Contacts of the helix formed by residues 183 - 207 (chain A) in PDB entry 4KSC
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 GLY 183 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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131A PHE* 3.8 3.2 - - - -
132A TRP* 3.3 34.1 - - - -
179A ASN 3.1 12.9 + - - -
180A GLU 4.0 0.8 + - - -
181A GLY 3.4 3.4 - - - -
182A ILE* 1.3 83.7 - - - +
184A ASP* 1.3 58.7 + - - -
185A LYS 2.9 11.7 + - - -
186A ILE* 3.1 17.0 + - - +
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Residues in contact with ASP 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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128A GLN* 3.6 20.4 - - + +
129A VAL* 4.4 12.4 - - + +
131A PHE* 4.4 1.3 - - - -
132A TRP* 3.0 54.2 - - + +
183A GLY* 1.3 66.7 - - - -
185A LYS* 1.3 58.1 + - - +
186A ILE 3.0 2.5 - - - -
187A GLY* 3.2 7.9 - - - +
188A MET* 2.3 55.8 + - + +
934A PHE* 5.9 1.0 - - - -
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Residues in contact with LYS 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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132A TRP* 3.5 25.6 - - + -
180A GLU* 3.0 31.6 - - + +
181A GLY 5.1 0.7 - - - +
183A GLY 2.9 1.1 - - - +
184A ASP* 1.3 83.5 + - - +
186A ILE* 1.3 53.4 + - + +
188A MET* 4.1 2.5 - - + -
189A PHE 2.6 27.9 + - - -
346A PRO* 5.5 4.6 - - - +
347A ASN* 3.1 49.8 + - + +
350A ALA* 4.0 19.7 - - + +
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Residues in contact with ILE 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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54A THR* 5.5 0.2 - - - +
131A PHE* 3.5 26.0 - - + -
181A GLY 3.3 19.3 - - - +
182A ILE* 4.5 4.0 - - - -
183A GLY 3.1 5.3 + - - +
184A ASP 3.0 0.2 - - - -
185A LYS* 1.3 76.5 - - - +
187A GLY* 1.3 59.3 + - - +
189A PHE* 2.9 16.6 + - + +
190A PHE* 2.9 53.8 + - + -
347A ASN 4.7 4.0 - - - +
348A ILE* 5.6 1.6 - - + -
351A PHE* 3.5 42.0 - - + -
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Residues in contact with GLY 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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54A THR* 5.8 0.4 - - - -
57A ALA* 3.1 25.2 - - - +
128A GLN* 4.3 12.0 - - - +
131A PHE* 3.6 18.6 - - - -
184A ASP* 2.7 16.5 + - - -
186A ILE* 1.3 74.5 - - - +
188A MET* 1.3 57.6 + - - +
190A PHE* 4.9 1.3 - - - -
191A GLN* 3.1 24.3 + - - +
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Residues in contact with MET 188 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128A GLN* 4.1 7.6 - - - +
184A ASP* 2.3 49.2 + - - +
185A LYS* 3.4 3.6 - - + +
187A GLY* 1.3 67.5 - - - +
189A PHE* 1.3 57.8 + - - +
191A GLN* 3.1 44.4 - - - +
192A ALA* 2.8 31.0 + - - +
343A GLN* 6.0 6.3 - - + +
347A ASN* 3.4 20.3 + - - +
938A PHE* 4.2 20.4 - - + -
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Residues in contact with PHE 189 (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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185A LYS 2.6 18.6 + - - +
186A ILE* 3.1 22.2 - - + +
188A MET* 1.3 73.7 - - - +
190A PHE* 1.3 85.3 + + - +
192A ALA* 3.3 5.3 + - - +
193A MET* 3.2 52.1 + - + +
344A ALA* 4.4 16.4 - - + -
347A ASN* 4.0 12.3 - - + +
348A ILE* 3.5 42.0 - - + -
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Residues in contact with PHE 190 (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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40A ARG* 6.2 1.6 - - - -
54A THR* 3.6 31.6 - - + -
57A ALA* 3.9 12.1 - - + -
58A ILE* 3.7 31.2 - - + +
131A PHE* 5.6 0.2 - + - -
186A ILE* 2.9 51.5 + - + +
187A GLY* 4.9 0.7 - - - -
189A PHE* 1.3 88.8 - + - +
191A GLN* 1.3 66.1 + - - +
193A MET* 3.4 13.5 + - + +
194A ALA* 3.0 24.1 + - - +
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Residues in contact with GLN 191 (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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57A ALA 3.3 17.9 + - - +
60A HIS* 2.8 41.0 + - - +
61A GLY* 3.3 13.5 - - - -
128A GLN* 3.1 12.2 - - - +
187A GLY 3.1 13.3 + - - +
188A MET* 3.1 39.0 - - - +
190A PHE* 1.3 77.8 - - - +
192A ALA* 1.3 63.4 + - - +
194A ALA 3.3 1.4 + - - -
195A THR* 3.1 26.4 + - + +
938A PHE* 5.2 0.8 - - - -
942A GLN* 6.0 0.6 - - - +
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Residues in contact with ALA 192 (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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188A MET 2.8 18.5 + - - +
189A PHE 3.6 6.1 - - - +
190A PHE 3.3 0.4 - - - -
191A GLN* 1.3 76.4 - - - +
193A MET* 1.3 49.9 + - - +
195A THR* 2.3 28.9 + - - -
196A PHE* 2.7 21.8 + - - +
340A SER* 3.3 28.9 - - - +
341A VAL* 6.0 0.2 - - - -
343A GLN* 4.8 4.0 - - + -
344A ALA* 3.6 18.4 - - + +
347A ASN* 5.6 0.2 - - - +
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Residues in contact with MET 193 (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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189A PHE* 3.2 50.1 + - + +
190A PHE* 3.9 17.3 - - + +
192A ALA* 1.3 77.5 - - + +
194A ALA* 1.3 56.3 + - - +
196A PHE* 3.0 16.3 + - + -
197A PHE* 2.4 45.1 + - + +
344A ALA* 5.3 3.8 - - + +
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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
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58A ILE* 3.1 38.1 - - + +
61A GLY* 3.7 5.5 - - - +
62A VAL* 3.6 17.4 - - + +
65A PRO* 4.8 1.0 - - - +
190A PHE 3.0 14.3 + - - +
191A GLN 3.4 9.9 - - - +
192A ALA 3.2 0.2 - - - -
193A MET* 1.3 76.2 - - - +
195A THR* 1.3 57.8 + - - +
197A PHE* 5.3 0.4 - - - -
198A GLY* 3.1 28.5 + - - +
199A GLY 3.5 0.9 + - - -
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Residues in contact with THR 195 (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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61A GLY* 3.1 26.2 - - - +
64A LEU* 4.6 13.7 - - + -
65A PRO* 4.7 7.7 - - - +
191A GLN* 3.1 18.5 + - + +
192A ALA* 2.3 27.9 + - - -
194A ALA* 1.3 75.7 - - - +
196A PHE* 1.3 57.4 + - - +
199A GLY* 3.3 20.5 - - - +
337A GLY* 3.6 16.7 - - - -
340A SER* 2.9 28.0 - - - +
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Residues in contact with PHE 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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192A ALA 2.7 15.5 + - - +
193A MET* 3.0 17.6 + - + +
195A THR* 1.3 76.1 + - - +
197A PHE* 1.3 84.3 + + + +
199A GLY 3.1 1.2 + - - -
200A PHE* 2.9 72.7 + + + -
337A GLY 3.8 6.5 - - - +
338A ALA* 5.8 0.2 - - - -
341A VAL* 3.3 35.9 - - + -
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Residues in contact with PHE 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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193A MET* 2.4 31.6 + - + +
194A ALA* 5.3 0.4 - - - -
196A PHE* 1.3 93.0 - + + +
198A GLY* 1.3 62.2 + - - +
200A PHE* 3.6 4.2 + - + +
201A ILE* 3.1 54.2 + - + +
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Residues in contact with GLY 198 (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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62A VAL* 5.6 6.3 - - - -
65A PRO* 5.0 3.1 - - - -
193A MET 3.5 0.6 + - - -
194A ALA* 3.1 19.5 + - - +
197A PHE* 1.3 79.4 - - - +
199A GLY* 1.3 65.8 + - - +
201A ILE* 3.6 16.3 - - - +
202A ILE* 3.4 22.5 - - - +
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Residues in contact with GLY 199 (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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65A PRO* 4.5 16.8 - - - +
194A ALA 3.5 2.0 + - - -
195A THR 3.3 22.1 + - - -
196A PHE 3.1 3.2 + - - -
198A GLY* 1.3 77.0 - - - +
200A PHE* 1.3 62.8 + - - +
202A ILE* 3.3 9.2 + - - +
203A GLY* 3.3 15.1 + - - -
334A VAL* 4.3 13.3 - - - +
337A GLY* 5.8 1.3 - - - -
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Residues in contact with PHE 200 (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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195A THR 5.3 0.2 - - - -
196A PHE* 2.9 66.8 + + + +
197A PHE* 4.2 4.7 - - + +
199A GLY* 1.3 71.0 - - - +
201A ILE* 1.3 66.6 + - - +
203A GLY* 3.6 2.9 - - - +
204A PHE* 3.0 55.2 + + + -
211A THR* 5.3 9.6 - - + -
214A ILE* 6.1 3.4 - - + -
215A LEU* 4.6 22.4 - - + -
334A VAL* 3.3 39.7 - - + -
337A GLY 4.7 1.3 - - - -
338A ALA* 4.6 13.9 - - + -
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Residues in contact with ILE 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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197A PHE* 3.1 51.1 + - + +
198A GLY* 3.6 14.8 - - - +
199A GLY 3.2 0.2 - - - -
200A PHE* 1.3 78.6 - - - +
202A ILE* 1.3 68.0 + - + +
204A PHE* 3.6 4.0 + - - +
205A THR* 3.1 35.2 + - + +
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Residues in contact with ILE 202 (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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65A PRO* 4.3 24.7 - - + +
66A LEU* 4.2 25.1 - - + -
69A LEU* 4.9 18.6 - - + -
198A GLY 3.4 16.4 - - - +
199A GLY 3.3 5.5 + - - +
201A ILE* 1.3 80.7 - - + +
203A GLY* 1.3 62.4 + - - +
205A THR* 2.6 21.4 + - - +
206A ARG* 3.2 27.3 + - + +
330A VAL* 5.1 15.7 - - + -
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Residues in contact with GLY 203 (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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199A GLY 3.3 8.2 + - - -
200A PHE* 3.2 6.8 + - - -
202A ILE* 1.3 78.2 - - - +
204A PHE* 1.3 51.5 + - - +
206A ARG* 3.2 2.6 + - - -
207A GLY 2.7 36.6 + - - +
211A THR* 4.6 1.3 - - - -
330A VAL* 5.8 4.7 - - - +
331A PHE* 3.0 28.4 - - - -
334A VAL* 4.7 9.2 - - - -
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Residues in contact with PHE 204 (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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200A PHE* 3.0 51.2 + + + +
201A ILE* 4.1 3.8 - - - +
203A GLY* 1.3 73.9 - - - +
205A THR* 1.3 64.7 + - + +
207A GLY* 3.1 19.9 + - - -
208A TRP* 3.6 21.6 + - + +
211A THR* 3.8 31.8 - - + +
212A LEU* 5.9 2.9 - - + -
215A LEU* 5.1 10.8 - - + -
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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
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201A ILE* 3.1 24.4 + - + +
202A ILE* 2.6 28.4 + - - +
204A PHE* 1.3 78.2 - - + +
206A ARG* 1.3 63.2 + - - +
207A GLY* 3.7 0.7 + - - -
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Residues in contact with ARG 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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69A LEU* 3.6 34.8 - - - +
73A ASP* 4.7 5.7 + - - -
202A ILE* 3.4 26.3 - - + +
203A GLY 3.2 3.6 + - - +
205A THR* 1.3 84.7 + - - +
207A GLY* 1.3 56.7 + - - +
326A GLN* 5.2 13.5 + - - +
327A VAL* 3.4 39.5 - - + +
330A VAL* 6.5 0.4 - - - -
331A PHE* 4.6 3.5 - - + -
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Residues in contact with GLY 207 (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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203A GLY 2.7 24.2 + - - +
204A PHE* 3.1 14.5 - - - +
205A THR 4.4 0.9 - - - -
206A ARG* 1.3 80.9 - - - +
208A TRP* 1.3 64.1 + - - -
209A LYS* 3.5 2.9 - - - -
210A LEU* 5.1 1.1 - - - -
211A THR* 3.8 1.2 - - - +
331A PHE* 3.3 18.2 - - - -
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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
------------------------------------------------------------
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