Contacts of the helix formed by residues 324 - 352 (chain A) in PDB entry 2Z1Z
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 THR 324 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73A VAL* 4.8 0.2 - - - +
320A LEU 3.7 10.5 - - - +
321A ALA* 2.6 30.3 + - - +
322A CYS 3.1 0.2 + - - -
323A LEU* 1.3 80.3 - - - +
325A PRO* 1.3 77.2 - - + +
326A GLU* 3.4 20.6 + - - +
327A GLY 2.8 17.5 + - - -
328A LEU* 2.9 28.5 + - - +
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Residues in contact with PRO 325 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
324A THR* 1.3 82.5 - - + +
326A GLU* 1.3 67.2 + - + +
328A LEU* 3.8 7.2 - - + +
329A GLU* 2.8 35.4 + - - +
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Residues in contact with GLU 326 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73A VAL* 3.9 25.8 - - + +
324A THR* 3.4 21.2 + - - +
325A PRO* 1.3 94.3 - - + +
327A GLY* 1.3 61.6 + - - +
329A GLU* 3.4 11.6 + - - +
330A ALA* 2.9 29.8 + - - +
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Residues in contact with GLY 327 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73A VAL* 4.1 12.5 - - - +
74A ILE* 4.3 1.6 - - - +
321A ALA 3.3 21.3 - - - -
322A CYS* 3.3 12.6 - - - -
324A THR* 2.8 11.1 + - - -
326A GLU* 1.3 76.0 - - - +
328A LEU* 1.3 56.1 - - - +
330A ALA* 3.2 4.9 + - - +
331A MET* 3.0 33.8 + - - +
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Residues in contact with LEU 328 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110A THR* 4.5 19.3 - - + -
111A PHE* 5.3 3.4 - - + -
322A CYS 3.1 15.2 + - - +
323A LEU* 4.2 17.0 - - + -
324A THR 2.9 26.2 + - - +
325A PRO* 3.8 5.6 - - + +
327A GLY* 1.3 73.4 - - - +
329A GLU* 1.3 65.6 + - - +
331A MET* 3.9 21.0 - - + +
332A HIS* 2.9 26.0 + - - +
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Residues in contact with GLU 329 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
325A PRO 2.8 23.5 + - - +
326A GLU* 3.6 11.1 - - - +
328A LEU* 1.3 75.7 - - - +
330A ALA* 1.3 62.7 + - - +
332A HIS* 3.4 5.3 + - + +
333A LYS* 3.2 51.6 + - + +
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Residues in contact with ALA 330 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71A PRO* 3.4 32.3 - - + +
73A VAL* 3.7 11.2 - - + -
74A ILE* 5.3 0.4 - - + -
326A GLU 2.9 20.1 + - - +
327A GLY 3.2 5.4 + - - +
329A GLU* 1.3 72.5 - - - +
331A MET* 1.3 58.6 + - + +
333A LYS* 3.2 10.8 + - - +
334A VAL* 3.1 32.4 + - - +
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Residues in contact with MET 331 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71A PRO* 5.4 3.4 - - + -
74A ILE* 5.4 2.9 - - + -
111A PHE* 5.3 5.4 - - + -
242A MET* 5.4 3.6 - - + -
268A PHE* 4.4 7.2 - - + -
271A TYR* 3.8 40.6 - - + +
272A ALA* 4.1 16.4 - - + -
322A CYS* 3.9 32.1 - - - +
327A GLY 3.0 15.2 + - - +
328A LEU* 3.9 25.4 - - + +
330A ALA* 1.3 74.6 - - + +
332A HIS* 1.3 60.6 + - - +
334A VAL* 3.3 4.9 + - - +
335A ILE* 2.8 41.4 + - + +
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Residues in contact with HIS 332 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
328A LEU 2.9 19.2 + - - +
329A GLU* 3.7 7.6 + - - +
331A MET* 1.3 75.5 - - - +
333A LYS* 1.3 62.6 + - - +
335A ILE* 3.4 12.3 + - + +
336A GLY* 2.9 28.7 + - - -
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Residues in contact with LYS 333 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
329A GLU* 3.2 53.9 + - + +
330A ALA* 3.3 13.2 - - - +
331A MET 3.2 0.2 - - - -
332A HIS* 1.3 80.4 - - - +
334A VAL* 1.3 60.7 + - + +
336A GLY* 3.0 4.4 + - - -
337A PHE* 2.9 28.3 + - - +
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Residues in contact with VAL 334 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68A GLU* 5.4 8.7 - - + -
69A PRO 5.1 5.6 - - - +
71A PRO* 4.1 22.9 - - + -
270A LYS 5.1 1.6 - - - +
271A TYR 3.7 23.8 - - - +
272A ALA 5.3 5.8 - - - -
273A GLY* 5.4 1.6 - - - +
330A ALA 3.1 16.6 + - - +
331A MET* 4.0 2.2 - - - +
333A LYS* 1.3 75.6 - - + +
335A ILE* 1.3 67.5 + - + +
337A PHE* 3.3 8.7 + - + +
338A TYR* 3.2 46.6 + - + +
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Residues in contact with ILE 335 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
242A MET* 3.5 46.9 - - + +
243A TYR* 3.9 32.1 - - + +
271A TYR* 4.4 22.2 - - + +
331A MET* 2.8 31.2 + - + +
332A HIS* 3.8 10.1 - - + +
334A VAL* 1.3 74.9 - - + +
336A GLY* 1.3 62.8 + - - +
338A TYR* 3.3 2.9 + - - +
339A LYS* 3.1 47.3 + - + +
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Residues in contact with GLY 336 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
332A HIS* 2.9 18.2 + - - -
333A LYS* 3.0 5.1 + - - -
335A ILE* 1.3 77.9 - - - +
337A PHE* 1.3 61.1 + - - +
339A LYS* 3.6 10.7 + - - +
340A GLU* 3.2 21.3 + - - +
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Residues in contact with PHE 337 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68A GLU* 3.7 34.3 - - + -
333A LYS 2.9 15.4 + - - +
334A VAL* 3.3 11.2 + - - +
336A GLY* 1.3 70.7 - - - +
338A TYR* 1.3 80.4 + + - +
340A GLU* 3.1 15.8 + - - +
341A ASN* 3.1 31.1 + - - +
409A GLY 3.4 18.8 - - - -
411A ARG* 3.4 50.7 + - + +
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Residues in contact with TYR 338 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66A THR* 3.9 11.6 - - + -
67A THR* 3.1 13.0 + - - -
68A GLU* 2.9 38.0 + - + +
243A TYR* 3.8 21.8 - - + -
270A LYS 4.9 0.2 - - - -
273A GLY* 6.3 0.2 - - - -
334A VAL* 3.2 38.0 + - + -
335A ILE* 3.3 5.1 + - - +
337A PHE* 1.3 96.3 - + - +
339A LYS* 1.3 52.3 + - - +
341A ASN* 3.3 6.6 + - - +
342A THR* 2.6 38.9 + - - +
363A PRO* 4.4 5.2 - - + -
407A ALA* 3.8 12.9 - - - +
408A PHE* 3.5 49.8 - + + -
409A GLY 4.3 0.4 - - - -
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Residues in contact with LYS 339 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
242A MET 5.7 0.2 - - - -
243A TYR* 2.7 40.9 + - + +
244A MET 4.8 2.5 - - - -
245A SER* 3.2 17.0 + - - -
335A ILE* 3.1 38.6 + - + +
336A GLY* 4.1 7.6 - - - +
338A TYR* 1.3 71.7 - - - +
340A GLU* 1.3 63.9 + - - +
342A THR* 3.6 11.2 + - - -
343A ASN* 3.1 30.7 + - - +
359A GLY 5.1 3.7 + - - +
360A LYS 3.1 21.2 + - - -
361A ASN 4.7 0.8 - - - -
362A ALA 4.7 2.6 + - - +
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Residues in contact with GLU 340 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
336A GLY 3.2 12.1 + - - +
337A PHE* 3.1 12.3 + - - +
339A LYS* 1.3 75.1 - - - +
341A ASN* 1.4 58.0 + - - +
343A ASN* 2.8 45.8 + - - +
344A ILE* 2.9 29.7 + - + +
411A ARG* 3.5 22.9 - - - +
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Residues in contact with ASN 341 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
337A PHE* 3.1 23.7 + - - -
338A TYR* 3.4 6.6 - - - +
340A GLU* 1.4 73.6 - - - +
342A THR* 1.3 58.2 + - - +
344A ILE* 3.5 10.4 - - - +
345A ILE* 3.0 30.5 + - - +
407A ALA* 3.1 28.3 + - + +
409A GLY 2.9 28.3 + - - -
411A ARG* 2.8 34.7 + - - -
414A ILE* 3.7 17.4 - - + +
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Residues in contact with THR 342 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
338A TYR 2.6 28.9 - - - +
339A LYS* 3.6 9.2 + - - -
340A GLU 3.1 0.6 - - - -
341A ASN* 1.3 79.4 - - - +
343A ASN* 1.3 55.9 + - - +
345A ILE* 3.2 4.9 + - - +
346A ILE* 3.0 30.9 + - - +
359A GLY* 3.1 30.3 + - - -
362A ALA 4.1 2.9 - - - +
363A PRO* 3.5 25.4 - - + -
365A VAL* 4.0 7.6 - - - +
407A ALA* 3.3 22.7 - - + -
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Residues in contact with ASN 343 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
339A LYS* 3.1 18.4 + - - +
340A GLU* 2.8 33.1 + - - +
342A THR* 1.3 72.5 - - - +
344A ILE* 1.3 58.8 + - - +
346A ILE* 3.4 18.4 + - - +
347A ASP* 3.0 41.8 + - - +
359A GLY 4.3 5.7 - - - +
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Residues in contact with ILE 344 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
340A GLU* 2.9 28.7 + - - +
341A ASN* 3.5 11.9 - - - +
343A ASN* 1.3 74.6 - - - +
345A ILE* 1.3 60.0 + - - +
347A ASP* 3.6 8.0 + - - +
348A THR* 2.8 29.4 + - + +
411A ARG* 3.7 38.4 - - - +
414A ILE* 4.2 9.2 - - + -
415A LEU* 4.1 25.1 - - + -
418A CYS* 4.0 20.2 - - + -
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Residues in contact with ILE 345 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61A LEU* 4.8 3.8 - - + -
341A ASN 3.0 22.6 + - - +
342A THR* 3.2 5.5 + - - +
344A ILE* 1.3 75.6 - - - +
346A ILE* 1.3 57.0 + - - +
348A THR* 3.3 7.0 + - - +
349A PHE* 3.0 45.9 + - + -
365A VAL* 3.5 30.7 - - + -
405A VAL* 4.2 14.6 - - + +
406A SER 3.7 10.5 - - - +
407A ALA* 3.6 32.8 - - + -
414A ILE* 3.8 22.2 - - + -
418A CYS* 3.9 9.0 - - - -
421A PHE* 5.2 0.7 - - + -
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Residues in contact with ILE 346 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
342A THR* 3.0 17.3 + - - +
343A ASN* 3.5 18.6 - - - +
345A ILE* 1.3 78.0 - - - +
347A ASP* 1.3 62.2 + - - +
349A PHE* 3.7 1.2 - - - +
350A THR* 2.7 48.1 + - - +
356A VAL* 4.2 21.8 - - + +
358A GLY 4.3 3.8 - - - +
359A GLY* 3.4 37.7 - - - +
360A LYS* 5.4 0.2 - - - -
365A VAL* 3.8 14.8 - - + -
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Residues in contact with ASP 347 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
343A ASN* 3.0 26.8 + - - +
344A ILE* 3.9 7.3 + - - +
346A ILE* 1.3 80.4 - - - +
348A THR* 1.3 59.7 + - - +
350A THR* 4.1 4.7 - - - +
351A SER* 2.9 33.8 + - - -
422A LYS* 5.3 1.3 - - - +
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Residues in contact with THR 348 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
344A ILE* 2.8 22.9 + - + +
345A ILE 3.3 6.0 + - - +
347A ASP* 1.3 72.9 - - - +
349A PHE* 1.3 67.0 + - + +
351A SER* 3.0 21.2 + - - -
352A LEU* 3.1 24.3 + - - +
418A CYS* 3.0 42.0 + - + -
421A PHE* 4.2 7.1 - - - +
422A LYS* 3.7 24.6 - - - +
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Residues in contact with PHE 349 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
345A ILE* 3.0 39.8 + - + +
348A THR* 1.3 77.1 + - - +
350A THR* 1.3 67.0 + - - +
352A LEU* 3.5 7.2 + - + +
353A GLY 3.4 3.6 + - - -
354A TYR* 3.1 36.5 + + + +
356A VAL* 3.5 22.4 - - + -
365A VAL* 4.9 0.2 - - + -
367A VAL* 3.7 22.7 - - + -
369A PHE* 4.0 23.8 - + - -
381A ILE* 5.8 2.7 - - + -
389A THR* 6.3 0.2 - - + -
403A VAL* 6.2 0.2 - - + -
405A VAL* 4.3 15.7 - - + -
421A PHE* 3.4 50.9 - + + -
425A TYR* 4.5 13.7 - + - -
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Residues in contact with THR 350 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
346A ILE* 2.7 31.0 + - - +
347A ASP* 4.1 5.2 - - - -
349A PHE* 1.3 74.3 - - - +
351A SER* 1.3 53.7 + - - +
353A GLY* 2.7 28.4 + - - -
354A TYR 4.1 9.4 + - - +
356A VAL* 4.0 16.6 + - - +
----------------------------------------------------------
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Residues in contact with SER 351 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
347A ASP 2.9 19.4 + - - -
348A THR* 3.0 16.8 + - - -
350A THR* 1.3 73.1 - - - +
352A LEU* 1.3 59.4 + - - +
353A GLY 3.2 3.2 + - - -
422A LYS* 4.1 14.0 + - - +
----------------------------------------------------------
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Residues in contact with LEU 352 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
348A THR* 3.1 32.7 + - - +
349A PHE* 3.9 12.8 - - + +
350A THR 3.2 0.4 - - - -
351A SER* 1.3 80.2 + - - +
353A GLY* 1.3 57.9 + - - +
354A TYR* 3.5 20.3 + - + -
421A PHE* 3.8 26.2 - - + +
422A LYS* 4.3 16.4 - - + +
425A TYR* 3.4 42.0 - - + +
426A LYS 4.4 7.1 + - - +
----------------------------------------------------------
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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