Contacts of the helix formed by residues 347 - 377 (chain A) in PDB entry 6QVC
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 GLU 347 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
343A PHE* 2.9 34.5 - - - +
344A ASP* 2.9 22.0 + - - +
346A LYS* 1.3 78.3 - - - +
348A LEU* 1.3 58.0 + - - +
349A PRO* 3.4 2.5 - - - -
350A ALA* 2.9 38.2 + - + +
351A PHE* 3.2 32.3 + - - -
502A MET* 4.5 13.9 - - + -
506A PHE* 6.3 2.0 - - + -
519A ILE* 5.4 5.4 - - + -
524A TYR* 3.0 32.4 + - + +
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Residues in contact with LEU 348 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
343A PHE* 6.3 1.8 - - + -
344A ASP 4.5 1.3 - - - +
345A LEU* 4.1 25.8 - - + -
346A LYS 3.8 0.6 - - - +
347A GLU* 1.3 80.5 - - - +
349A PRO* 1.3 69.0 - - + +
351A PHE* 2.9 54.2 + - + +
352A ALA* 3.3 2.8 + - - +
558A PRO* 4.6 14.1 - - + -
561A VAL* 6.6 0.2 - - + -
314B PHE* 4.4 28.9 - - + -
329B ILE* 5.6 4.9 - - + -
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Residues in contact with PRO 349 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
345A LEU 5.3 1.1 - - - +
346A LYS* 3.5 17.0 - - - +
347A GLU 3.7 0.7 - - - -
348A LEU* 1.3 95.0 - - + +
350A ALA* 1.3 59.7 + - - +
352A ALA* 2.9 32.2 + - + +
353A ALA* 3.2 5.2 + - - +
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Residues in contact with ALA 350 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
347A GLU* 2.9 26.0 + - + +
349A PRO* 1.3 77.7 - - - +
351A PHE* 1.3 61.2 + - - +
353A ALA* 3.0 20.6 + - + +
354A ILE* 3.0 12.6 + - - +
498A VAL* 5.8 7.3 - - + +
502A MET* 4.5 24.5 - - + -
524A TYR* 5.2 4.7 - - + -
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Residues in contact with PHE 351 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
343A PHE* 4.1 11.0 - + - -
347A GLU* 3.2 35.8 + - - -
348A LEU* 2.9 36.2 + - + +
350A ALA* 1.3 78.6 - - - +
352A ALA* 1.3 53.9 + - - -
354A ILE* 3.1 9.4 + - + +
355A GLY* 2.8 25.8 + - - -
524A TYR* 3.5 29.2 - + - -
527A ILE* 3.8 28.0 - - + -
555A HIS* 4.4 17.9 - + - -
558A PRO* 3.6 29.6 - - + +
562A ALA* 4.3 7.5 - - + +
565A LEU* 5.2 0.4 - - - +
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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
----------------------------------------------------------
348A LEU 3.3 3.2 + - - +
349A PRO* 2.9 24.5 + - + +
351A PHE* 1.3 76.4 - - - +
353A ALA* 1.3 59.1 + - - +
355A GLY* 3.0 10.9 + - - -
356A ILE* 3.1 22.8 + - + +
565A LEU* 4.5 15.6 - - + +
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Residues in contact with ALA 353 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
349A PRO 3.2 4.2 + - - +
350A ALA* 3.0 15.7 + - - +
352A ALA* 1.3 76.2 - - - +
354A ILE* 1.3 58.3 + - - +
356A ILE* 3.0 4.8 + - - +
357A CYS* 3.0 47.3 + - - +
494A PHE* 5.9 0.2 - - - -
498A VAL* 6.3 2.9 - - + -
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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
----------------------------------------------------------
350A ALA 3.0 9.5 + - - +
351A PHE* 3.1 24.6 + - + +
353A ALA* 1.3 72.2 - - - +
355A GLY* 1.3 68.1 + - - +
358A CYS* 3.2 29.7 - - - +
494A PHE* 4.0 13.2 - - + -
495A GLY* 3.9 9.2 - - - -
498A VAL* 3.7 30.7 - - + -
524A TYR* 3.9 24.9 - - + +
527A ILE* 3.5 26.5 - - + -
528A GLY* 4.0 7.9 - - - -
531A ALA* 4.1 6.4 - - - +
562A ALA* 4.7 4.9 - - + -
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Residues in contact with GLY 355 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
351A PHE 2.8 13.5 + - - -
352A ALA 3.0 4.4 + - - -
354A ILE* 1.3 82.6 - - - +
356A ILE* 1.3 67.0 + - - +
358A CYS* 3.0 11.1 + - - +
359A GLY 3.3 9.0 + - - -
562A ALA* 3.8 28.3 - - - -
565A LEU* 4.4 6.1 - - - -
566A ALA* 3.8 9.8 - - - +
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Residues in contact with ILE 356 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
352A ALA* 3.1 16.4 + - + +
353A ALA* 3.0 5.3 + - - +
355A GLY* 1.3 73.2 - - - +
357A CYS* 1.3 65.8 + - - +
359A GLY* 3.1 4.2 + - - +
360A LEU* 2.9 23.2 + - + +
565A LEU* 3.7 35.7 - - + +
566A ALA* 5.2 0.7 - - - +
568A MET* 6.0 0.2 - - + -
569A VAL* 3.9 34.7 - - + +
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Residues in contact with CYS 357 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
353A ALA* 3.0 31.9 + - - +
356A ILE* 1.3 78.6 - - - +
358A CYS* 1.3 58.5 + - - +
360A LEU* 3.1 19.0 - - + +
361A LEU* 2.9 34.9 + - + +
494A PHE* 4.5 18.2 - - + -
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Residues in contact with CYS 358 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
354A ILE* 3.2 23.8 - - - +
355A GLY 3.0 10.3 + - - +
357A CYS* 1.3 76.2 - - - +
359A GLY* 1.3 52.3 + - - +
361A LEU* 3.1 11.7 + - - +
362A GLY* 2.6 36.7 + - - -
491A GLY 5.9 0.2 - - - -
494A PHE* 3.5 33.2 - - - -
528A GLY* 4.7 4.5 - - - -
531A ALA* 4.6 8.1 - - + -
532A LEU* 3.9 34.7 - - + +
535A ALA* 4.8 1.3 - - - -
566A ALA* 5.0 0.2 - - + -
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Residues in contact with GLY 359 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
355A GLY 3.3 4.6 + - - -
356A ILE 3.1 7.1 + - - -
358A CYS* 1.3 77.8 - - - +
360A LEU* 1.3 50.5 - - - +
362A GLY* 3.1 0.7 + - - -
363A ALA* 2.8 36.4 + - - +
535A ALA* 3.9 20.4 - - - +
566A ALA* 4.0 17.1 - - - +
569A VAL* 4.1 9.6 - - - -
570A ALA* 4.8 4.0 - - - +
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Residues in contact with LEU 360 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
356A ILE* 2.9 13.4 + - + +
357A CYS* 3.1 19.7 - - + +
359A GLY* 1.3 75.8 - - - +
361A LEU* 1.3 67.1 + - + +
363A ALA* 3.1 13.0 + - - +
364A VAL* 3.2 22.6 + - + +
569A VAL* 3.9 11.3 - - + +
573A LEU* 4.6 13.5 - - + -
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Residues in contact with LEU 361 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
357A CYS* 2.9 28.2 + - + +
358A CYS* 3.4 17.9 - - - +
360A LEU* 1.3 76.4 - - + +
362A GLY* 1.3 62.2 + - - +
364A VAL* 3.0 23.1 + - + +
365A PHE* 3.0 12.1 + - - +
464A PHE* 3.7 25.8 - - + -
468A PHE* 4.5 18.6 - - + -
494A PHE* 4.7 21.1 - - + -
532A LEU* 3.7 24.5 - - + -
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Residues in contact with GLY 362 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
358A CYS 2.6 21.4 + - - -
359A GLY* 3.5 3.4 - - - -
361A LEU* 1.3 73.3 - - - +
363A ALA* 1.3 61.3 + - - +
365A PHE* 3.0 22.1 - - - +
366A VAL* 3.3 10.7 + - - +
532A LEU* 4.5 10.5 - - - -
535A ALA* 5.1 2.7 - - - -
536A VAL* 3.8 24.1 - - - +
570A ALA* 6.1 0.2 - - - -
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Residues in contact with ALA 363 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
359A GLY 2.8 12.5 + - - +
360A LEU 3.1 10.5 + - - +
362A GLY* 1.3 75.0 - - - +
364A VAL* 1.3 63.1 + - + +
366A VAL* 3.0 10.6 + - - +
367A TYR* 3.0 20.4 + - - +
570A ALA* 5.0 10.7 - - - +
573A LEU* 4.3 19.3 - - + -
574A GLN* 3.7 32.5 - - + +
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Residues in contact with VAL 364 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
360A LEU* 3.3 25.4 - - + +
361A LEU* 3.0 14.8 + - + +
363A ALA* 1.3 76.5 - - + +
365A PHE* 1.3 52.1 + - - +
367A TYR* 3.0 13.4 + - + +
368A LEU* 2.7 56.5 + - + +
468A PHE* 5.1 5.6 - - + -
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Residues in contact with PHE 365 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
361A LEU 3.0 8.9 + - - +
362A GLY* 3.0 18.8 - - - +
364A VAL* 1.3 74.1 - - - +
366A VAL* 1.3 64.6 + - + +
368A LEU* 3.1 7.6 + - - +
369A HIS* 3.0 23.9 + - + +
468A PHE* 3.5 34.3 - + + -
471A SER* 3.6 21.5 - - - -
472A ILE* 3.5 33.1 - - + +
475A THR* 5.5 5.2 - - + -
483A GLY 5.8 0.2 - - - -
486A PRO* 6.2 0.4 - - + -
487A VAL* 4.0 26.7 - - + -
490A LEU* 4.7 6.3 - - + -
532A LEU* 5.9 2.0 - - + -
536A VAL* 4.0 24.7 - - + -
577A LEU* 5.1 11.9 - - + -
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Residues in contact with VAL 366 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
362A GLY 3.7 13.0 - - - +
363A ALA* 3.0 8.4 + - - +
365A PHE* 1.3 76.9 - - + +
367A TYR* 1.3 63.7 + - - +
369A HIS* 3.1 18.9 + - + +
370A ARG* 3.2 15.0 + - - +
536A VAL* 3.7 31.6 - - + +
574A GLN* 5.1 3.8 - - + -
575A PRO* 3.9 15.3 - - + +
576A SER 3.6 23.8 - - - +
577A LEU* 4.0 19.1 - - + +
580A SER* 3.8 13.9 - - - +
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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 ALA 3.0 11.9 + - - +
364A VAL* 3.3 15.5 - - + +
366A VAL* 1.3 76.2 - - - +
368A LEU* 1.3 68.7 + - + +
370A ARG* 3.0 49.3 + - - +
371A GLN* 3.0 62.8 + - + +
574A GLN* 4.0 16.5 + - - +
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Residues in contact with LEU 368 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
364A VAL* 2.7 41.2 + - + +
365A PHE* 3.1 4.7 + - - +
367A TYR* 1.3 81.9 - - + +
369A HIS* 1.3 62.2 + - - +
371A GLN* 3.0 32.4 + - + +
372A VAL* 3.1 14.0 + - - +
468A PHE* 4.4 21.1 - - + -
472A ILE* 5.0 17.2 - - + +
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Residues in contact with HIS 369 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
365A PHE* 3.0 15.7 + + + +
366A VAL* 3.1 14.8 + - + +
368A LEU* 1.3 76.1 - - - +
370A ARG* 1.3 61.0 + - + +
372A VAL* 3.1 14.6 + - - +
373A MET* 2.9 59.2 + - + +
472A ILE* 4.6 12.8 + - + +
475A THR* 4.0 36.4 - - + +
476A THR* 5.1 2.5 - - - -
577A LEU* 4.4 20.8 - - + +
580A SER* 5.8 3.4 - - - -
581A ILE* 4.2 23.3 - - + +
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Residues in contact with ARG 370 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
366A VAL* 3.2 8.0 + - - +
367A TYR* 3.0 40.9 + - - +
369A HIS* 1.3 78.0 - - + +
371A GLN* 1.3 66.1 + - - +
372A VAL 3.0 1.7 + - - -
373A MET* 3.0 15.8 + - - +
374A LEU* 3.1 31.7 + - + +
574A GLN* 2.6 30.7 + - - -
575A PRO* 4.2 10.4 - - - +
580A SER* 4.0 33.1 + - - -
583A GLN* 4.3 16.6 - - - +
584A VAL* 4.2 13.5 - - + -
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Residues in contact with GLN 371 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
367A TYR* 3.0 59.2 + - + +
368A LEU* 3.0 25.3 + - + +
370A ARG* 1.3 79.5 + - - +
372A VAL* 1.3 55.9 + - - +
374A LEU* 5.1 9.0 - - - +
375A GLY* 4.0 10.2 + - - -
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Residues in contact with VAL 372 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
368A LEU 3.1 8.9 + - - +
369A HIS* 3.1 22.5 + - - +
371A GLN* 1.3 79.5 - - - +
373A MET* 1.3 57.7 + - - +
374A LEU 3.4 0.7 - - - -
375A GLY* 3.0 7.9 + - - +
376A VAL* 2.5 35.1 + - + +
393A TYR* 5.5 1.3 - - - +
472A ILE* 4.8 10.5 - - + +
473A VAL* 5.9 6.3 - - + -
476A THR* 3.5 38.1 - - + +
----------------------------------------------------------
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Residues in contact with MET 373 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
369A HIS* 2.9 52.1 + - + +
370A ARG* 3.0 6.0 + - - +
372A VAL* 1.3 78.6 - - - +
374A LEU* 1.3 60.5 + - - +
376A VAL* 2.9 47.7 + - + +
377A ARG* 3.3 7.6 + - - +
475A THR 5.8 0.2 - - - +
476A THR* 4.5 14.6 - - - +
584A VAL* 3.7 28.9 - - + +
585A LYS* 4.6 20.9 - - + -
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Residues in contact with LEU 374 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
370A ARG* 3.1 26.9 + - + +
371A GLN* 5.1 8.3 - - - +
373A MET* 1.3 75.8 - - - +
375A GLY* 1.3 56.4 + - - +
377A ARG* 2.9 20.4 + - - +
378A LYS* 2.9 22.0 + - + +
584A VAL* 4.9 18.4 - - + -
----------------------------------------------------------
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Residues in contact with GLY 375 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
371A GLN 4.0 8.7 + - - -
372A VAL* 3.0 16.1 + - - -
374A LEU* 1.3 74.6 - - - +
376A VAL* 1.3 64.1 + - - +
377A ARG 3.3 0.2 - - - -
378A LYS* 3.8 23.3 + - - +
382A LEU* 4.2 12.1 - - - +
----------------------------------------------------------
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Residues in contact with VAL 376 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
372A VAL* 2.5 21.6 + - + +
373A MET* 2.9 41.9 + - + +
375A GLY* 1.3 77.4 - - - +
377A ARG* 1.3 100.7 + - + +
378A LYS 3.7 0.2 - - - -
382A LEU* 3.7 11.0 - - - +
393A TYR* 5.3 4.5 - - + +
476A THR* 3.9 19.5 - - + +
----------------------------------------------------------
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Residues in contact with ARG 377 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
373A MET 3.3 5.5 + - - +
374A LEU* 2.9 10.3 + - - +
376A VAL* 1.3 117.8 + - + +
378A LYS* 1.3 57.0 + - - +
379A HIS 3.8 2.0 - - - +
382A LEU* 3.7 22.3 + - - +
383A SER* 3.2 37.3 + - - +
386A LEU* 3.8 26.9 - - - +
----------------------------------------------------------
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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