Contacts of the helix formed by residues 186 - 213 (chain A) in PDB entry 1IW1
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 SER 186 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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185A LEU* 1.3 76.2 - - - +
187A ASP* 1.3 65.8 + - - +
188A GLU* 3.4 8.6 + - - +
189A GLN* 2.9 38.2 + - - +
190A ARG* 2.9 21.9 + - - +
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Residues in contact with ASP 187 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
185A LEU 5.5 0.3 - - - +
186A SER* 1.3 74.1 - - - +
188A GLU* 1.3 58.5 + - + +
190A ARG* 3.3 10.6 + - - +
191A GLU* 2.9 30.2 + - - +
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Residues in contact with GLU 188 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
186A SER* 3.2 8.1 + - - +
187A ASP* 1.3 79.1 - - + +
189A GLN* 1.3 59.5 + - + +
191A GLU* 3.4 13.6 + - - +
192A HIS* 3.0 29.9 + - - +
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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
----------------------------------------------------------
68A PHE* 4.2 13.9 - - - -
123A PRO* 3.7 32.5 - - + +
184A GLU 4.0 4.2 - - - +
185A LEU* 3.4 17.1 - - + -
186A SER* 2.9 39.9 + - - +
188A GLU* 1.3 77.6 - - + +
190A ARG* 1.3 58.0 + - - +
192A HIS* 3.3 7.2 + - - +
193A LEU* 2.9 30.1 + - - +
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Residues in contact with ARG 190 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4A ALA* 3.2 27.8 + - - +
7A GLY* 3.4 4.8 + - - -
8A LEU* 3.4 45.7 - - + +
11A GLU* 2.5 30.1 + - - -
185A LEU* 4.2 20.8 - - + +
186A SER 2.9 16.5 + - - +
187A ASP* 3.7 11.0 - - - +
189A GLN* 1.3 76.6 - - - +
191A GLU* 1.3 62.7 + - - +
193A LEU* 3.2 3.5 + - - +
194A LEU* 2.9 40.1 + - + +
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Residues in contact with GLU 191 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187A ASP 2.9 17.8 + - - +
188A GLU* 3.7 12.3 - - - +
190A ARG* 1.3 77.8 - - - +
192A HIS* 1.3 62.7 + - - +
194A LEU* 3.4 9.5 + - - +
195A LYS* 3.0 60.4 + - + +
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Residues in contact with HIS 192 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112A ARG* 4.0 19.3 - - - -
121A ASP* 2.7 41.8 + - - -
123A PRO* 4.1 12.1 - - + -
124A ALA* 3.8 7.0 - - + +
188A GLU 3.0 17.1 + - - +
189A GLN* 3.5 7.2 - - - +
190A ARG 3.2 0.2 - - - -
191A GLU* 1.3 73.5 - - - +
193A LEU* 1.3 61.3 - - - +
195A LYS* 3.4 8.2 + - - +
196A GLU* 2.9 36.1 + - - +
462B HIS* 6.3 0.4 - - - -
464B GLU* 5.7 3.5 + - - -
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Residues in contact with LEU 193 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8A LEU* 4.2 13.7 - - + -
12A LEU* 3.7 34.1 - - + -
123A PRO* 3.4 34.3 - - + +
126A VAL* 3.8 22.0 - - + -
127A ALA* 3.3 15.0 - - + +
183A LEU* 4.9 1.6 - - + -
185A LEU* 3.8 25.8 - - + -
189A GLN 2.9 15.3 + - - +
190A ARG* 3.2 5.8 + - - +
192A HIS* 1.3 76.8 - - - +
194A LEU* 1.3 64.4 + - - +
196A GLU* 3.2 1.3 + - - -
197A ALA* 2.9 19.6 + - - +
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Residues in contact with LEU 194 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8A LEU* 4.3 8.7 - - + -
11A GLU* 3.5 37.5 - - + +
12A LEU* 3.9 42.8 - - + +
15A SER* 4.3 18.5 + - - +
16A THR* 4.9 1.2 - - - +
190A ARG* 2.9 32.9 + - + +
191A GLU* 3.9 7.6 - - - +
193A LEU* 1.3 78.6 - - + +
195A LYS* 1.3 62.7 + - + +
197A ALA* 3.3 12.6 + - - +
198A THR* 3.3 14.4 + - - -
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Residues in contact with LYS 195 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
191A GLU* 3.0 50.5 + - + +
192A HIS* 3.9 7.9 - - - +
194A LEU* 1.3 76.8 - - + +
196A GLU* 1.3 64.1 + - - +
198A THR* 3.3 8.8 + - - -
199A ASP* 3.1 27.3 + - - +
464B GLU* 4.4 25.1 + - + +
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Residues in contact with GLU 196 (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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112A ARG* 2.8 47.0 + - - +
124A ALA* 3.7 21.9 - - + +
127A ALA* 3.7 6.1 - - + -
128A HIS* 2.8 39.0 + - + +
192A HIS* 2.9 22.8 + - + +
193A LEU 3.2 4.5 + - - +
195A LYS* 1.3 78.1 - - - +
197A ALA* 1.3 56.4 + - - +
199A ASP* 3.1 17.9 + - - +
200A ALA* 2.8 27.5 + - - +
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Residues in contact with ALA 197 (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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12A LEU* 3.5 31.4 - - + -
16A THR* 3.7 12.1 - - + -
127A ALA* 3.6 13.4 - - + +
131A VAL* 3.8 13.2 - - + +
193A LEU 2.9 12.3 + - - +
194A LEU 3.6 4.7 - - - +
195A LYS 3.2 0.4 - - - -
196A GLU* 1.3 74.5 - - - +
198A THR* 1.3 65.3 + - - +
200A ALA* 3.3 3.8 + - - +
201A PHE* 3.2 27.2 + - - -
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Residues in contact with THR 198 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15A SER* 3.9 20.3 + - - -
16A THR* 4.0 10.2 - - - +
19A ALA* 4.4 12.5 - - + +
194A LEU 3.3 8.3 + - - -
195A LYS* 3.3 11.5 + - - -
197A ALA* 1.3 79.4 - - - +
199A ASP* 1.3 66.2 + - - +
201A PHE* 3.1 7.4 + - - +
202A VAL* 3.0 32.4 + - + +
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Residues in contact with ASP 199 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112A ARG* 5.8 0.5 + - - -
195A LYS* 3.1 20.6 + - - +
196A GLU* 3.1 24.2 + - - +
198A THR* 1.3 79.5 - - - +
200A ALA* 1.3 57.9 + - - +
202A VAL* 3.1 10.6 + - - +
203A PHE* 2.9 48.7 + - + -
464B GLU 5.5 2.3 - - - +
467B ALA* 3.9 22.9 - - + +
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Residues in contact with ALA 200 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109A TYR* 5.2 0.9 - - - +
128A HIS* 3.6 35.1 - - + +
131A VAL* 3.9 24.5 - - + -
196A GLU 2.8 15.6 + - - +
197A ALA* 3.5 10.1 - - - +
198A THR 3.2 0.2 - - - -
199A ASP* 1.3 74.2 - - - +
201A PHE* 1.3 60.8 + - - +
203A PHE* 3.3 4.5 + - - +
204A ASN* 2.9 32.8 + - - +
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Residues in contact with PHE 201 (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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16A THR* 3.6 33.0 - - - -
19A ALA* 3.6 21.3 - - + +
20A HIS* 3.6 42.0 - + + -
23A ALA* 4.2 11.8 - - + +
130A TYR* 4.7 0.9 - + - -
131A VAL* 3.7 20.9 - - + -
197A ALA 3.2 19.2 + - - -
198A THR 3.1 8.7 + - - +
200A ALA* 1.3 79.3 - - - +
202A VAL* 1.3 57.9 + - - +
204A ASN* 3.2 5.0 + - + +
205A HIS* 2.9 28.8 + - - +
901A HEM 3.5 51.6 - + + -
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Residues in contact with VAL 202 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19A ALA* 5.3 5.4 - - + -
22A LYS* 6.0 7.0 - - + +
198A THR* 3.0 28.9 + - + +
199A ASP* 3.1 13.9 + - - +
201A PHE* 1.3 76.8 - - - +
203A PHE* 1.3 63.9 + - - +
205A HIS* 3.3 6.4 + - - +
206A GLN* 3.1 21.0 + - - +
467B ALA* 4.8 9.2 - - + -
468B LYS* 3.7 36.7 + - + +
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Residues in contact with PHE 203 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105A ALA* 4.7 3.2 - - - +
108A ASP* 4.0 19.7 - - + -
109A TYR* 3.7 42.4 - + + -
112A ARG* 3.9 35.9 - - + -
128A HIS* 4.1 11.2 - + - -
196A GLU* 4.8 0.2 - - - -
199A ASP* 2.9 35.2 + - + -
200A ALA* 3.6 5.6 - - - +
202A VAL* 1.3 75.2 - - - +
204A ASN* 1.3 59.9 + - - +
206A GLN* 3.1 8.3 + - + +
207A VAL* 3.0 31.5 + - - +
467B ALA* 3.4 39.7 - - + -
468B LYS* 4.3 10.3 - - + -
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Residues in contact with ASN 204 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23A ALA* 4.9 2.5 - - + -
52A PHE* 3.9 5.2 - - - -
109A TYR* 2.9 32.7 + - - -
131A VAL* 4.2 8.1 - - - +
132A ARG* 2.8 37.3 + - - +
200A ALA 2.9 27.6 + - - +
201A PHE* 3.2 8.9 + - - +
203A PHE* 1.3 74.5 - - - +
205A HIS* 1.3 65.3 + - - +
207A VAL* 3.3 9.7 + - - +
208A PHE* 3.2 28.1 + - - -
901A HEM 3.8 20.3 - - + +
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Residues in contact with HIS 205 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19A ALA 5.7 0.4 - - - +
22A LYS* 3.4 59.1 + - + +
23A ALA* 4.1 12.2 - - + +
26A SER* 3.8 19.7 - - - -
201A PHE 2.9 15.3 + - - +
202A VAL* 3.7 8.0 + - - +
204A ASN* 1.3 76.7 - - - +
206A GLN* 1.3 68.5 + - - +
208A PHE* 3.1 11.8 + - - +
209A ALA* 2.9 36.3 + - + +
468B LYS* 5.0 3.6 + - - -
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Residues in contact with GLN 206 (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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105A ALA* 3.5 22.9 - - + +
202A VAL 3.1 5.6 + - - +
203A PHE* 3.6 8.3 - - + +
205A HIS* 1.3 80.3 + - - +
207A VAL* 1.3 65.0 + - - +
209A ALA* 3.6 16.6 - - - +
210A ASP* 2.9 43.2 + - - +
213A LYS* 4.8 8.1 - - - +
468B LYS* 2.8 48.9 + - + +
471B VAL* 3.7 22.3 - - + +
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Residues in contact with VAL 207 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45A LEU* 4.7 7.6 - - + -
48A GLN* 4.6 6.1 - - + -
52A PHE* 4.3 18.8 - - + -
103A SER* 5.1 1.8 + - - +
105A ALA* 3.6 14.1 - - + -
106A VAL* 3.9 28.0 - - + -
109A TYR* 4.1 20.0 - - + -
203A PHE 3.0 19.5 + - - +
204A ASN* 3.5 11.7 - - - +
205A HIS 3.2 0.2 - - - -
206A GLN* 1.3 76.0 - - - +
208A PHE* 1.3 64.8 + - + +
210A ASP* 3.4 1.9 + - - +
211A LEU* 3.0 38.9 + - + +
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Residues in contact with PHE 208 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23A ALA* 3.4 19.5 - - + -
26A SER* 3.1 31.4 - - - +
28A PHE* 3.4 30.8 - + + +
29A MET* 3.4 35.4 - - + -
45A LEU* 3.9 24.2 - - + -
132A ARG* 5.6 0.9 - - - -
143A ILE* 6.1 0.2 - - + -
204A ASN* 3.2 14.6 + - + -
205A HIS* 3.1 9.4 + - - +
207A VAL* 1.3 77.2 - - + +
209A ALA* 1.3 64.2 + - - +
211A LEU* 3.2 5.1 + - - +
212A GLY* 2.9 19.4 + - - -
901A HEM 3.6 36.3 - - + -
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Residues in contact with ALA 209 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26A SER* 5.3 1.7 - - - -
205A HIS* 2.9 25.1 + - + +
206A GLN* 3.2 25.8 + - - +
208A PHE* 1.3 78.0 - - - +
210A ASP* 1.3 64.6 + - - +
212A GLY* 3.1 11.2 + - - -
213A LYS* 3.2 24.6 + - - +
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Residues in contact with ASP 210 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103A SER* 4.1 20.4 - - - +
104A PRO* 3.7 17.3 - - + +
105A ALA* 3.0 29.8 + - + +
206A GLN* 2.9 41.9 + - - +
207A VAL 3.9 3.4 - - - +
209A ALA* 1.3 75.9 - - - +
211A LEU* 1.3 61.9 + - + +
213A LYS* 3.1 33.1 + - - +
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Residues in contact with LEU 211 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28A PHE* 3.8 34.1 - - + -
44A ARG* 3.9 36.1 - - + +
45A LEU* 3.6 36.3 - - + +
48A GLN* 4.3 11.7 - - + -
207A VAL* 3.0 28.1 + - + +
208A PHE* 3.5 8.5 - - - +
210A ASP* 1.3 76.4 - - - +
212A GLY* 1.3 61.9 + - - +
213A LYS 3.1 5.1 + - - -
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Residues in contact with GLY 212 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28A PHE* 3.9 17.0 - - - -
208A PHE 2.9 14.3 + - - -
209A ALA* 3.1 7.3 + - - -
211A LEU* 1.3 76.4 - - - +
213A LYS* 1.3 59.7 + - - +
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Residues in contact with LYS 213 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
206A GLN* 4.8 5.5 - - - +
209A ALA* 3.3 21.8 - - - +
210A ASP* 3.1 32.2 + - - +
211A LEU 3.1 5.2 - - - -
212A GLY* 1.3 82.7 - - - +
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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