Contacts of the helix formed by residues 351 - 377 (chain A) in PDB entry 2CFZ
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 351 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
334A GLY 2.7 29.7 + - - -
335A ARG 3.3 18.6 + - - +
336A GLN 4.0 1.4 - - - -
337A ALA* 3.0 26.8 + - - +
338A GLU* 4.8 3.6 + - + +
350A GLY* 1.3 71.6 - - - -
352A ALA* 1.3 59.6 + - - +
354A ILE* 3.2 3.4 + - - +
355A VAL* 2.8 37.8 + - - +
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Residues in contact with ALA 352 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
350A GLY 3.4 1.0 - - - -
351A ASN* 1.3 79.2 + - - +
353A GLU* 1.3 57.6 + - - +
355A VAL* 3.4 5.8 + - - +
356A GLU* 3.0 29.5 + - - +
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Residues in contact with GLU 353 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51A ARG* 3.7 15.6 + - - +
348A ARG* 2.2 55.4 + - + +
349A TRP 3.8 15.0 - - - +
350A GLY* 3.2 9.7 + - - +
351A ASN 3.2 0.6 - - - -
352A ALA* 1.3 76.4 - - - +
354A ILE* 1.3 59.3 + - - +
356A GLU* 3.2 16.7 + - - +
357A VAL* 2.9 45.1 + - - +
398A GLU* 5.6 0.2 - - - +
400A TYR* 4.2 2.6 + - - -
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Residues in contact with ILE 354 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
295A LEU* 5.0 0.4 - - + -
334A GLY 4.5 4.5 - - - +
337A ALA* 3.7 27.6 - - + +
338A GLU 3.4 9.4 - - - +
339A VAL* 3.4 38.6 - - - +
340A MET* 4.0 25.6 - - + -
348A ARG* 3.6 17.9 - - - +
350A GLY 3.0 19.5 + - - +
351A ASN* 3.5 5.6 - - - +
353A GLU* 1.3 73.9 - - - +
355A VAL* 1.3 65.3 + - - +
357A VAL* 3.2 2.3 + - - +
358A LEU* 3.0 42.5 + - + +
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Residues in contact with VAL 355 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
330A LEU* 4.1 18.5 - - + +
334A GLY 3.7 24.7 - - - +
335A ARG* 4.6 2.5 - - - +
351A ASN* 2.8 35.2 + - - +
352A ALA* 3.8 6.7 - - - +
354A ILE* 1.3 74.1 - - - +
356A GLU* 1.3 63.1 + - - +
358A LEU* 3.3 2.1 + - - +
359A GLU* 3.0 44.7 + - - +
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Residues in contact with GLU 356 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
352A ALA 3.0 17.0 + - - +
353A GLU* 3.2 17.7 + - - +
355A VAL* 1.3 78.1 - - - +
357A VAL* 1.3 55.4 + - + +
359A GLU* 3.5 13.9 + - - +
360A LYS* 3.0 61.5 + - + +
398A GLU* 4.2 8.9 - - - +
400A TYR* 4.3 4.9 + - - +
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Residues in contact with VAL 357 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
301A VAL* 4.1 16.8 - - + -
340A MET* 3.7 22.4 - - + -
348A ARG* 3.2 22.9 - - - +
353A GLU* 2.9 44.4 + - - +
354A ILE 3.2 3.3 + - - +
356A GLU* 1.3 71.7 - - - +
358A LEU* 1.3 61.1 + - - +
360A LYS* 3.3 0.5 + - - +
361A GLN* 2.8 36.9 + - + +
400A TYR* 3.7 34.8 - - + +
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Residues in contact with LEU 358 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
295A LEU* 4.0 11.9 - - + -
297A MET* 3.9 25.1 - - + -
301A VAL* 4.1 6.1 - - + -
326A ILE* 3.3 18.0 - - + +
330A LEU* 3.9 27.6 - - + +
334A GLY* 3.9 28.9 - - - -
340A MET* 3.6 20.9 - - - -
354A ILE* 3.0 27.2 + - + +
355A VAL 3.7 3.4 - - - +
357A VAL* 1.3 75.9 - - - +
359A GLU* 1.3 56.7 + - - +
361A GLN* 4.8 0.9 - - - -
362A ARG* 2.8 32.8 + - - +
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Residues in contact with GLU 359 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
330A LEU* 3.7 18.6 - - + +
355A VAL* 3.0 35.1 + - + +
356A GLU* 3.7 17.1 - - - +
358A LEU* 1.3 75.2 - - - +
360A LYS* 1.3 60.7 + - + +
362A ARG* 3.3 26.6 + - - +
363A ASP* 2.8 38.1 + - - +
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Residues in contact with LYS 360 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
356A GLU* 3.0 42.3 + - + +
357A VAL 4.0 1.8 - - - +
359A GLU* 1.3 78.7 - - + +
361A GLN* 1.3 53.7 + - - +
363A ASP* 3.3 2.3 + - - +
364A LEU* 2.7 34.7 + - - +
394A SER* 2.8 42.1 + - - +
395A LEU* 3.4 19.7 - - + +
397A GLN 5.5 0.2 + - - -
398A GLU* 2.7 34.8 + - + -
400A TYR* 3.7 17.9 - - + +
401A ASP* 4.1 3.1 - - - +
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Residues in contact with GLN 361 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
300A ASN 4.1 0.2 - - - +
301A VAL* 3.6 41.0 - - + +
302A VAL 3.9 7.5 + - - +
304A THR 3.9 7.2 + - - +
326A ILE* 4.0 13.0 - - + -
357A VAL* 2.8 20.3 + - + +
358A LEU 4.1 2.0 - - - +
360A LYS* 1.3 74.3 - - - +
362A ARG* 1.3 65.2 + - - +
364A LEU* 3.2 24.5 + - - +
365A TYR* 3.2 34.9 + - + -
400A TYR* 2.9 40.9 + - + -
401A ASP* 3.2 12.1 + - - +
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Residues in contact with ARG 362 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
323A SER* 2.7 46.5 + - - +
326A ILE* 3.8 21.3 - - + +
327A ASN* 3.1 40.5 + - + +
330A LEU* 3.6 16.3 - - + +
331A HIS* 4.7 3.4 + - - -
358A LEU 2.8 21.8 + - - +
359A GLU* 3.5 24.3 + - - +
361A GLN* 1.3 72.6 - - - +
363A ASP* 1.3 92.7 + - - +
366A GLY* 3.1 14.6 + - - -
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Residues in contact with ASP 363 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
359A GLU* 2.8 24.6 + - - +
360A LYS* 3.9 3.4 - - - +
362A ARG* 1.3 111.3 + - - +
364A LEU* 1.3 56.8 + - - +
366A GLY* 4.4 1.8 - - - +
367A TYR* 2.7 37.1 + - - +
395A LEU* 3.7 15.9 - - + +
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Residues in contact with LEU 364 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
305A LEU* 3.7 34.8 - - + -
360A LYS 2.7 21.8 + - - +
361A GLN* 3.2 35.0 + - - +
363A ASP* 1.3 75.1 - - - +
365A TYR* 1.3 68.5 + - + +
367A TYR* 3.9 1.7 - - - +
368A LEU* 3.1 31.3 + - + +
391A LEU* 3.7 34.5 - - + +
395A LEU* 4.0 9.6 - - + -
401A ASP* 3.6 25.6 - - + +
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Residues in contact with TYR 365 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
300A ASN 4.3 2.3 + - - -
302A VAL* 5.7 0.3 - - - +
304A THR 4.1 3.3 + - - -
305A LEU* 3.7 25.4 - - + -
306A HIS* 2.8 42.1 + - - +
308A LEU* 4.1 24.9 - - + -
319A ALA* 3.6 24.1 - - + +
322A TRP* 3.6 42.1 - + + -
323A SER* 4.1 8.7 - - - +
326A ILE* 3.9 5.6 - - + -
361A GLN* 3.2 41.2 + - - +
364A LEU* 1.3 81.3 - - + +
366A GLY* 1.3 57.0 + - - +
368A LEU* 3.7 5.6 + - + +
369A HIS* 3.1 28.6 + - - +
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Residues in contact with GLY 366 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
320A LEU* 6.0 3.6 - - - -
323A SER* 3.7 12.3 - - - -
362A ARG 3.1 18.1 + - - -
363A ASP* 3.8 1.8 - - - -
365A TYR* 1.3 75.8 - - - +
367A TYR* 1.3 59.9 + - - +
369A HIS* 3.4 4.7 + - - +
370A ASP* 2.8 40.6 + - - +
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Residues in contact with TYR 367 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
363A ASP 2.7 23.2 + - - +
364A LEU 3.9 2.9 - - - +
366A GLY* 1.3 70.5 - - - +
368A LEU* 1.3 61.7 + - - +
370A ASP* 4.5 2.2 - - - +
371A GLN* 2.8 65.3 + - + +
389A LEU* 3.5 23.7 - - + +
390A ARG 3.0 25.4 + - - -
391A LEU* 3.8 19.3 - - + -
392A PRO* 3.6 32.9 - - + +
395A LEU* 4.0 8.1 - - + -
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Residues in contact with LEU 368 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
305A LEU* 3.7 33.4 - - + -
308A LEU* 4.6 12.6 - - + -
364A LEU* 3.1 23.5 + - + +
365A TYR* 3.8 8.3 - - + +
367A TYR* 1.3 76.6 - - - +
369A HIS* 1.3 62.3 + - - +
372A THR* 2.6 32.0 + - - +
389A LEU* 4.3 13.2 - - + -
391A LEU* 4.4 12.3 - - + -
408A VAL* 4.0 37.7 - - + +
411A ASN* 4.0 20.4 - - + +
412A ALA* 4.8 3.1 - - + +
415A VAL* 4.1 4.0 - - + +
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Residues in contact with HIS 369 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
318A ASP* 5.1 0.4 - - - -
319A ALA* 3.9 13.2 - - + +
320A LEU* 3.8 42.6 - - + +
365A TYR 3.1 16.4 + - - +
366A GLY* 3.6 6.1 - - - +
368A LEU* 1.3 81.8 - - - +
370A ASP* 1.3 85.9 + - - +
372A THR* 3.7 2.8 - - - -
373A LEU* 3.2 41.3 + - + +
415A VAL* 3.9 13.7 - - + +
419A TYR* 2.6 42.1 + + - -
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Residues in contact with ASP 370 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
320A LEU* 4.6 7.6 - - - +
366A GLY* 2.8 26.8 + - - +
367A TYR* 4.2 2.2 - - - +
369A HIS* 1.3 99.0 + - - +
371A GLN* 1.3 60.9 + - + +
373A LEU* 3.3 7.4 + - - +
374A HIS* 2.8 32.4 + - - +
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Residues in contact with GLN 371 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
367A TYR* 2.8 57.8 + - + +
370A ASP* 1.3 79.0 - - + +
372A THR* 1.3 65.5 + - - +
374A HIS* 3.6 30.7 + - - +
375A LEU* 3.0 30.8 + - - +
389A LEU* 3.5 23.7 - - + +
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Residues in contact with THR 372 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
368A LEU 2.6 25.5 + - - -
369A HIS 3.7 2.9 - - - -
371A GLN* 1.3 77.0 - - - +
373A LEU* 1.3 58.0 + - + +
375A LEU* 3.3 4.3 + - - +
376A ALA* 2.8 27.0 + - - +
385A VAL* 4.1 14.5 - - + +
389A LEU* 3.2 18.8 - - - +
412A ALA* 3.3 33.7 - - - +
415A VAL* 3.8 8.2 - - + +
416A LEU* 3.7 26.0 - - + +
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Residues in contact with LEU 373 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
369A HIS* 3.2 44.9 + - + +
370A ASP* 3.5 8.3 - - - +
372A THR* 1.3 78.8 - - + +
374A HIS* 1.3 60.9 + - - +
376A ALA* 3.7 10.2 - - + +
377A ASN* 2.8 43.7 + - - +
415A VAL* 3.9 10.8 - - + +
416A LEU* 5.2 2.2 - - - -
419A TYR* 3.7 42.8 - - + -
420A LEU* 6.1 1.1 - - + -
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Residues in contact with HIS 374 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
370A ASP 2.8 17.0 + - - +
371A GLN* 3.6 31.6 + - - +
373A LEU* 1.3 79.1 - - - +
375A LEU* 1.3 62.9 + - - +
377A ASN* 3.3 11.1 + - - +
378A GLN* 3.2 48.6 + - + +
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Residues in contact with LEU 375 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
371A GLN* 3.0 23.8 + - - +
372A THR 3.5 3.8 - - - +
374A HIS* 1.3 77.3 - - + +
376A ALA* 1.3 67.5 + - - +
378A GLN* 2.9 31.1 + - - +
379A GLY 3.3 0.3 + - - -
380A VAL* 3.1 39.9 + - + +
385A VAL* 3.8 22.4 - - + -
388A ARG* 4.1 15.0 - - + +
389A LEU* 3.8 33.2 - - + +
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Residues in contact with ALA 376 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
372A THR 2.8 20.9 + - - +
373A LEU* 3.7 13.9 - - + +
375A LEU* 1.3 72.8 - - - +
377A ASN* 1.3 60.7 + - - +
379A GLY* 2.9 20.8 + - - -
380A VAL* 3.5 13.0 + - - +
416A LEU* 3.9 21.5 - - + +
420A LEU* 3.9 23.2 - - + +
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Residues in contact with ASN 377 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
373A LEU* 2.8 28.2 + - - +
374A HIS* 3.6 7.5 - - - +
375A LEU 3.2 0.4 - - - -
376A ALA* 1.3 79.5 - - - +
378A GLN* 1.3 59.3 + - + +
379A GLY 3.3 1.1 + - - -
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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