Contacts of the helix formed by residues 164 - 187 (chain A) in PDB entry 1SL2
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 ASN 164 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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139A TYR* 3.0 23.5 + - - -
143A PHE* 3.8 18.2 - - - -
162A ASN* 3.5 13.1 + - - +
163A PHE* 1.3 89.4 - - - +
165A GLU* 1.3 59.2 + - - +
166A GLU* 2.9 18.2 + - - +
167A MET* 2.8 47.4 + - - +
168A MET 3.0 9.4 + - - -
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Residues in contact with GLU 165 (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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35A ARG* 3.3 38.9 + - - -
163A PHE* 3.5 17.5 - - + -
164A ASN* 1.3 70.3 - - - +
166A GLU* 1.3 59.1 + - - +
168A MET* 3.4 12.5 - - - +
169A ASP* 2.9 38.5 + - - +
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Residues in contact with GLU 166 (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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139A TYR* 4.2 12.8 - - + -
142A ASP* 6.2 2.7 - - + -
143A PHE* 5.8 2.7 - - + -
146A MET* 5.2 14.6 - - + -
164A ASN* 2.9 16.2 + - - +
165A GLU* 1.3 75.2 - - - +
167A MET* 1.3 64.4 + - - +
169A ASP* 3.2 9.2 + - - +
170A TYR* 3.1 33.5 + - + -
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Residues in contact with MET 167 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7A GLU* 3.8 23.5 - - + +
19A HIS* 3.5 40.2 - - + +
20A CYS* 4.1 1.6 - - - -
139A TYR* 3.4 15.4 - - + +
159A GLU 3.4 20.9 - - - +
160A TRP* 3.6 24.5 - - + -
162A ASN 3.3 22.7 - - - +
163A PHE* 4.0 10.1 - - - -
164A ASN* 2.8 18.8 + - - +
166A GLU* 1.3 74.5 - - - +
168A MET* 1.3 64.7 + - - +
170A TYR* 3.2 7.3 + - - +
171A ASN* 3.0 22.2 + - - +
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Residues in contact with MET 168 (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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20A CYS* 3.9 13.9 - - + -
21A GLY 3.8 8.1 - - - +
22A VAL* 3.5 31.9 - - + -
33A SER* 3.5 26.2 - - - +
34A TYR 4.1 0.7 - - - +
35A ARG* 4.1 22.7 - - - +
163A PHE* 3.8 20.4 - - + -
164A ASN 3.0 6.6 + - - +
165A GLU* 3.4 35.7 - - - +
167A MET* 1.3 77.9 - - - +
169A ASP* 1.3 65.4 + - - +
171A ASN* 3.2 13.0 + - - +
172A VAL* 3.1 24.1 + - + +
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Residues in contact with ASP 169 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165A GLU* 2.9 27.8 + - - +
166A GLU* 3.2 8.9 + - - +
168A MET* 1.3 81.2 - - - +
170A TYR* 1.3 62.2 - - + +
172A VAL* 3.4 10.0 + - - +
173A GLN* 3.1 21.3 + - - +
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Residues in contact with TYR 170 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7A GLU* 3.9 8.1 - - - +
135A MET* 3.8 34.8 - - + -
138A GLU* 3.5 17.3 + - + +
139A TYR* 3.6 42.4 - + + -
142A ASP* 3.0 38.1 + - + -
166A GLU* 3.1 26.2 + - + -
167A MET* 3.2 9.8 + - - +
169A ASP* 1.3 75.0 - - + +
171A ASN* 1.3 56.2 + - - +
173A GLN* 3.1 20.2 + - - +
174A ASP* 2.8 38.8 + - - +
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Residues in contact with ASN 171 (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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5A ASP* 3.0 41.7 + - - +
6A ILE 4.0 0.4 - - - +
7A GLU* 3.4 20.0 + - + +
20A CYS* 3.3 10.6 - - - -
21A GLY* 3.0 34.5 + - - -
22A VAL* 3.4 13.2 - - + +
167A MET 3.0 13.2 + - - +
168A MET* 3.2 11.4 - - + +
170A TYR* 1.3 76.2 - - - +
172A VAL* 1.3 61.9 + - - +
174A ASP* 3.2 10.4 + - - +
175A VAL* 3.2 13.0 + - - +
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Residues in contact with VAL 172 (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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22A VAL* 3.7 17.5 - - + -
31A TYR* 4.9 16.2 - - + -
33A SER* 3.7 22.0 - - - +
168A MET* 3.1 16.4 + - + +
169A ASP* 3.7 11.4 - - - +
170A TYR 3.2 0.2 - - - -
171A ASN* 1.3 75.8 - - - +
173A GLN* 1.3 62.8 + - - +
175A VAL* 3.3 4.0 + - - +
176A VAL* 3.1 31.7 + - + +
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Residues in contact with GLN 173 (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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131A ARG* 5.4 8.1 - - - +
135A MET* 3.6 28.6 - - - +
138A GLU* 4.9 0.7 - - - +
169A ASP 3.1 14.7 + - - +
170A TYR* 3.1 22.5 + - - +
172A VAL* 1.3 78.3 - - - +
174A ASP* 1.3 61.5 + - - +
176A VAL* 2.6 35.8 - - + +
177A VAL* 2.9 17.6 + - + +
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Residues in contact with ASP 174 (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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5A ASP* 3.1 33.7 - - + +
7A GLU* 3.5 14.9 - - - +
132A LEU* 3.6 17.6 - - + +
135A MET* 2.9 39.7 - - - +
170A TYR* 2.8 17.0 + - - +
171A ASN 3.2 3.8 + - - +
173A GLN* 1.3 74.5 - - - +
175A VAL* 1.3 54.3 + - - +
177A VAL* 5.1 0.2 - - - -
178A THR* 2.6 39.4 + - - +
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Residues in contact with VAL 175 (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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3A VAL* 3.7 27.9 - - + +
4A SER 4.1 1.1 - - - -
5A ASP* 3.8 20.0 - - + +
22A VAL* 3.6 34.1 - - + +
24A TYR* 3.7 23.3 - - + +
31A TYR* 4.0 7.9 - - + -
171A ASN 3.2 13.2 + - - +
172A VAL 3.8 5.6 - - - +
173A GLN 3.2 0.6 - - - -
174A ASP* 1.3 73.5 - - - +
176A VAL* 1.3 61.4 + - - +
178A THR* 3.8 5.1 - - - -
179A LYS* 2.9 28.2 + - - +
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Residues in contact with VAL 176 (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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31A TYR* 3.7 34.1 - - + +
172A VAL* 3.1 22.1 + - + +
173A GLN* 2.6 36.6 - - + +
175A VAL* 1.3 77.0 - - - +
177A VAL* 1.3 74.3 + - + +
179A LYS* 3.4 3.3 + - - +
180A ALA* 3.1 21.1 + - - +
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Residues in contact with VAL 177 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128A TRP* 3.5 54.7 - - + +
131A ARG* 4.6 13.0 - - + -
132A LEU* 3.6 17.5 - - + -
135A MET* 6.0 2.2 - - + -
173A GLN* 2.9 25.9 + - + +
174A ASP* 3.9 2.9 - - - +
176A VAL* 1.3 86.4 - - + +
178A THR* 1.3 54.9 + - - +
180A ALA* 3.1 7.7 + - - +
181A LEU* 2.8 32.4 + - - +
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Residues in contact with THR 178 (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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3A VAL* 3.6 20.9 - - + -
4A SER 5.2 2.4 + - - +
5A ASP* 5.7 1.9 - - - +
57A VAL* 4.4 4.3 - - + +
58A PHE* 4.5 1.1 - - - -
59A HIS* 3.8 17.7 + - + +
91A THR* 3.7 25.5 - - + +
132A LEU* 3.6 19.5 - - - +
174A ASP* 2.6 27.4 + - - +
175A VAL* 3.8 4.9 - - - -
177A VAL* 1.3 76.4 - - - +
179A LYS* 1.3 58.3 + - - +
181A LEU* 3.3 7.3 + - - +
182A LEU* 2.8 28.2 + - - +
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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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3A VAL* 4.1 14.3 - - + +
24A TYR* 3.4 46.9 - - + -
26A TYR* 3.4 15.9 - - + +
31A TYR* 3.8 16.1 + - - +
175A VAL* 2.9 18.8 + - + +
176A VAL* 3.5 5.4 - - - +
178A THR* 1.3 76.8 - - - +
180A ALA* 1.3 64.3 + - - +
182A LEU* 3.4 7.4 + - - +
183A GLU* 3.1 52.7 + - - +
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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
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128A TRP* 4.0 30.8 + - + +
176A VAL 3.1 10.5 + - - +
177A VAL* 3.1 10.2 + - - +
179A LYS* 1.3 78.1 - - - +
181A LEU* 1.3 64.9 + - - +
183A GLU* 3.5 7.6 + - - +
184A LYS* 3.1 23.4 + - - +
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Residues in contact with LEU 181 (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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59A HIS* 3.6 35.4 - - + +
91A THR* 3.7 13.2 - - + +
95A SER* 3.6 20.9 - - - +
99A HIS* 5.8 0.2 - - - +
126A GLU* 3.8 18.2 - - + +
128A TRP* 3.6 25.7 - - + -
129A GLY* 4.4 5.4 - - - +
132A LEU* 4.0 7.9 - - + -
177A VAL 2.8 20.6 + - - +
178A THR* 3.5 6.1 - - - +
180A ALA* 1.3 70.7 - - - +
182A LEU* 1.3 64.8 + - - +
184A LYS* 3.0 9.1 + - + +
185A LEU* 2.9 33.5 + - + +
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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
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1A MET* 3.8 25.6 - - + -
3A VAL* 4.4 7.4 - - + -
26A TYR* 3.7 24.9 - - + +
57A VAL* 4.1 22.7 - - + -
89A ILE* 4.5 4.9 - - + -
91A THR* 3.8 23.0 - - + +
94A LEU* 4.5 12.8 - - + -
178A THR 2.8 18.2 + - - +
179A LYS 3.4 3.4 - - - +
181A LEU* 1.3 75.6 - - - +
183A GLU* 1.3 57.4 + - - +
185A LEU* 3.1 6.5 + - - +
186A LEU* 2.8 53.3 + - + +
206A PHE* 5.8 1.1 - - + -
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Residues in contact with GLU 183 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26A TYR* 2.7 35.6 + - + +
179A LYS* 3.1 41.1 + - - +
180A ALA* 4.1 6.2 - - - +
182A LEU* 1.3 73.0 - - + +
184A LYS* 1.3 63.7 + - - +
186A LEU* 3.7 8.8 - - - +
187A SER* 3.1 23.7 + - - -
199A THR* 4.7 11.2 - - + +
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Residues in contact with LYS 184 (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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99A HIS* 4.7 15.9 + - + +
126A GLU* 2.7 40.1 + - - +
127A ALA* 4.7 4.9 - - - +
128A TRP* 3.6 24.1 - - + +
180A ALA 3.1 12.7 + - - +
181A LEU* 3.0 13.6 + - + +
183A GLU* 1.3 78.0 - - - +
185A LEU* 1.3 61.9 + - + +
187A SER* 2.6 25.4 + - - +
188A ASP* 3.9 2.9 + - - +
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Residues in contact with LEU 185 (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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91A THR* 3.6 12.8 - - + +
94A LEU* 3.4 42.4 - - + -
95A SER* 3.5 26.0 - - - +
98A ILE* 4.0 23.8 - - + +
99A HIS* 3.9 24.9 - - + +
181A LEU* 2.9 28.3 + - + +
182A LEU 3.1 6.3 + - - +
184A LYS* 1.3 78.6 - - + +
186A LEU* 1.3 61.8 + - - +
188A ASP* 3.1 23.1 + - - +
192A PHE* 3.6 10.4 - - - -
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Residues in contact with LEU 186 (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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1A MET* 5.1 1.8 - - - -
94A LEU* 5.1 1.8 - - + -
182A LEU* 2.8 41.3 + - + +
183A GLU* 3.8 8.1 - - + +
184A LYS 3.3 0.2 - - - -
185A LEU* 1.3 76.0 - - - +
187A SER* 1.3 60.1 + - - +
188A ASP 3.1 1.8 + - - -
192A PHE* 3.6 59.5 - - + +
198A PHE* 3.9 24.4 - - + +
199A THR* 3.7 29.6 - - + -
206A PHE* 4.2 8.7 - - + -
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Residues in contact with SER 187 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183A GLU 3.1 13.0 + - - -
184A LYS* 2.6 24.9 + - - +
186A LEU* 1.3 75.3 - - - +
188A ASP* 1.3 59.0 + - - +
189A LYS* 3.0 11.0 + - - +
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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
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Atomic class I II III IV V VI VII VIII
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I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
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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