Contacts of the helix formed by residues 177 - 211 (chain G) in PDB entry 5VOT
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 177 (chain G).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31G ASP 3.1 10.1 - - - -
32G TYR 3.1 22.3 + - - -
33G TRP* 3.3 18.5 - - - +
34G LEU* 4.5 5.4 - - - -
176G TYR* 1.3 78.5 - - - +
178G TRP* 1.3 63.3 + - - -
180G PHE* 3.1 20.1 - - - +
181G TYR* 3.9 5.2 + - - -
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Residues in contact with TRP 178 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31G ASP* 2.7 19.3 + - + +
34G LEU* 6.2 3.4 - - + +
176G TYR 5.4 3.8 + - - -
177G GLY* 1.3 72.8 - - - -
179G SER* 1.3 55.6 + - - +
180G PHE 3.0 5.1 + - - -
181G TYR* 3.3 25.7 + + + +
182G PHE* 2.9 24.7 + - - +
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Residues in contact with SER 179 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26G ILE 4.0 1.8 - - - -
27G ALA* 3.7 30.0 - - - +
30G THR 3.1 27.4 - - - -
31G ASP* 2.5 19.3 + - - +
32G TYR* 3.5 7.9 - - - -
178G TRP* 1.3 70.2 - - - +
180G PHE* 1.3 58.4 + - - -
182G PHE* 3.4 11.5 - - - +
183G GLY* 2.9 22.7 + - - -
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Residues in contact with PHE 180 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
524B GLU* 4.4 18.2 - - + -
528B CYS* 6.4 1.6 - - - -
531B PHE* 5.9 9.9 - + - -
32G TYR* 3.2 18.9 + - + +
153G ILE* 5.0 14.4 - - + -
156G TYR* 4.4 26.9 - + - -
157G ILE* 4.7 17.3 - - + -
176G TYR* 4.1 32.8 - + + -
177G GLY 3.1 17.0 + - - +
178G TRP 3.0 0.6 - - - -
179G SER* 1.3 73.5 - - - +
181G TYR* 1.3 90.6 + + - +
183G GLY* 3.0 13.3 + - - -
184G ALA* 3.0 12.8 + - + +
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Residues in contact with TYR 181 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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523B TYR* 3.9 12.5 + - - -
524B GLU* 3.8 32.5 + - - -
176G TYR* 5.2 11.9 - - + +
177G GLY 3.9 4.2 + - - -
178G TRP* 3.3 25.6 + + + +
180G PHE* 1.3 98.7 - + - +
182G PHE* 1.3 57.0 + - - +
184G ALA* 3.2 12.7 + - + +
185G LEU* 2.9 28.8 + - - +
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Residues in contact with PHE 182 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23G LEU* 4.4 24.8 - - + +
26G ILE* 6.0 2.0 - - + -
27G ALA* 4.9 2.0 - - + +
178G TRP 2.9 9.5 + - - +
179G SER* 3.4 22.9 - - - +
181G TYR* 1.3 76.5 - - - +
183G GLY* 1.3 58.7 + - - +
185G LEU* 3.1 12.0 + - - +
186G SER* 2.9 27.0 + - - -
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Residues in contact with GLY 183 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24G MET* 5.4 0.4 - - - -
27G ALA* 4.2 13.1 - - - +
149G ASN* 4.2 6.1 + - - -
179G SER 2.9 15.2 + - - -
180G PHE* 3.0 4.2 + - - -
182G PHE* 1.3 74.6 - - - +
184G ALA* 1.3 61.7 + - - +
186G SER* 2.2 30.1 + - - -
187G PHE* 2.9 9.2 + - - +
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Residues in contact with ALA 184 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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531B PHE* 3.6 32.9 - - + -
180G PHE* 3.0 13.3 + - + +
181G TYR* 3.3 19.3 - - + +
183G GLY* 1.3 75.3 - - - +
185G LEU* 1.3 64.0 + - - +
187G PHE* 2.9 18.3 + - - +
188G ILE* 2.9 20.9 + - + +
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Residues in contact with LEU 185 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23G LEU* 4.2 22.2 - - + -
181G TYR 2.9 13.5 + - - +
182G PHE* 3.4 11.0 - - - +
184G ALA* 1.3 74.8 - - - +
186G SER* 1.3 62.3 + - - +
188G ILE* 3.2 16.0 + - + +
189G ILE* 2.9 46.0 + - + +
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Residues in contact with SER 186 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20G ALA* 4.0 15.9 - - - +
23G LEU* 3.9 26.0 - - - +
24G MET* 4.0 12.4 - - - +
115G LEU* 5.9 2.2 - - - -
149G ASN* 3.5 14.5 + - - -
182G PHE 2.9 12.4 + - - -
183G GLY* 2.2 32.3 + - - -
185G LEU* 1.3 76.1 - - - +
187G PHE* 1.3 56.6 + - - +
190G ALA* 2.8 34.0 + - - +
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Residues in contact with PHE 187 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
531B PHE* 3.7 51.1 - + + -
534B ILE* 4.5 12.8 - - + -
535B GLY* 4.3 15.3 - - - -
146G GLY* 3.3 37.7 - - - -
147G LEU* 4.2 4.0 - - - -
149G ASN* 4.4 9.9 - - + +
150G ILE* 3.4 25.8 - - + +
183G GLY 3.8 6.3 - - - +
184G ALA* 2.9 13.6 + - - +
186G SER* 1.3 82.9 + - - +
188G ILE* 1.3 68.1 + - + +
190G ALA* 3.6 3.6 - - - +
191G GLU* 2.9 34.1 + - + +
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Residues in contact with ILE 188 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
530B VAL* 6.5 1.3 - - + -
531B PHE* 5.1 11.0 - - + -
534B ILE* 5.8 12.2 - - + +
184G ALA* 2.9 23.7 + - + +
185G LEU* 3.2 15.7 + - + +
187G PHE* 1.3 87.7 - - + +
189G ILE* 1.3 73.9 + - + +
191G GLU* 3.2 3.2 + - - +
192G MET* 2.9 26.7 + - + +
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Residues in contact with ILE 189 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16G GLY* 4.1 28.3 - - - +
19G ALA* 6.0 2.0 - - + -
20G ALA* 4.5 8.3 - - + +
23G LEU* 5.4 4.7 - - + -
185G LEU* 2.9 43.8 + - + +
186G SER* 4.5 1.6 - - - +
188G ILE* 1.3 78.3 - - + +
190G ALA* 1.3 63.7 + - - +
192G MET* 3.9 6.4 - - + +
193G VAL* 2.9 23.5 + - + +
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Residues in contact with ALA 190 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16G GLY 5.4 0.2 - - - -
20G ALA* 4.5 11.4 - - + +
115G LEU* 4.8 18.4 - - + -
142G PHE* 2.9 27.3 - - + +
143G VAL* 6.1 0.7 - - - -
146G GLY* 5.2 8.3 - - - -
149G ASN* 6.1 0.4 - - - +
186G SER 2.8 23.1 + - - +
187G PHE* 3.6 5.4 - - - +
189G ILE* 1.3 79.8 - - - +
191G GLU* 1.3 65.1 + - - +
193G VAL* 4.6 0.7 - - - -
194G GLY 2.9 18.7 + - - -
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Residues in contact with GLU 191 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
534B ILE* 4.8 12.3 - - + -
535B GLY* 5.9 1.6 - - - -
538B VAL* 4.4 21.4 - - + +
143G VAL* 4.5 14.1 - - + +
146G GLY* 5.7 4.2 - - - -
187G PHE* 2.9 33.3 + - + +
188G ILE* 3.8 2.7 - - - +
190G ALA* 1.3 72.1 - - - +
192G MET* 1.3 63.8 + - - +
194G GLY* 3.0 4.7 + - - +
195G VAL* 2.9 25.5 + - - +
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Residues in contact with MET 192 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
188G ILE* 2.9 21.2 + - + +
189G ILE* 3.9 7.4 - - + +
191G GLU* 1.3 75.7 - - - +
193G VAL* 1.3 64.9 + - - +
195G VAL* 2.9 22.2 + - - +
196G LEU* 3.0 14.1 + - - +
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Residues in contact with VAL 193 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12G LEU 4.9 6.7 - - - +
13G THR* 4.6 14.3 + - + +
16G GLY* 4.5 19.5 - - - -
142G PHE* 4.0 13.9 - - + -
189G ILE* 2.9 19.2 + - + +
190G ALA* 3.5 4.0 - - - +
192G MET* 1.3 75.5 - - - +
194G GLY* 1.3 57.2 + - - +
196G LEU* 3.5 6.8 + - - +
197G ALA* 2.9 29.7 + - - +
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Residues in contact with GLY 194 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139G GLY* 5.7 0.7 - - - -
142G PHE* 3.3 23.0 - - - -
143G VAL* 3.6 14.8 - - - -
190G ALA 2.9 11.3 + - - -
191G GLU 3.0 5.1 + - - -
193G VAL* 1.3 75.1 - - - +
195G VAL* 1.3 64.9 + - - +
197G ALA* 3.1 5.1 + - - +
198G VAL* 2.9 30.4 + - - +
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Residues in contact with VAL 195 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
538B VAL* 3.6 34.3 - - + -
541B PHE* 4.5 11.2 - - + -
573B ILE* 3.8 34.8 - - + -
143G VAL* 4.6 0.4 - - - +
191G GLU 2.9 18.2 + - - +
192G MET* 2.9 13.9 + - - +
194G GLY* 1.3 75.4 - - - +
196G LEU* 1.3 64.1 + - - +
198G VAL* 3.2 9.1 - - - +
199G HIS* 2.9 26.5 + - + +
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Residues in contact with LEU 196 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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9G GLN* 5.6 8.3 - - + +
12G LEU* 6.1 4.3 - - + -
13G THR* 5.3 4.0 - - - +
192G MET 3.0 11.3 + - - +
193G VAL* 3.9 9.0 - - - +
195G VAL* 1.3 78.2 - - - +
197G ALA* 1.3 57.3 + - - +
199G HIS* 3.3 7.9 - - - +
200G MET* 2.9 35.7 + - + +
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Residues in contact with ALA 197 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13G THR* 4.5 22.0 + - + +
135G ILE* 5.9 4.1 - - - +
138G ALA* 6.2 2.2 - - + -
139G GLY* 5.5 5.2 - - - -
142G PHE* 5.7 2.5 - - + -
193G VAL 2.9 19.5 + - - +
194G GLY* 3.1 10.0 + - - +
196G LEU* 1.3 75.6 - - - +
198G VAL* 1.3 61.5 + - + +
200G MET* 2.8 27.3 + - - +
201G PHE* 2.9 11.0 + - - +
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Residues in contact with VAL 198 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
538B VAL* 6.5 0.4 - - + -
541B PHE* 4.9 13.2 - - + -
542B LEU* 3.6 33.7 - - + -
135G ILE 5.3 3.4 - - - +
136G LEU* 5.3 3.8 - - - +
139G GLY* 3.6 31.4 - - - +
143G VAL* 5.2 0.9 - - + -
194G GLY 2.9 19.1 + - - +
195G VAL* 3.2 19.7 - - - +
197G ALA* 1.3 70.7 - - - +
199G HIS* 1.3 61.7 + - - +
201G PHE* 3.0 13.8 + - + +
202G ILE* 2.9 29.7 + - + +
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Residues in contact with HIS 199 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
541B PHE* 4.7 22.2 - + + -
573B ILE* 5.9 5.2 - - + -
195G VAL* 2.9 21.4 + - + +
196G LEU* 3.3 9.9 - - - +
198G VAL* 1.3 77.6 - - - +
200G MET* 1.3 63.3 + - - +
202G ILE* 3.1 17.7 - - + +
203G ASP* 2.8 60.8 + - - +
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Residues in contact with MET 200 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6G ARG 4.3 6.7 - - - +
7G GLY* 5.5 0.4 - - - -
9G GLN* 3.5 30.3 - - + +
10G MET* 3.5 38.1 - - + +
13G THR* 4.1 9.6 - - - -
196G LEU* 2.9 18.8 + - - +
197G ALA* 2.8 17.5 + - - +
199G HIS* 1.3 72.8 - - - +
201G PHE* 1.3 59.8 + - - +
203G ASP* 3.2 11.7 + - - +
204G ARG* 2.9 23.4 + - - +
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Residues in contact with PHE 201 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
546B PHE* 5.7 10.3 - - + -
548B PRO 5.4 7.0 - - - -
132G HIS 3.1 27.6 - - - -
133G ASN* 4.0 7.2 - - + -
135G ILE* 3.6 20.0 - - + -
136G LEU* 3.4 46.2 - - + +
197G ALA 2.9 6.7 + - - +
198G VAL* 3.0 19.9 + - + +
200G MET* 1.3 76.3 - - - +
202G ILE* 1.3 78.8 + - + +
204G ARG* 3.0 9.5 + - + +
205G HIS* 2.9 33.9 + - + +
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Residues in contact with ILE 202 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
541B PHE* 6.5 1.8 - - + -
545B ARG* 3.3 29.8 - - + +
546B PHE* 4.7 6.3 - - + -
548B PRO* 6.1 4.0 - - + -
198G VAL* 2.9 18.0 + - + +
199G HIS* 3.1 38.8 - - + +
201G PHE* 1.3 87.6 - - + +
203G ASP* 1.3 75.9 + - - +
205G HIS* 4.0 6.2 - - - +
206G LYS* 2.9 31.2 + - - +
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Residues in contact with ASP 203 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
199G HIS* 2.8 50.9 + - - +
200G MET* 3.3 13.5 - - - +
202G ILE* 1.3 89.7 - - - +
204G ARG* 1.3 56.4 + - - +
206G LYS* 3.7 5.1 - - - +
207G GLN* 2.9 27.9 + - - +
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Residues in contact with ARG 204 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132G HIS* 6.2 4.3 - - + -
200G MET 2.9 12.4 + - - +
201G PHE* 3.5 9.6 - - + +
203G ASP* 1.3 74.1 - - - +
205G HIS* 1.3 60.3 + - - +
207G GLN* 2.8 23.7 + - - +
208G LEU* 2.9 14.8 + - - +
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Residues in contact with HIS 205 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
548B PRO* 5.2 13.7 - - + +
132G HIS* 5.9 4.0 - - + +
201G PHE* 2.9 29.6 + - + +
202G ILE* 4.0 7.6 - - - +
204G ARG* 1.3 76.1 - - - +
206G LYS* 1.3 58.4 + - - +
208G LEU* 3.5 5.7 + - - +
209G ARG* 2.9 29.4 + - - +
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Residues in contact with LYS 206 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
202G ILE 2.9 19.7 + - - +
203G ASP* 3.7 6.3 - - - +
205G HIS* 1.3 76.9 - - - +
207G GLN* 1.3 58.8 + - - +
209G ARG* 3.6 7.3 - - - +
210G ALA* 2.9 32.7 + - - +
----------------------------------------------------------
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Residues in contact with GLN 207 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
203G ASP 2.9 13.9 + - - +
204G ARG* 2.8 15.6 + - - +
206G LYS* 1.3 77.0 - - - +
208G LEU* 1.3 56.5 + - - +
210G ALA* 3.9 2.6 - - - +
211G THR* 2.8 30.2 + - - -
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Residues in contact with LEU 208 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
204G ARG 2.9 12.9 + - - +
205G HIS* 4.0 5.6 - - - +
207G GLN* 1.3 74.3 - - - +
209G ARG* 1.3 66.7 + - - +
211G THR* 3.1 8.5 + - - -
212G ALA* 2.9 24.1 + - - +
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Residues in contact with ARG 209 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
205G HIS 2.9 19.3 + - - +
206G LYS* 3.2 8.9 + - - +
208G LEU* 1.3 75.6 - - - +
210G ALA* 1.3 63.3 + - - +
212G ALA* 3.1 20.4 + - - +
213G ARG* 4.1 2.8 + - - +
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Residues in contact with ALA 210 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
206G LYS 2.9 17.5 + - - +
207G GLN* 4.4 3.1 - - - +
209G ARG* 1.3 73.7 - - - +
211G THR* 1.3 60.2 + - - +
212G ALA 3.1 1.8 + - - -
213G ARG* 3.3 20.1 + - - +
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Residues in contact with THR 211 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
207G GLN 2.8 22.7 + - - -
208G LEU* 3.1 11.9 + - - -
210G ALA* 1.3 75.1 - - - +
212G ALA* 1.3 59.4 + - - +
213G ARG 3.4 2.5 - - - -
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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