Contacts of the helix formed by residues 255 - 276 (chain B) in PDB entry 6UWZ
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 GLU 255 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
237A THR* 5.8 1.0 - - - +
240A GLY* 3.2 20.6 - - - +
241A GLU* 3.1 7.4 + - - -
242A LYS* 3.1 14.1 + - - +
243A MET* 2.8 52.6 + - + +
244A THR* 3.7 7.1 + - - +
296A ILE* 3.9 8.8 - - - +
249B LEU* 3.3 9.1 - - + +
253B SER* 2.6 29.6 + - - +
254B GLY* 1.3 79.3 - - - +
256B LYS* 1.3 58.5 + - - +
257B MET 3.6 1.3 - - - -
258B SER* 4.1 6.1 - - - -
259B THR* 2.3 35.3 + - - -
247C GLU* 3.8 4.9 - - - -
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Residues in contact with LYS 256 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
246B ALA* 4.0 15.6 + - - +
249B LEU* 2.5 44.3 + - + +
250B PRO* 4.4 0.4 - - - +
251B ALA* 4.1 20.0 - - + +
253B SER 4.4 8.5 - - - +
255B GLU* 1.3 75.3 - - - +
257B MET* 1.3 70.0 + - + +
259B THR* 3.2 5.5 + - - -
260B ALA* 3.0 23.9 + - - +
306B CYS* 4.2 33.2 - - + +
309B VAL* 4.6 9.1 - - + +
310B LEU* 4.2 17.9 - - + -
454B ASP* 2.4 34.7 + - - -
247C GLU* 3.8 1.4 + - + +
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Residues in contact with MET 257 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
256B LYS* 1.3 72.2 - - - +
258B SER* 1.3 55.6 + - - +
260B ALA* 4.5 4.0 - - - +
261B ILE* 2.7 48.4 + - + +
303B ILE* 3.3 37.5 - - + +
306B CYS* 3.4 25.1 - - - -
307B GLY* 3.6 13.2 - - - +
310B LEU* 3.5 20.4 - - + -
237C LEU* 4.1 8.5 - - + -
241C LEU* 4.1 9.6 - - + -
247C GLU* 3.0 39.7 + - + +
250C SER* 5.6 0.2 - - - -
251C LEU* 4.2 6.5 - - + -
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Residues in contact with SER 258 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
243A MET* 6.0 1.3 - - - -
244A THR* 5.1 14.9 + - - -
247A ILE* 5.4 1.3 - - - -
254B GLY 4.1 0.9 + - - -
255B GLU* 4.1 11.9 - - - -
256B LYS 3.3 0.2 - - - -
257B MET* 1.3 72.7 - - - +
259B THR* 1.3 64.0 + - - +
261B ILE* 3.4 10.2 - - - +
262B SER* 2.9 33.3 + - - -
247C GLU* 2.4 37.0 + - - -
250C SER* 3.6 13.4 + - - -
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Residues in contact with THR 259 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
243A MET* 4.0 21.3 - - + +
247A ILE* 4.1 25.6 - - + +
289A ILE* 5.6 1.3 - - + -
293A VAL* 5.9 2.5 - - + -
242B LEU* 4.5 11.2 - - + +
243B ALA* 5.3 0.2 - - - -
245B LEU* 6.3 0.7 - - + -
246B ALA* 4.1 21.8 - - + -
249B LEU* 3.8 10.1 - - + +
255B GLU 2.3 25.3 + - - -
256B LYS* 3.2 5.1 + - - -
258B SER* 1.3 78.2 - - - +
260B ALA* 1.3 63.1 + - - +
262B SER* 3.8 1.6 - - - -
263B VAL* 3.0 31.6 + - + +
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Residues in contact with ALA 260 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
243B ALA* 4.9 5.2 - - + +
246B ALA* 4.9 4.9 - - + -
256B LYS 3.0 15.6 + - - +
257B MET* 4.0 3.8 - - - +
259B THR* 1.3 77.6 - - - +
261B ILE* 1.3 57.4 + - - +
263B VAL* 3.2 10.1 + - - +
264B LEU 3.0 22.0 + - - -
299B VAL* 3.5 11.9 - - + +
302B VAL* 4.3 19.5 - - + -
303B ILE* 3.3 28.3 - - + -
306B CYS* 5.1 2.2 - - - -
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Residues in contact with ILE 261 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
257B MET 2.7 30.6 + - - +
258B SER* 3.4 7.2 - - - +
260B ALA* 1.3 72.8 - - - +
262B SER* 1.3 65.3 + - - +
264B LEU* 3.2 5.3 + - + +
265B LEU* 2.9 31.5 + - - +
303B ILE* 3.7 25.6 - - + -
234C LEU* 4.9 4.0 - - + -
250C SER* 3.2 32.8 - - - +
251C LEU* 3.3 31.6 - - + +
254C SER* 3.2 32.5 - - - +
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Residues in contact with SER 262 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
247A ILE* 3.1 33.8 - - - +
250A LEU* 6.0 0.7 - - - -
251A LEU* 3.4 20.9 - - - +
258B SER* 2.9 21.7 + - - -
259B THR 3.8 0.4 - - - -
261B ILE* 1.3 77.5 - - - +
263B VAL* 1.3 63.5 + - - +
265B LEU* 3.1 14.9 + - - +
266B ALA* 2.9 19.4 + - - +
254C SER* 5.6 0.5 + - - -
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Residues in contact with VAL 263 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
247A ILE* 5.0 5.6 - - + -
250A LEU* 5.9 1.8 - - + -
239B ILE* 3.3 43.7 - - + +
242B LEU* 4.2 10.5 - - + -
243B ALA* 3.4 31.4 - - + +
259B THR* 3.0 21.9 + - + +
260B ALA 3.2 7.8 + - - +
262B SER* 1.3 77.2 - - - +
264B LEU* 1.3 57.5 + - - +
266B ALA* 3.2 4.4 + - - +
267B GLN* 2.9 41.9 + - - +
299B VAL* 4.2 2.7 - - + -
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Residues in contact with LEU 264 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
260B ALA 3.0 13.3 + - - +
261B ILE* 3.5 11.4 - - - +
262B SER 3.2 0.4 - - - -
263B VAL* 1.3 77.7 - - - +
265B LEU* 1.3 56.4 + - - +
267B GLN* 3.3 22.5 + - - +
268B ALA* 2.9 27.0 + - - +
296B MET* 3.5 40.2 - - + +
299B VAL* 3.8 11.2 - - + -
300B THR* 4.0 11.2 - - - +
303B ILE* 4.3 4.7 - - + -
230C LEU* 5.4 4.0 - - + -
231C ILE* 4.5 13.9 - - + -
234C LEU* 3.9 28.3 - - + -
258C ALA* 6.0 2.0 - - + -
262C PHE* 6.5 0.4 - - + -
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Residues in contact with LEU 265 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
251A LEU* 4.2 20.4 - - + -
261B ILE 2.9 18.7 + - - +
262B SER* 3.1 17.2 + - - +
264B LEU* 1.3 74.1 - - - +
266B ALA* 1.3 65.6 + - - +
268B ALA* 3.1 6.9 + - + +
269B VAL* 2.9 28.1 + - + +
254C SER* 3.6 41.7 - - - +
257C LEU* 4.3 21.5 - - + -
258C ALA* 3.7 24.9 - - + +
261C VAL* 5.3 5.2 - - + +
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Residues in contact with ALA 266 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
250A LEU* 4.5 2.5 - - + -
251A LEU* 3.8 15.3 - - + +
254A THR* 4.3 11.4 - - + +
239B ILE* 3.9 31.4 - - + -
262B SER 2.9 12.7 + - - +
263B VAL 3.5 7.9 - - - +
265B LEU* 1.3 76.1 - - - +
267B GLN* 1.3 57.3 + - - +
269B VAL* 3.1 9.6 + - - +
270B PHE* 2.9 34.6 + - - -
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Residues in contact with GLN 267 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
236B CYS* 3.7 19.1 - - - +
239B ILE* 5.4 2.9 - - + -
240B SER* 2.5 37.0 + - - +
263B VAL* 2.9 17.5 + - + +
264B LEU* 3.4 31.7 - - - +
265B LEU 3.2 0.2 - - - -
266B ALA* 1.3 75.4 - - - +
268B ALA* 1.3 57.8 + - - +
270B PHE* 3.3 9.0 + - + +
271B LEU* 2.9 28.4 + - - +
292B LEU* 4.0 4.9 - - + +
295B ILE* 3.5 17.2 - - + +
296B MET* 3.6 18.1 - - + +
299B VAL* 3.5 20.9 - - - +
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Residues in contact with ALA 268 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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264B LEU* 2.9 13.6 + - + +
265B LEU* 3.1 12.5 + - + +
267B GLN* 1.3 75.0 - - - +
269B VAL* 1.3 60.0 + - - +
271B LEU* 3.3 5.4 + - - +
272B LEU* 2.9 28.1 + - - +
296B MET* 3.7 12.3 - - + +
258C ALA* 5.0 5.6 - - + -
261C VAL* 4.1 16.7 - - + +
262C PHE* 3.7 28.6 - - + -
265C LEU* 5.0 1.0 - - - +
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Residues in contact with VAL 269 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
251A LEU* 5.9 2.5 - - + -
254A THR* 3.8 30.3 - - + +
255A VAL* 4.9 12.6 - - + +
258A LEU* 3.8 27.1 - - + -
265B LEU* 2.9 21.3 + - + +
266B ALA* 3.1 9.4 + - - +
268B ALA* 1.3 77.0 - - - +
270B PHE* 1.3 57.6 + - - +
272B LEU* 3.1 9.7 + - + +
273B LEU* 3.0 31.0 + - + +
261C VAL* 4.8 14.6 - - + -
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Residues in contact with PHE 270 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
254A THR* 3.7 24.9 - - + -
257A LEU* 3.4 26.9 - - + -
282A MET* 5.0 0.9 - - + -
231B ASN 3.8 10.5 - - - -
232B PHE* 4.1 19.1 - + + +
235B PRO* 3.6 24.2 - - + -
236B CYS* 3.8 28.0 - - + -
239B ILE* 3.7 21.5 - - + -
266B ALA* 2.9 29.0 + - + -
267B GLN* 3.7 5.8 - - + +
268B ALA 3.3 0.2 - - - -
269B VAL* 1.3 72.8 - - - +
271B LEU* 1.3 57.0 + - - +
273B LEU* 3.3 14.9 + - + +
274B THR* 2.7 38.8 + - - +
292B LEU* 4.2 5.8 - - + -
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Residues in contact with LEU 271 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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267B GLN 2.9 14.7 + - - +
268B ALA* 3.4 7.2 - - - +
270B PHE* 1.3 75.8 - - - +
272B LEU* 1.3 57.4 + - - +
274B THR* 3.3 1.7 + - - -
275B SER* 2.9 29.1 + - - -
289B GLY* 5.5 0.4 - - - -
292B LEU* 3.9 23.1 - - + +
293B MET* 3.6 23.3 - - + -
296B MET* 4.0 13.9 - - + -
222C VAL* 4.9 0.9 - - + -
223C TYR* 3.4 42.7 - - + +
227C PRO* 3.5 31.4 - - + -
262C PHE* 4.7 6.1 - - + -
265C LEU* 4.1 8.3 - - + -
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Residues in contact with LEU 272 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
258A LEU* 4.0 23.6 - - + -
268B ALA 2.9 13.0 + - - +
269B VAL* 3.1 10.3 + - + +
271B LEU* 1.3 77.6 - - - +
273B LEU* 1.3 64.4 + - + +
275B SER* 2.8 19.3 + - - +
276B GLN* 3.3 24.8 - - - +
261C VAL* 4.4 14.8 - - + -
264C LEU* 3.6 28.9 - - + -
265C LEU* 3.5 43.4 - - + +
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Residues in contact with LEU 273 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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254A THR 5.3 0.2 - - - +
257A LEU* 4.7 8.3 - - + -
258A LEU* 3.4 56.5 - - + +
261A VAL* 4.6 16.3 - - + +
232B PHE* 3.5 26.0 - - + -
269B VAL* 3.0 22.3 + - + +
270B PHE* 3.3 22.4 + - + +
272B LEU* 1.3 78.1 - - + +
274B THR* 1.3 60.8 + - - +
276B GLN* 3.5 24.5 + - - +
277B ARG* 3.4 19.9 + - - +
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Residues in contact with THR 274 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137B PHE* 4.9 2.5 - - + -
232B PHE* 3.8 18.1 - - + -
270B PHE* 2.7 21.8 + - - +
271B LEU 3.6 4.5 - - - -
272B LEU 3.2 0.2 - - - -
273B LEU* 1.3 73.4 - - - +
275B SER* 1.3 64.9 - - - +
276B GLN 3.1 2.5 - - - -
277B ARG* 3.0 14.2 + - - -
278B LEU* 3.5 18.6 - - + +
288B ILE* 3.5 35.0 - - + +
292B LEU* 3.6 18.2 - - + +
223C TYR* 3.6 17.7 + - + +
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Residues in contact with SER 275 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
271B LEU 2.9 13.9 + - - -
272B LEU* 2.8 20.4 + - - +
274B THR* 1.3 76.9 - - - +
276B GLN* 1.3 56.4 + - - +
277B ARG 3.3 2.2 + - - -
278B LEU 4.0 5.4 - - - +
219C PHE* 3.4 27.4 - - - -
223C TYR* 3.6 24.9 - - - -
265C LEU* 3.3 30.5 + - - +
269C LYS* 3.4 14.8 + - - -
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Residues in contact with GLN 276 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
261A VAL* 5.6 6.1 - - - +
48B THR* 5.0 7.6 - - - +
272B LEU* 3.3 32.4 - - - +
273B LEU* 3.5 23.2 + - - +
275B SER* 1.3 78.9 + - - +
277B ARG* 1.3 67.7 + - + +
278B LEU 3.9 2.0 - - - -
268C ASP* 4.8 17.7 - - - +
269C LYS* 4.8 4.7 - - - +
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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