Contacts of the helix formed by residues 171 - 201 (chain A) in PDB entry 4I1Q
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 ALA 171 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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168A ALA 5.3 0.4 + - - -
169A LYS* 3.4 17.6 - - + +
170A THR* 1.3 77.9 - - - +
172A LYS* 1.3 50.4 + - - +
173A ALA 3.6 0.2 - - - -
174A GLU* 3.2 13.6 + - - +
175A GLU* 2.7 57.4 + - - +
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Residues in contact with LYS 172 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
169A LYS* 3.1 43.1 - - + +
170A THR* 2.9 9.1 - - + +
171A ALA* 1.3 75.2 - - + +
173A ALA* 1.3 61.0 + - - +
174A GLU 3.2 1.1 - - - -
175A GLU* 3.9 8.8 - - + +
176A GLU* 3.4 31.8 + - - +
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Residues in contact with ALA 173 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
155A HIS 4.7 0.2 - - - +
156A LEU* 3.2 20.9 - - + +
159A VAL* 4.7 17.5 - - + -
170A THR* 4.0 19.2 + - + +
172A LYS* 1.3 75.8 - - - +
174A GLU* 1.3 60.5 + - - +
176A GLU* 3.9 10.3 - - - +
177A PHE* 2.9 44.1 - - + +
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Residues in contact with GLU 174 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156A LEU* 4.3 16.6 - - + -
170A THR 3.8 9.6 + - - +
171A ALA* 3.2 18.9 + - - +
173A ALA* 1.3 78.6 - - - +
175A GLU* 1.3 59.9 + - - +
177A PHE* 5.2 0.4 - - - -
178A ASN* 2.9 41.5 + - - +
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Residues in contact with GLU 175 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171A ALA* 2.7 52.3 + - - +
172A LYS* 3.9 11.4 - - + +
173A ALA 3.6 0.4 - - - -
174A GLU* 1.3 73.8 - - - +
176A GLU* 1.3 63.1 + - + +
178A ASN* 3.8 6.0 - - - +
179A LYS* 3.3 23.9 + - - +
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Residues in contact with GLU 176 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
172A LYS 3.4 19.7 + - - +
173A ALA* 3.9 3.8 - - - +
174A GLU 3.3 0.2 - - - -
175A GLU* 1.3 81.1 - - + +
177A PHE* 1.3 93.0 + - + +
179A LYS* 2.9 8.5 + - - +
180A ALA* 2.8 27.9 + - - +
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Residues in contact with PHE 177 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149A TYR* 5.3 1.7 - - - -
152A ALA* 3.1 56.3 - - + +
153A ARG 5.0 0.2 - - - +
155A HIS* 3.6 17.9 - - + -
156A LEU* 3.2 35.4 - - + -
173A ALA* 2.9 31.8 + - + +
174A GLU* 4.7 0.4 - - - +
176A GLU* 1.3 106.8 - - + +
178A ASN* 1.3 63.8 + - - +
179A LYS 3.4 0.2 - - - -
180A ALA* 4.2 3.1 - - + +
181A GLN* 3.9 19.2 + - - +
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Residues in contact with ASN 178 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174A GLU* 2.9 26.8 + - - +
175A GLU* 3.8 7.1 - - - +
177A PHE* 1.3 78.1 - - - +
179A LYS* 1.3 56.2 + - - +
181A GLN* 3.2 28.1 + - - +
182A THR* 3.1 18.9 - - - +
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Residues in contact with LYS 179 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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175A GLU 3.3 12.2 + - - +
176A GLU* 2.9 12.0 + - - +
178A ASN* 1.3 78.4 - - - +
180A ALA* 1.3 56.6 + - - +
182A THR* 3.2 12.0 - - + +
183A VAL* 2.8 65.5 + - + +
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Residues in contact with ALA 180 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145A LYS 4.3 2.4 - - - +
148A ASP* 3.7 34.5 - - + +
149A TYR* 4.2 4.9 - - + -
152A ALA* 4.0 14.4 - - + -
176A GLU 2.8 18.7 + - - +
177A PHE* 4.3 3.4 - - + +
179A LYS* 1.3 73.6 - - - +
181A GLN* 1.3 56.8 + - - +
183A VAL* 3.7 7.7 - - - +
184A PHE* 3.0 29.5 + - - +
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Residues in contact with GLN 181 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149A TYR* 2.9 42.4 + - + +
177A PHE 3.9 12.6 + - - +
178A ASN* 3.2 25.1 + - - +
180A ALA* 1.3 75.1 - - - +
182A THR* 1.3 68.3 + - - +
184A PHE* 4.5 0.7 - - - +
185A GLU* 2.8 47.1 + - + +
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Residues in contact with THR 182 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
178A ASN 3.1 18.6 - - - +
179A LYS* 3.2 20.9 - - + +
181A GLN* 1.3 85.6 - - - +
183A VAL* 1.3 62.5 + - + +
185A GLU* 4.7 4.7 - - - -
186A ASP* 2.9 43.9 + - - +
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Residues in contact with VAL 183 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145A LYS* 3.3 36.8 - - + +
148A ASP* 5.9 1.3 - - + +
179A LYS* 2.8 46.0 + - + +
180A ALA* 3.7 6.5 - - - +
182A THR* 1.3 80.8 - - + +
184A PHE* 1.3 60.8 + - - +
186A ASP* 4.1 5.1 - - - +
187A LEU* 3.7 21.8 + - + +
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Residues in contact with PHE 184 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40A ASP* 4.8 9.4 - - + -
142A ARG* 3.4 54.3 - - + -
145A LYS* 3.4 28.5 - - + +
146A LEU* 3.4 42.8 - - + -
149A TYR* 3.9 26.0 - + + -
180A ALA 3.0 13.9 + - - +
181A GLN 4.3 0.9 - - - +
183A VAL* 1.3 75.7 - - - +
185A GLU* 1.3 67.4 + - + +
187A LEU* 3.4 2.0 + - - +
188A ASN* 2.8 46.1 + - + +
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Residues in contact with GLU 185 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39A LYS* 5.6 6.8 - - - +
149A TYR* 4.2 15.8 + - - +
181A GLN* 2.8 40.7 + - + +
182A THR* 4.4 4.2 - - - +
183A VAL 3.5 0.2 - - - -
184A PHE* 1.3 83.1 - - + +
186A ASP* 1.3 55.3 + - - +
188A ASN* 3.6 9.0 + - - +
189A GLN* 2.8 35.4 + - - +
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Residues in contact with ASP 186 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182A THR* 2.9 31.2 + - - +
183A VAL* 4.1 5.8 - - - +
185A GLU* 1.3 77.2 - - - +
187A LEU* 1.3 53.8 - - - +
189A GLN* 3.3 8.0 + - - +
190A GLU* 2.8 34.6 + - - +
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Residues in contact with LEU 187 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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138A ARG* 3.8 23.3 - - + +
141A LYS* 3.3 35.0 - - + -
142A ARG* 3.4 28.5 - - + -
145A LYS* 4.3 16.4 - - + -
183A VAL* 3.7 16.7 + - + +
184A PHE* 3.4 4.6 + - - +
185A GLU 3.3 0.4 - - - -
186A ASP* 1.3 75.3 - - + +
188A ASN* 1.3 68.2 + - - +
189A GLN 3.0 1.1 + - - -
190A GLU* 3.3 13.8 + - + +
191A LEU* 3.3 26.1 + - + +
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Residues in contact with ASN 188 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39A LYS* 3.7 24.1 + - - +
40A ASP* 5.0 0.4 - - - +
42A ARG* 5.3 1.2 - - - +
43A PHE* 3.9 10.2 - - - +
142A ARG* 2.8 44.4 + - - +
184A PHE* 2.8 36.1 + - + +
185A GLU* 3.6 8.9 + - - +
187A LEU* 1.3 77.0 - - - +
189A GLN* 1.3 62.8 + - - +
191A LEU* 3.5 4.8 + - - +
192A LEU* 3.2 39.6 + - - +
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Residues in contact with GLN 189 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42A ARG* 4.8 6.9 + - - -
185A GLU 2.8 19.3 + - - +
186A ASP* 3.3 10.1 - - - +
187A LEU 3.0 0.2 - - - -
188A ASN* 1.3 75.5 - - - +
190A GLU* 1.3 67.6 + - - +
192A LEU* 3.0 29.4 + - - +
193A GLU* 3.2 41.9 + - - +
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Residues in contact with GLU 190 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138A ARG* 4.2 15.3 + - - -
186A ASP* 2.8 21.3 + - - +
187A LEU* 3.5 16.1 - - + +
189A GLN* 1.3 70.5 - - - +
191A LEU* 1.3 58.4 + - + +
193A GLU* 2.8 31.9 + - - +
194A GLU* 3.0 42.9 + - + +
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Residues in contact with LEU 191 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43A PHE* 4.0 11.4 - - + -
135A ILE* 4.8 6.5 - - + -
138A ARG* 4.0 22.9 - - + +
139A ILE* 4.0 24.9 - - + -
142A ARG* 3.8 33.9 - - + -
187A LEU* 3.3 16.5 + - + +
188A ASN 3.7 8.1 - - - +
189A GLN 3.2 0.6 - - - -
190A GLU* 1.3 73.7 - - + +
192A LEU* 1.3 58.7 + - - +
193A GLU 3.0 5.2 - - - -
194A GLU* 3.8 17.9 - - + +
195A LEU* 3.0 58.5 + - + +
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Residues in contact with LEU 192 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39A LYS 4.2 0.9 - - - +
42A ARG* 3.7 42.8 - - + +
43A PHE* 3.3 43.3 - - + +
46A SER* 5.0 7.1 + - - +
188A ASN* 3.2 40.5 + - - +
189A GLN* 3.0 25.6 + - - +
191A LEU* 1.3 76.0 - - - +
193A GLU* 1.3 59.9 + - + +
196A PRO* 3.5 20.3 - - - +
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Residues in contact with GLU 193 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
189A GLN* 3.2 42.2 + - - +
190A GLU* 2.8 19.7 + - - +
192A LEU* 1.3 83.6 - - - +
194A GLU* 1.3 63.9 + - + +
195A LEU 3.6 0.2 - - - -
196A PRO* 3.8 7.2 - - - +
197A ILE* 3.2 30.5 - - + +
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Residues in contact with GLU 194 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135A ILE* 4.7 12.6 - - + +
138A ARG* 2.6 34.3 + - - -
190A GLU* 3.0 43.6 + - + +
191A LEU* 3.3 14.6 + - + +
193A GLU* 1.3 80.7 - - + +
195A LEU* 1.3 66.9 + - - +
197A ILE* 3.1 8.8 + - - +
198A LEU* 3.0 25.7 + - - +
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Residues in contact with LEU 195 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43A PHE* 4.6 9.9 - - + -
46A SER* 3.9 37.2 - - - +
47A ALA* 4.2 7.4 - - - +
50A PHE* 4.2 20.3 - - + +
53A GLN* 5.2 0.3 - - - +
135A ILE* 3.6 36.3 - - + -
139A ILE* 4.4 11.4 - - + -
191A LEU* 3.0 36.5 + - + +
194A GLU* 1.3 77.8 - - - +
196A PRO* 1.3 62.1 - - + +
198A LEU* 3.4 5.5 + - + +
199A TYR* 2.8 31.1 + - - +
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Residues in contact with PRO 196 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46A SER* 4.0 16.4 - - - +
192A LEU 3.5 26.7 - - - +
193A GLU* 3.8 7.2 - - - +
194A GLU 3.8 0.4 - - - -
195A LEU* 1.3 93.1 - - + +
197A ILE* 1.3 68.4 + - + +
199A TYR* 4.0 7.9 - - + -
200A ASN* 2.9 41.2 + - - +
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Residues in contact with ILE 197 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
193A GLU* 3.2 23.8 - - + +
194A GLU* 3.1 11.0 + - - +
196A PRO* 1.3 81.2 - - + +
198A LEU* 1.3 63.0 + - + +
200A ASN* 4.0 6.0 - - - +
201A SER* 3.2 19.6 + - - -
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Residues in contact with LEU 198 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50A PHE* 4.1 15.9 - - + -
53A GLN* 2.8 30.0 + - - +
128A TYR* 5.3 0.7 - - + -
131A GLN* 4.0 33.9 - - + +
132A PHE* 4.5 11.7 - - + -
135A ILE* 3.8 34.8 - - + -
194A GLU 3.0 15.0 + - - +
195A LEU* 3.9 5.6 - - + +
197A ILE* 1.3 79.4 - - + +
199A TYR* 1.3 64.6 + - - +
201A SER* 2.7 29.7 + - - +
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Residues in contact with TYR 199 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46A SER 6.0 0.4 - - - +
49A ASN* 3.5 56.7 + - + -
50A PHE* 5.5 2.0 - - - +
52A GLN* 2.4 38.4 + - - -
53A GLN* 3.5 19.2 + - + +
195A LEU 2.8 22.0 + - - +
196A PRO* 3.7 7.6 - - + +
198A LEU* 1.3 72.6 - - - +
200A ASN* 1.3 70.9 - - - +
202A ARG* 2.9 74.8 + - - +
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Residues in contact with ASN 200 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
196A PRO* 2.9 29.4 + - - +
197A ILE* 4.0 5.6 - - - +
199A TYR* 1.3 86.0 - - - +
201A SER* 1.3 57.6 + - - +
202A ARG* 3.0 17.8 + - - +
203A ILE* 3.4 22.9 + - + +
204A GLY 4.6 0.5 + - - -
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Residues in contact with SER 201 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128A TYR* 4.3 9.6 - - - -
131A GLN* 5.2 1.6 + - - -
197A ILE* 3.2 14.4 + - - -
198A LEU* 2.7 32.3 + - - +
200A ASN* 1.3 72.7 - - - +
202A ARG* 1.3 64.5 + - - +
203A ILE 3.1 1.1 + - - -
204A GLY* 3.6 4.5 + - - +
205A CYS* 3.4 19.1 + - - +
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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