Contacts of the helix formed by residues 252 - 279 (chain A) in PDB entry 3OLJ
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 MET 252 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112A ASP* 3.4 29.2 - - + +
115A HIS* 3.1 23.9 + - + -
116A TRP* 3.5 32.3 - - + -
119A LEU* 4.2 16.4 - - - -
127A ILE* 4.4 5.2 - - + -
183A TYR* 3.3 41.5 - - + +
246A LEU* 5.4 2.5 - - - -
251A LEU* 1.3 80.4 - - - +
253A PRO* 1.3 71.6 - - - +
254A GLY 3.3 3.0 + - - -
255A LEU* 3.4 22.8 + - + -
256A THR* 3.1 17.8 + - - +
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Residues in contact with PRO 253 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108A ASP 5.9 0.4 - - - +
111A LYS* 3.9 25.4 - - + +
112A ASP* 3.3 11.7 - - - +
115A HIS* 3.8 16.4 - - + +
250A GLY 5.3 1.1 - - - +
251A LEU 4.2 0.9 - - - +
252A MET* 1.3 88.2 - - - +
254A GLY* 1.3 54.8 + - - +
256A THR* 3.2 8.3 + - - +
257A PHE* 2.9 33.7 + - - +
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Residues in contact with GLY 254 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107A VAL* 3.5 10.9 - - - +
108A ASP 3.4 24.2 + - - -
109A LEU* 3.7 11.4 - - - -
112A ASP* 2.8 21.3 + - - -
253A PRO* 1.3 71.0 - - - +
255A LEU* 1.3 64.7 + - - +
257A PHE* 3.9 1.5 - - - -
258A SER* 3.0 23.2 + - - -
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Residues in contact with LEU 255 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109A LEU* 4.1 0.2 - - - +
112A ASP* 2.9 9.1 + - - +
127A ILE* 4.1 11.2 - - + -
131A LEU* 3.8 28.5 - - + -
176A TYR* 6.1 1.1 - - + -
179A LEU* 3.9 15.0 - - + -
183A TYR* 3.4 16.7 + - + +
243A ILE* 3.8 21.3 - - + -
246A LEU* 3.9 26.7 - - + -
252A MET* 3.4 33.1 + - + +
254A GLY* 1.3 71.9 - - - +
256A THR* 1.3 61.3 + - + +
258A SER* 2.9 20.9 + - - +
259A ASN* 2.9 16.7 + - + +
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Residues in contact with THR 256 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
243A ILE* 3.7 34.1 - - + +
244A PHE* 5.3 1.1 - - - -
246A LEU* 4.2 3.1 - - + -
247A LYS* 3.7 32.7 - - + +
251A LEU 3.4 24.1 + - - +
252A MET 3.1 6.1 + - - +
253A PRO* 3.2 14.2 + - - +
255A LEU* 1.3 78.8 - - + +
257A PHE* 1.3 59.8 + - - +
259A ASN* 3.4 4.2 + - - +
260A GLU* 3.0 33.4 + - - +
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Residues in contact with PHE 257 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106A GLU* 4.5 12.3 - - + -
107A VAL* 4.2 22.2 - - + -
108A ASP 5.5 0.7 - - - -
253A PRO 2.9 19.5 + - - +
254A GLY* 3.9 3.6 - - - +
256A THR* 1.3 74.9 + - - +
258A SER* 1.3 66.1 + - - +
260A GLU* 3.1 33.1 + - + +
261A LEU* 3.2 43.9 + - + +
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Residues in contact with SER 258 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102A TRP* 5.1 1.1 - - - -
107A VAL* 4.0 10.3 - - - -
175A MET* 3.8 34.1 - - - -
176A TYR* 5.9 0.3 - - - -
179A LEU* 3.6 19.9 - - - +
254A GLY 3.0 15.9 + - - -
255A LEU* 2.9 17.7 + - - +
257A PHE* 1.3 75.2 - - - +
259A ASN* 1.3 56.3 + - - +
261A LEU* 3.2 8.0 + - - +
262A ILE* 2.9 37.1 + - - +
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Residues in contact with ASN 259 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134A PHE* 4.7 2.9 - - - -
176A TYR* 5.0 3.1 + - - -
240A PHE* 3.2 32.7 + - - +
243A ILE* 3.5 33.9 - - + +
244A PHE* 3.4 42.0 - - - +
255A LEU* 2.9 15.7 + - + +
256A THR* 3.4 10.0 + - - +
257A PHE 3.2 0.2 - - - -
258A SER* 1.3 77.6 + - - +
260A GLU* 1.3 56.5 + - - +
262A ILE* 4.5 5.8 - - - +
263A SER* 2.8 31.7 + - - -
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Residues in contact with GLU 260 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
244A PHE* 3.7 23.3 - - + -
247A LYS* 3.0 38.0 + - - +
256A THR* 3.0 22.7 + - - +
257A PHE* 3.1 27.9 + - + +
259A ASN* 1.3 75.7 - - - +
261A LEU* 1.3 63.7 + - + +
263A SER* 3.3 6.1 + - - -
264A ARG* 3.1 25.3 + - - +
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Residues in contact with LEU 261 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102A TRP* 3.8 44.9 - - + +
106A GLU* 5.9 1.8 - - + +
107A VAL* 4.2 9.2 - - + -
257A PHE* 3.2 47.2 + - + +
258A SER* 3.6 6.3 - - - +
260A GLU* 1.3 78.8 - - + +
262A ILE* 1.3 64.0 + - - +
264A ARG* 3.5 28.0 + - - +
265A ASP* 3.1 30.2 + - - +
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Residues in contact with ILE 262 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102A TRP* 3.6 19.5 - - + -
138A ASP* 6.0 0.2 - - - +
172A HIS* 3.7 31.4 - - + +
175A MET* 4.1 25.6 - - + -
176A TYR* 3.2 49.6 - - + +
236A PHE* 6.3 0.7 - - + -
240A PHE* 4.0 11.2 - - + -
258A SER* 2.9 24.1 + - - +
259A ASN* 4.2 2.9 - - - +
261A LEU* 1.3 74.3 - - - +
263A SER* 1.3 59.8 + - - +
265A ASP* 3.1 2.6 + - - +
266A GLU* 2.9 30.3 + - + +
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Residues in contact with SER 263 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
240A PHE* 3.7 39.1 - - - -
244A PHE* 3.6 21.5 - - - -
259A ASN 2.8 28.5 + - - -
260A GLU* 3.3 5.7 + - - -
262A ILE* 1.3 72.4 - - - +
264A ARG* 1.3 58.7 + - - +
266A GLU* 3.4 1.4 + - - +
267A GLY* 2.8 26.9 + - - -
350A MET* 6.4 0.2 - - - -
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Residues in contact with ARG 264 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100A SER* 3.3 31.4 + - - +
102A TRP* 3.3 29.3 - - - +
260A GLU 3.1 19.4 + - - +
261A LEU* 3.6 25.1 + - - +
263A SER* 1.3 77.0 + - - +
265A ASP* 1.3 85.1 + - - +
267A GLY* 3.2 3.3 + - - -
268A LEU* 3.0 22.0 + - + +
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Residues in contact with ASP 265 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100A SER* 4.4 5.4 + - - -
102A TRP* 2.8 20.0 + - - -
168A MET* 3.7 9.5 - - - +
172A HIS* 2.7 37.7 + - + +
261A LEU 3.1 9.5 + - - +
262A ILE 3.1 2.0 + - - +
264A ARG* 1.3 103.0 + - - +
266A GLU* 1.3 58.7 + - - +
268A LEU* 3.1 9.6 + - - +
269A HIS* 2.9 43.5 + - + +
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Residues in contact with GLU 266 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138A ASP* 5.3 0.7 - - - -
169A GLU* 3.1 12.7 - - - +
172A HIS* 3.2 16.4 + - - -
232A GLU* 2.4 43.2 - - - +
236A PHE* 3.3 17.3 - - + -
240A PHE* 3.7 28.0 - - + -
262A ILE* 2.9 25.8 + - + +
263A SER 3.8 3.4 - - - +
265A ASP* 1.3 72.5 - - - +
267A GLY* 1.3 59.6 - - - +
269A HIS* 2.9 22.6 + - - +
270A CYS* 3.0 35.0 + - - -
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Residues in contact with GLY 267 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
263A SER 2.8 16.2 + - - -
264A ARG* 3.6 5.2 - - - -
266A GLU* 1.3 75.9 - - - +
268A LEU* 1.3 55.0 + - - +
270A CYS* 3.3 8.0 + - - +
271A ASP* 2.9 37.0 + - - +
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Residues in contact with LEU 268 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93A MET* 3.2 40.7 - - + +
96A LYS* 3.7 42.8 - - + +
97A ALA* 3.6 41.3 - - + +
100A SER* 4.9 3.8 - - - +
161A PHE* 4.2 7.2 - - + -
264A ARG* 3.0 13.1 + - + +
265A ASP* 3.1 12.1 + - - +
267A GLY* 1.3 75.1 - - - +
269A HIS* 1.3 60.7 + - + +
271A ASP* 3.2 7.2 + - - +
272A PHE* 2.9 26.7 + - - +
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Residues in contact with HIS 269 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97A ALA* 5.9 2.6 - - + +
161A PHE* 3.9 21.5 - + - -
165A GLN* 3.4 37.2 - - + +
168A MET* 4.6 12.1 - - + +
169A GLU* 3.2 22.6 + - - -
172A HIS* 4.2 5.2 - + - -
232A GLU* 3.4 19.8 - - - +
265A ASP* 2.9 34.5 + - + +
266A GLU* 2.9 29.2 + - - +
268A LEU* 1.3 80.0 - - + +
270A CYS* 1.3 58.2 + - - +
272A PHE* 3.4 4.2 + - - +
273A ALA* 3.1 24.9 + - - +
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Residues in contact with CYS 270 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
229A ALA* 3.6 12.5 - - + +
232A GLU* 3.5 11.7 - - - -
233A GLY* 3.3 39.9 - - - -
266A GLU 3.0 18.8 + - - +
267A GLY* 3.6 9.0 - - - +
269A HIS* 1.3 73.9 - - - +
271A ASP* 1.3 67.4 + - - +
272A PHE 3.1 0.2 - - - -
273A ALA* 3.2 9.0 + - - +
274A CYS* 3.1 27.8 + - - -
331A LEU* 5.0 11.4 - - + -
334A GLU* 5.3 2.0 - - - +
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Residues in contact with ASP 271 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93A MET* 3.6 15.2 - - + +
96A LYS* 4.9 6.4 + - - -
267A GLY 2.9 23.2 + - - +
268A LEU* 3.2 14.4 + - - +
270A CYS* 1.3 76.3 - - - +
272A PHE* 1.3 56.5 + - - +
274A CYS* 3.2 4.5 + - - +
275A LEU* 3.0 27.0 + - - +
334A GLU* 2.7 37.6 - - - +
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Residues in contact with PHE 272 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90A ILE* 3.7 16.6 - - + -
93A MET* 3.8 19.3 - - + -
158A ALA* 3.7 11.7 - - + -
161A PHE* 3.3 73.4 - + + -
162A TYR* 3.7 26.5 - + - -
165A GLN* 5.2 0.2 - - - -
268A LEU 2.9 8.9 + - - +
269A HIS 3.6 3.6 - - - +
270A CYS 3.1 0.2 - - - -
271A ASP* 1.3 73.5 - - - +
273A ALA* 1.3 67.9 + - - +
275A LEU* 3.2 3.5 + - + +
276A MET* 2.9 64.4 + - + +
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Residues in contact with ALA 273 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
162A TYR* 5.5 0.9 - - - -
225A VAL* 3.7 26.7 - - + +
228A PHE 5.6 0.2 - - - -
229A ALA* 3.8 27.1 - - + +
269A HIS 3.1 14.4 + - - +
270A CYS* 3.5 9.0 - - - +
272A PHE* 1.3 79.9 - - - +
274A CYS* 1.3 55.3 + - - +
276A MET* 3.4 4.7 + - - +
277A PHE* 3.0 27.8 + - - +
335A LEU* 5.1 1.8 - - - -
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Residues in contact with CYS 274 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
229A ALA* 5.4 0.2 - - - -
270A CYS 3.1 18.9 + - - -
271A ASP 3.5 7.2 - - - +
272A PHE 3.2 0.2 - - - -
273A ALA* 1.3 75.8 - - - +
275A LEU* 1.3 58.6 + - - +
277A PHE* 3.3 4.3 + - - +
278A LYS* 3.0 35.5 + - - +
331A LEU* 3.7 26.2 - - - -
334A GLU* 3.6 45.5 - - + +
335A LEU* 3.9 20.1 - - + -
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Residues in contact with LEU 275 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89A ASP* 3.6 44.2 - - + +
90A ILE* 3.8 23.6 - - + +
93A MET* 4.0 17.5 - - + -
271A ASP 3.0 12.7 + - - +
272A PHE* 3.5 11.2 - - + +
274A CYS* 1.3 77.0 - - - +
276A MET* 1.3 63.4 + - + +
278A LYS* 3.4 15.1 + - + +
279A HIS* 3.0 37.8 + - + -
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Residues in contact with MET 276 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72A LEU* 3.3 33.8 - - + +
90A ILE* 3.5 35.4 - - + -
153A VAL* 4.9 2.5 - - - -
158A ALA* 3.7 15.0 - - - -
162A TYR* 3.9 3.1 - - - +
221A TYR* 3.3 31.4 - - + +
225A VAL* 4.5 3.1 - - + -
272A PHE* 2.9 58.4 + - + +
273A ALA* 3.6 7.9 - - - +
275A LEU* 1.3 79.3 - - + +
277A PHE* 1.3 63.6 + - - +
279A HIS* 3.0 10.7 + - + -
280A LEU* 3.4 6.9 + - - +
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Residues in contact with PHE 277 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
222A GLY 3.8 6.7 - - - -
225A VAL* 5.1 5.1 - - + +
226A VAL* 3.5 31.4 - - + -
273A ALA 3.0 13.9 + - - +
274A CYS 3.3 9.4 + - - +
276A MET* 1.3 75.9 - - - +
278A LYS* 1.3 62.7 + - - +
280A LEU* 3.2 28.4 + - + +
283A LYS* 3.3 42.0 - - + -
284A PRO* 3.6 25.8 - - + -
289A VAL* 4.2 1.6 - - + -
335A LEU* 3.5 40.4 - - + -
337A PHE* 3.6 32.8 - + - -
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Residues in contact with LYS 278 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
274A CYS* 3.0 19.5 + - - +
275A LEU* 3.6 18.6 - - + +
276A MET 3.3 0.4 - - - -
277A PHE* 1.3 75.9 - - - +
279A HIS* 1.3 61.7 + - + +
280A LEU 3.2 1.1 - - - +
283A LYS* 3.4 22.9 + - - +
333A LEU 5.3 0.2 + - - -
334A GLU* 2.8 36.8 + - - +
335A LEU 4.7 12.6 - - - +
336A GLY* 4.8 5.4 - - - +
----------------------------------------------------------
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Residues in contact with HIS 279 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70A GLU* 4.3 2.8 - - - +
71A PRO* 4.7 10.4 - - - +
72A LEU* 3.6 29.2 - - + +
87A TYR* 4.0 31.3 - + - -
89A ASP* 2.6 32.6 + - - -
90A ILE* 4.2 8.4 - - + +
275A LEU* 3.0 33.0 + - + +
276A MET* 3.0 13.6 + - - +
278A LYS* 1.3 78.9 - - + +
280A LEU* 1.3 59.8 + - - +
281A VAL* 3.9 2.9 + - - +
----------------------------------------------------------
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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