Contacts of the helix formed by residues 315 - 338 (chain B) in PDB entry 3A3K
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 ASN 315 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22B ARG* 4.3 13.0 + - - -
290B TYR* 3.5 13.3 + - - +
293B PHE* 4.6 2.6 - - - -
294B LEU* 3.8 22.5 - - + +
297B LEU* 4.2 6.0 - - + +
298B LYS* 5.5 1.4 - - - +
309B VAL* 3.4 24.0 - - - +
310B GLU 2.8 25.6 + - - +
311B ASP* 3.8 5.1 + - - +
312B GLY* 3.2 24.5 + - - +
313B LEU 2.9 1.2 + - - -
314B LYS* 1.3 75.2 - - - +
316B ILE* 1.3 61.9 + - - +
317B ILE 3.1 0.4 - - - -
318B PRO* 3.3 18.1 - - + +
319B ALA* 3.3 12.3 + - - +
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Residues in contact with ILE 316 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128B PRO* 4.1 14.4 - - + -
244B PHE* 4.8 0.7 - - + -
282B TYR* 3.9 40.2 - - + -
283B LYS 4.7 4.3 - - - +
284B GLU* 5.7 0.2 - - - +
285B PRO* 3.7 29.2 - - + -
290B TYR* 3.4 15.5 + - - +
313B LEU* 3.0 25.9 + - + +
315B ASN* 1.3 77.1 - - - +
317B ILE* 1.3 64.4 + - + +
319B ALA* 3.6 6.7 - - - +
320B SER* 2.5 46.0 + - - +
361B THR* 5.0 3.4 - - + -
374B THR* 6.0 0.9 - - + -
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Residues in contact with ILE 317 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17B PRO* 3.5 31.4 - - + +
18B TRP* 4.0 20.9 - - + -
107B ALA* 3.5 25.9 - - - +
108B GLY* 5.3 1.8 - - - -
128B PRO* 3.8 23.1 - - + -
244B PHE* 4.0 28.9 - - + -
314B LYS 3.4 10.3 - - - +
316B ILE* 1.3 76.7 - - + +
318B PRO* 1.4 67.7 - - + +
320B SER* 3.1 3.4 + - - -
321B PHE* 3.0 40.7 + - + -
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Residues in contact with PRO 318 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17B PRO 3.5 9.9 - - - +
22B ARG* 3.7 43.3 - - + +
23B VAL* 4.2 12.3 - - + -
26B ALA* 3.4 19.0 - - + +
293B PHE* 4.3 0.2 - - - -
297B LEU* 4.4 14.1 - - + -
314B LYS 3.3 10.8 - - - +
315B ASN* 3.3 19.3 - - - +
317B ILE* 1.4 94.5 - - + +
319B ALA* 1.3 55.1 + - - +
321B PHE* 3.2 2.6 + - + +
322B HIS 2.9 24.1 + - - -
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Residues in contact with ALA 319 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
290B TYR* 3.9 12.3 - - + -
293B PHE* 3.5 26.5 - - + -
315B ASN 3.3 16.9 + - - +
316B ILE 3.6 2.5 - - - +
317B ILE 3.2 0.8 - - - -
318B PRO* 1.3 78.6 - - - +
320B SER* 1.3 57.6 + - - +
322B HIS* 3.2 3.8 - - - +
323B ASP* 2.9 31.2 + - - +
360B VAL* 3.9 4.7 - - + +
361B THR* 3.6 22.4 - - + -
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Residues in contact with SER 320 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107B ALA* 3.7 14.4 - - - -
126B THR* 2.9 36.6 + - - -
127B GLY* 4.1 5.2 - - - -
128B PRO* 5.1 1.4 - - - +
316B ILE* 2.5 31.9 + - - +
317B ILE* 3.1 1.1 + - - -
319B ALA* 1.3 71.2 - - - +
321B PHE* 1.3 60.7 + - - +
323B ASP* 4.1 7.1 - - - +
324B GLY 2.8 21.8 + - - -
361B THR* 4.0 4.4 - - - +
372B ARG* 3.1 17.8 + - - +
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Residues in contact with PHE 321 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9B LEU* 4.0 22.4 - - + -
18B TRP* 3.8 23.8 - - + -
23B VAL* 3.6 32.8 - - + -
27B VAL* 4.9 5.6 - - + -
82B LEU* 3.9 25.8 - - + +
83B GLY* 3.9 16.2 - - - -
85B GLY* 5.2 0.2 - - - -
105B LEU* 5.3 0.4 - - + -
106B THR* 3.8 19.3 - - - -
107B ALA* 3.5 33.2 - - + +
108B GLY 4.4 1.6 - - - -
126B THR* 4.6 1.8 - - - -
317B ILE* 3.0 26.8 + - + -
318B PRO 3.2 7.6 + - - +
320B SER* 1.3 74.5 - - - +
322B HIS* 1.3 60.0 + - - +
324B GLY* 3.7 0.6 - - - -
325B LEU* 2.9 31.9 + - - +
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Residues in contact with HIS 322 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26B ALA* 3.3 30.4 - - - +
27B VAL* 5.3 1.1 - - - +
29B LEU* 4.1 7.8 + - + +
30B ALA* 3.7 23.2 + - + +
33B ARG* 3.7 21.0 + - - -
293B PHE* 3.5 27.8 - + + -
318B PRO 2.9 12.8 + - - +
319B ALA 3.2 10.5 - - - +
321B PHE* 1.3 76.2 - - - +
323B ASP* 1.3 82.6 + - - +
325B LEU* 3.4 3.2 + - - +
326B LEU* 3.2 48.6 + - + +
360B VAL* 3.8 8.4 - - + +
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Residues in contact with ASP 323 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126B THR* 6.1 0.4 - - - -
319B ALA 2.9 19.0 + - - +
320B SER* 4.1 6.5 - - - +
321B PHE 3.3 0.2 - - - -
322B HIS* 1.3 91.3 + - - +
324B GLY* 1.3 56.8 + - - +
326B LEU* 3.4 7.1 + - - +
327B LEU* 2.9 30.2 + - - +
357B PHE* 3.9 5.2 - - + -
359B GLY* 3.5 11.3 - - - -
360B VAL* 3.0 21.3 + - - +
361B THR* 2.9 40.5 + - - +
364B LEU* 3.9 20.4 - - + +
372B ARG* 5.3 0.2 - - - +
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Residues in contact with GLY 324 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105B LEU* 3.7 10.3 - - - +
126B THR* 3.6 28.3 - - - +
320B SER 2.8 23.0 + - - -
321B PHE* 3.7 1.1 - - - -
323B ASP* 1.3 70.7 - - - +
325B LEU* 1.3 58.5 + - - +
327B LEU* 3.3 6.2 + - - +
328B TYR* 2.9 29.6 + - - +
352B MET* 5.1 0.7 - - - +
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Residues in contact with LEU 325 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5B VAL* 4.7 18.4 - - + -
27B VAL* 3.7 35.7 - - + -
30B ALA* 4.1 18.2 - - + -
31B LEU* 4.1 17.5 - - + -
46B VAL* 5.6 0.9 - - + -
48B MET* 5.3 2.9 - - - -
80B VAL* 5.7 0.9 - - + -
82B LEU* 4.5 17.5 - - + -
105B LEU* 4.1 8.2 - - + +
321B PHE 2.9 17.0 + - - +
322B HIS 3.7 5.2 - - - +
324B GLY* 1.3 75.6 - - - +
326B LEU* 1.3 58.2 + - + +
328B TYR* 3.3 19.2 + - + +
329B VAL* 2.8 39.5 + - + +
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Residues in contact with LEU 326 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30B ALA* 3.9 15.7 - - + +
33B ARG* 3.9 31.4 - - + +
34B VAL* 3.7 29.2 - - + -
40B LEU* 5.2 6.9 - - + +
322B HIS* 3.2 40.4 + - + +
323B ASP* 3.7 9.6 - - - +
325B LEU* 1.3 75.3 - - + +
327B LEU* 1.3 60.9 + - - +
329B VAL* 3.2 7.7 + - + +
330B GLN* 2.9 30.3 + - - +
357B PHE* 4.0 19.5 - - + -
358B GLN 6.1 0.2 - - - +
359B GLY* 5.9 2.0 - - - -
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Residues in contact with LEU 327 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124B THR* 5.0 1.1 - - + -
126B THR* 4.6 12.1 - - + -
323B ASP 2.9 19.3 + - - +
324B GLY 3.5 4.3 - - - +
326B LEU* 1.3 76.5 - - - +
328B TYR* 1.3 60.8 + - - +
330B GLN* 3.3 4.2 + - - +
331B ALA* 3.1 20.5 + - + +
352B MET* 4.0 30.1 - - + +
355B ARG* 4.2 20.6 + - + +
356B SER 5.2 0.2 - - - +
357B PHE* 3.8 41.8 - - + -
364B LEU* 4.7 6.5 - - + -
366B ILE* 3.8 33.2 - - + -
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Residues in contact with TYR 328 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3B LEU* 3.6 30.3 - - + +
5B VAL* 5.3 0.7 - - + -
46B VAL* 6.5 0.2 - - + -
79B ALA* 3.9 11.3 + - - +
80B VAL* 3.6 35.2 - - + +
103B PRO* 4.7 7.9 - - + -
105B LEU* 3.5 28.3 - - + -
324B GLY 2.9 13.6 + - - +
325B LEU* 3.5 21.5 - - + +
326B LEU 3.2 0.2 - - - -
327B LEU* 1.3 73.2 - - - +
329B VAL* 1.3 74.8 + - + +
331B ALA* 2.9 13.2 + - - +
332B VAL* 2.9 41.8 + - + +
342B VAL 4.3 4.9 + - - -
348B ILE* 3.9 20.2 - - + -
352B MET* 3.7 16.3 - - + -
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Residues in contact with VAL 329 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31B LEU* 5.8 0.4 - - + -
34B VAL* 4.0 21.3 - - + -
40B LEU* 4.0 31.0 - - + -
41B LEU* 3.6 38.4 - - + +
46B VAL* 4.8 7.6 - - + -
325B LEU* 2.8 29.5 + - + +
326B LEU* 3.2 11.6 + - + +
328B TYR* 1.3 80.8 - - + +
330B GLN* 1.3 61.6 + - - +
332B VAL* 3.5 0.8 + - - -
333B THR* 2.9 28.4 + - - -
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Residues in contact with GLN 330 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37B ARG* 4.4 7.7 + - - +
40B LEU* 3.6 29.2 - - - +
326B LEU 2.9 14.3 + - - +
327B LEU 3.6 8.7 - - - +
329B VAL* 1.3 77.2 - - - +
331B ALA* 1.3 60.9 + - - +
333B THR* 3.6 11.3 + - - +
334B GLU* 3.3 35.6 + - - +
355B ARG* 3.1 29.6 - - - +
357B PHE* 4.2 18.7 - - + -
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Residues in contact with ALA 331 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
327B LEU 3.1 11.8 + - - +
328B TYR 2.9 9.9 + - - +
330B GLN* 1.3 75.2 - - - +
332B VAL* 1.3 59.5 + - - +
334B GLU* 3.4 10.2 + - - -
335B THR* 3.0 31.1 + - - -
348B ILE* 3.6 28.7 - - + +
351B ARG* 3.7 14.4 - - + +
352B MET* 3.7 14.6 - - + -
355B ARG* 5.2 2.4 - - - +
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Residues in contact with VAL 332 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3B LEU* 4.1 3.4 - - + -
41B LEU* 3.7 20.0 - - + -
328B TYR* 2.9 53.3 + - + +
329B VAL* 4.6 0.9 - - - -
331B ALA* 1.3 74.1 - - - +
333B THR* 1.3 59.5 + - - +
335B THR* 3.0 8.7 + - - -
336B LEU* 2.8 31.8 + - + +
341B THR 5.4 0.2 - - - -
342B VAL* 3.7 38.4 - - + -
348B ILE* 4.0 12.1 - - + -
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Residues in contact with THR 333 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39B ASP 3.5 23.8 - - - +
40B LEU* 3.6 13.1 - - + +
41B LEU* 3.0 26.2 + - - +
42B PRO* 4.5 6.5 - - + -
329B VAL 2.9 20.0 + - - -
330B GLN* 3.7 13.2 - - - +
331B ALA 3.3 0.2 - - - -
332B VAL* 1.3 76.5 - - - +
334B GLU* 1.3 58.9 + - + +
336B LEU* 3.2 8.9 + - - +
337B ALA* 2.9 30.7 + - + +
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Residues in contact with GLU 334 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
330B GLN* 3.3 26.9 + - - +
331B ALA* 3.7 7.0 - - - +
333B THR* 1.3 79.1 - - + +
335B THR* 1.3 61.2 + - - +
337B ALA* 3.5 7.3 + - - +
338B GLN* 3.3 37.0 + - - +
351B ARG* 3.7 24.6 + - - +
355B ARG* 2.7 40.0 + - - -
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Residues in contact with THR 335 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
331B ALA 3.0 15.1 + - - -
332B VAL* 3.0 9.6 + - - -
334B GLU* 1.3 75.6 - - - +
336B LEU* 1.3 63.3 + - - +
338B GLN* 3.2 8.7 + - - +
340B GLY* 3.0 34.7 + - - -
341B THR 3.7 23.8 - - - +
344B ASP* 4.3 7.9 - - + +
347B ASN* 4.7 4.0 - - + -
348B ILE* 3.6 22.2 - - + +
351B ARG* 3.2 29.1 + - - +
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Residues in contact with LEU 336 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41B LEU* 4.5 7.4 - - + -
42B PRO* 4.3 21.8 - - + +
44B TRP* 3.6 44.2 - - + +
332B VAL* 2.8 34.0 + - + +
333B THR* 3.6 5.6 - - - +
335B THR* 1.3 71.6 - - - +
337B ALA* 1.3 63.5 + - - +
339B GLY* 3.0 15.2 + - - -
340B GLY 3.8 17.7 - - - +
341B THR* 4.3 11.4 - - - +
342B VAL* 4.4 4.5 - - + +
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Residues in contact with ALA 337 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
333B THR* 2.9 18.7 + - + +
334B GLU* 3.5 11.4 - - - +
335B THR 3.3 0.4 - - - -
336B LEU* 1.3 76.3 - - - +
338B GLN* 1.3 64.5 + - + +
339B GLY 3.5 0.6 + - - -
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Residues in contact with GLN 338 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
334B GLU* 3.3 26.7 + - - +
335B THR 3.2 4.9 + - - +
336B LEU 3.0 1.4 - - - -
337B ALA* 1.3 84.3 - - + +
339B GLY* 1.3 58.5 + - - +
340B GLY 3.4 3.0 + - - -
351B ARG* 2.9 31.7 + - - +
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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