Contacts of the helix formed by residues 315 - 338 (chain A) 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 A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22A ARG* 5.0 10.6 + - - -
290A TYR* 3.5 12.8 + - - +
293A PHE* 4.7 1.7 - - - -
294A LEU* 3.8 21.3 - - + +
297A LEU* 4.5 5.1 - - + +
298A LYS* 5.6 1.4 - - - +
309A VAL* 3.4 24.7 - - - +
310A GLU 2.8 25.8 + - - +
311A ASP* 3.8 4.9 + - - +
312A GLY 3.4 22.2 + - - +
313A LEU 3.1 1.4 + - - -
314A LYS* 1.3 75.6 - - - +
316A ILE* 1.3 63.4 + - - +
317A ILE 3.1 0.7 - - - -
318A PRO* 3.3 22.2 - - + +
319A ALA* 3.4 12.3 + - - +
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Residues in contact with ILE 316 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128A PRO* 3.8 30.1 - - + -
244A PHE* 4.6 1.1 - - + -
282A TYR* 3.8 28.7 - - + -
283A LYS 4.6 4.7 - - - +
284A GLU* 5.8 0.4 - - - +
285A PRO* 3.8 28.7 - - + -
290A TYR* 3.6 15.7 - - - +
313A LEU* 3.1 25.8 + - + +
315A ASN* 1.3 76.7 - - - +
317A ILE* 1.3 63.5 + - + +
319A ALA* 3.3 6.0 + - - +
320A SER* 2.6 44.9 + - - +
361A THR* 4.3 2.9 - - + +
374A THR* 6.1 0.4 - - + -
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Residues in contact with ILE 317 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17A PRO* 3.5 33.9 - - + +
18A TRP* 4.0 10.5 - - + -
107A ALA* 3.5 23.2 - - + +
108A GLY* 5.5 1.1 - - - -
128A PRO* 3.7 23.1 - - + -
244A PHE* 4.0 20.6 - - + -
314A LYS 3.2 10.3 + - - +
315A ASN 3.1 0.4 - - - -
316A ILE* 1.3 79.5 - - + +
318A PRO* 1.4 67.4 - - + +
320A SER* 3.1 5.8 + - - -
321A PHE* 2.9 52.9 + - + -
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Residues in contact with PRO 318 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17A PRO 3.5 12.8 - - - +
22A ARG* 3.5 38.4 - - + +
23A VAL* 4.2 13.2 - - + -
26A ALA* 3.4 16.4 - - + +
293A PHE* 4.2 0.7 - - + -
297A LEU* 4.4 13.2 - - + -
314A LYS 3.4 8.5 - - - +
315A ASN* 3.3 24.0 - - - +
317A ILE* 1.4 94.1 - - + +
319A ALA* 1.3 53.5 + - - -
321A PHE* 3.2 4.4 + - + +
322A HIS* 2.9 23.0 + - - +
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Residues in contact with ALA 319 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
290A TYR* 3.8 9.2 - - + -
293A PHE* 3.5 29.1 - - + -
315A ASN 3.4 10.0 + - - +
316A ILE 3.3 5.1 + - - +
317A ILE 3.2 0.8 - - - -
318A PRO* 1.3 78.2 - - - +
320A SER* 1.3 58.0 + - - +
322A HIS* 3.1 4.1 - - - +
323A ASP* 2.8 32.1 + - - +
360A VAL* 3.8 8.1 - - + -
361A THR* 3.4 23.1 - - + -
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Residues in contact with SER 320 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107A ALA* 3.6 11.2 - - - -
126A THR* 3.0 36.0 + - - -
127A GLY* 4.0 5.3 - - - -
128A PRO* 5.2 1.4 - - - +
316A ILE* 2.6 31.8 + - - +
317A ILE* 3.1 4.9 + - - -
319A ALA* 1.3 70.5 - - - +
321A PHE* 1.3 61.1 + - - +
323A ASP* 4.1 6.5 - - - +
324A GLY 2.7 23.9 + - - -
361A THR* 4.0 4.0 - - - +
372A ARG* 3.4 15.5 + - - +
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Residues in contact with PHE 321 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9A LEU* 4.2 21.5 - - + -
18A TRP* 3.8 22.4 - - + -
23A VAL* 3.7 30.7 - - + +
27A VAL* 5.2 6.9 - - + +
82A LEU* 3.8 27.7 - - + +
83A GLY* 3.9 22.2 - - - -
85A GLY* 5.1 0.4 - - - -
106A THR* 3.7 13.5 - - - -
107A ALA* 3.5 33.9 - - + -
108A GLY 4.2 2.2 - - - -
126A THR* 4.7 1.1 - - - -
317A ILE* 2.9 28.9 + - + -
318A PRO 3.2 7.8 + - - +
320A SER* 1.3 75.1 - - - +
322A HIS* 1.3 58.4 + - - +
324A GLY* 3.7 0.8 - - - -
325A LEU* 2.9 33.7 + - - +
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Residues in contact with HIS 322 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26A ALA* 3.3 27.5 - - + +
27A VAL* 5.5 1.1 - - - +
29A LEU* 4.2 7.4 + - + +
30A ALA* 3.6 27.8 + - + +
33A ARG* 3.9 12.6 + - - +
293A PHE* 3.6 22.9 - + + -
318A PRO 2.9 14.1 + - - +
319A ALA 3.1 9.4 - - - +
321A PHE* 1.3 76.8 - - - +
323A ASP* 1.3 80.3 + - - +
325A LEU* 3.5 3.9 + - - +
326A LEU* 3.2 48.5 + - + +
360A VAL* 3.6 26.8 - - + +
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Residues in contact with ASP 323 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
319A ALA 2.8 19.3 + - - +
320A SER* 4.1 3.8 - - - +
321A PHE 3.3 0.2 - - - -
322A HIS* 1.3 93.8 + - - +
324A GLY* 1.3 58.3 + - - +
326A LEU* 3.1 9.5 + - - +
327A LEU* 2.8 29.5 + - - +
357A PHE* 4.0 4.4 - - + -
359A GLY* 3.3 13.8 - - - -
360A VAL* 3.0 17.6 + - - +
361A THR* 2.6 39.4 + - - +
364A LEU* 3.7 21.9 - - + +
372A ARG* 5.1 0.2 - - - +
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Residues in contact with GLY 324 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82A LEU* 6.1 0.2 - - - -
105A LEU* 4.1 11.8 - - - +
126A THR* 3.7 27.7 + - - -
320A SER 2.7 23.0 + - - -
321A PHE* 3.7 0.9 - - - -
323A ASP* 1.3 72.1 - - - +
325A LEU* 1.3 55.4 + - - +
327A LEU* 3.3 6.6 + - - +
328A TYR* 2.9 30.1 + - - +
364A LEU* 5.3 0.4 - - - +
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Residues in contact with LEU 325 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5A VAL* 5.0 18.2 - - + -
27A VAL* 3.9 37.7 - - + -
30A ALA* 4.1 13.9 - - + -
31A LEU* 4.1 20.0 - - + -
46A VAL* 5.4 1.6 - - + -
48A MET* 5.1 3.1 - - - -
80A VAL* 6.1 0.4 - - + -
82A LEU* 4.9 13.1 - - + +
105A LEU* 4.6 8.0 - - + +
321A PHE 2.9 19.9 + - - +
322A HIS 3.6 5.6 - - - +
324A GLY* 1.3 71.4 - - - +
326A LEU* 1.3 58.5 + - + +
328A TYR* 3.3 19.5 + - + +
329A VAL* 2.9 42.0 + - + +
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Residues in contact with LEU 326 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30A ALA* 3.7 31.2 - - + +
33A ARG* 3.6 32.5 - - + +
34A VAL* 3.9 16.2 - - + -
40A LEU* 6.0 2.6 - - + +
322A HIS* 3.2 40.3 + - + +
323A ASP* 3.1 11.7 + - - +
325A LEU* 1.3 75.0 - - + +
327A LEU* 1.3 61.4 + - - +
329A VAL* 3.6 5.3 - - - +
330A GLN* 2.9 30.8 + - - +
357A PHE* 3.8 20.6 - - + -
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Residues in contact with LEU 327 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124A THR* 4.9 0.9 - - + -
126A THR* 4.5 14.4 - - + -
323A ASP 2.8 16.9 + - - +
324A GLY* 3.6 7.0 - - - +
326A LEU* 1.3 71.3 - - - +
328A TYR* 1.3 62.7 + - - +
330A GLN* 3.4 3.4 + - + +
331A ALA* 3.0 22.7 + - - +
351A ARG 5.1 0.4 - - - +
352A MET* 4.0 30.7 - - + +
355A ARG* 4.3 24.6 + - + +
356A SER 5.5 0.2 - - - -
357A PHE* 3.9 40.1 - - + -
364A LEU* 4.6 5.6 - - + -
366A ILE* 3.8 31.6 - - + -
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Residues in contact with TYR 328 (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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3A LEU* 3.7 24.5 - - + +
5A VAL* 5.2 0.4 - - + -
46A VAL* 6.2 0.4 - - + -
79A ALA* 4.0 10.6 + - - +
80A VAL* 3.5 41.1 - - + +
103A PRO* 4.8 6.5 - - + -
105A LEU* 3.4 34.3 - - + -
324A GLY 2.9 9.4 + - - +
325A LEU* 3.5 16.2 - - + +
327A LEU* 1.3 77.5 - - - +
329A VAL* 1.3 65.0 + - + +
331A ALA* 3.2 3.3 + - - +
332A VAL* 2.9 54.4 + - + +
342A VAL 4.4 4.7 + - - -
348A ILE* 3.7 21.0 - - + +
352A MET* 3.7 18.8 - - + -
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Residues in contact with VAL 329 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31A LEU* 5.7 0.9 - - + -
34A VAL* 3.8 29.2 - - + -
40A LEU* 4.2 18.6 - - + -
41A LEU* 3.8 35.9 - - + +
46A VAL* 4.7 7.4 - - + -
325A LEU* 2.9 39.0 + - + +
326A LEU* 3.3 8.7 + - - +
328A TYR* 1.3 80.3 - - + +
330A GLN* 1.3 59.9 + - - +
332A VAL* 4.7 0.4 - - - -
333A THR* 2.9 28.2 + - - -
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Residues in contact with GLN 330 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37A ARG* 4.4 13.6 + - - +
40A LEU* 3.9 26.6 - - - +
326A LEU 2.9 18.4 + - - +
327A LEU* 3.6 6.3 - - + +
329A VAL* 1.3 73.1 - - - +
331A ALA* 1.3 58.7 + - - +
333A THR* 3.1 10.7 + - - +
334A GLU* 2.9 49.7 + - - +
355A ARG* 4.8 7.2 - - - +
357A PHE* 4.0 24.8 - - + -
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Residues in contact with ALA 331 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
327A LEU 3.0 14.1 + - - +
328A TYR 3.5 7.6 - - - +
330A GLN* 1.3 76.7 - - - +
332A VAL* 1.3 61.4 + - - +
334A GLU* 3.3 14.7 + - - +
335A THR* 3.0 27.2 + - - -
348A ILE* 3.7 18.2 - - + +
351A ARG* 3.7 11.5 - - + +
352A MET* 3.7 23.8 - - + -
355A ARG* 4.7 1.9 - - - +
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Residues in contact with VAL 332 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3A LEU* 4.0 3.1 - - + -
41A LEU* 3.7 24.7 - - + -
328A TYR* 2.9 60.9 + - + +
331A ALA* 1.3 72.0 - - - +
333A THR* 1.3 51.9 + - - +
335A THR* 3.0 9.7 + - - -
336A LEU* 2.8 37.3 + - + +
342A VAL* 3.7 33.7 - - + +
348A ILE* 3.8 14.1 - - + -
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Residues in contact with THR 333 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39A ASP 3.7 22.2 - - - +
40A LEU* 3.7 15.6 - - + +
41A LEU* 2.9 25.8 + - - +
42A PRO* 4.2 7.5 - - + +
329A VAL 2.9 15.5 + - - -
330A GLN* 3.1 13.8 + - - +
332A VAL* 1.3 78.2 - - - +
334A GLU* 1.3 58.3 + - + +
336A LEU* 3.1 12.4 + - - +
337A ALA* 2.9 30.2 + - + +
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Residues in contact with GLU 334 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
330A GLN* 2.9 33.0 + - + +
331A ALA 3.6 5.6 - - - +
333A THR* 1.3 77.2 - - + +
335A THR* 1.3 59.2 + - - +
337A ALA* 3.6 9.3 + - - +
338A GLN* 3.4 29.7 + - - +
351A ARG* 3.7 29.1 + - - +
355A ARG* 2.5 49.4 + - - -
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Residues in contact with THR 335 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
331A ALA 3.0 13.2 + - - -
332A VAL* 3.0 10.8 + - - -
334A GLU* 1.3 73.6 - - - +
336A LEU* 1.3 63.7 + - - +
338A GLN* 3.4 7.1 + - - +
339A GLY 3.6 0.2 + - - -
340A GLY* 2.9 40.1 + - - -
341A THR 4.0 16.6 - - - +
344A ASP* 4.5 4.9 - - + -
347A ASN* 3.4 19.7 + - - +
348A ILE* 3.8 20.1 - - + +
351A ARG* 3.0 23.5 + - - +
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Residues in contact with LEU 336 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41A LEU* 4.3 6.7 - - + -
42A PRO* 4.2 26.0 - - + +
44A TRP* 3.6 42.0 - - + +
332A VAL* 2.8 33.8 + - + +
333A THR* 3.6 7.4 - - - +
335A THR* 1.3 74.1 - - - +
337A ALA* 1.3 61.8 + - - +
338A GLN 3.2 1.0 + - - -
339A GLY* 3.2 11.8 + - - -
340A GLY 3.8 18.5 + - - +
341A THR* 4.0 14.6 - - - +
342A VAL* 4.1 6.7 - - + +
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Residues in contact with ALA 337 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
333A THR* 2.9 17.3 + - + +
334A GLU* 3.7 10.5 - - - +
335A THR 3.3 0.4 - - - -
336A LEU* 1.3 78.4 - - - +
338A GLN* 1.3 62.6 + - + +
339A GLY 3.6 2.3 + - - -
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Residues in contact with GLN 338 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
334A GLU* 3.4 14.4 + - - +
335A THR 3.4 4.1 + - - +
336A LEU 3.2 0.8 - - - -
337A ALA* 1.3 82.6 - - + +
339A GLY* 1.3 56.8 + - - +
340A GLY 3.4 3.4 + - - -
351A ARG* 3.5 37.9 + - - +
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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