Contacts of the helix formed by residues 415 - 445 (chain A) in PDB entry 3QJQ
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 ASP 415 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
414A SER* 1.3 75.7 - - - +
416A ALA* 1.3 64.1 + - - +
417A GLN 3.3 1.6 - - - -
418A ARG* 2.8 36.1 + - - +
419A ARG* 2.8 52.5 + - - +
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Residues in contact with ALA 416 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
414A SER* 3.8 8.2 - - - +
415A ASP* 1.3 78.9 - - - +
417A GLN* 1.3 58.9 + - + +
419A ARG* 3.4 6.0 + - - +
420A LEU* 2.9 27.3 + - - +
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Residues in contact with GLN 417 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
402A TYR* 3.7 14.6 + - + -
412A PRO 4.4 3.7 + - - +
413A ILE* 3.7 17.3 - - + +
414A SER* 2.6 42.6 + - - +
416A ALA* 1.3 74.3 - - + +
418A ARG* 1.3 61.6 + - - +
420A LEU* 3.5 10.1 - - + +
421A GLY 2.9 24.8 + - - -
487A GLY* 6.5 0.2 - - - -
490A SER* 3.4 46.3 + - - +
491A VAL* 3.9 14.8 - - + +
494A SER* 4.3 11.5 + - - -
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Residues in contact with ARG 418 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
342A ASP* 2.7 44.8 + - - +
343A ASN* 5.2 1.6 - - - +
344A PRO* 3.7 27.2 - - + +
402A TYR* 4.7 0.7 - - - -
413A ILE* 4.3 9.8 - - + +
414A SER 3.5 19.5 + - - +
415A ASP* 2.8 30.9 + - - +
417A GLN* 1.3 78.4 - - - +
419A ARG* 1.3 81.6 + - - +
421A GLY* 4.0 0.7 - - - -
422A LEU* 3.2 42.3 + - - +
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Residues in contact with ARG 419 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
415A ASP* 2.8 43.9 + - - +
416A ALA* 4.0 4.2 - - - +
418A ARG* 1.3 101.9 - - - +
420A LEU* 1.3 64.8 + - - +
421A GLY 3.2 0.2 - - - -
422A LEU* 3.4 12.3 + - + +
423A ALA* 3.2 21.0 + - - +
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Residues in contact with LEU 420 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
402A TYR* 5.9 0.4 - - - +
416A ALA 2.9 18.4 + - - +
417A GLN* 3.3 10.5 + - + +
419A ARG* 1.3 74.3 - - - +
421A GLY* 1.3 64.8 + - - +
423A ALA* 3.1 10.0 + - + +
424A VAL* 3.0 25.0 + - + +
483A LEU* 4.1 33.7 - - + +
486A TYR* 3.9 24.0 - - + +
487A GLY* 3.4 35.7 - - - +
490A SER* 4.5 6.7 - - - +
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Residues in contact with GLY 421 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
344A PRO* 4.7 3.1 - - - -
402A TYR* 3.4 30.2 + - - -
417A GLN 2.9 13.2 + - - -
418A ARG 4.0 1.8 - - - -
420A LEU* 1.3 74.9 - - - +
422A LEU* 1.3 53.9 + - - +
424A VAL* 2.8 9.7 + - - +
425A VAL* 2.7 41.2 + - - +
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Residues in contact with LEU 422 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
341A TRP 3.5 20.4 - - - +
342A ASP* 3.4 31.4 - - + +
344A PRO* 4.4 10.5 - - + +
347A VAL* 4.0 18.4 - - + -
418A ARG* 3.2 29.7 + - - +
419A ARG* 3.4 16.4 + - + +
421A GLY* 1.3 73.7 - - - +
423A ALA* 1.3 58.5 + - - +
425A VAL* 4.0 5.3 - - + +
426A TRP* 3.2 46.3 + - + +
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Residues in contact with ALA 423 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
419A ARG 3.2 10.7 + - - +
420A LEU* 3.1 12.7 + - + +
421A GLY 3.0 0.8 - - - -
422A LEU* 1.3 73.9 - - - +
424A VAL* 1.3 67.5 + - - +
425A VAL 3.1 1.3 + - - -
426A TRP* 3.2 4.0 + - - +
427A LEU* 3.0 36.0 + - + +
483A LEU* 4.8 14.4 - - + -
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Residues in contact with VAL 424 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
398A MET* 4.3 13.5 - - + -
402A TYR* 5.6 2.9 - - - +
420A LEU* 3.0 21.1 + - + +
421A GLY* 2.8 13.6 + - - +
423A ALA* 1.3 71.3 - - - +
425A VAL* 1.3 59.0 + - + +
427A LEU* 3.7 4.0 - - - +
428A TRP* 2.8 31.0 + - + +
480A ALA* 4.0 10.6 - - - +
483A LEU* 3.3 42.4 - - + +
484A PHE* 3.6 35.9 - - + +
487A GLY* 5.6 1.1 - - - -
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Residues in contact with VAL 425 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
344A PRO* 4.7 8.7 - - + +
347A VAL* 4.2 17.3 - - + -
348A ALA* 3.8 44.0 - - + +
351A LEU* 4.3 4.3 - - + -
395A LEU* 4.3 11.3 - - + +
398A MET* 5.2 5.2 - - + -
399A GLY* 4.8 8.5 - - - +
402A TYR* 5.9 2.7 - - + -
421A GLY* 2.7 25.2 + - - +
422A LEU* 4.1 6.1 - - - +
424A VAL* 1.3 76.8 - - + +
426A TRP* 1.3 64.3 + - + +
428A TRP* 3.3 6.2 + - - +
429A PHE* 3.0 24.1 + - - +
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Residues in contact with TRP 426 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
341A TRP* 4.5 16.9 + + - -
347A VAL* 3.9 14.2 - - + +
351A LEU* 3.8 36.8 - - + -
422A LEU* 3.2 40.1 + - + +
423A ALA* 4.1 3.4 - - - +
425A VAL* 1.3 79.5 - - + +
427A LEU* 1.3 60.7 + - + +
429A PHE* 3.9 17.0 - + - +
430A LEU* 3.3 39.8 + - + +
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Residues in contact with LEU 427 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
423A ALA* 3.0 21.4 + - + +
424A VAL 3.9 2.2 - - - +
426A TRP* 1.3 80.3 - - + +
428A TRP* 1.3 64.7 + - - +
429A PHE 3.2 1.3 - - - -
430A LEU* 5.4 3.1 - - + -
431A GLY* 3.1 24.0 + - - +
476A VAL* 3.8 27.7 - - + +
477A LEU* 3.9 1.6 - - - +
479A VAL* 4.4 13.9 - - + -
480A ALA* 4.0 15.0 - - + +
483A LEU* 4.2 23.6 - - + -
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Residues in contact with TRP 428 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32A LEU* 5.4 2.9 - - + -
36A SER* 4.3 13.0 - - - -
390A ALA 3.1 21.6 + - - -
391A SER* 4.9 0.4 - - - -
394A THR* 4.2 1.9 - - + +
395A LEU* 3.4 28.9 - - + -
398A MET* 3.3 31.7 - - + +
424A VAL* 2.8 21.2 + - + +
425A VAL* 3.8 3.8 - - - +
427A LEU* 1.3 76.9 - - - +
429A PHE* 1.3 66.3 + - - +
432A MET* 3.1 44.4 + - + +
477A LEU* 3.6 11.5 - - + +
480A ALA* 3.9 17.2 - - + +
481A LEU* 4.1 29.8 - - + -
484A PHE* 5.4 1.6 - - + -
800A HEM 3.7 49.6 - - + -
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Residues in contact with PHE 429 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
351A LEU* 3.2 61.5 - - + -
354A LEU* 4.0 22.2 - - + -
355A GLY* 3.9 6.1 - - - -
391A SER* 4.7 6.3 - - - -
395A LEU* 4.2 15.6 - - + +
425A VAL 3.0 17.2 + - - +
426A TRP* 3.9 9.6 - + - +
427A LEU 3.2 0.6 - - - -
428A TRP* 1.3 72.6 - - - +
430A LEU* 1.3 84.0 + - + +
432A MET* 2.7 28.9 + - + +
433A MET* 2.8 49.1 + - + +
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Residues in contact with LEU 430 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
426A TRP* 3.3 28.7 + - + +
427A LEU* 4.9 3.4 - - + +
429A PHE* 1.3 101.9 - - + +
431A GLY* 1.3 51.5 + - - +
433A MET* 3.2 17.6 - - + +
434A ILE* 2.7 57.3 + - + +
476A VAL* 5.2 2.0 - - + -
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Residues in contact with GLY 431 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
427A LEU 3.1 20.5 + - - -
430A LEU* 1.3 76.3 - - - +
432A MET* 1.3 60.7 + - - +
434A ILE* 3.7 4.6 + - - +
435A MET* 3.2 16.5 + - - +
473A ALA* 3.6 7.9 - - - +
476A VAL* 3.8 17.0 - - - +
477A LEU* 3.4 26.6 - - - +
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Residues in contact with MET 432 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
386A HIS* 4.4 10.8 - - + +
387A LEU* 5.0 3.1 - - + +
390A ALA* 3.8 26.9 - - + -
391A SER* 4.6 19.5 - - - -
428A TRP* 3.1 45.7 + - + +
429A PHE* 2.7 15.5 + - + +
431A GLY* 1.3 70.3 - - - +
433A MET* 1.3 66.3 + - + +
435A MET* 3.1 26.4 + - - +
436A ALA* 2.9 23.8 + - - +
477A LEU* 4.0 5.8 - - + -
800A HEM 3.7 34.5 - - + -
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Residues in contact with MET 433 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
354A LEU 5.3 1.6 - - - +
355A GLY* 4.2 6.7 - - - -
358A PRO* 5.1 10.8 - - + -
387A LEU* 3.7 25.1 - - + -
391A SER* 6.0 0.7 - - - -
429A PHE* 2.8 55.7 + - + +
430A LEU* 3.2 25.1 - - + +
432A MET* 1.3 76.1 - - - +
434A ILE* 1.3 62.7 + - - +
436A ALA* 3.2 8.2 + - + +
437A VAL* 3.2 22.5 + - - +
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Residues in contact with ILE 434 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
430A LEU* 2.7 42.1 + - + +
431A GLY* 3.8 3.6 - - - +
433A MET* 1.3 72.0 - - - +
435A MET* 1.3 68.8 + - - +
437A VAL* 3.0 18.2 + - + +
438A GLY 3.2 8.3 + - - -
469A PHE* 3.5 43.2 - - + +
472A LEU* 4.3 21.5 - - + -
473A ALA* 3.6 17.0 - - + +
476A VAL* 5.7 2.0 - - + -
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Residues in contact with MET 435 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43A ALA* 4.1 8.7 - - + -
386A HIS* 3.6 39.0 - - + +
431A GLY 3.2 11.1 + - - +
432A MET* 3.1 22.9 + - - +
434A ILE* 1.3 77.9 - - - +
436A ALA* 1.3 52.6 + - - +
438A GLY* 3.1 5.0 + - - -
439A LEU* 2.8 51.1 + - + +
469A PHE 5.1 0.2 - - - -
470A ASN* 3.6 11.9 - - - +
473A ALA* 3.8 14.4 - - + -
477A LEU* 4.5 2.5 - - - -
800A HEM 3.5 55.6 - - + -
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Residues in contact with ALA 436 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
383A GLY* 4.2 9.9 - - - +
386A HIS* 6.0 2.6 - - + +
387A LEU* 3.7 37.9 - - + +
432A MET 2.9 12.6 + - - +
433A MET* 3.4 9.6 - - + +
435A MET* 1.3 73.1 - - - +
437A VAL* 1.3 67.4 + - - +
439A LEU 4.3 1.1 - - - +
440A HIS* 2.7 35.2 + - + +
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Residues in contact with VAL 437 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
433A MET 3.2 12.7 + - - +
434A ILE* 3.0 12.8 + - + +
436A ALA* 1.3 77.0 - - - +
438A GLY* 1.3 72.7 + - - +
440A HIS* 3.9 1.4 - - - +
441A TRP* 3.0 30.5 + - + +
469A PHE* 4.0 32.8 - - + -
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Residues in contact with GLY 438 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
434A ILE 3.2 5.1 + - - -
435A MET 3.1 3.2 + - - -
437A VAL* 1.3 79.2 - - - +
439A LEU* 1.3 49.8 + - - +
441A TRP* 2.8 8.0 + - - +
442A ALA* 2.8 33.3 + - - +
466A PRO* 3.8 23.3 - - - +
469A PHE* 4.0 5.6 - - - +
470A ASN* 3.4 23.1 - - - -
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Residues in contact with LEU 439 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46A TYR* 4.4 19.5 - - + -
379A ALA* 3.0 53.0 - - + +
382A PRO* 4.1 12.6 - - + -
383A GLY* 3.6 22.4 - - - +
386A HIS* 4.7 0.9 - - + +
435A MET* 2.8 51.6 + - + +
438A GLY* 1.3 66.5 - - - -
440A HIS* 1.3 65.3 + - - +
442A ALA* 4.6 1.8 - - + +
443A GLY 3.1 11.8 + - - -
470A ASN* 3.6 19.0 + - - +
800A HEM 4.6 9.9 - - + -
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Residues in contact with HIS 440 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
358A PRO 5.0 1.2 + - - -
362A GLY* 5.0 2.4 - - - -
379A ALA 4.1 0.4 + - - -
380A TRP* 3.4 54.3 - + + +
383A GLY* 3.1 29.6 - - - -
384A HIS* 3.2 19.7 + - - +
387A LEU* 3.9 20.1 - - + +
436A ALA* 2.7 27.6 + - + +
437A VAL* 3.9 1.8 - - - +
439A LEU* 1.3 77.8 - - - +
441A TRP* 1.3 57.7 + - - +
443A GLY* 3.5 0.3 + - - -
444A LEU* 3.1 27.5 + - + +
22C PHE* 4.2 20.5 - + + -
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Residues in contact with TRP 441 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
437A VAL* 3.0 25.9 + - + +
438A GLY 2.8 5.3 + - - +
440A HIS* 1.3 73.9 - - - +
442A ALA* 1.3 65.5 + - - +
444A LEU* 3.3 18.3 + - + +
445A LEU* 3.0 39.8 + - + +
465A VAL* 3.6 31.9 - - + -
466A PRO* 3.5 24.5 - - + -
469A PHE* 3.5 30.5 - + - -
----------------------------------------------------------
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Residues in contact with ALA 442 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46A TYR* 5.6 1.6 - - + -
379A ALA* 4.2 7.9 - - + -
438A GLY 2.8 18.6 + - - +
439A LEU* 4.1 4.9 - - + +
441A TRP* 1.3 71.7 - - - +
443A GLY* 1.3 51.4 + - - +
445A LEU* 3.0 8.3 + - - +
446A ASN 2.8 29.1 + - - -
447A VAL* 2.9 36.4 + - + +
463A ALA* 5.0 1.6 - - + -
466A PRO* 4.4 15.8 - - + +
467A MET* 6.5 1.1 - - + -
470A ASN* 4.9 7.9 - - - +
----------------------------------------------------------
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Residues in contact with GLY 443 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
374A VAL 4.7 4.5 - - - +
375A VAL* 5.6 1.3 - - - -
378A THR* 3.3 37.9 + - - +
379A ALA* 3.7 10.0 - - - +
380A TRP* 3.7 5.6 - - - -
439A LEU 3.1 15.5 + - - -
440A HIS 3.8 1.8 - - - -
441A TRP 3.2 0.2 - - - -
442A ALA* 1.3 73.5 - - - +
444A LEU* 1.3 64.6 + - - +
446A ASN* 3.1 13.3 + - - -
447A VAL 3.9 1.1 - - - -
----------------------------------------------------------
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Residues in contact with LEU 444 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
374A VAL* 4.8 12.3 - - + -
375A VAL* 5.3 1.1 - - + -
380A TRP* 3.8 24.5 - - + -
440A HIS* 3.1 19.8 + - + +
441A TRP* 3.5 22.0 - - + +
443A GLY* 1.3 73.6 - - - +
445A LEU* 1.3 64.7 + - + +
446A ASN* 2.8 9.6 + - - +
26C VAL* 4.7 13.0 - - + -
29C VAL* 4.7 20.9 - - + -
33C ARG* 3.1 25.7 + - - +
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Residues in contact with LEU 445 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
441A TRP* 3.0 33.2 + - + +
442A ALA* 3.0 14.7 + - - +
444A LEU* 1.3 80.7 - - + +
446A ASN* 1.3 67.6 + - - +
447A VAL* 3.4 5.0 + - - +
460A TYR* 5.9 0.7 - - - -
462A HIS* 3.6 26.7 - - + +
463A ALA* 4.8 11.4 - - + +
466A PRO* 5.5 4.0 - - + -
119B GLU* 5.0 2.9 - - - +
----------------------------------------------------------
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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).
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