Contacts of the helix formed by residues 157 - 183 (chain A) in PDB entry 1IL6
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 GLN 157 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105A ARG* 6.0 1.6 - - - +
156A ASN* 1.3 74.2 - - - +
158A TRP* 1.3 63.8 + - - +
160A GLN* 3.4 13.2 - - + +
161A ASP* 3.1 21.0 + - + +
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Residues in contact with TRP 158 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49A ASN* 5.1 7.2 - - + -
50A MET* 3.2 44.4 - - + +
58A LEU 6.1 0.9 - - - -
156A ASN* 3.0 7.9 - - + +
157A GLN* 1.3 76.1 - - - +
159A LEU* 1.3 79.5 + - + +
160A GLN 2.9 5.3 + - - -
161A ASP 3.1 11.1 + - - -
162A MET* 3.2 9.8 + - + +
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Residues in contact with LEU 159 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61A ASN* 2.8 47.6 - - - +
155A GLN* 3.3 41.5 + - + +
156A ASN* 3.3 16.8 + - + +
158A TRP* 1.3 90.7 - - + +
160A GLN* 1.3 58.8 + - - +
162A MET* 3.5 8.1 - - + +
163A THR* 2.7 27.8 + - - -
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Residues in contact with GLN 160 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101A TYR* 3.8 11.9 + - + +
105A ARG* 3.0 36.8 - - - +
152A LEU 3.4 20.2 - - - +
153A GLN* 3.4 30.9 + - - +
155A GLN 3.7 14.8 - - - +
156A ASN 2.9 11.4 + - - +
157A GLN* 3.4 15.1 - - + +
158A TRP 2.9 1.0 + - - -
159A LEU* 1.3 74.8 - - - +
161A ASP* 1.3 65.4 + - - +
162A MET 3.0 1.8 - - - -
163A THR* 3.1 21.3 + - - -
164A THR* 3.5 8.0 + - - -
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Residues in contact with ASP 161 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44A THR* 4.0 6.4 + - - -
48A SER* 2.9 46.8 + - - +
50A MET* 3.6 19.3 - - + +
105A ARG* 5.7 7.7 + - - +
157A GLN* 3.1 8.2 + - + +
158A TRP 3.1 3.1 + - - +
160A GLN* 1.3 79.1 - - - +
162A MET* 1.3 61.3 + - - +
164A THR* 3.7 7.7 + - - -
165A HIS* 3.5 15.6 + - - +
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Residues in contact with MET 162 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50A MET* 3.4 26.6 - - + -
59A ALA* 5.4 5.6 - - - -
61A ASN* 3.3 44.2 - - + +
62A ASN 4.6 1.6 - - - -
63A LEU* 3.5 17.5 - - + +
158A TRP* 3.2 7.8 + - + +
159A LEU* 3.5 13.9 - - - +
160A GLN 3.0 0.8 - - - -
161A ASP* 1.3 77.3 - - - +
163A THR* 1.3 79.0 + - - +
165A HIS* 2.8 27.3 + - - +
166A LEU* 3.1 34.5 + - + -
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Residues in contact with THR 163 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63A LEU* 3.2 29.7 - - + +
101A TYR* 3.4 27.6 - - + -
152A LEU* 3.6 26.6 + - + +
155A GLN* 4.4 5.2 + - - -
159A LEU 2.7 20.5 + - - -
160A GLN* 3.1 11.2 + - - -
162A MET* 1.3 90.6 - - - +
164A THR* 1.3 63.5 + - - +
167A ILE* 3.0 27.3 + - + +
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Residues in contact with THR 164 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44A THR* 3.6 23.1 - - + +
101A TYR* 4.0 14.7 - - - -
102A LEU* 3.1 28.7 - - + +
105A ARG* 4.4 15.6 + - + +
106A PHE* 4.9 3.1 - - + -
160A GLN 3.5 6.0 + - - -
161A ASP* 3.9 11.7 - - - -
162A MET 3.2 0.6 - - - -
163A THR* 1.3 78.6 - - - +
165A HIS* 1.3 63.8 + - - +
167A ILE* 3.5 11.4 + - - +
168A LEU* 3.0 33.1 + - + +
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Residues in contact with HIS 165 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41A ARG* 4.6 7.4 + - + -
44A THR* 4.9 9.4 + - - +
48A SER* 5.7 1.3 - - - +
50A MET* 3.5 13.4 + - + +
51A CYS* 3.4 43.3 + - + -
59A ALA* 3.2 34.9 - - + +
161A ASP 3.5 7.2 + - - +
162A MET* 2.8 20.3 + - - +
164A THR* 1.3 78.8 - - - +
166A LEU* 1.3 90.0 + - + +
167A ILE 2.9 1.2 + - - -
168A LEU* 2.9 21.2 + - - +
169A ARG* 3.0 25.8 + - + +
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Residues in contact with LEU 166 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59A ALA 4.8 8.5 - - - +
62A ASN* 4.4 13.7 - - - +
63A LEU* 3.9 24.2 - - + +
65A LEU* 4.7 12.1 - - + -
162A MET* 3.1 28.3 + - + -
165A HIS* 1.3 92.8 + - + +
167A ILE* 1.3 64.0 + - - +
169A ARG* 2.9 38.8 + - + +
170A SER* 3.0 15.1 + - - +
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Residues in contact with ILE 167 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37A ILE* 6.1 0.2 - - + -
63A LEU* 3.6 13.2 - - + -
65A LEU* 4.6 8.1 - - + -
98A TYR* 3.8 39.0 - - + +
101A TYR* 3.7 33.2 - - + -
102A LEU* 3.3 26.5 - - + -
163A THR* 3.0 26.3 + - + +
164A THR* 3.6 8.7 - - - +
165A HIS 2.9 1.0 + - - -
166A LEU* 1.3 78.0 - - - +
168A LEU* 1.3 63.0 + - + +
169A ARG 3.0 1.0 + - - -
170A SER* 3.1 9.2 + - - -
171A PHE* 3.1 32.4 + - + -
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Residues in contact with LEU 168 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37A ILE* 3.5 30.5 - - + +
40A LEU* 2.9 48.2 - - + +
41A ARG* 3.5 26.1 - - + -
44A THR* 3.2 18.6 - - + -
102A LEU* 4.4 15.5 - - + -
164A THR* 3.0 26.7 - - + +
165A HIS* 2.9 6.3 + - - +
167A ILE* 1.3 75.0 - - - +
169A ARG* 1.3 61.2 + - - +
170A SER 3.4 0.2 - - - -
171A PHE* 4.0 4.3 - - - -
172A LYS* 3.1 23.7 + - - +
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Residues in contact with ARG 169 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41A ARG* 4.4 15.2 - - - +
59A ALA* 6.2 0.4 - - - -
165A HIS* 3.0 22.9 + - - +
166A LEU* 2.9 41.7 + - + +
168A LEU* 1.3 78.0 - - - +
170A SER* 1.3 62.5 + - - +
172A LYS* 3.6 4.5 + - - +
173A GLU* 3.3 33.6 + - - +
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Residues in contact with SER 170 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65A LEU* 3.6 23.5 + - - +
66A PRO* 5.7 0.5 - - - +
95A PHE* 3.4 24.6 - - - -
166A LEU* 3.0 13.3 + - - +
167A ILE 3.8 3.8 - - - -
169A ARG* 1.3 75.6 - - - +
171A PHE* 1.3 60.7 + - - +
172A LYS 3.1 0.2 + - - -
173A GLU* 5.0 0.9 - - - -
174A PHE* 2.5 52.7 + - - +
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Residues in contact with PHE 171 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33A ILE* 3.7 7.2 - - + -
34A LEU* 3.1 2.6 - - - +
37A ILE* 3.7 28.3 - - + -
65A LEU* 5.5 0.7 - - + -
92A LEU* 5.5 0.4 - - + -
95A PHE* 2.9 52.5 - + + -
98A TYR* 4.9 1.1 - - + -
99A LEU* 3.5 35.2 - - + -
102A LEU* 6.3 0.2 - - + -
120A THR* 3.6 16.2 - - + -
167A ILE* 3.1 35.8 + - + +
168A LEU 4.0 1.8 - - - +
170A SER* 1.3 79.5 - - - +
172A LYS* 1.3 63.4 + - - +
175A LEU* 2.9 54.9 - - + +
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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
----------------------------------------------------------
34A LEU* 3.6 29.4 + - + +
37A ILE* 4.2 17.4 - - + +
38A SER* 4.0 25.0 + - - +
41A ARG* 4.2 30.5 - - - +
168A LEU 3.1 14.6 + - - +
169A ARG* 3.8 5.8 - - - +
170A SER 3.1 0.4 - - - -
171A PHE* 1.3 83.3 - - - +
173A GLU* 1.3 64.5 + - - +
176A GLN* 3.2 27.3 + - - +
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Residues in contact with GLU 173 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
169A ARG* 3.3 22.6 + - - +
170A SER* 3.2 2.3 + - - -
172A LYS* 1.3 77.0 - - - +
174A PHE* 1.3 70.8 + - - +
176A GLN* 2.6 32.5 + - + +
177A SER* 3.1 9.7 + - - +
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Residues in contact with PHE 174 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65A LEU 4.7 0.4 - - - -
66A PRO* 4.7 0.9 - - + -
67A LYS* 2.8 55.9 - - + -
68A MET* 3.5 37.1 - - + +
87A LYS 4.4 11.4 - - - -
88A ILE* 4.0 15.5 - - + -
91A GLY* 4.5 11.2 - - - -
92A LEU* 6.5 0.7 - - + -
95A PHE* 3.4 30.7 - + + -
170A SER* 2.5 37.3 + - - +
173A GLU* 1.3 74.7 - - - +
175A LEU* 1.3 64.3 + - + +
177A SER 3.4 1.0 + - - -
178A SER* 3.2 14.7 + - - -
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Residues in contact with LEU 175 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30A ILE* 3.3 28.3 - - + -
33A ILE* 3.1 44.0 - - + -
34A LEU* 3.2 16.2 - - + -
88A ILE* 6.3 0.2 - - + -
92A LEU* 4.2 16.2 - - + -
95A PHE* 4.6 6.3 - - + -
171A PHE* 2.9 45.9 + - + +
173A GLU 3.0 1.0 + - - -
174A PHE* 1.3 79.2 - - + +
176A GLN* 1.3 64.5 + - - +
178A SER* 2.8 18.6 + - - -
179A LEU* 2.9 16.1 - - - +
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Residues in contact with GLN 176 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34A LEU* 4.1 16.1 - - + +
172A LYS* 3.2 22.8 + - - +
173A GLU* 2.6 29.2 + - + +
175A LEU* 1.3 73.4 - - - +
177A SER* 1.3 61.8 + - - +
179A LEU* 2.9 23.0 + - + +
180A ARG* 3.3 22.0 + - - +
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Residues in contact with SER 177 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68A MET* 3.7 26.5 - - - -
74A CYS* 4.8 6.8 - - - +
75A PHE* 3.5 30.8 - - - -
173A GLU* 3.1 9.3 + - - +
174A PHE 3.8 2.5 - - - -
176A GLN* 1.3 78.9 - - - +
178A SER* 1.3 62.6 + - - +
180A ARG* 3.3 9.9 + - - +
181A ALA* 2.9 26.2 + - - +
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Residues in contact with SER 178 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26A ILE* 5.8 0.2 - - - +
30A ILE* 4.3 13.0 - - - +
68A MET* 4.0 0.8 - - - +
88A ILE* 3.2 49.0 - - - +
174A PHE* 3.2 5.0 + - - -
175A LEU* 2.8 22.3 + - - -
177A SER* 1.3 79.4 - - - +
179A LEU* 1.3 61.7 + - - +
181A ALA* 3.4 4.9 + - - +
182A LEU* 3.1 32.3 + - - +
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Residues in contact with LEU 179 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27A ASP* 2.7 56.4 - - - +
30A ILE* 3.0 33.7 - - + +
31A ARG* 3.8 21.1 - - + +
34A LEU* 5.3 2.7 - - + -
175A LEU* 2.9 31.8 + - + +
176A GLN* 2.9 12.3 + - - +
178A SER* 1.3 73.8 - - - +
180A ARG* 1.3 63.2 + - + +
181A ALA 3.0 5.2 + - - -
182A LEU* 3.1 1.6 + - - -
183A ARG* 3.1 20.2 + - - +
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Residues in contact with ARG 180 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79A PHE* 4.4 0.7 - - - -
176A GLN* 3.3 16.9 + - - +
177A SER* 3.3 12.0 + - - +
179A LEU* 1.3 79.4 - - + +
181A ALA* 1.3 57.7 + - - +
183A ARG* 3.9 8.2 - - + +
184A GLN* 3.1 36.0 + - + +
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Residues in contact with ALA 181 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74A CYS* 5.1 2.0 - - + +
79A PHE* 3.8 17.3 - - + -
84A CYS* 3.5 31.4 - - - -
88A ILE* 5.7 0.9 - - + -
177A SER 2.9 17.8 + - - +
178A SER* 3.6 6.3 - - - +
179A LEU 3.0 0.2 - - - -
180A ARG* 1.3 77.9 - - - +
182A LEU* 1.3 60.9 + - + +
183A ARG 3.2 0.4 - - - -
185A MET* 3.0 42.6 + - + +
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Residues in contact with LEU 182 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23A SER* 3.3 34.2 + - - +
26A ILE* 3.1 44.4 - - + -
27A ASP* 4.0 14.4 - - + +
30A ILE* 6.0 0.7 - - + -
85A LEU* 3.5 31.2 - - + -
88A ILE* 5.3 1.6 - - + -
127A LEU* 5.3 0.4 - - + -
130A LYS* 5.3 0.7 - - - +
178A SER* 3.1 36.2 + - - +
179A LEU* 3.1 5.2 + - - +
181A ALA* 1.3 78.1 - - + +
183A ARG* 1.3 61.3 + - - +
185A MET* 3.8 22.3 - - + +
----------------------------------------------------------
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Residues in contact with ARG 183 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24A GLU* 5.9 5.8 + - - +
27A ASP* 5.0 8.7 + - + +
179A LEU 3.1 15.6 + - - +
180A ARG* 4.3 7.4 - - - +
182A LEU* 1.3 79.0 - - - +
184A GLN* 1.3 63.8 + - + +
185A MET 3.3 6.6 + - - +
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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