 4.1 4.5 - - + -
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Residues in contact with ILE 199 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
195I GLY 3.2 10.3 + - - +
196I ALA* 3.7 6.5 - - - +
198I TRP* 1.3 76.8 - - - +
200I PHE* 1.3 73.9 + - + +
202I TRP 3.3 0.3 + - - -
203I PHE* 3.0 20.7 + - + +
31J LEU* 4.5 15.3 - - + -
35J PHE* 4.8 5.4 - - + -
92J PHE* 3.8 37.4 - - + -
95J VAL* 4.1 10.8 - - + +
96J PHE* 3.7 41.3 - - + +
99J LEU* 4.1 24.9 - - + -
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Residues in contact with PHE 200 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
196I ALA* 2.8 44.8 + - + +
197I ALA* 3.5 7.2 - - - +
199I ILE* 1.3 81.8 - - + +
201I PHE* 1.3 69.9 + - - +
203I PHE* 3.1 10.0 + + - +
204I VAL* 3.0 29.3 + - + +
28J TRP* 3.7 37.9 - + - -
31J LEU* 5.0 7.2 - - + -
99J LEU* 6.1 0.7 - - + -
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Residues in contact with PHE 201 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
197I ALA 2.7 18.3 + - - +
198I TRP* 3.4 15.0 - + - +
199I ILE 3.3 0.2 - - - -
200I PHE* 1.3 75.6 - - - +
202I TRP* 1.3 105.5 + + - +
204I VAL* 3.7 3.4 - - + +
205I ARG* 3.0 73.6 + - + +
228I ASP* 5.7 0.2 - - - -
231I ILE* 3.8 27.6 - - + -
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Residues in contact with TRP 202 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
198I TRP* 2.8 77.9 + + - -
201I PHE* 1.3 102.2 - + - +
203I PHE* 1.3 58.0 + - - +
204I VAL 3.1 0.9 + - - -
205I ARG* 4.6 1.1 - - + +
206I LYS* 3.0 47.2 + - + +
224I ILE* 3.7 18.4 - - + -
228I ASP* 3.6 49.8 - - + -
231I ILE* 4.4 6.1 - - + -
232I GLY 4.9 0.2 - - - -
90J LEU* 3.8 6.5 - - + +
91J PRO* 3.7 28.9 - - + -
92J PHE* 3.6 20.2 - + + -
141J LEU* 4.3 4.0 - - + -
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Residues in contact with PHE 203 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
199I ILE 3.0 17.8 + - - +
200I PHE* 3.1 8.9 + + - +
202I TRP* 1.3 76.6 - - - +
204I VAL* 1.3 67.3 + - + +
206I LYS 2.7 15.0 - - - +
207I GLY* 4.1 4.6 - - - -
208I ILE* 3.5 31.6 - - + -
24J GLN* 4.2 8.5 - - - -
27J ASP* 3.5 45.2 - - + +
28J TRP* 3.6 45.5 - + - -
31J LEU* 3.8 22.7 - - + -
90J LEU* 5.1 2.7 - - - -
92J PHE* 4.1 11.6 - + + -
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Residues in contact with VAL 204 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
200I PHE* 3.0 20.5 + - + +
201I PHE* 3.7 3.6 - - + +
203I PHE* 1.3 90.8 - - + +
205I ARG* 1.3 66.1 + - + +
206I LYS 2.7 22.0 + - - +
207I GLY* 4.9 0.7 - - - -
24J GLN* 6.4 0.2 - - - +
28J TRP* 5.5 6.1 - - + -
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Residues in contact with ARG 205 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201I PHE* 3.0 60.4 + - + +
202I TRP* 4.5 2.0 - - - +
204I VAL* 1.3 83.9 - - + +
206I LYS* 1.3 83.0 + - + +
231I ILE* 4.7 8.3 - - - +
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Residues in contact with LYS 206 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
202I TRP* 3.0 29.7 + - + +
203I PHE 2.7 20.3 - - - +
204I VAL 2.7 4.7 + - - +
205I ARG* 1.3 99.6 - - + +
207I GLY* 1.3 63.7 + - - +
210I THR* 5.9 1.6 - - - -
211I SER* 3.3 17.0 - - - +
214I ARG* 5.3 8.3 - - - +
222I ASP 5.1 2.2 + - - +
223I VAL* 2.7 38.7 + - + +
224I ILE* 4.0 5.1 - - + +
228I ASP* 2.6 34.7 + - - -
90J LEU* 4.0 12.3 - - + -
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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