Contacts of the helix formed by residues 192 - 222 (chain A) in PDB entry 1S13
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 THR 192 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
191A MET* 1.3 77.5 - - - +
193A PRO* 1.3 71.8 - - + +
194A ALA* 3.8 7.4 + - - +
195A VAL* 3.2 30.3 + - + +
196A ARG* 2.8 27.3 + - - +
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Residues in contact with PRO 193 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
191A MET 4.7 0.4 - - - +
192A THR* 1.3 90.0 - - + +
194A ALA* 1.3 61.1 + - - +
196A ARG* 3.2 9.2 + - + +
197A GLN* 2.9 39.0 + - + +
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Residues in contact with ALA 194 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
192A THR* 3.3 7.6 - - - +
193A PRO* 1.3 79.7 - - - +
195A VAL* 1.3 63.4 + - + +
197A GLN* 3.3 16.4 + - - +
198A ARG* 3.1 32.1 + - - +
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Residues in contact with VAL 195 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127A GLU* 3.8 32.3 - - + +
128A LEU* 5.1 1.8 - - + -
191A MET* 3.6 22.9 - - + -
192A THR* 3.2 25.2 + - + +
194A ALA* 1.3 74.1 - - + +
196A ARG* 1.3 67.3 + - - +
198A ARG* 3.2 26.1 + - - +
199A VAL* 2.9 35.4 + - + +
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Residues in contact with ARG 196 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10A PRO 3.5 4.2 + - - -
11A GLN* 2.6 38.0 + - - +
12A ASP 3.7 1.0 - - - -
13A LEU* 3.4 34.9 - - + +
16A ALA* 3.4 26.4 - - - +
191A MET* 3.9 24.7 - - + +
192A THR 2.8 16.6 + - - +
193A PRO* 3.5 9.0 - - + +
195A VAL* 1.3 77.7 - - - +
197A GLN* 1.3 62.6 + - + +
199A VAL* 3.3 3.2 + - - +
200A ILE* 3.1 30.7 + - + +
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Residues in contact with GLN 197 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
193A PRO* 2.9 35.0 + - + +
194A ALA* 3.6 16.2 - - - +
195A VAL 3.2 0.2 - - - -
196A ARG* 1.3 76.7 - - + +
198A ARG* 1.3 59.5 + - + +
200A ILE* 3.1 12.9 + - - +
201A GLU* 2.8 38.1 + - + +
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Residues in contact with ARG 198 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125A GLU* 3.7 22.7 + - - +
127A GLU* 3.6 26.5 + - - -
128A LEU* 3.6 22.6 - - + +
194A ALA* 3.1 19.7 + - - +
195A VAL* 3.7 26.9 - - - +
197A GLN* 1.3 78.0 - - + +
199A VAL* 1.3 52.9 + - - +
201A GLU* 3.3 10.6 + - + +
202A GLU* 2.7 36.0 + - - +
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Residues in contact with VAL 199 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13A LEU* 4.3 21.8 - - + -
17A LEU* 4.5 9.0 - - + -
127A GLU 3.5 24.7 - - - +
128A LEU* 3.7 10.8 - - + -
130A VAL* 4.4 11.4 - - + -
131A ALA* 3.4 21.8 - - + +
191A MET* 3.9 19.1 - - + -
195A VAL* 2.9 20.2 + - + +
196A ARG* 3.4 8.3 - - - +
197A GLN 3.2 0.2 - - - -
198A ARG* 1.3 75.4 - - - +
200A ILE* 1.3 63.4 + - - +
202A GLU* 3.3 3.1 + - - -
203A ALA* 3.1 19.4 + - - +
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Residues in contact with ILE 200 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13A LEU* 4.6 6.7 - - + -
16A ALA* 4.0 25.4 - - + +
17A LEU* 3.8 20.6 - - + -
20A ALA* 3.5 30.5 - - + -
21A THR* 5.0 0.8 - - + +
196A ARG* 3.1 26.6 + - + +
197A GLN* 3.1 10.2 + - - +
199A VAL* 1.3 74.3 - - - +
201A GLU* 1.3 70.4 + - - +
203A ALA* 3.2 12.6 + - - +
204A LYS* 3.2 20.7 + - - +
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Residues in contact with GLU 201 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
197A GLN* 2.8 25.8 + - + +
198A ARG* 3.3 11.6 + - + +
200A ILE* 1.3 80.4 - - - +
202A GLU* 1.3 58.0 + - - +
204A LYS* 2.9 33.3 + - - +
205A THR* 2.9 29.7 + - - +
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Residues in contact with GLU 202 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117A ARG* 2.9 43.9 + - - +
121A VAL* 4.4 0.7 - - - -
128A LEU* 3.7 24.7 - - + +
131A ALA* 3.7 9.8 - - + +
132A HIS* 2.8 37.3 + - + +
198A ARG 2.7 20.2 + - - +
199A VAL 3.5 6.1 - - - +
200A ILE 3.2 0.2 - - - -
201A GLU* 1.3 70.1 - - - +
203A ALA* 1.3 59.7 + - - +
205A THR* 3.3 15.2 + - - +
206A ALA* 2.9 28.1 + - - +
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Residues in contact with ALA 203 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17A LEU* 3.6 26.5 - - + -
21A THR* 3.8 14.8 - - + -
131A ALA* 3.9 8.0 - - + +
134A TYR* 4.8 3.4 - - + -
135A THR* 4.0 17.5 - - - +
199A VAL 3.1 6.7 + - - +
200A ILE 3.4 9.6 - - - +
201A GLU 3.2 0.4 - - - -
202A GLU* 1.3 76.5 - - - +
204A LYS* 1.3 62.1 + - - +
206A ALA* 3.3 3.1 + - - +
207A PHE* 3.0 31.0 + - - -
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Residues in contact with LYS 204 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20A ALA* 2.4 48.9 + - - +
21A THR* 4.8 5.4 - - + -
23A GLU* 5.2 7.0 + - - +
24A VAL* 4.5 17.3 - - + +
200A ILE* 3.5 14.6 - - + +
201A GLU* 2.9 38.5 + - - +
203A ALA* 1.3 75.5 - - - +
205A THR* 1.3 62.1 + - - +
207A PHE* 3.1 11.3 + - - +
208A LEU* 2.9 29.6 + - + +
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Residues in contact with THR 205 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117A ARG* 4.7 7.6 - - + +
201A GLU* 2.9 14.8 + - - +
202A GLU* 3.5 31.5 + - - +
204A LYS* 1.3 75.1 - - - +
206A ALA* 1.3 66.4 + - - +
208A LEU* 3.0 14.4 + - + +
209A LEU* 2.9 39.3 + - + +
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Residues in contact with ALA 206 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114A TYR* 4.7 3.4 - - - +
131A ALA 4.9 0.2 - - - +
132A HIS* 3.7 28.7 - - + -
135A THR* 3.7 26.9 - - + +
202A GLU 2.9 14.6 + - - +
203A ALA* 3.5 9.2 - - - +
204A LYS 3.2 0.2 - - - -
205A THR* 1.3 75.1 - - - +
207A PHE* 1.3 63.6 + - - +
209A LEU* 3.2 8.0 + - - +
210A ASN* 2.8 29.5 + - - -
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Residues in contact with PHE 207 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21A THR* 3.6 28.5 - - + -
24A VAL* 3.3 38.8 - - + +
25A HIS* 3.5 27.4 - + + -
28A ALA* 4.5 6.1 - - + -
134A TYR* 5.5 0.2 - + - -
135A THR* 4.1 16.2 - - + -
203A ALA 3.0 24.6 + - - -
204A LYS 3.1 9.2 + - - +
206A ALA* 1.3 80.0 - - - +
208A LEU* 1.3 63.9 + - - +
210A ASN* 3.0 10.6 + - - +
211A ILE* 2.8 26.4 + - + +
300A 2FH 3.3 55.0 - + + -
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Residues in contact with LEU 208 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24A VAL* 4.3 18.6 - - + -
27A GLN* 4.7 7.0 - - - +
204A LYS* 2.9 22.3 + - + +
205A THR* 3.0 14.6 + - + +
207A PHE* 1.3 74.7 - - - +
209A LEU* 1.3 63.4 + - + +
211A ILE* 3.1 18.7 + - + +
212A GLN* 3.0 34.8 + - - +
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Residues in contact with LEU 209 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110A ALA 5.1 3.4 - - - +
113A ARG* 4.3 10.1 - - + +
114A TYR* 3.8 50.7 - - + +
117A ARG* 4.0 29.6 - - + -
132A HIS* 4.3 6.5 - - - +
205A THR* 2.9 27.7 + - + +
206A ALA* 3.5 7.6 - - - +
207A PHE 3.2 0.2 - - - -
208A LEU* 1.3 76.1 - - + +
210A ASN* 1.3 57.7 + - - +
212A GLN* 3.5 25.4 - - - +
213A LEU* 3.1 26.3 + - - +
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Residues in contact with ASN 210 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57A ILE* 4.8 0.5 - - - +
114A TYR* 3.0 30.3 + - - -
136A ARG* 3.0 20.8 + - - -
206A ALA 2.8 24.4 + - - -
207A PHE* 3.0 8.6 + - - +
209A LEU* 1.3 73.6 - - - +
211A ILE* 1.3 66.9 + - - +
213A LEU* 3.3 12.4 + - - +
214A PHE* 3.0 37.8 + - + -
300A 2FH 3.3 44.5 - - + +
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Residues in contact with ILE 211 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24A VAL* 3.8 11.0 - - + +
27A GLN* 3.5 44.9 - - + +
28A ALA* 3.9 21.1 - - + +
31A ALA* 5.0 5.5 - - + +
207A PHE* 2.8 18.3 + - - +
208A LEU* 3.1 21.5 + - + +
210A ASN* 1.3 77.9 - - - +
212A GLN* 1.3 58.5 + - + +
214A PHE* 3.2 11.3 + - - +
215A GLU* 3.0 48.4 + - - +
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Residues in contact with GLN 212 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110A ALA* 4.1 3.0 - - + +
113A ARG* 2.5 39.7 + - - +
208A LEU* 3.0 27.3 + - - +
209A LEU* 3.5 30.1 - - - +
211A ILE* 1.3 74.4 - - + +
213A LEU* 1.3 65.1 + - - +
215A GLU* 3.6 16.8 - - + +
216A GLU* 3.0 24.3 + - - +
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Residues in contact with LEU 213 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53A SER* 3.7 34.1 - - - +
57A ILE* 4.0 20.0 - - + -
110A ALA* 3.7 27.1 - - + +
111A MET* 3.9 18.4 - - + +
114A TYR* 4.6 7.2 - - + -
209A LEU 3.1 19.0 + - - +
210A ASN* 3.4 11.9 - - - +
211A ILE 3.2 0.2 - - - -
212A GLN* 1.3 77.3 - - - +
214A PHE* 1.3 67.1 + - + +
216A GLU* 3.2 3.0 + - - +
217A LEU* 2.9 48.3 + - + +
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Residues in contact with PHE 214 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28A ALA* 4.7 4.9 - - + -
31A ALA* 4.2 24.0 - - + -
33A PHE* 3.5 30.1 - + + +
34A MET* 3.0 40.4 - - + -
50A VAL* 5.3 4.3 - - + -
136A ARG* 6.4 0.2 - - - -
210A ASN* 3.0 31.1 + - + -
211A ILE* 3.4 12.3 - - + +
213A LEU* 1.3 88.6 - - + +
215A GLU* 1.3 65.2 + - - +
217A LEU* 3.3 8.9 + - + +
218A GLN* 3.0 23.0 + - - +
300A 2FH 3.5 31.2 - - + -
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Residues in contact with GLU 215 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31A ALA* 5.3 8.1 - - + +
32A GLU 6.3 0.4 - - - +
211A ILE* 3.0 38.9 + - - +
212A GLN* 3.6 16.6 - - + +
213A LEU 3.2 0.2 - - - -
214A PHE* 1.3 78.2 - - + +
216A GLU* 1.3 62.8 - - - +
218A GLN* 3.1 17.3 + - - +
219A GLU* 3.2 23.3 + - - +
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Residues in contact with GLU 216 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108A THR* 2.5 32.9 + - - +
109A PRO* 3.4 17.4 - - - +
110A ALA* 2.7 39.0 + - + +
113A ARG* 4.2 4.9 + - - +
212A GLN 3.0 16.7 + - - +
213A LEU* 3.2 7.6 + - - +
215A GLU* 1.3 78.9 - - - +
217A LEU* 1.3 61.1 + - - +
219A GLU* 3.4 11.0 + - - +
220A LEU* 3.2 36.6 + - + +
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Residues in contact with LEU 217 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33A PHE* 4.5 16.2 - - + -
49A LEU* 4.1 24.1 - - + +
50A VAL* 4.0 25.4 - - + -
53A SER* 3.8 15.0 - - - +
111A MET* 4.2 14.8 - - + -
213A LEU* 2.9 44.1 + - + +
214A PHE* 3.7 9.9 - - + +
215A GLU 3.3 0.4 - - - -
216A GLU* 1.3 79.3 - - - +
218A GLN* 1.3 57.4 + - - +
220A LEU* 3.8 20.1 - - + +
221A LEU* 3.1 36.1 + - - +
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Residues in contact with GLN 218 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32A GLU* 3.4 37.3 + - + +
33A PHE* 3.1 36.8 - - + +
36A ASN* 3.8 8.2 + - - +
214A PHE 3.0 12.1 + - - +
215A GLU* 3.1 12.8 + - - +
217A LEU* 1.3 77.6 - - - +
219A GLU* 1.3 64.7 + - + +
220A LEU 3.2 0.2 - - - -
221A LEU* 3.6 6.4 + - - +
222A THR* 3.0 44.4 + - - +
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Residues in contact with GLU 219 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
215A GLU* 3.2 19.9 + - - +
216A GLU* 3.4 9.7 + - + +
218A GLN* 1.3 79.2 - - + +
220A LEU* 1.3 59.7 + - + +
222A THR* 2.8 29.6 - - - +
223A HIS* 4.3 10.2 + - - -
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Residues in contact with LEU 220 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49A LEU* 4.6 14.6 - - + -
108A THR* 3.9 28.3 - - + -
216A GLU* 3.2 34.2 + - + +
217A LEU* 3.8 22.9 - - + +
218A GLN 3.2 0.4 - - - -
219A GLU* 1.3 76.9 - - + +
221A LEU* 1.3 60.8 + - - +
222A THR 2.8 14.4 + - - -
223A HIS* 4.1 15.1 + - + +
----------------------------------------------------------
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Residues in contact with LEU 221 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33A PHE* 3.5 35.9 - - + -
43A THR* 4.1 12.3 - - + +
45A ASP* 4.0 8.7 - - + -
46A GLY* 3.5 25.8 - - - +
49A LEU* 3.5 24.9 - - + -
217A LEU* 3.1 19.1 + - + +
218A GLN* 3.6 8.9 + - - +
220A LEU* 1.3 78.9 - - - +
222A THR* 1.3 63.3 + - + +
223A HIS 4.0 1.4 + - - -
----------------------------------------------------------
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Residues in contact with THR 222 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
218A GLN* 3.0 37.5 + - - +
219A GLU* 2.8 21.4 + - - +
220A LEU 2.8 1.4 + - - -
221A LEU* 1.3 84.1 - - + +
223A HIS* 1.3 67.8 + - - +
----------------------------------------------------------
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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