Contacts of the helix formed by residues 313 - 344 (chain A) in PDB entry 1MAQ
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 PRO 313 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
310A LEU 5.4 0.2 - - - -
311A ASN 3.5 11.6 - - - +
312A THR* 1.3 85.6 - - + -
314A GLU* 1.3 76.2 + - - +
316A ARG* 3.9 9.5 - - + +
317A LYS* 3.2 27.6 + - - +
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Residues in contact with GLU 314 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
312A THR* 2.9 18.6 + - + +
313A PRO* 1.3 93.1 - - - +
315A LEU* 1.3 63.0 + - + +
317A LYS* 3.2 25.3 - - + +
318A GLU* 3.1 26.3 + - - +
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Residues in contact with LEU 315 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52A CYS* 4.0 32.0 - - + +
55A LYS* 4.2 20.2 - - + -
56A ALA* 4.7 7.6 - - - -
59A MET* 3.8 30.5 - - + -
308A LEU* 3.8 22.2 - - + +
309A ILE* 3.9 20.1 - - + +
312A THR* 2.8 20.5 + - + +
314A GLU* 1.3 77.4 - - + +
316A ARG* 1.3 61.5 + - - +
318A GLU* 3.2 6.6 + - - +
319A TRP* 2.8 30.3 + - - +
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Residues in contact with ARG 316 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82A ALA* 5.1 4.0 + - - +
85A GLU* 4.0 18.4 + - - +
86A LEU* 4.8 15.0 - - - +
233A ILE* 4.6 18.2 - - - +
309A ILE* 3.3 16.7 + - - +
310A LEU* 3.1 45.4 + - - +
312A THR 2.8 12.1 + - - +
313A PRO* 3.9 9.4 - - - +
315A LEU* 1.3 77.4 - - - +
317A LYS* 1.3 60.7 + - - +
319A TRP* 3.3 19.6 - - + +
320A LEU* 3.1 34.2 + - + +
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Residues in contact with LYS 317 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
313A PRO 3.2 17.3 + - - +
314A GLU* 3.2 31.5 - - - +
316A ARG* 1.3 76.4 - - - +
318A GLU* 1.3 69.1 + - + +
320A LEU* 3.3 11.0 + - - +
321A VAL* 3.2 25.4 + - + +
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Residues in contact with GLU 318 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51A ASN* 3.6 19.8 + - - +
52A CYS* 3.9 13.1 + - + -
55A LYS* 3.1 33.8 + - - +
314A GLU 3.1 18.4 + - - +
315A LEU* 3.5 8.4 - - - +
317A LYS* 1.3 79.4 - - + +
319A TRP* 1.3 63.6 + - - +
321A VAL* 3.0 19.3 + - - +
322A GLU* 3.0 30.5 + - - +
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Residues in contact with TRP 319 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50A LEU* 4.0 15.5 - - + -
52A CYS* 3.8 14.8 - - - -
86A LEU* 3.9 31.6 - - + -
233A ILE* 4.6 9.2 - - + -
256A TYR* 5.1 0.4 - + - -
259A ASN* 2.9 42.7 + - + -
260A MET* 3.6 34.8 - - + +
309A ILE* 3.8 14.1 - - + -
310A LEU* 3.6 25.8 - - + -
315A LEU 2.8 13.4 + - - +
316A ARG* 3.3 21.5 - - + +
318A GLU* 1.3 76.2 - - - +
320A LEU* 1.3 74.2 + - + +
322A GLU* 3.1 4.0 + - - +
323A VAL* 2.8 46.8 + - + +
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Residues in contact with LEU 320 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
233A ILE* 3.8 44.9 - - + +
316A ARG* 3.1 31.8 + - + +
317A LYS* 3.8 10.5 - - + +
318A GLU 3.2 0.4 - - - -
319A TRP* 1.3 93.2 - - + +
321A VAL* 1.3 62.5 + - + +
323A VAL* 3.3 7.2 + - + +
324A LYS* 3.1 42.1 + - + +
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Residues in contact with VAL 321 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
317A LYS* 3.2 16.6 + - + +
318A GLU* 3.0 9.5 + - - +
320A LEU* 1.3 75.9 - - + +
322A GLU* 1.3 58.8 + - + +
324A LYS* 3.3 15.9 + - - +
325A GLY* 2.9 25.1 + - - -
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Residues in contact with GLU 322 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48A TYR* 2.5 30.0 + - - +
50A LEU* 3.4 19.7 - - + +
51A ASN* 2.9 30.7 + - - +
52A CYS* 3.1 39.8 + - - +
318A GLU* 3.0 20.6 + - + +
319A TRP 3.4 8.7 - - - +
321A VAL* 1.3 75.8 - - + +
323A VAL* 1.3 62.3 + - - +
325A GLY* 3.3 3.0 + - - -
326A MET* 3.1 30.5 + - - +
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Residues in contact with VAL 323 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
226A GLN 4.8 3.4 - - - +
227A GLY* 3.4 36.6 - - - +
228A PHE* 5.4 4.7 - - + -
231A GLY 4.8 4.7 - - - +
233A ILE* 5.1 3.6 - - + -
259A ASN* 3.9 13.7 - - + +
319A TRP* 2.8 55.0 + - + +
320A LEU* 3.3 13.4 + - + +
322A GLU* 1.3 72.2 - - - +
324A LYS* 1.4 64.6 + - + +
326A MET* 3.2 14.2 + - + +
327A ALA* 3.1 20.7 + - - +
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Residues in contact with LYS 324 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
231A GLY* 2.9 31.6 - - - +
232A ASP* 5.0 8.1 - - - +
320A LEU* 3.1 40.4 + - + +
321A VAL* 3.3 15.4 + - + +
323A VAL* 1.4 73.1 - - + +
325A GLY* 1.3 66.5 + - - +
327A ALA* 3.2 5.3 + - - +
328A ASP* 2.8 39.2 + - - +
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Residues in contact with GLY 325 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40A TYR* 4.4 1.9 + - - -
321A VAL 2.9 14.9 + - - -
322A GLU* 3.3 5.1 + - - -
323A VAL 3.2 0.2 - - - -
324A LYS* 1.3 76.6 - - - +
326A MET* 1.3 60.0 + - - +
328A ASP* 3.6 6.3 + - - +
329A ARG* 3.2 23.2 + - - +
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Residues in contact with MET 326 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40A TYR* 3.7 51.5 - - + +
48A TYR* 4.2 17.3 - - + -
50A LEU* 4.1 22.4 - - + -
228A PHE* 4.0 20.4 - - + -
258A LYS 3.9 13.9 - - - +
259A ASN* 3.6 24.2 - - - +
261A GLY* 6.3 0.2 - - - -
322A GLU 3.1 14.1 + - - +
323A VAL* 3.2 15.7 + - + +
325A GLY* 1.3 72.9 - - - +
327A ALA* 1.3 67.7 + - - +
329A ARG 3.3 1.2 + - - -
330A ILE* 3.1 27.9 + - - +
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Residues in contact with ALA 327 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
227A GLY 4.3 6.3 - - - +
228A PHE* 4.7 13.2 - - + +
230A SER 5.1 1.8 - - - +
231A GLY* 3.9 25.8 - - - +
323A VAL 3.1 11.7 + - - +
324A LYS 3.7 5.8 - - - +
326A MET* 1.3 77.3 - - - +
328A ASP* 1.3 65.9 + - - +
330A ILE* 3.2 14.2 + - - +
331A ILE* 3.0 28.1 + - + +
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Residues in contact with ASP 328 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
324A LYS* 2.8 31.9 + - - +
325A GLY* 3.9 5.9 - - - +
327A ALA* 1.3 78.1 - - - +
329A ARG* 1.3 61.8 + - - +
331A ILE* 3.2 23.7 + - - +
332A SER* 3.0 22.1 + - - -
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Residues in contact with ARG 329 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40A TYR* 3.2 24.6 + - - +
41A ARG* 2.8 25.2 + - - +
42A ASP 4.0 3.8 + - - -
43A ASP* 2.9 48.7 + - - +
325A GLY 3.2 18.1 + - - +
326A MET 3.8 3.8 - - - +
327A ALA 3.3 0.2 - - - -
328A ASP* 1.3 72.1 - - - +
330A ILE* 1.3 67.5 + - - +
332A SER* 3.0 12.9 + - - +
333A MET* 2.9 41.1 + - + +
390A ALA* 2.9 21.0 + - - +
392A VAL 2.7 31.1 + - - -
393A ALA* 3.8 0.4 - - - +
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Residues in contact with ILE 330 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40A TYR* 4.3 9.4 - - + -
228A PHE* 3.8 33.2 - - + +
326A MET 3.1 18.3 + - - +
327A ALA* 3.2 8.7 + - - +
329A ARG* 1.3 76.8 - - - +
331A ILE* 1.4 62.2 + - + +
333A MET* 3.0 18.3 + - - +
334A ARG* 3.1 19.3 + - - +
358A GLY 3.6 20.0 - - - +
359A MET* 4.4 5.8 - - + -
389A VAL* 3.3 26.0 - - + +
390A ALA* 4.2 28.5 - - + +
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Residues in contact with ILE 331 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
230A SER 5.9 2.5 - - - +
327A ALA* 3.0 18.6 + - + +
328A ASP* 3.2 28.7 + - - +
330A ILE* 1.4 75.7 - - + +
332A SER* 1.3 58.4 + - - +
334A ARG* 3.4 15.4 + - + +
335A THR* 3.0 35.3 + - - +
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Residues in contact with SER 332 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
328A ASP 3.0 12.1 + - - -
329A ARG* 3.0 17.5 + - - +
331A ILE* 1.3 80.2 - - - +
333A MET* 1.3 60.2 + - - +
335A THR* 3.4 6.8 + - - -
336A GLN* 3.0 46.8 + - - +
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Residues in contact with MET 333 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43A ASP* 4.3 2.9 - - - +
329A ARG* 2.9 40.1 + - + +
330A ILE* 3.5 7.9 - - - +
332A SER* 1.3 80.2 - - - +
334A ARG* 1.3 53.5 + - - +
336A GLN* 2.8 40.9 + - + +
337A LEU* 2.8 36.5 + - - +
389A VAL* 4.1 19.3 - - + +
392A VAL* 3.5 32.8 - - + +
393A ALA 3.7 16.4 - - - +
394A SER* 4.1 14.4 - - - +
397A VAL* 4.3 5.5 - - + +
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Residues in contact with ARG 334 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
330A ILE* 3.1 24.3 + - - +
331A ILE* 3.4 16.3 - - - +
333A MET* 1.3 75.2 - - - +
335A THR* 1.3 63.5 + - - +
337A LEU* 3.2 5.0 + - - +
338A VAL* 3.1 27.2 + - - +
353A ILE* 3.0 36.8 + - - +
354A THR* 4.0 14.1 - - + +
356A GLN* 3.4 23.3 + - - +
357A ILE* 3.5 11.3 - - - +
358A GLY 2.6 30.1 + - - -
359A MET 4.0 1.2 - - - -
360A PHE 2.6 35.3 + - - +
361A CYS* 3.9 9.5 - - - +
389A VAL* 3.7 19.7 - - + +
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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 ILE* 3.0 23.4 + - - +
332A SER* 3.6 8.5 - - - +
334A ARG* 1.3 82.1 - - - +
336A GLN* 1.3 65.0 + - + +
338A VAL* 3.5 2.9 + - - +
339A SER* 3.2 23.0 + - - -
354A THR* 4.3 12.8 - - - +
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Residues in contact with GLN 336 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
332A SER* 3.0 25.1 + - - +
333A MET* 2.8 34.6 + - + +
335A THR* 1.3 77.3 - - + +
337A LEU* 1.3 62.1 + - - +
339A SER* 3.4 4.7 + - - -
340A ASN* 2.9 41.2 + - - +
394A SER* 4.4 11.7 + - - +
397A VAL* 3.8 23.7 - - + +
----------------------------------------------------------
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Residues in contact with LEU 337 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
333A MET 2.8 16.8 + - - +
334A ARG 3.5 5.4 - - - +
336A GLN* 1.3 76.8 - - - +
338A VAL* 1.3 59.1 + - - +
340A ASN* 3.1 3.9 + - - +
341A LEU* 2.9 37.1 + - + +
353A ILE* 3.7 32.3 - - + -
361A CYS* 6.1 0.4 - - + -
387A ILE* 4.6 5.6 - - + -
389A VAL* 4.5 16.2 - - + -
392A VAL* 6.2 0.9 - - + -
397A VAL* 3.7 11.8 - - + +
400A LEU* 3.9 39.0 - - + -
401A ALA* 3.9 22.4 - - + +
404A ILE* 4.4 9.6 - - + -
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Residues in contact with VAL 338 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
334A ARG 3.1 8.3 + - - +
335A THR* 4.0 4.3 - - - +
337A LEU* 1.3 76.0 - - - +
339A SER* 1.3 58.7 + - - +
341A LEU* 3.3 11.6 + - - +
342A LYS* 3.0 54.1 + - - +
350A TRP* 3.5 34.7 - - + +
351A GLN* 5.2 1.6 - - - +
353A ILE* 3.7 9.6 - - + -
354A THR* 3.3 32.1 - - + +
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Residues in contact with SER 339 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
335A THR* 3.2 17.3 + - - -
336A GLN* 3.7 7.2 - - - -
337A LEU 3.2 0.2 - - - -
338A VAL* 1.3 77.0 - - - +
340A ASN* 1.3 62.6 + - - +
342A LYS* 3.2 9.5 + - - +
343A LYS* 3.0 27.9 + - - +
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Residues in contact with ASN 340 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
336A GLN* 2.9 30.4 + - - +
337A LEU 3.7 0.7 - - - +
339A SER* 1.3 74.9 + - - +
341A LEU* 1.3 57.5 + - - +
343A LYS* 2.9 34.4 + - - +
344A GLU* 2.7 39.7 + - - +
397A VAL* 3.8 18.3 - - - +
398A GLY* 4.4 9.9 + - - -
401A ALA* 3.4 23.1 - - + -
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Residues in contact with LEU 341 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
337A LEU* 2.9 26.2 + - + +
338A VAL* 3.5 7.0 - - - +
339A SER 3.2 0.2 - - - -
340A ASN* 1.3 79.7 - - - +
342A LYS* 1.3 61.8 + - - +
344A GLU* 3.2 7.5 + - - +
345A GLY 3.3 0.2 + - - -
346A SER* 3.1 30.4 + - - -
350A TRP* 3.6 50.0 - - + +
353A ILE* 3.8 19.5 - - + -
401A ALA* 3.7 27.8 - - + +
404A ILE* 3.8 25.4 - - + -
405A HIS* 4.2 5.2 - - + +
----------------------------------------------------------
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Residues in contact with LYS 342 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
338A VAL* 3.0 42.6 + - + +
339A SER* 3.2 10.7 + - - +
340A ASN 3.2 0.2 - - - -
341A LEU* 1.3 76.5 - - + +
343A LYS* 1.3 62.0 + - - +
345A GLY* 3.0 15.9 + - - -
346A SER 4.2 11.3 + - - +
348A HIS 6.0 1.3 - - - +
350A TRP* 5.8 5.6 - - + -
----------------------------------------------------------
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Residues in contact with LYS 343 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
339A SER* 3.0 17.0 + - - +
340A ASN* 2.9 33.6 - - - +
342A LYS* 1.3 76.1 - - - +
344A GLU* 1.3 87.2 + - + +
345A GLY* 3.0 5.4 + - - -
398A GLY* 5.1 6.7 - - - -
----------------------------------------------------------
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Residues in contact with GLU 344 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
340A ASN* 2.7 26.2 + - + +
341A LEU 3.2 4.7 + - - +
343A LYS* 1.3 96.3 + - + +
345A GLY* 1.3 57.8 + - - +
398A GLY 4.4 4.3 - - - +
401A ALA* 4.5 2.9 - - + +
402A HIS* 2.9 51.7 + - - +
405A HIS* 3.2 37.5 + - + -
----------------------------------------------------------
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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