Contacts of the helix formed by residues 356 - 387 (chain A) in PDB entry 6R7Y
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 SER 356 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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352A SER 5.0 0.4 + - - -
353A GLU 4.4 4.1 + - - -
355A THR* 1.3 81.1 - - - +
357A VAL* 1.3 73.6 + - - +
358A LEU 3.3 1.6 - - - -
359A LEU* 3.5 15.8 + - - +
360A TYR* 3.7 27.6 - - - -
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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
----------------------------------------------------------
353A GLU 5.2 5.8 - - - +
354A TRP* 4.4 22.4 - - + +
355A THR 4.3 2.4 - - - +
356A SER* 1.3 84.7 - - - +
358A LEU* 1.3 65.1 + - - +
359A LEU 3.3 0.9 + - - -
360A TYR* 3.3 16.5 + - + +
361A VAL* 3.4 20.2 + - + +
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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
----------------------------------------------------------
342A TRP* 5.7 5.2 - - + -
343A ALA* 4.1 23.2 - - + +
346A LEU* 4.0 39.3 - - + +
347A HIS* 4.3 10.3 - - + +
350A SER* 6.2 1.8 - - - -
354A TRP* 3.5 39.1 + - + +
355A THR* 5.3 1.3 - - - +
356A SER 3.3 0.6 - - - -
357A VAL* 1.3 80.0 - - - +
359A LEU* 1.3 61.7 + - - +
361A VAL* 3.7 17.6 + - + -
362A PRO* 3.3 19.3 - - + +
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Residues in contact with LEU 359 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
340A GLU* 4.3 19.2 - - - +
343A ALA* 5.3 4.3 - - + +
344A LEU* 4.2 31.9 - - + +
347A HIS* 5.2 12.6 - - + +
355A THR 3.9 17.0 + - - +
356A SER* 3.5 12.8 + - - +
357A VAL 3.2 1.0 - - - -
358A LEU* 1.3 81.9 - - - +
360A TYR* 1.3 69.1 + - + +
361A VAL 3.5 0.4 + - - -
362A PRO* 3.9 10.8 - - - +
363A SER* 5.0 3.8 + - - -
428A LEU* 6.5 0.2 - - + -
431A GLN* 4.3 25.2 - - - +
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Residues in contact with TYR 360 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
356A SER* 3.7 24.5 - - - -
357A VAL* 3.3 9.4 + - + +
358A LEU 3.3 0.4 - - - -
359A LEU* 1.3 84.8 - - + +
361A VAL* 1.3 64.5 + - + +
362A PRO 3.7 0.2 - - - -
363A SER* 3.3 18.6 + - - -
364A ILE* 3.4 25.1 - - + +
431A GLN* 4.3 34.5 + - + +
435A THR* 4.4 20.2 - - + -
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Residues in contact with VAL 361 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
357A VAL* 3.4 25.4 - - + +
358A LEU* 4.0 17.9 - - + +
359A LEU 3.5 0.2 - - - -
360A TYR* 1.3 75.6 - - - +
362A PRO* 1.3 72.7 - - + +
364A ILE* 3.1 8.9 + - + +
365A ILE* 3.0 43.3 + - + +
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Residues in contact with PRO 362 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
336A TYR* 3.3 17.6 - - + -
339A MET* 4.1 24.9 - - + +
340A GLU* 3.5 30.5 - - - +
343A ALA* 4.5 12.3 - - + -
358A LEU* 3.3 18.2 - - + +
359A LEU* 3.9 8.5 - - - +
361A VAL* 1.3 92.7 - - + +
363A SER* 1.3 58.4 + - - +
365A ILE* 3.8 10.3 - - + +
366A TYR* 2.9 21.7 + - - +
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Residues in contact with SER 363 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
336A TYR* 3.9 21.2 - - - -
340A GLU* 5.4 0.4 - - - -
359A LEU 5.3 3.1 - - - -
360A TYR* 3.3 12.5 + - - -
361A VAL 3.3 0.2 - - - -
362A PRO* 1.3 79.0 - - - +
364A ILE* 1.3 57.7 + - - +
366A TYR* 3.3 3.5 + - - +
367A ALA* 2.7 35.6 + - - +
432A SER* 5.0 6.3 - - - -
435A THR* 3.2 38.1 + - - +
436A LEU* 4.1 8.7 - - - +
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Residues in contact with ILE 364 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
360A TYR* 3.4 24.7 + - + +
361A VAL* 3.1 11.1 + - + +
363A SER* 1.3 82.1 + - - +
365A ILE* 1.3 67.8 + - + +
367A ALA* 3.1 6.2 + - - +
368A ILE* 2.9 40.3 + - + +
435A THR* 5.4 4.3 - - + -
439A THR* 3.9 25.1 - - + +
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Residues in contact with ILE 365 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
339A MET* 4.8 20.6 - - - -
361A VAL* 3.0 35.4 + - + +
362A PRO* 3.8 8.3 - - + +
363A SER 3.3 0.2 - - - -
364A ILE* 1.3 78.7 - - + +
366A TYR* 1.3 60.9 + - - +
368A ILE* 3.4 6.9 + - + +
369A VAL* 3.1 33.8 + - + +
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Residues in contact with TYR 366 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
329A SER 5.2 0.2 + - - -
332A VAL* 4.5 17.3 - - + -
333A MET* 3.9 28.4 - - - +
336A TYR* 3.6 42.6 - + + -
362A PRO 2.9 18.6 + - - +
363A SER* 3.5 4.3 - - - +
364A ILE 3.2 0.2 - - - -
365A ILE* 1.3 78.7 - - - +
367A ALA* 1.3 55.4 + - - +
369A VAL* 3.4 7.0 + - + -
370A ILE* 3.0 58.5 + - + +
411A ASN* 3.8 16.1 + - - -
414A ALA* 5.6 0.9 - - - +
415A SER* 3.6 31.8 + - - -
436A LEU* 4.3 12.3 - - + -
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Residues in contact with ALA 367 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
363A SER 2.7 21.0 + - - +
364A ILE* 3.1 5.4 + - - +
366A TYR* 1.3 71.6 - - - +
368A ILE* 1.3 64.2 + - - +
370A ILE* 3.4 6.4 + - - +
371A GLU* 3.2 23.2 + - - +
436A LEU* 3.8 20.8 - - + +
439A THR* 3.7 31.6 - - + -
440A SER* 4.8 11.1 - - - +
443A LEU* 5.0 1.5 - - - +
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Residues in contact with ILE 368 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
364A ILE* 2.9 31.0 + - + +
365A ILE* 4.0 5.6 - - + +
367A ALA* 1.3 76.1 - - - +
369A VAL* 1.3 65.9 + - + +
371A GLU* 3.4 2.4 + - - +
372A ILE* 3.1 37.8 + - + +
439A THR* 5.0 7.6 - - + -
443A LEU* 4.5 29.7 - - + +
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Residues in contact with VAL 369 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
332A VAL* 4.0 27.4 - - + -
365A ILE* 3.1 26.8 + - + +
366A TYR* 3.9 9.4 - - + +
368A ILE* 1.3 77.9 - - + +
370A ILE* 1.3 58.3 + - + +
372A ILE* 3.4 7.1 + - + +
373A MET* 3.0 36.5 + - + +
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Residues in contact with ILE 370 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
366A TYR* 3.0 59.4 + - + +
367A ALA* 3.7 5.6 - - - +
369A VAL* 1.3 77.3 - - + +
371A GLU* 1.3 64.7 + - - +
373A MET* 3.3 1.5 + - + -
374A ASN* 2.9 41.4 + - - +
411A ASN* 3.6 33.0 - - - +
412A CYS* 3.9 29.6 - - - -
436A LEU* 4.6 13.7 - - + -
440A SER* 5.8 3.1 - - - +
507A TYR* 5.6 1.6 - - - +
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Residues in contact with GLU 371 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
367A ALA 3.2 10.7 + - - +
368A ILE 3.4 0.4 + - - -
370A ILE* 1.3 84.1 - - - +
372A ILE* 1.3 61.7 + - - +
374A ASN* 4.1 22.5 + - - +
375A ARG* 3.7 45.7 + - - +
412A CYS* 5.4 1.7 - - - -
440A SER* 3.4 25.2 + - - +
443A LEU* 3.7 35.7 - - + +
444A ASN* 4.4 14.2 + - - +
447A MET* 6.1 0.7 - - + -
503A LEU* 6.2 0.2 - - - +
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Residues in contact with ILE 372 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
368A ILE* 3.1 33.6 + - + +
369A VAL* 4.0 6.5 - - + +
371A GLU* 1.3 79.6 - - + +
373A MET* 1.3 65.4 + - - +
374A ASN 3.2 0.2 - - - -
375A ARG* 3.3 5.7 + - - +
376A LEU* 3.1 38.1 + - + +
443A LEU* 5.8 2.7 - - + -
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Residues in contact with MET 373 (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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325A CYS 5.7 0.2 - - - +
328A PHE* 4.0 29.6 - - + -
329A SER* 4.2 14.8 - - - -
332A VAL* 4.3 18.2 - - + -
369A VAL* 3.0 22.1 + - + +
370A ILE* 4.0 2.5 - - + +
372A ILE* 1.3 79.9 - - + +
374A ASN* 1.3 57.8 + - - +
376A LEU* 3.7 11.6 - - + +
377A TYR* 2.8 30.3 + - + +
407A PHE* 3.7 17.3 - - + -
411A ASN* 3.4 30.5 - - - +
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Residues in contact with ASN 374 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
370A ILE* 2.9 22.9 + - - +
371A GLU* 4.2 21.2 + - - +
372A ILE 3.2 0.2 - - - -
373A MET* 1.3 76.7 - - - +
375A ARG* 1.3 58.0 + - + +
377A TYR* 3.4 2.8 + - - +
378A ARG* 2.9 27.5 + - - +
407A PHE* 3.3 13.5 - - - -
408A ASN* 2.7 35.2 + - - +
411A ASN* 3.1 24.1 + - - +
412A CYS* 4.0 21.4 - - - -
503A LEU* 5.2 1.6 - - - +
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Residues in contact with ARG 375 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
371A GLU* 3.7 33.7 + - - +
372A ILE* 3.3 7.6 + - - +
374A ASN* 1.3 75.6 - - + +
376A LEU* 1.3 68.8 + - + +
378A ARG* 3.3 7.9 + - - +
379A TYR* 3.1 37.6 + - + -
444A ASN* 4.1 22.2 + - - +
447A MET* 3.6 39.5 + - - +
448A GLU* 4.8 3.4 - - - +
496A ASP* 5.8 2.6 + - - -
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Residues in contact with LEU 376 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
372A ILE* 3.1 29.0 + - + +
373A MET* 3.7 15.0 - - + +
374A ASN 3.3 0.2 - - - -
375A ARG* 1.3 80.6 - - + +
377A TYR* 1.3 60.4 + - - +
379A TYR* 3.5 13.3 + - + +
380A ALA* 3.2 22.3 + - - +
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Residues in contact with TYR 377 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
321A PHE* 5.1 7.4 - + - -
322A VAL* 3.5 34.3 - - + +
325A CYS* 3.6 39.9 - - + -
373A MET* 2.8 21.9 + - + +
374A ASN 3.8 3.1 - - - +
376A LEU* 1.3 74.2 - - - +
378A ARG* 1.3 59.9 + - - +
380A ALA* 3.8 4.4 - - + -
381A ALA* 2.9 40.5 + - + +
403A LYS* 3.5 23.2 + - - +
404A VAL* 4.2 6.5 - - + -
407A PHE* 3.4 50.9 - + + +
408A ASN* 5.0 2.5 - - - -
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Residues in contact with ARG 378 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
374A ASN 2.9 18.1 + - - +
375A ARG* 3.5 9.9 - - - +
376A LEU 3.2 0.4 - - - -
377A TYR* 1.3 82.0 - - - +
379A TYR* 1.3 69.7 + - + +
381A ALA* 3.9 0.3 - - - -
382A GLU* 3.0 44.5 + - - +
400A LEU* 4.4 14.3 - - - +
404A VAL* 3.9 30.2 - - + +
492A LEU* 4.9 14.3 + - - +
495A PHE* 3.5 30.7 - - - -
496A ASP* 2.4 38.6 + - - -
499A LEU* 5.6 1.6 - - - +
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Residues in contact with TYR 379 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
375A ARG* 3.1 25.6 + - + +
376A LEU* 4.0 13.0 - - + +
378A ARG* 1.3 85.6 - - + +
380A ALA* 1.3 63.2 + - - +
382A GLU* 4.0 17.9 - - - +
383A PHE* 3.1 24.8 + - - +
492A LEU* 6.5 1.1 - - + -
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Residues in contact with ALA 380 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
321A PHE* 4.4 25.1 - - + -
376A LEU 3.2 17.6 + - - +
377A TYR* 3.9 7.0 - - + +
379A TYR* 1.3 76.1 - - - +
381A ALA* 1.3 58.3 + - - +
383A PHE* 3.5 9.7 + - + +
384A LEU* 2.9 30.2 + - - +
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Residues in contact with ALA 381 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
321A PHE* 5.7 1.8 - - - -
377A TYR* 2.9 38.7 + - + +
378A ARG 4.1 2.2 - - - +
380A ALA* 1.3 74.5 - - - +
382A GLU* 1.3 61.8 + - - +
384A LEU* 3.8 7.0 - - - +
385A THR* 2.8 35.5 + - - -
400A LEU* 3.7 2.9 - - + +
403A LYS* 4.3 17.0 - - + -
404A VAL* 4.2 14.6 - - + -
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Residues in contact with GLU 382 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
378A ARG* 3.0 34.8 + - - +
379A TYR* 4.0 19.9 - - - +
381A ALA* 1.3 76.2 - - - +
383A PHE* 1.3 59.0 + - - +
385A THR* 3.4 0.7 + - - -
386A SER* 2.9 31.2 + - - -
396A TYR* 3.8 17.7 + - - +
400A LEU* 3.7 20.1 - - + +
492A LEU* 5.1 11.4 - - - +
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Residues in contact with PHE 383 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
379A TYR 3.1 19.2 + - - +
380A ALA* 3.8 8.7 - - - +
382A GLU* 1.3 80.4 - - - +
384A LEU* 1.3 77.6 + - + +
386A SER* 3.4 6.6 + - - -
387A TRP* 3.2 38.5 + + + +
----------------------------------------------------------
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Residues in contact with LEU 384 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
317A VAL* 4.7 10.8 - - + +
318A SER* 3.8 33.9 - - - +
321A PHE* 3.7 35.7 - - + -
322A VAL* 5.5 1.1 - - + -
380A ALA 2.9 16.9 + - - +
381A ALA* 3.3 7.6 + - - +
382A GLU 3.3 0.2 - - - -
383A PHE* 1.3 91.8 - - + +
385A THR* 1.3 60.7 + - - +
387A TRP* 3.8 22.0 - - + +
388A GLU* 3.1 22.8 - - - +
403A LYS* 5.1 6.1 - - + -
----------------------------------------------------------
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Residues in contact with THR 385 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
285A ARG* 5.2 0.3 + - - -
381A ALA 2.8 17.7 + - - -
382A GLU 4.2 0.7 - - - -
384A LEU* 1.3 76.4 - - - +
386A SER* 1.3 59.7 + - - +
387A TRP 3.1 5.2 + - - -
388A GLU* 3.4 33.3 + - - +
389A ASN 4.4 1.2 + - - -
390A HIS* 3.7 20.6 + - + -
396A TYR* 4.0 22.2 - - + -
399A HIS* 3.8 18.2 - - + -
400A LEU* 4.2 11.8 - - - +
403A LYS* 3.5 20.8 - - - +
----------------------------------------------------------
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Residues in contact with SER 386 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
285A ARG* 4.5 18.8 + - - +
287A GLY 4.8 6.4 + - - +
382A GLU* 2.9 20.9 + - - -
383A PHE* 3.8 8.2 - - - -
385A THR* 1.3 75.8 - - - +
387A TRP* 1.3 58.2 + - - +
388A GLU 3.5 0.2 - - - -
389A ASN* 4.3 10.8 + - - +
390A HIS 6.0 0.2 - - - -
396A TYR* 4.0 12.2 - - - -
----------------------------------------------------------
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Residues in contact with TRP 387 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
289A HIS* 6.1 0.2 - - - -
313A ARG* 3.3 78.7 + - + +
317A VAL* 4.3 25.4 - - + -
318A SER* 5.3 0.7 - - - -
383A PHE* 3.2 35.9 + + + +
384A LEU* 3.8 24.0 - - + +
385A THR 3.1 0.4 - - - -
386A SER* 1.3 77.1 - - - +
388A GLU* 1.3 64.9 + - + +
389A ASN* 3.2 10.2 + - - +
----------------------------------------------------------
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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).
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