Contacts of the helix formed by residues 242 - 264 (chain A) in PDB entry 1ASZ
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 VAL 242 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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116A HIS* 5.8 3.4 - - + -
131A ARG* 5.3 7.9 - - - -
134A ALA* 3.6 44.6 - - + +
136A LEU* 4.4 17.5 - - + -
212A SER* 5.3 1.4 + - - -
240A ARG 3.7 1.4 + - - -
241A THR* 1.3 72.4 - - - +
243A THR* 1.3 65.4 + - - +
245A GLN* 3.1 4.7 + - - +
246A ALA* 3.0 19.9 + - - +
379A LEU* 3.7 36.3 - - + -
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Residues in contact with THR 243 (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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212A SER* 4.8 3.1 + - - -
241A THR* 3.1 6.6 + - - -
242A VAL* 1.3 78.3 + - - +
244A ASN* 1.3 56.5 + - - +
246A ALA* 2.9 12.5 + - - +
247A ILE* 2.9 47.4 + - + +
379A LEU* 4.4 8.6 + - - +
380A VAL* 4.1 11.4 - - + -
383A GLN* 2.6 42.7 + - + +
384A TYR* 3.5 19.3 - - + +
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Residues in contact with ASN 244 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
231A ARG* 5.2 2.0 - - - +
235A ARG* 4.7 4.9 + - - +
238A ASP* 2.8 40.0 + - - -
239A LEU* 3.9 22.9 - - - +
241A THR* 2.9 18.7 + - - +
243A THR* 1.3 77.3 - - - +
245A GLN* 1.3 69.0 + - - +
246A ALA 3.1 0.2 - - - -
247A ILE* 3.7 16.8 - - - +
248A PHE* 2.9 41.7 + - + +
384A TYR* 5.4 2.6 + - - -
544A ARG* 4.5 9.7 - - - +
314B PHE* 4.6 0.5 - - - -
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Residues in contact with GLN 245 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133A GLN* 2.5 51.1 + - - +
134A ALA* 4.0 14.8 - - + +
239A LEU 2.9 24.4 + - - -
240A ARG* 4.0 5.8 - - - +
241A THR 3.0 18.4 + - - +
242A VAL 3.4 6.1 - - - +
244A ASN* 1.3 78.0 - - - +
246A ALA* 1.3 66.3 + - - +
248A PHE* 3.0 8.8 + - - +
249A ARG* 3.2 26.8 + - - +
312B ALA 3.6 12.9 + - - -
313B ASP* 3.9 2.4 - - - +
314B PHE* 3.6 24.7 - - - -
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Residues in contact with ALA 246 (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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242A VAL 3.0 11.1 + - - +
243A THR 2.9 13.5 + - - +
245A GLN* 1.3 74.9 - - - +
247A ILE* 1.3 56.4 + - - +
248A PHE 2.8 7.6 + - - -
249A ARG* 3.0 17.0 + - - +
250A ILE* 3.3 15.7 + - - +
376A GLU* 3.4 40.6 - - + +
379A LEU* 4.0 12.6 - - + -
380A VAL* 3.6 7.9 - - + -
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Residues in contact with ILE 247 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
243A THR* 2.9 53.5 + - + +
244A ASN* 3.7 19.3 - - - +
245A GLN 3.4 0.4 - - - -
246A ALA* 1.3 70.0 - - - +
248A PHE* 1.3 67.6 + - + +
250A ILE* 4.2 1.6 - - - -
251A GLN* 3.3 20.4 + - - +
380A VAL* 3.7 22.6 - - + +
384A TYR* 4.6 6.5 - - + +
533A VAL* 4.1 8.9 - - + +
537A LEU* 4.4 10.1 - - + -
539A LEU* 4.2 21.5 - - + -
544A ARG* 4.1 21.5 - - + +
545A ALA* 4.4 10.1 - - + -
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Residues in contact with PHE 248 (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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235A ARG* 3.5 29.4 - - - -
239A LEU* 3.9 11.7 - - + -
244A ASN* 2.9 36.0 + - + +
245A GLN 3.0 3.7 + - - +
246A ALA 2.8 3.2 + - - -
247A ILE* 1.3 84.4 - - + +
249A ARG* 1.3 63.5 + - - +
250A ILE 3.2 1.6 - - - -
251A GLN* 3.8 29.9 - - + +
252A ALA* 3.5 18.7 + - - +
544A ARG 3.9 11.0 - - - -
545A ALA* 3.9 7.9 - - - -
546A SER 4.0 0.7 - - - -
547A LEU* 3.6 39.5 - - + -
268B THR* 3.8 10.2 - - + +
269B GLU 4.7 1.0 - - - +
270B VAL* 6.5 0.2 - - + -
314B PHE* 3.8 25.4 - + + -
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Residues in contact with ARG 249 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134A ALA* 6.1 2.0 - - - -
245A GLN* 3.3 27.4 - - - +
246A ALA* 3.0 6.8 + - - +
248A PHE* 1.3 76.9 - - - +
250A ILE* 1.3 60.1 + - - +
252A ALA* 4.0 6.9 - - - +
253A GLY 3.2 16.1 + - - -
373A PHE* 3.4 26.0 - - + -
376A GLU* 2.9 40.4 + - + +
268B THR* 4.3 21.1 + - + +
314B PHE* 6.2 2.0 - - + -
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Residues in contact with ILE 250 (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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246A ALA 3.3 13.2 + - - +
247A ILE* 4.2 2.9 - - - +
248A PHE 3.2 0.2 - - - -
249A ARG* 1.3 75.9 - - - +
251A GLN* 1.3 67.6 + - - +
252A ALA 2.9 1.6 - - - -
253A GLY* 2.8 13.4 + - - +
254A VAL* 2.9 17.4 + - + +
369A LEU* 4.4 18.7 - - + +
373A PHE* 3.7 25.8 - - + -
376A GLU* 3.6 29.8 - - + +
377A ILE* 3.6 26.7 - - + -
533A VAL* 3.7 20.4 - - + -
536A TYR* 5.4 0.7 - - + -
537A LEU* 4.1 20.4 - - + -
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Residues in contact with GLN 251 (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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247A ILE 3.3 18.3 + - - +
248A PHE* 3.8 23.0 - - + +
250A ILE* 1.3 80.5 - - - +
252A ALA* 1.3 60.1 + - - +
254A VAL* 3.9 2.4 + - - +
255A CYS* 3.7 11.3 + - - -
339A THR* 5.7 0.2 - - - +
529A LEU* 3.4 46.2 - - + +
530A GLU* 3.9 12.2 + - - +
533A VAL* 4.1 18.1 - - + +
545A ALA 2.7 31.1 + - - -
546A SER* 4.5 2.8 - - - +
547A LEU* 4.9 1.6 - - - +
270B VAL* 5.6 2.3 - - - -
271B HIS* 4.6 13.3 + - - +
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Residues in contact with ALA 252 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
248A PHE 3.5 16.3 + - - +
249A ARG* 4.0 5.8 - - - +
250A ILE 2.9 0.8 - - - -
251A GLN* 1.3 77.6 - - - +
253A GLY* 1.3 57.6 + - - +
254A VAL 3.0 1.8 - - - -
255A CYS* 2.6 30.5 + - - +
256A GLU* 2.9 12.8 + - - +
268B THR* 4.2 8.7 - - + -
269B GLU* 4.0 29.8 - - + +
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Residues in contact with GLY 253 (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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249A ARG 3.2 5.9 + - - -
250A ILE 2.8 5.1 + - - -
252A ALA* 1.3 78.2 - - - +
254A VAL* 1.3 62.1 + - - +
256A GLU* 3.2 10.9 + - - +
257A LEU* 2.9 31.0 + - - +
369A LEU* 4.9 0.2 - - - -
373A PHE* 3.4 36.8 - - - -
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Residues in contact with VAL 254 (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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250A ILE* 2.9 23.2 + - + +
251A GLN* 3.9 7.9 - - - +
253A GLY* 1.3 77.1 - - - +
255A CYS* 1.3 61.4 + - - +
257A LEU* 4.0 6.9 - - - +
258A PHE* 3.1 22.3 + - - +
341A LEU* 4.6 11.2 - - + -
365A ILE* 4.6 16.4 - - + +
369A LEU* 4.1 28.3 - - + -
529A LEU* 4.3 17.7 - - + -
532A VAL* 4.3 26.2 - - + -
533A VAL* 5.4 4.3 - - + -
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Residues in contact with CYS 255 (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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251A GLN* 3.7 6.7 - - - -
252A ALA* 2.6 16.9 + - - +
254A VAL* 1.3 74.5 - - - +
256A GLU* 1.3 62.4 + - - +
258A PHE* 3.2 9.2 + - - +
259A ARG* 3.0 46.0 + - - +
320A ILE* 4.5 4.3 - - + -
341A LEU* 4.4 12.1 - - - -
529A LEU* 3.5 37.0 - - - -
269B GLU* 3.9 6.3 - - - +
271B HIS* 3.6 19.3 - - - -
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Residues in contact with GLU 256 (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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252A ALA 2.9 10.8 + - - +
253A GLY* 3.4 17.4 - - - +
255A CYS* 1.3 77.2 - - - +
257A LEU* 1.3 52.2 + - + +
259A ARG* 3.3 16.6 + - - +
260A GLU* 2.8 40.0 + - + +
372A ARG* 4.2 20.3 + - - +
373A PHE* 4.4 9.0 - - - -
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Residues in contact with LEU 257 (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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253A GLY* 2.9 21.4 + - - +
254A VAL* 4.0 3.1 - - - +
256A GLU* 1.3 69.7 - - + +
258A PHE* 1.3 69.1 + - - +
259A ARG 3.0 1.6 - - - -
260A GLU* 2.9 13.4 + - - +
261A TYR* 2.9 27.1 + - - +
364A PHE* 3.7 14.5 - - + +
365A ILE* 3.7 35.2 - - + +
368A GLU* 3.5 25.6 - - + -
369A LEU* 4.2 12.8 - - + +
372A ARG* 3.4 42.2 - - - +
373A PHE* 5.4 0.9 - - + -
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Residues in contact with PHE 258 (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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254A VAL 3.1 12.6 + - - +
255A CYS* 3.4 8.7 - - - +
257A LEU* 1.3 79.1 - - - +
259A ARG* 1.3 67.0 + - + +
261A TYR* 4.2 0.5 - - - +
262A LEU* 3.2 53.0 + - + +
318A TYR* 3.6 23.8 - + - -
320A ILE* 4.4 15.3 - - + -
341A LEU* 3.6 42.8 - - + -
342A ASP 3.7 22.0 - - - -
343A MET* 4.7 4.5 - - + -
361A LEU* 4.0 27.9 - - + +
365A ILE* 4.6 6.3 - - + +
527A ILE* 3.8 15.9 - - + -
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Residues in contact with ARG 259 (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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255A CYS* 3.0 17.1 + - - +
256A GLU* 3.5 26.2 - - - +
258A PHE* 1.3 75.9 - - + +
260A GLU* 1.3 66.9 + - - +
261A TYR 3.0 0.2 + - - -
262A LEU* 3.2 1.7 + - - +
263A ALA* 2.8 26.9 + - - +
269A GLU* 4.6 0.2 + - - -
318A TYR* 3.6 25.1 + - + +
320A ILE* 3.0 37.9 - - + +
259B ARG* 3.4 50.4 - - - +
269B GLU* 2.6 44.8 + - - -
318B TYR* 4.6 1.2 + - - -
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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
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256A GLU* 2.8 22.6 + - + +
257A LEU* 3.3 10.8 - - - +
259A ARG* 1.3 73.2 - - - +
261A TYR* 1.3 62.5 + - - +
263A ALA* 3.3 16.3 - - - +
264A THR* 3.7 11.6 + - - +
364A PHE* 3.3 22.2 - - + -
372A ARG* 2.7 42.7 + - - -
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Residues in contact with TYR 261 (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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257A LEU 2.9 13.7 + - - +
258A PHE 4.2 1.1 - - - +
260A GLU* 1.3 72.8 - - - +
262A LEU* 1.3 57.7 + - + +
263A ALA 2.7 4.7 + - - -
264A THR* 2.7 42.7 + - - -
265A LYS* 3.4 25.6 + - + +
357A THR* 3.3 26.2 + - + +
360A GLU* 2.8 52.4 + - + +
361A LEU* 3.3 45.5 - - + -
364A PHE* 3.9 32.1 - + + -
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Residues in contact with LEU 262 (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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258A PHE* 3.2 62.0 + - + +
259A ARG 3.8 2.5 - - - +
261A TYR* 1.3 95.2 - - + +
263A ALA* 1.3 62.0 + - - +
265A LYS* 3.4 5.0 + - + +
267A PHE* 3.1 66.6 + - + -
318A TYR* 3.8 21.5 - - + -
343A MET* 4.3 13.2 - - + -
357A THR* 4.7 3.6 - - + -
361A LEU* 4.5 8.7 - - + -
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Residues in contact with ALA 263 (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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259A ARG 2.8 13.5 + - - +
260A GLU* 3.3 16.4 - - - +
261A TYR 2.7 2.0 + - - -
262A LEU* 1.3 77.6 - - - +
264A THR* 1.3 57.5 + - + +
266A LYS* 2.8 28.1 + - - +
267A PHE 4.1 8.2 + - - +
318A TYR* 5.2 2.7 - - - +
256B GLU* 6.0 2.0 - - - +
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Residues in contact with THR 264 (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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260A GLU 3.8 13.2 - - - +
261A TYR* 2.7 33.3 + - - -
263A ALA* 1.3 73.4 - - + +
265A LYS* 1.3 75.8 + - - +
266A LYS* 3.1 15.8 + - - +
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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