Contacts of the helix formed by residues 157 - 183 (chain C) in PDB entry 4IRV
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 ASP 157 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
155C ILE* 3.4 2.5 - - - +
156C PRO* 1.3 81.8 - - + +
158C ASP* 1.3 77.4 + - - +
159C LYS* 3.0 23.8 + - - +
160C GLU* 3.0 35.7 + - + +
161C LYS* 2.9 26.8 + - - +
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Residues in contact with ASP 158 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44C PHE* 3.6 41.9 - - + +
148C GLU* 4.7 3.8 - - - +
156C PRO 3.4 2.6 + - - +
157C ASP* 1.3 74.3 + - - +
159C LYS* 1.3 64.9 + - + +
161C LYS* 2.9 37.6 + - - +
162C ALA* 2.9 19.6 + - - +
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Residues in contact with LYS 159 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44C PHE 5.3 1.6 - - - +
45C ASP* 3.3 42.2 + - + +
46C PRO* 6.1 0.6 - - - +
47C ASP* 4.7 8.9 + - - -
48C GLN* 5.5 0.3 - - - +
157C ASP* 3.0 17.0 + - - +
158C ASP* 1.3 76.9 - - + +
160C GLU* 1.3 60.2 + - + +
162C ALA* 3.2 5.5 + - - +
163C GLU* 2.9 27.8 + - - +
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Residues in contact with GLU 160 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116C LYS* 4.4 22.6 + - - +
117C PHE* 3.3 27.6 - - + -
155C ILE* 3.5 14.9 - - + +
156C PRO* 6.1 0.7 - - - +
157C ASP* 3.0 34.6 + - + +
159C LYS* 1.3 79.8 - - + +
161C LYS* 1.3 59.8 + - - +
163C GLU* 3.3 5.1 + - - +
164C PHE* 2.9 26.2 + - - +
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Residues in contact with LYS 161 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44C PHE* 3.7 28.5 - - + -
147C MSE 3.7 38.0 - - + +
148C GLU* 4.0 20.2 - - - +
155C ILE* 2.7 37.5 + - + +
156C PRO* 2.7 26.3 + - - +
157C ASP 2.9 8.9 + - - +
158C ASP* 2.9 30.9 + - - +
160C GLU* 1.3 73.2 - - - +
162C ALA* 1.3 65.1 + - - +
164C PHE* 3.2 3.6 + - - +
165C LEU* 3.0 28.0 + - - +
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Residues in contact with ALA 162 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41C VAL* 3.5 45.7 - - + +
44C PHE* 4.1 5.9 - - + +
45C ASP* 3.6 20.6 - - + -
48C GLN* 4.2 4.7 - - + -
158C ASP 2.9 8.0 + - - +
159C LYS 3.4 8.5 - - - +
161C LYS* 1.3 74.3 - - - +
163C GLU* 1.3 62.3 + - - +
165C LEU* 3.3 1.5 + - - -
166C LYS* 3.1 26.1 + - - +
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Residues in contact with GLU 163 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48C GLN* 5.3 1.9 - - - +
112C LYS* 4.8 1.7 - - - +
113C SER* 2.6 37.2 + - - +
116C LYS* 2.9 36.3 + - - -
117C PHE* 3.7 8.7 - - + -
159C LYS 2.9 16.1 + - - +
160C GLU* 3.7 7.7 - - - +
161C LYS 3.2 0.2 - - - -
162C ALA* 1.3 76.9 - - - +
164C PHE* 1.3 62.6 + - - +
166C LYS* 3.5 19.3 + - - +
167C SER* 3.0 22.9 + - - -
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Residues in contact with PHE 164 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117C PHE* 3.8 18.8 - + + -
121C ARG* 3.6 36.8 - - + -
122C TYR* 3.4 40.8 - + - -
125C PHE* 4.0 28.0 - + + -
146C PHE* 4.9 1.3 - + - -
147C MSE 3.6 33.2 - - + -
151C ILE* 4.7 4.0 - - + -
155C ILE* 3.8 22.2 - - + -
160C GLU 2.9 17.0 + - - +
161C LYS 3.6 3.4 - - - +
163C GLU* 1.3 76.6 - - - +
165C LEU* 1.3 62.0 + - + +
167C SER* 3.2 5.6 - - - -
168C ALA* 2.9 25.1 + - - +
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Residues in contact with LEU 165 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37C VAL* 3.9 19.1 - - + +
40C VAL* 3.4 37.9 - - + -
41C VAL* 3.5 21.5 - - + +
44C PHE* 4.4 5.8 - - + -
125C PHE* 3.6 35.4 - - + -
143C ILE* 4.2 4.9 - - + -
147C MSE 4.0 29.4 - - + -
161C LYS 3.0 17.2 + - - +
163C GLU 3.3 0.2 - - - -
164C PHE* 1.3 76.0 - - + +
166C LYS* 1.3 55.6 + - - +
168C ALA* 3.1 3.8 + - - +
169C LYS* 2.7 35.2 + - - +
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Residues in contact with LYS 166 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41C VAL* 3.7 7.1 - - + +
48C GLN* 3.1 40.0 - - - +
51C ILE* 4.1 13.5 - - + +
52C VAL* 4.0 22.0 - - + -
55C ASN* 3.6 26.9 + - - +
106C ASP* 5.9 0.4 - - - +
109C SER* 4.1 18.0 + - - +
162C ALA 3.1 12.6 + - - +
163C GLU* 3.6 19.2 - - - +
165C LEU* 1.3 76.5 - - - +
167C SER* 1.3 62.0 + - - +
169C LYS* 3.3 19.4 - - - +
170C GLN* 3.4 13.7 + - - +
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Residues in contact with SER 167 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110C SER* 3.6 12.6 + - - +
113C SER* 3.3 19.7 - - - -
114C PHE* 2.8 41.3 - - - -
122C TYR* 2.8 12.1 + - - -
163C GLU 3.0 16.2 + - - -
164C PHE 3.2 5.4 - - - -
166C LYS* 1.3 78.7 - - - +
168C ALA* 1.3 63.6 + - - -
170C GLN* 3.2 14.4 + - - +
171C SER 3.3 8.8 + - - -
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Residues in contact with ALA 168 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122C TYR* 4.1 22.0 - - + -
125C PHE* 3.8 32.5 - - + -
164C PHE* 2.9 17.7 + - + +
165C LEU* 3.1 5.8 + - - +
167C SER* 1.3 72.1 - - - +
169C LYS* 1.3 67.6 + - - +
171C SER* 3.0 9.0 + - - +
172C PHE* 2.8 32.0 + - + -
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Residues in contact with LYS 169 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34C PHE* 3.2 42.4 - - + +
37C VAL* 4.1 9.1 - - + +
38C ASP* 2.8 30.4 + - - +
52C VAL* 3.9 14.9 + - + +
55C ASN* 5.2 1.1 - - + -
56C ASP* 2.9 44.4 + - - +
59C ASN* 4.2 5.6 - - - +
165C LEU 2.7 13.5 + - - +
166C LYS 3.3 12.6 - - - +
168C ALA* 1.3 76.5 - - - +
170C GLN* 1.3 60.0 + - - +
172C PHE* 3.2 13.7 + - - +
173C ALA* 2.8 27.5 + - - +
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Residues in contact with GLN 170 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55C ASN* 3.6 21.5 + - - +
59C ASN* 3.0 38.1 + - - -
105C ILE* 3.6 7.7 - - + +
106C ASP* 2.9 41.2 - - + +
110C SER* 3.1 30.5 - - - +
166C LYS 3.4 10.9 + - - +
167C SER 3.2 2.4 + - - +
168C ALA 3.2 0.6 - - - -
169C LYS* 1.3 76.6 - - - +
171C SER* 1.3 60.5 + - - +
173C ALA* 3.4 5.7 + - - +
174C GLY 3.2 7.6 + - - -
754G TYR* 2.6 32.3 + - + -
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Residues in contact with SER 171 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114C PHE* 3.4 18.6 - - - -
122C TYR* 5.6 3.2 - - - -
167C SER 3.3 6.1 + - - -
168C ALA* 3.0 12.0 + - - -
170C GLN* 1.3 76.6 - - - +
172C PHE* 1.3 69.4 + - - +
174C GLY* 3.0 11.8 + - - -
175C ILE* 3.1 22.1 + - - +
754G TYR* 3.8 3.3 - - - -
757G THR* 4.8 2.1 - - - +
758G THR* 2.5 39.4 + - - +
761G ALA* 5.3 6.4 - - - +
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Residues in contact with PHE 172 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30C LEU* 3.8 38.4 - - + -
33C ALA* 4.0 20.4 - - + -
34C PHE* 4.2 31.2 - - + -
37C VAL* 4.8 3.4 - - + -
125C PHE* 3.5 40.2 - + - -
126C THR* 3.5 24.2 - - + -
129C VAL* 4.5 5.2 - - + -
168C ALA* 2.8 29.0 + - + -
169C LYS* 3.4 10.5 - - - +
171C SER* 1.3 76.2 - - - +
173C ALA* 1.3 64.6 + - - +
175C ILE* 3.2 6.8 + - + +
176C ILE* 2.8 29.5 + - + +
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Residues in contact with ALA 173 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34C PHE* 3.8 7.8 - - + -
59C ASN* 3.6 35.7 - - + +
63C PHE* 3.6 16.3 - - + -
105C ILE* 4.0 10.1 - - + -
169C LYS 2.8 12.9 + - - +
170C GLN* 3.6 9.9 - - - +
171C SER 3.2 0.2 - - - -
172C PHE* 1.3 77.5 - - - +
174C GLY* 1.3 60.9 + - - +
176C ILE 3.4 0.3 + - - -
177C ILE* 3.1 29.4 + - - +
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Residues in contact with GLY 174 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105C ILE* 4.4 1.3 - - - +
171C SER 3.0 5.5 + - - -
173C ALA* 1.3 77.5 - - - +
175C ILE* 1.3 58.5 + - - +
177C ILE 3.3 0.7 + - - -
178C GLY 3.0 23.0 + - - -
216C PHE* 3.6 18.8 - - - -
219C PHE* 3.3 22.1 - - - -
754G TYR* 3.1 23.8 + - - -
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Residues in contact with ILE 175 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26C PHE* 4.1 2.0 - - + -
27C ILE* 4.0 13.7 - - + -
30C LEU* 3.6 27.8 - - + -
126C THR* 5.2 5.8 - - + -
171C SER* 3.1 21.4 + - - +
172C PHE* 3.6 12.3 - - + +
174C GLY* 1.3 72.0 - - - +
176C ILE* 1.3 67.6 + - - +
178C GLY* 3.2 1.7 + - - -
179C ASN* 3.2 21.8 + - - +
219C PHE* 4.0 12.7 - - + +
758G THR* 3.6 22.4 - - + +
761G ALA* 5.3 2.9 - - + -
762G MSE 3.9 45.1 - - + -
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Residues in contact with ILE 176 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27C ILE* 4.4 8.7 - - + -
30C LEU* 4.0 17.3 - - + -
31C GLN* 3.5 47.1 - - + +
34C PHE* 4.9 8.7 - - + -
63C PHE* 4.1 26.0 - - + -
172C PHE 2.8 29.3 + - - +
173C ALA* 3.6 7.0 - - - +
175C ILE* 1.3 77.0 - - - +
177C ILE* 1.3 64.2 + - - +
179C ASN* 3.3 7.3 + - - +
180C GLN* 3.0 46.3 + - + +
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Residues in contact with ILE 177 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62C ALA* 4.3 7.4 - - + +
63C PHE* 2.8 53.6 - - + +
66C ILE* 4.1 14.4 - - + -
105C ILE* 5.3 2.2 - - + -
173C ALA 3.1 16.9 + - - +
174C GLY 3.7 5.6 - - - +
175C ILE 3.2 0.2 - - - -
176C ILE* 1.3 78.2 - - - +
178C GLY* 1.3 64.6 + - - +
180C GLN* 3.1 10.7 + - + +
181C ILE* 3.0 28.8 + - + +
216C PHE* 3.8 39.5 - - + -
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Residues in contact with GLY 178 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174C GLY 3.0 11.7 + - - -
175C ILE* 3.2 3.1 + - - -
177C ILE* 1.3 78.8 - - - +
179C ASN* 1.3 55.7 + - - +
181C ILE* 3.3 6.3 + - - +
182C ARG* 2.8 39.0 + - - +
216C PHE* 3.4 35.2 - - - +
217C LEU* 3.9 2.9 - - - +
219C PHE* 5.5 0.2 - - - -
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Residues in contact with ASN 179 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24C GLN* 5.3 8.5 + - - +
27C ILE* 3.6 51.8 - - + +
31C GLN* 5.7 0.2 - - - +
175C ILE 3.2 5.5 + - - +
176C ILE 3.5 9.1 + - - +
178C GLY* 1.3 74.1 - - - +
180C GLN* 1.3 61.3 + - - +
182C ARG* 4.0 14.9 + - - +
183C THR* 2.7 58.9 + - - +
219C PHE 5.8 0.2 + - - -
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Residues in contact with GLN 180 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71A GLU* 5.1 8.6 + - - +
27C ILE* 5.5 0.2 - - - +
31C GLN* 3.9 19.4 + - - +
63C PHE* 5.9 5.8 - - + +
70C ARG* 3.7 25.8 + - - +
176C ILE* 3.0 40.4 + - + +
177C ILE* 3.1 16.1 + - + +
179C ASN* 1.3 84.0 - - - +
181C ILE* 1.3 63.7 + - - +
183C THR* 3.5 13.4 + - - -
184C ASP* 3.5 13.9 - - - +
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Residues in contact with ILE 181 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66C ILE* 4.1 9.6 - - + -
70C ARG* 3.8 25.1 - - + +
91C PHE* 5.6 2.7 - - + -
177C ILE* 3.0 22.7 + - + +
178C GLY* 3.6 5.6 - - - +
180C GLN* 1.3 77.3 - - - +
182C ARG* 1.3 65.5 + - - +
184C ASP* 3.0 18.5 + - - +
187C PHE* 3.8 29.2 - - + -
188C MSE 3.7 10.1 - - - +
213C LEU* 3.9 18.4 - - + -
216C PHE* 3.9 31.2 - - + -
217C LEU* 3.7 16.6 - - + -
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Residues in contact with ARG 182 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
178C GLY 2.8 22.5 + - - +
179C ASN* 3.6 15.2 + - - +
181C ILE* 1.3 79.7 - - - +
183C THR* 1.3 59.7 + - + +
184C ASP 3.2 3.3 + - - -
185C GLN* 5.7 0.5 - - - +
188C MSE 3.4 34.8 - - + +
216C PHE 3.6 10.9 + - - -
217C LEU* 3.1 37.1 + - + +
219C PHE 3.2 27.5 + - - -
220C ILE* 3.4 26.9 - - - +
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Residues in contact with THR 183 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24C GLN* 6.1 1.1 - - - +
179C ASN* 2.7 48.1 + - - +
180C GLN* 3.5 12.1 + - - -
181C ILE 3.2 0.2 - - - -
182C ARG* 1.3 79.1 - - + +
184C ASP* 1.3 56.6 + - - +
185C GLN* 3.4 15.5 + - - +
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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