Contacts of the helix formed by residues 174 - 200 (chain A) in PDB entry 6KJV
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 CYS 174 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171A HIS 5.5 2.0 - - - +
172A LEU* 3.1 10.2 + - - -
173A HIS* 1.3 75.0 - - - +
175A THR* 1.3 66.4 + - - +
176A ARG* 3.2 27.1 - - + +
177A ASN* 3.0 33.2 + - - +
178A TYR* 3.0 28.1 + - - -
1154A THR* 5.9 3.8 - - + -
1156A THR* 4.3 18.4 - - + +
1158A ASP* 3.5 14.4 - - - +
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Residues in contact with THR 175 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174A CYS* 1.3 71.8 - - - +
176A ARG* 1.3 64.3 + - - +
178A TYR* 3.2 15.3 + - + +
179A ILE* 3.0 31.6 + - - +
250A TYR* 3.3 21.8 + - - -
261A SER* 5.5 8.7 - - - +
266A PHE* 4.2 16.1 - - + -
1158A ASP* 3.1 37.0 + - + +
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Residues in contact with ARG 176 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174A CYS* 3.2 21.6 - - - -
175A THR* 1.3 83.2 + - - +
177A ASN* 1.3 80.7 + - - +
179A ILE* 3.3 6.0 + - - +
180A HIS* 2.9 49.3 + - + +
250A TYR* 3.6 30.2 + - + +
254A LEU* 5.3 2.7 - - - +
345A ILE* 4.2 30.8 - - - +
349A LEU* 3.6 32.0 - - + +
406A ASN* 4.7 18.4 + - - +
408A GLU* 4.8 12.9 - - - +
1156A THR* 5.1 9.3 - - - +
2001A 97Y 5.2 2.8 + - - -
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Residues in contact with ASN 177 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166A LEU* 3.9 25.5 - - + +
172A LEU* 2.8 49.5 + - - +
174A CYS* 3.0 16.7 + - - +
176A ARG* 1.3 96.7 + - - +
178A TYR* 1.3 62.5 + - + +
180A HIS* 3.2 19.1 + - - +
181A LEU* 2.9 34.4 + - + +
402A TYR 5.1 1.0 - - - +
406A ASN* 5.6 2.7 + - - +
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Residues in contact with TYR 178 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167A LEU* 5.4 4.7 - - + -
173A HIS* 3.4 44.8 + + + +
174A CYS* 3.0 33.6 + - - -
175A THR* 3.2 14.6 + - + +
177A ASN* 1.3 75.4 - - + +
179A ILE* 1.3 60.7 + - - +
181A LEU* 3.0 29.8 + - + +
182A ASN* 2.7 28.1 + - - +
266A PHE* 3.8 20.4 - + + -
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Residues in contact with ILE 179 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175A THR* 3.0 16.6 + - - +
176A ARG 3.5 7.2 - - - +
178A TYR* 1.3 74.1 - - - +
180A HIS* 1.3 62.6 + - - +
182A ASN* 3.3 8.7 + - - +
183A LEU* 3.1 20.8 + - + +
243A TRP* 4.2 10.7 - - + +
246A VAL* 4.1 22.7 - - + +
247A GLU* 3.3 26.7 - - + +
250A TYR* 3.7 43.5 - - + -
266A PHE* 3.8 16.8 - - + -
269A TYR* 4.2 17.7 - - + -
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Residues in contact with HIS 180 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166A LEU* 4.1 2.7 - - + -
176A ARG* 2.9 39.3 + - + +
177A ASN* 3.3 25.5 + - - +
178A TYR 3.2 0.2 - - - -
179A ILE* 1.3 76.0 - - - +
181A LEU* 1.3 57.1 + - - +
183A LEU* 3.2 5.5 + - - +
184A PHE* 2.8 50.6 + - + -
247A GLU* 3.1 35.6 + - - -
349A LEU* 4.0 10.3 - - + +
402A TYR* 3.5 48.1 + + + -
2001A 97Y 5.8 0.6 + - - -
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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
----------------------------------------------------------
163A SER* 3.7 42.6 - - - +
166A LEU* 4.1 15.7 - - + +
167A LEU* 3.6 30.5 - - + -
177A ASN* 2.9 20.3 + - + +
178A TYR* 3.0 27.1 + - + +
180A HIS* 1.3 76.3 - - - +
182A ASN* 1.3 60.7 + - - +
184A PHE* 3.3 8.1 + - + +
185A ALA* 2.9 28.8 + - - +
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Residues in contact with ASN 182 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
178A TYR* 2.7 28.1 + - - +
179A ILE* 3.3 4.2 + - - +
181A LEU* 1.3 78.8 - - - +
183A LEU* 1.3 63.1 + - - +
185A ALA* 3.2 7.6 + - - +
186A SER* 3.0 19.9 + - - -
243A TRP* 3.3 41.0 - - + -
266A PHE* 4.5 10.9 - - - -
270A VAL* 4.6 4.6 - - - +
274A TRP* 3.1 29.8 + - - +
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Residues in contact with LEU 183 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
179A ILE* 3.1 13.4 + - + +
180A HIS* 3.2 8.7 + - - +
182A ASN* 1.3 76.3 - - - +
184A PHE* 1.3 62.2 + - - +
186A SER* 2.6 24.9 + - - +
187A PHE* 3.1 31.9 + - + -
240A ASN 3.9 8.5 - - - +
243A TRP* 3.8 27.7 - - + +
244A LEU* 3.9 22.0 - - + +
247A GLU* 4.3 9.6 - - + +
356A LEU* 5.2 2.2 - - + -
360A LEU* 6.2 0.7 - - + -
398A VAL* 3.7 19.1 - - + -
402A TYR* 3.7 32.5 - - + -
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Residues in contact with PHE 184 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159A LEU* 3.6 28.4 - - + +
162A ALA* 4.5 11.0 - - + -
163A SER* 4.3 14.6 - - - -
166A LEU* 3.5 29.4 - - + -
180A HIS* 2.8 29.5 + - + +
181A LEU* 3.6 18.2 - - + +
183A LEU* 1.3 76.0 - - + +
185A ALA* 1.3 57.6 - - - +
187A PHE* 3.1 4.1 + - - +
188A ILE* 2.8 41.5 + - + +
398A VAL* 3.5 34.1 - - + -
399A ALA* 4.4 5.4 - - - -
402A TYR* 3.9 26.9 - + + -
403A CYS* 4.9 0.2 - - + -
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Residues in contact with ALA 185 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181A LEU 2.9 17.4 + - - +
182A ASN* 3.2 7.2 + - - +
184A PHE* 1.3 72.9 - - - +
186A SER* 1.3 67.3 + - - +
188A ILE* 3.7 10.3 - - - +
189A LEU* 2.9 36.1 + - + +
274A TRP* 4.3 14.4 - - + -
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Residues in contact with SER 186 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182A ASN 3.0 10.0 + - - -
183A LEU* 2.6 26.0 + - - +
185A ALA* 1.3 77.7 - - - +
187A PHE* 1.3 60.6 + - - +
189A LEU* 3.4 4.8 + - - +
190A ARG* 3.0 22.5 + - - +
236A CYS* 4.1 6.5 - - - +
239A ALA* 3.9 26.4 + - - -
240A ASN* 2.7 31.8 + - - +
243A TRP* 4.9 1.3 - - - -
274A TRP* 3.9 12.0 - - - -
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Residues in contact with PHE 187 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152A TYR* 5.5 1.5 - + - -
159A LEU* 3.6 23.2 - - + +
183A LEU* 3.1 43.2 + - + -
184A PHE* 3.1 3.6 + - - +
186A SER* 1.3 81.3 + - - +
188A ILE* 1.3 62.6 + - - +
190A ARG* 3.3 12.5 + - - +
191A ALA* 3.0 22.5 + - - +
240A ASN* 3.9 29.2 - - + -
360A LEU* 3.9 26.0 - - + -
394A GLN* 3.9 30.1 - - + -
395A GLY* 3.9 16.4 - - - -
398A VAL* 3.9 24.2 - - + -
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Residues in contact with ILE 188 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156A PHE* 3.7 26.0 - - + +
159A LEU* 3.7 30.5 - - + +
160A VAL* 3.9 24.0 - - + -
163A SER* 4.4 7.0 - - - +
184A PHE* 2.8 26.8 + - + +
185A ALA* 3.7 8.7 - - - +
187A PHE* 1.3 76.9 - - - +
189A LEU* 1.3 61.4 + - + +
191A ALA* 3.2 8.1 + - - +
192A LEU* 2.9 36.8 + - + +
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Residues in contact with LEU 189 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
185A ALA* 2.9 26.7 + - + +
186A SER 3.8 1.6 - - - +
188A ILE* 1.3 77.8 - - + +
190A ARG* 1.3 68.0 + - - +
192A LEU* 3.2 22.4 + - + +
193A CYS* 2.9 27.8 + - - -
232A LEU* 5.3 13.7 - - + -
235A TYR* 5.8 3.6 - - + -
236A CYS* 3.4 22.9 - - - -
274A TRP* 4.8 17.3 - - + -
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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
----------------------------------------------------------
152A TYR* 3.4 29.4 + - + -
186A SER 3.0 15.5 + - - +
187A PHE* 3.3 17.3 + - - +
189A LEU* 1.3 75.7 - - - +
191A ALA* 1.3 62.9 + - - +
193A CYS* 3.2 8.9 + - - +
194A VAL* 3.0 24.4 + - - +
233A MET* 3.6 25.4 - - + +
236A CYS* 3.7 16.0 - - + -
237A VAL* 4.1 22.6 - - + +
240A ASN* 3.2 29.6 - - - +
241A TYR* 5.5 4.9 + - - -
391A THR* 4.0 18.7 - - - +
394A GLN* 3.1 27.5 + - - +
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Residues in contact with ALA 191 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152A TYR* 3.8 28.4 - - + +
155A SER* 5.8 1.3 - - - -
156A PHE* 4.0 18.8 - - + +
159A LEU* 6.2 0.7 - - + -
187A PHE 3.0 13.7 + - - +
188A ILE* 3.2 9.2 + - - +
190A ARG* 1.3 75.8 - - - +
192A LEU* 1.3 62.3 + - - +
194A VAL* 3.1 2.5 + - - +
195A PHE* 2.9 45.0 + - + -
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Residues in contact with LEU 192 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156A PHE* 3.5 27.6 - - + -
188A ILE* 2.9 28.8 + - + +
189A LEU* 3.2 28.0 + - + +
191A ALA* 1.3 75.4 - - - +
193A CYS* 1.3 59.0 + - - +
195A PHE* 3.4 9.1 + - + +
196A PHE* 2.9 31.2 + - - +
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Residues in contact with CYS 193 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
189A LEU 2.9 18.5 + - - -
190A ARG 3.4 8.3 - - - +
192A LEU* 1.3 76.7 - - - +
194A VAL* 1.3 64.9 + - - +
196A PHE* 3.3 3.6 + - - +
197A LYS* 2.9 25.8 + - - +
229A VAL* 4.0 18.0 - - + +
232A LEU* 3.8 29.2 - - - -
233A MET* 3.8 45.1 - - + -
236A CYS* 4.5 1.3 - - - -
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Residues in contact with VAL 194 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148A TYR* 3.7 33.9 - - + +
149A THR* 5.8 5.2 - - + -
152A TYR* 3.8 37.2 - - + -
190A ARG 3.0 14.8 + - - +
191A ALA* 3.1 8.9 + - - +
193A CYS* 1.3 77.4 - - - +
195A PHE* 1.3 67.6 + - + +
197A LYS* 3.4 6.8 + - - +
198A ASP* 3.0 24.6 + - + +
233A MET* 4.1 18.2 - - + -
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Residues in contact with PHE 195 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149A THR* 4.3 13.7 - - + -
152A TYR* 3.5 39.3 - - + -
153A ALA* 3.8 13.7 - - + -
156A PHE* 3.9 20.2 - + + -
191A ALA* 2.9 39.4 + - + +
192A LEU* 3.9 11.0 - - + +
194A VAL* 1.3 78.9 - - + +
196A PHE* 1.3 56.7 + - - +
198A ASP* 3.4 9.0 + - + +
199A ALA* 2.8 31.5 + - - +
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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
----------------------------------------------------------
192A LEU 2.9 18.0 + - - +
193A CYS* 3.7 7.0 - - - +
195A PHE* 1.3 75.6 - - - +
197A LYS* 1.3 65.8 + - - +
199A ALA* 3.3 6.1 + - + +
200A ALA* 2.9 29.6 + - + +
220A TYR* 4.9 3.6 - + - -
225A ALA* 5.7 6.7 - - + -
229A VAL* 3.6 32.3 - - + -
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Residues in contact with LYS 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 CYS 2.9 17.6 + - - +
194A VAL* 3.8 5.6 - - - +
196A PHE* 1.3 77.5 - - - +
198A ASP* 1.3 62.4 + - - +
200A ALA* 3.5 8.7 + - - +
201A LEU* 3.6 25.1 + - + +
220A TYR* 3.9 32.3 - - + +
226A CYS* 5.8 4.9 - - - -
229A VAL* 4.6 7.8 - - + +
233A MET* 6.5 0.7 - - - -
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Residues in contact with ASP 198 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145A TYR* 2.8 34.4 + - + -
149A THR* 4.3 11.2 - - + +
194A VAL* 3.0 19.2 + - + +
195A PHE* 3.8 10.1 - - + +
197A LYS* 1.3 78.9 - - - +
199A ALA* 1.3 60.9 + - - +
201A LEU* 3.2 36.0 + - + +
202A LYS* 4.3 1.4 + - - +
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Residues in contact with ALA 199 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
195A PHE 2.8 19.0 + - - +
196A PHE* 3.3 6.3 + - + +
198A ASP* 1.3 76.6 - - - +
200A ALA* 1.3 60.6 + - - +
201A LEU 3.4 0.7 + - - -
202A LYS* 3.5 21.7 + - - +
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Residues in contact with ALA 200 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
196A PHE* 2.9 25.9 + - + +
197A LYS 3.9 4.3 - - - +
198A ASP 3.3 0.4 - - - -
199A ALA* 1.3 74.0 - - - +
201A LEU* 1.3 65.2 + - - +
202A LYS 3.2 5.2 + - - +
203A TRP 3.6 15.4 - - - +
220A TYR* 3.6 41.2 - - + +
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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
------------------------------------------------------------
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