Contacts of the helix formed by residues 407 - 450 (chain A) in PDB entry 2XAF
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 407 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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405A PRO 3.6 2.6 + - - -
406A VAL* 1.3 81.2 - - - +
408A LEU* 1.3 66.4 + - - +
410A GLN* 3.4 31.6 + - - +
411A ALA* 3.2 18.4 + - - +
545A SER* 3.0 38.0 + - - -
546A THR 4.6 1.8 - - - -
547A LEU 3.3 10.3 - - - -
549A LEU* 3.9 2.7 - - - -
766A ALA* 4.6 6.7 - - - -
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Residues in contact with LEU 408 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
386A LEU* 4.7 5.8 - - + -
389A THR* 4.3 16.6 - - + +
407A SER* 1.3 72.7 - - - +
409A GLY* 1.3 64.8 + - - +
411A ALA* 3.1 4.4 + - - +
412A LEU* 2.9 29.2 + - + +
536A LEU* 3.8 29.4 - - + -
544A LEU* 3.4 20.4 + - + +
547A LEU* 3.0 30.4 + - + +
549A LEU* 3.9 21.2 - - + +
552A TRP* 3.6 34.8 - - + +
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Residues in contact with GLY 409 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
407A SER* 3.2 1.3 + - - -
408A LEU* 1.3 68.3 - - - +
410A GLN* 1.3 66.9 + - - +
412A LEU* 2.8 20.1 + - - +
413A GLU* 2.9 18.3 + - - +
544A LEU* 2.7 34.1 + - - -
545A SER* 4.2 4.9 - - - -
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Residues in contact with GLN 410 (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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398A PHE* 5.1 3.1 - - + -
401A LEU* 4.0 26.7 + - - +
404A LYS* 5.6 3.3 - - - +
405A PRO 4.0 8.5 - - - +
406A VAL* 3.7 20.1 - - + +
407A SER* 3.4 33.6 + - - +
409A GLY* 1.3 73.0 - - - +
411A ALA* 1.3 58.7 + - - +
413A GLU* 3.1 13.1 + - - +
414A VAL* 2.8 32.1 + - + +
545A SER* 5.0 1.2 - - - +
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Residues in contact with ALA 411 (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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389A THR* 3.8 9.8 - - + +
392A LEU* 4.3 9.5 - - + +
398A PHE* 4.7 5.2 - - + -
406A VAL* 4.4 4.0 - - + +
407A SER 3.2 9.1 + - - +
408A LEU 3.1 9.4 + - - +
410A GLN* 1.3 78.9 - - - +
412A LEU* 1.3 61.2 + - - +
414A VAL* 3.8 7.8 - - - +
415A VAL* 3.2 28.2 + - - +
549A LEU* 3.9 31.2 - - + -
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Residues in contact with LEU 412 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
385A LEU* 4.0 23.3 - - + +
386A LEU* 4.7 9.9 - - + +
389A THR* 3.6 21.5 - - + -
408A LEU* 2.9 26.3 + - + +
409A GLY* 2.8 15.8 + - - +
411A ALA* 1.3 70.5 - - - +
413A GLU* 1.3 59.4 + - - +
415A VAL* 3.2 2.9 + - - +
416A ILE* 2.8 36.8 + - + +
533A PHE* 3.4 41.3 - - + -
536A LEU* 5.6 0.4 - - + -
544A LEU* 3.8 22.2 - - + -
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Residues in contact with GLU 413 (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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409A GLY 2.9 13.5 + - - +
410A GLN* 3.3 14.0 + - - +
412A LEU* 1.3 73.4 - - - +
414A VAL* 1.3 61.5 + - + +
415A VAL 2.9 0.5 + - - -
416A ILE* 3.1 7.0 + - + +
417A GLN* 2.8 54.6 + - + +
526A ARG* 5.4 7.8 + - - +
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Residues in contact with VAL 414 (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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392A LEU* 4.2 14.8 - - + -
398A PHE* 4.5 15.7 - - + -
401A LEU* 6.1 1.1 - - + -
410A GLN* 2.8 20.6 + - + +
411A ALA* 4.2 6.3 - - - +
412A LEU 3.3 0.4 - - - -
413A GLU* 1.3 75.9 - - + +
415A VAL* 1.3 59.0 + - - +
417A GLN* 3.8 15.9 - - - +
418A LEU* 3.3 31.4 + - + +
321B VAL* 3.9 28.3 - - + +
324B VAL* 4.8 16.2 - - + +
325B SER* 5.1 5.4 - - - -
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Residues in contact with VAL 415 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
385A LEU* 3.3 26.9 - - + +
388A ALA* 3.8 22.0 - - + -
389A THR* 4.4 5.8 - - + +
392A LEU* 3.7 31.0 - - + -
411A ALA 3.2 17.8 + - - +
412A LEU* 3.2 6.4 + - - +
413A GLU 3.0 1.0 - - - -
414A VAL* 1.3 78.8 - - + +
416A ILE* 1.3 66.2 + - - +
418A LEU* 3.1 7.2 + - - +
419A GLN* 2.9 27.4 + - + +
314B MET* 4.6 0.7 - - - -
316B LEU* 4.0 13.7 - - + -
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Residues in contact with ILE 416 (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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385A LEU* 3.9 22.4 - - + -
412A LEU* 2.8 25.2 + - + +
413A GLU* 3.8 7.4 - - + +
415A VAL* 1.3 72.1 - - - +
417A GLN* 1.3 67.9 + - + +
419A GLN* 2.9 10.3 + - - +
420A GLU* 2.9 38.2 + - + +
520A TYR* 4.5 13.6 - - + -
521A LEU* 5.4 2.0 - - + -
526A ARG* 4.0 29.6 - - - +
529A LEU* 4.0 22.2 - - + -
533A PHE* 4.5 10.1 - - + -
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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
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413A GLU* 2.8 37.0 + - + +
414A VAL* 3.8 21.7 - - - +
416A ILE* 1.3 73.2 - - + +
418A LEU* 1.3 51.4 + - - +
420A GLU* 2.7 37.9 + - - +
421A LYS* 2.7 17.3 + - - +
324B VAL* 3.4 27.9 - - + +
331B ALA* 3.5 28.2 - - + +
335B LEU* 4.4 15.6 - - + +
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Residues in contact with LEU 418 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
392A LEU* 6.5 0.2 - - + -
414A VAL* 3.3 22.5 + - + +
415A VAL* 3.1 7.1 + - - +
417A GLN* 1.3 79.0 - - - +
419A GLN* 1.3 60.6 + - - +
421A LYS* 3.6 15.0 - - + +
422A HIS* 3.0 27.7 + - - +
315B PHE 3.8 11.1 - - - +
316B LEU* 4.1 23.6 - - + -
320B ASP* 4.2 11.4 - - + +
321B VAL* 3.9 33.9 - - + +
324B VAL* 3.1 39.3 - - + -
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Residues in contact with GLN 419 (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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415A VAL* 2.9 22.9 + - + +
416A ILE* 2.9 6.5 + - - +
418A LEU* 1.3 75.1 - - - +
420A GLU* 1.3 65.3 + - - +
422A HIS* 3.6 8.2 + - - +
423A VAL* 3.1 26.9 + - - +
520A TYR* 3.3 39.1 - - + +
313B GLY 3.7 5.9 - - - +
314B MET* 3.6 25.2 - - - +
315B PHE* 2.4 56.2 + - - +
316B LEU* 3.8 9.3 - - - +
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Residues in contact with GLU 420 (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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416A ILE* 2.9 27.6 + - - +
417A GLN* 2.7 19.0 + - - +
419A GLN* 1.3 68.9 - - - +
421A LYS* 1.3 67.5 + - - +
423A VAL* 3.2 13.2 + - - +
424A LYS* 3.3 23.7 + - - +
520A TYR* 3.9 26.4 - - + +
335B LEU* 4.0 25.9 - - + +
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Residues in contact with LYS 421 (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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417A GLN 2.7 15.1 + - - +
418A LEU* 3.6 23.3 - - + +
420A GLU* 1.3 71.8 - - - +
422A HIS* 1.3 67.2 + - + +
424A LYS* 3.1 7.6 + - - +
425A ASP* 2.9 49.1 + - - +
320B ASP* 2.7 45.2 + - - +
323B ALA* 6.3 0.4 - - - +
324B VAL* 5.9 4.0 - - + -
334B VAL* 4.5 20.4 - - + -
335B LEU* 3.6 21.2 - - + +
338B LEU* 4.6 5.1 - - + +
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Residues in contact with HIS 422 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
418A LEU 3.0 14.5 + - - +
419A GLN* 4.0 10.1 - - - +
421A LYS* 1.3 81.8 - - + +
423A VAL* 1.3 75.3 + - + +
425A ASP* 3.4 13.8 + - - +
426A GLU* 3.2 46.8 + - + +
313B GLY 5.1 2.3 + - - -
315B PHE* 3.3 63.8 - + + -
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Residues in contact with VAL 423 (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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419A GLN 3.1 18.1 + - - +
420A GLU* 3.2 11.2 + - - +
422A HIS* 1.3 84.1 - - + +
424A LYS* 1.3 69.9 + - + +
426A GLU* 3.2 17.1 + - - +
427A GLN* 3.3 12.1 + - - +
516A PRO* 5.5 1.0 - - - +
517A SER* 4.1 24.1 - - - +
518A ASP 4.2 8.1 - - - +
519A VAL* 4.2 5.6 - - - +
520A TYR* 3.8 38.1 - - + +
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Residues in contact with LYS 424 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
420A GLU* 3.3 18.8 + - - +
421A LYS 3.1 7.0 + - - +
423A VAL* 1.3 75.3 - - + +
425A ASP* 1.3 55.1 + - - +
426A GLU 2.5 17.5 + - - -
427A GLN* 2.8 27.4 + - - +
428A ILE* 3.0 16.4 + - + +
335B LEU* 4.1 32.8 - - + +
338B LEU* 4.2 22.2 - - + -
339B ASP* 2.6 35.4 + - - +
342B LEU* 6.2 1.1 - - + -
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Residues in contact with ASP 425 (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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421A LYS* 2.9 50.2 + - - +
422A HIS* 3.4 16.2 - - + +
424A LYS* 1.3 70.5 - - - +
426A GLU* 1.3 58.8 + - + +
428A ILE* 4.0 9.5 - - - +
429A GLU* 3.3 26.5 + - - +
338B LEU* 3.2 22.9 - - - +
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Residues in contact with GLU 426 (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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422A HIS* 3.2 37.9 + - + +
423A VAL* 3.3 11.2 - - - +
424A LYS 2.5 8.3 + - - -
425A ASP* 1.3 72.9 - - + +
427A GLN* 1.3 59.8 + - - +
429A GLU* 3.3 23.0 + - + +
430A HIS* 2.8 30.1 + - - +
516A PRO* 4.3 23.1 - - + +
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Residues in contact with GLN 427 (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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423A VAL* 3.3 9.3 + - - +
424A LYS* 2.8 25.4 + - - +
426A GLU* 1.3 69.5 - - - +
428A ILE* 1.3 70.1 + - - +
430A HIS* 2.8 12.9 + - - -
431A TRP* 2.9 30.4 + - + +
515A PRO* 6.5 0.2 - - + -
516A PRO* 4.2 18.0 + - + +
517A SER 2.8 28.5 + - - +
518A ASP* 3.4 27.3 + - - +
342B LEU* 3.8 21.8 - - + +
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Residues in contact with ILE 428 (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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424A LYS* 3.0 15.6 + - + +
425A ASP* 4.0 9.2 - - - +
427A GLN* 1.3 81.0 - - - +
429A GLU* 1.3 62.7 + - + +
431A TRP* 3.8 2.1 - - - +
432A LYS* 2.8 37.3 + - + +
338B LEU* 3.9 39.3 - - + +
341B GLU* 3.6 34.5 - - + +
342B LEU* 4.0 24.8 - - + +
345B VAL* 5.4 7.7 - - + +
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Residues in contact with GLU 429 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
425A ASP 3.3 17.2 + - - +
426A GLU* 3.3 25.7 + - - +
428A ILE* 1.3 80.9 - - + +
430A HIS* 1.3 59.9 + - - +
432A LYS* 3.8 14.8 - - + +
433A LYS* 3.5 23.8 + - - +
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Residues in contact with HIS 430 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
426A GLU 2.8 16.2 + - - +
427A GLN 2.8 10.8 + - - +
429A GLU* 1.3 71.4 - - - +
431A TRP* 1.3 88.0 + + - +
432A LYS 3.2 0.7 - - - -
433A LYS* 3.1 16.1 + - + +
434A ILE* 3.2 21.5 + - + +
511A LEU* 2.9 40.9 + - + +
512A GLU* 5.3 0.9 - - - -
514A ASN* 3.4 19.8 + - - -
515A PRO* 3.9 17.0 - - + -
516A PRO* 3.6 19.4 - - + +
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Residues in contact with TRP 431 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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427A GLN* 2.9 40.7 + - + +
428A ILE* 4.3 1.6 - - - +
430A HIS* 1.3 93.4 + + - +
432A LYS* 1.3 57.6 + - - +
434A ILE* 2.9 34.4 + - + +
435A VAL* 3.0 14.6 + - - +
512A GLU* 4.7 18.2 - - + -
515A PRO* 5.4 10.3 - - + +
516A PRO* 5.9 0.2 - - - +
342B LEU* 4.7 10.2 - - + +
345B VAL* 4.1 17.0 - - + -
346B LYS* 4.3 39.9 - - + +
349B ILE* 3.7 32.9 - - + +
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Residues in contact with LYS 432 (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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428A ILE* 2.8 30.2 + - + +
429A GLU* 3.8 13.9 - - + +
430A HIS 3.2 0.2 - - - -
431A TRP* 1.3 75.7 - - - +
433A LYS* 1.3 59.4 + - - +
435A VAL* 3.1 27.3 - - + +
436A LYS* 3.4 11.1 + - - +
341B GLU* 5.9 0.8 + - - -
345B VAL* 4.4 13.8 - - + +
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Residues in contact with LYS 433 (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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429A GLU* 3.5 15.1 + - - +
430A HIS* 3.1 13.1 + - + +
432A LYS* 1.3 75.9 - - - +
434A ILE* 1.3 68.2 + - - +
436A LYS* 3.8 8.0 + - + +
437A THR* 3.4 17.8 + - - -
511A LEU* 4.1 18.7 - - + +
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Residues in contact with ILE 434 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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430A HIS* 3.2 19.3 + - + +
431A TRP* 2.9 24.0 + - + +
433A LYS* 1.3 77.8 - - - +
435A VAL* 1.3 51.4 + - - +
437A THR* 2.7 12.1 + - - +
438A GLN* 2.7 40.6 + - + +
508A LEU* 4.7 16.4 - - + +
511A LEU* 3.7 44.6 - - + +
512A GLU* 4.4 16.6 - - + +
349B ILE* 3.6 26.9 - - + -
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Residues in contact with VAL 435 (chain A).
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----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
431A TRP 3.0 9.8 + - - +
432A LYS* 3.1 32.3 - - + +
434A ILE* 1.3 76.9 - - - +
436A LYS* 1.3 56.0 + - - +
438A GLN* 3.6 7.8 - - + -
439A GLU* 2.9 39.6 + - + +
345B VAL* 4.3 12.3 - - + -
348B GLN* 4.5 18.8 - - - +
349B ILE* 3.5 33.9 - - + +
352B ILE* 6.1 5.4 - - + -
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Residues in contact with LYS 436 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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432A LYS 3.4 12.7 + - - +
433A LYS* 4.3 7.6 - - + +
434A ILE 3.3 0.6 - - - -
435A VAL* 1.3 82.6 - - + +
437A THR* 1.3 61.8 + - - +
439A GLU* 4.2 4.5 - - - +
440A GLU* 3.6 19.9 + - - +
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Residues in contact with THR 437 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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433A LYS 3.4 10.5 + - - -
434A ILE* 2.7 14.3 + - - -
436A LYS* 1.3 70.0 - - - +
438A GLN* 1.3 56.5 + - - +
439A GLU 2.6 16.4 + - - -
440A GLU* 2.6 25.5 + - - +
441A LEU* 3.0 9.1 + - + +
504A LEU* 4.5 16.4 - - + +
507A LYS* 4.1 25.3 + - + +
508A LEU* 3.2 36.8 - - + -
511A LEU* 5.5 3.2 - - - +
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Residues in contact with GLN 438 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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434A ILE* 2.7 26.7 + - + +
435A VAL* 3.9 10.8 - - + +
437A THR* 1.3 73.6 - - - +
439A GLU* 1.3 56.0 + - - +
440A GLU 3.5 0.2 - - - -
441A LEU* 3.8 9.1 - - - +
442A LYS 3.5 13.5 + - - -
508A LEU* 3.1 41.4 - - - +
349B ILE* 5.2 8.3 - - + +
352B ILE* 3.3 31.5 - - + +
353B LYS* 3.3 37.8 - - + +
356B ASN* 3.5 11.9 + - - +
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Residues in contact with GLU 439 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
435A VAL* 2.9 20.1 + - - +
436A LYS* 4.2 4.9 - - - +
437A THR 2.6 6.9 + - - -
438A GLN* 1.3 75.4 - - - +
440A GLU* 1.3 59.8 + - - +
441A LEU 3.3 0.2 - - - -
442A LYS* 3.7 15.8 - - + +
443A GLU* 3.6 21.2 + - + +
348B GLN* 4.4 5.5 + - - +
352B ILE* 3.0 37.4 - - + +
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Residues in contact with GLU 440 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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436A LYS 3.6 14.8 + - - +
437A THR* 2.6 18.3 + - - +
439A GLU* 1.3 71.4 - - - +
441A LEU* 1.3 67.1 + - - +
443A GLU* 3.2 7.0 + - - +
444A LEU* 2.9 24.4 + - - +
504A LEU* 3.3 29.8 - - + +
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Residues in contact with LEU 441 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
437A THR 3.0 10.1 + - - +
438A GLN* 3.7 12.6 - - - +
439A GLU 3.3 0.2 - - - -
440A GLU* 1.3 79.2 - - - +
442A LYS* 1.3 60.9 + - - +
444A LEU* 3.8 4.4 - - + +
445A LEU* 3.1 43.0 + - + +
501A GLN* 4.2 27.1 - - + +
504A LEU* 3.8 32.5 - - + +
505A GLU* 4.4 13.7 - - + +
508A LEU* 4.4 18.8 - - + -
356B ASN* 3.3 24.0 - - + +
360B LYS* 5.6 4.9 - - + -
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Residues in contact with LYS 442 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
438A GLN 3.5 7.1 + - - +
439A GLU* 3.8 19.2 - - + +
440A GLU 3.1 0.2 - - - -
441A LEU* 1.3 73.4 - - - +
443A GLU* 1.3 70.5 + - + +
444A LEU 3.0 1.2 + - - -
445A LEU* 3.1 13.2 + - - +
446A ASN* 3.1 20.6 + - - +
352B ILE* 3.7 27.5 - - + +
355B THR* 3.3 30.2 + - + +
356B ASN* 3.1 27.9 - - - +
359B LEU* 4.4 5.3 - - + +
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Residues in contact with GLU 443 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
439A GLU 3.6 12.7 + - - +
440A GLU* 3.2 10.8 + - - +
442A LYS* 1.3 83.3 - - + +
444A LEU* 1.3 60.4 + - - +
446A ASN* 3.7 8.8 - - - +
447A LYS* 3.3 20.3 + - - +
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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
----------------------------------------------------------
440A GLU 2.9 16.2 + - - +
441A LEU* 3.8 11.2 - - + +
443A GLU* 1.3 74.3 - - - +
445A LEU* 1.3 64.0 + - + +
447A LYS* 3.1 11.0 + - + +
448A MET* 2.8 36.0 + - - +
497A LEU* 4.0 19.7 - - + +
500A THR* 3.5 35.9 - - + -
501A GLN* 3.7 30.3 - - + +
504A LEU* 5.4 3.6 - - + -
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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 LEU* 3.1 24.0 + - + +
442A LYS* 3.1 4.9 + - - +
444A LEU* 1.3 84.6 - - + +
446A ASN* 1.3 52.3 + - - +
448A MET* 2.8 17.5 + - - +
449A VAL* 2.6 36.7 + - - +
501A GLN* 4.1 28.7 - - + +
356B ASN* 3.9 21.5 - - + +
359B LEU* 3.7 21.3 - - + +
360B LYS* 3.7 39.3 - - + +
363B LEU* 4.6 6.9 - - + +
----------------------------------------------------------
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Residues in contact with ASN 446 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
442A LYS* 3.1 18.3 + - - +
443A GLU* 3.7 11.8 - - - +
445A LEU* 1.3 74.8 - - - +
447A LYS* 1.3 60.4 + - - +
449A VAL* 4.6 5.1 - - - +
450A ASN* 3.2 37.2 + - - +
359B LEU* 2.8 29.3 - - - +
----------------------------------------------------------
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Residues in contact with LYS 447 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
443A GLU 3.3 11.2 + - - +
444A LEU* 3.1 16.2 + - + +
446A ASN* 1.3 77.4 - - - +
448A MET* 1.3 65.3 + - - +
450A ASN* 3.7 5.1 + - - +
451A LEU* 3.3 28.0 + - + +
493A GLU* 5.1 9.9 - - - -
497A LEU* 3.9 26.0 - - + -
----------------------------------------------------------
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Residues in contact with MET 448 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
444A LEU* 2.8 25.0 + - - +
445A LEU* 2.8 14.5 + - - +
447A LYS* 1.3 73.5 - - - +
449A VAL* 1.3 65.2 + - - +
451A LEU* 3.0 15.3 + - - +
452A LYS 3.0 11.8 + - - -
494A TYR* 3.8 26.0 - - + +
497A LEU* 3.6 37.7 - - + +
498A ALA* 4.0 19.5 - - + +
501A GLN* 3.3 26.5 - - - +
363B LEU* 3.4 35.8 - - + +
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Residues in contact with VAL 449 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
445A LEU 2.6 17.9 + - - +
446A ASN* 4.4 4.7 - - - +
448A MET* 1.3 72.5 - - - +
450A ASN* 1.3 68.6 + - - +
451A LEU 2.8 11.1 + - - -
452A LYS* 3.2 5.8 + - + +
453A GLU* 3.0 28.9 + - + +
359B LEU* 4.2 12.3 - - + +
362B LYS* 3.9 31.4 - - + -
363B LEU* 3.7 26.2 - - + +
----------------------------------------------------------
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Residues in contact with ASN 450 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
446A ASN* 3.2 24.8 + - - +
447A LYS* 3.8 6.1 - - - +
449A VAL* 1.3 85.0 - - - +
451A LEU* 1.3 60.0 + - - +
453A GLU* 3.3 23.6 - - + +
454A LYS* 4.1 14.6 + - - +
----------------------------------------------------------
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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