Contacts of the helix formed by residues 427 - 458 (chain A) in PDB entry 4IE6
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 PRO 427 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
425A GLY 3.7 9.1 - - - +
426A LEU* 1.3 88.3 - - + +
428A VAL* 1.3 54.0 + - - +
429A GLU* 2.7 22.7 + - + +
430A GLN* 2.8 47.6 + - + +
431A ARG 3.2 6.6 + - - -
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Residues in contact with VAL 428 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
426A LEU 3.0 6.8 + - - -
427A PRO* 1.3 69.3 - - - +
429A GLU* 1.3 68.0 + - + +
431A ARG* 3.2 42.6 - - - +
432A ASN* 3.0 33.7 + - - +
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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
----------------------------------------------------------
427A PRO* 2.7 12.3 + - + +
428A VAL* 1.3 80.7 - - + +
430A GLN* 1.3 68.3 + - + +
432A ASN* 3.2 10.7 + - - +
433A GLU* 3.0 23.2 + - - +
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Residues in contact with GLN 430 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
426A LEU* 3.8 23.5 - - + +
427A PRO* 2.8 33.8 + - + +
429A GLU* 1.3 75.5 - - + +
431A ARG* 1.3 65.6 + - - +
433A GLU* 3.1 19.6 + - - +
434A ILE* 3.0 29.7 + - + +
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Residues in contact with ARG 431 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
421A VAL* 3.7 32.5 - - + +
426A LEU* 3.7 21.0 - - + +
427A PRO 3.2 2.8 + - - +
428A VAL* 3.2 35.9 - - - +
429A GLU 3.2 0.6 - - - -
430A GLN* 1.3 77.6 - - - +
432A ASN* 1.3 89.2 + - - +
434A ILE* 3.0 17.5 + - - +
435A LEU* 3.0 16.8 + - + +
499A GLN* 2.4 57.3 + - - +
502A GLU* 3.5 22.8 + - - +
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Residues in contact with ASN 432 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
428A VAL* 3.0 27.2 + - - +
429A GLU* 3.6 9.7 - - - +
431A ARG* 1.3 106.8 + - - +
433A GLU* 1.3 61.9 + - - +
435A LEU* 3.9 3.6 - - - +
436A THR* 3.0 29.7 + - - +
499A GLN 4.5 0.4 + - - -
500A LEU* 3.2 32.3 - - + +
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Residues in contact with GLU 433 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
361A PRO* 3.8 35.9 - - + +
429A GLU 3.0 14.7 + - - +
430A GLN* 3.2 20.2 - - - +
432A ASN* 1.3 77.9 - - - +
434A ILE* 1.3 58.5 + - + +
436A THR* 3.8 5.3 - - - -
437A ALA* 3.0 29.2 + - - +
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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
----------------------------------------------------------
359A PHE* 4.1 27.4 - - + +
361A PRO* 5.3 2.0 - - + -
364A LEU* 4.0 17.5 - - + -
417A VAL* 3.8 20.4 - - + -
420A GLU* 4.3 18.4 - - + +
421A VAL* 3.3 27.6 - - + -
426A LEU* 4.5 15.0 - - + -
430A GLN* 3.0 15.5 + - + +
431A ARG 3.0 7.5 + - - +
433A GLU* 1.3 73.3 - - + +
435A LEU* 1.3 65.7 + - - +
437A ALA* 3.0 7.1 + - - +
438A ILE* 3.0 32.0 + - + +
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Residues in contact with LEU 435 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
418A LEU* 6.0 1.8 - - + -
421A VAL* 3.8 29.2 - - + -
431A ARG* 3.0 26.2 + - + +
432A ASN* 3.9 20.4 - - - +
434A ILE* 1.3 72.7 - - - +
436A THR* 1.3 59.5 + - - +
438A ILE* 3.1 12.5 + - + -
439A LEU* 2.8 37.0 + - + +
496A LEU* 4.0 40.6 - - + +
499A GLN* 4.0 19.1 - - + +
500A LEU* 3.9 13.9 - - + -
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Residues in contact with THR 436 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
365A LYS* 5.7 1.7 - - - +
432A ASN* 3.0 19.9 + - - +
433A GLU* 3.8 5.4 - - - -
435A LEU* 1.3 75.6 - - - +
437A ALA* 1.3 60.4 + - - +
438A ILE 3.7 0.2 + - - -
439A LEU* 4.4 5.7 + - - +
440A ALA* 5.2 3.1 + - - +
500A LEU* 3.6 22.9 - - + +
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Residues in contact with ALA 437 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
361A PRO* 3.5 38.1 - - + +
364A LEU* 5.1 0.4 - - + -
365A LYS* 3.4 36.8 - - + +
433A GLU 3.0 15.5 + - - +
434A ILE* 3.0 9.6 + - - +
436A THR* 1.3 79.1 - - - +
438A ILE* 1.3 63.4 + - + +
440A ALA* 5.3 2.8 + - - +
441A SER* 5.1 2.1 + - - -
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Residues in contact with ILE 438 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
364A LEU* 4.1 27.1 - - + -
365A LYS* 5.1 0.7 - - - +
368A GLU* 4.3 20.8 - - + +
414A THR* 6.4 1.3 - - + -
417A VAL* 4.0 21.8 - - + -
418A LEU* 4.6 17.0 - - + -
421A VAL* 5.0 0.7 - - + -
434A ILE* 3.0 27.1 + - + +
435A LEU* 3.8 15.5 - - + +
437A ALA* 1.3 78.6 - - + +
439A LEU* 1.3 72.7 + - + +
440A ALA 3.3 2.5 - - - -
441A SER* 3.0 19.5 + - - -
442A LEU* 3.1 17.9 + - + +
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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
----------------------------------------------------------
435A LEU* 2.8 22.2 + - + +
436A THR* 4.4 4.2 + - - +
437A ALA 3.7 0.8 - - - -
438A ILE* 1.3 74.3 - - + +
440A ALA* 1.3 63.1 + - - +
441A SER 3.2 0.2 + - - -
442A LEU* 3.3 6.2 + - + +
443A THR* 3.0 26.9 + - + +
493A VAL* 4.1 25.8 - - + +
496A LEU* 3.9 27.4 - - + -
497A ARG* 3.8 30.5 - - + +
500A LEU* 4.3 21.8 - - + -
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Residues in contact with ALA 440 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
365A LYS* 6.4 2.2 - - - -
436A THR 5.2 3.4 + - - +
437A ALA 5.3 2.2 + - - +
438A ILE 3.3 0.6 - - - -
439A LEU* 1.3 78.2 - - - +
441A SER* 1.3 56.9 + - - +
443A THR* 2.9 26.3 - - - +
444A ALA* 3.0 16.0 + - - +
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Residues in contact with SER 441 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
365A LYS* 4.2 1.9 + - - +
368A GLU* 3.6 29.6 + - - +
369A GLU* 3.4 31.7 + - - +
372A ASN* 3.0 18.0 + - - +
437A ALA 5.1 3.5 + - - -
438A ILE* 3.0 11.3 + - - -
440A ALA* 1.3 77.0 - - - +
442A LEU* 1.3 61.5 + - - +
444A ALA* 3.4 1.4 + - - -
445A ARG* 2.9 26.8 + - - +
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Residues in contact with LEU 442 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
368A GLU* 5.5 1.3 - - + +
414A THR* 6.2 2.9 - - + -
438A ILE* 3.1 18.0 + - + +
439A LEU* 3.3 8.9 + - + +
441A SER* 1.3 79.0 - - - +
443A THR* 1.3 56.1 + - - +
445A ARG* 3.4 18.9 + - - +
446A GLN* 3.1 27.0 + - - +
489A LEU* 4.1 7.9 - - + +
493A VAL* 4.1 17.3 - - + +
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Residues in contact with THR 443 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
439A LEU* 3.0 17.5 + - + +
440A ALA* 2.9 31.4 - - - +
442A LEU* 1.3 74.5 - - - +
444A ALA* 1.3 59.6 + - + +
446A GLN* 3.3 4.4 + - - +
447A ASN* 3.1 42.9 + - - +
493A VAL* 4.3 13.6 - - - +
497A ARG* 3.1 29.1 + - - +
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Residues in contact with ALA 444 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
372A ASN* 4.1 10.1 - - - +
440A ALA 3.0 14.3 + - - +
441A SER* 3.8 4.3 - - - +
443A THR* 1.3 81.5 - - + +
445A ARG* 1.3 60.0 + - - +
447A ASN* 4.2 6.9 - - - +
448A LEU* 3.1 42.2 + - + +
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Residues in contact with ARG 445 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
368A GLU* 2.4 57.8 + - - +
371A HIS* 3.5 21.0 + - - -
372A ASN* 2.7 18.6 + - - +
375A GLU* 4.3 3.4 - - - +
376A PHE* 3.3 18.3 - - + -
411A GLU* 4.5 1.0 + - - -
414A THR* 3.1 25.1 + - - +
441A SER* 2.9 18.9 + - - +
442A LEU* 3.4 14.5 - - - +
444A ALA* 1.3 77.2 - - - +
446A GLN* 1.3 56.6 + - - +
449A ARG* 3.0 63.3 + - - +
485A LEU* 5.9 0.2 - - - +
489A LEU* 3.7 19.8 - - + +
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Residues in contact with GLN 446 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
442A LEU 3.1 13.6 + - - +
443A THR* 3.7 9.9 - - - +
445A ARG* 1.3 74.3 - - - +
447A ASN* 1.3 70.5 + - - +
449A ARG* 3.4 6.6 + - - +
450A ARG* 3.1 39.6 + - - +
487A PHE* 3.6 13.0 + - - -
488A ASP* 3.2 17.0 - - - +
489A LEU* 3.0 39.5 - - + +
490A THR* 3.4 24.1 + - - +
493A VAL* 4.7 4.0 - - + -
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Residues in contact with ASN 447 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
443A THR* 3.1 30.9 + - - +
444A ALA* 4.2 6.4 - - - +
446A GLN* 1.3 80.6 - - - +
448A LEU* 1.3 66.0 + - + +
450A ARG* 3.2 14.2 + - - +
451A GLU* 3.1 22.1 + - - +
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Residues in contact with LEU 448 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
372A ASN* 5.7 2.0 - - + +
376A PHE* 3.7 42.0 - - + -
444A ALA* 3.1 29.7 + - + +
447A ASN* 1.3 78.9 - - + +
449A ARG* 1.3 56.7 - - - +
451A GLU* 3.4 25.9 + - - +
452A TRP* 3.0 39.7 + - + +
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Residues in contact with ARG 449 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
375A GLU* 2.9 38.5 + - - +
376A PHE* 3.8 5.4 - - + -
380A ARG* 3.9 2.6 - - - +
407A TRP* 4.0 0.8 - - - -
411A GLU* 2.9 30.9 + - - -
445A ARG* 3.0 37.2 + - - +
446A GLN* 3.6 11.7 - - - +
448A LEU* 1.3 74.6 - - - +
450A ARG* 1.3 66.5 + - - +
452A TRP* 3.9 3.6 - - - +
453A HIS* 3.0 24.6 + - - +
476A TRP* 3.7 14.1 - - - -
486A PRO 3.7 7.1 + - - -
487A PHE* 3.1 68.9 + - + +
489A LEU* 3.8 12.3 - - - +
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Residues in contact with ARG 450 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
446A GLN* 3.1 37.9 + - - +
447A ASN* 3.2 15.7 + - - +
449A ARG* 1.3 75.8 - - - +
451A GLU* 1.3 62.7 + - - +
453A HIS* 3.6 5.1 - - - +
454A ALA* 3.1 23.3 + - - +
487A PHE* 5.8 0.9 - - - -
490A THR* 5.5 2.7 - - - -
----------------------------------------------------------
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Residues in contact with GLU 451 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84A ARG* 4.3 28.9 + - - +
447A ASN 3.1 12.8 + - - +
448A LEU* 3.6 28.6 - - - +
449A ARG 3.2 0.2 - - - -
450A ARG* 1.3 78.8 - - - +
452A TRP* 1.3 72.6 + - + +
454A ALA* 3.8 5.3 - - - +
455A ARG* 2.9 34.1 + - + +
----------------------------------------------------------
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Residues in contact with TRP 452 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110A ASN 4.9 0.2 - - - -
376A PHE* 3.7 41.9 - + - +
380A ARG* 3.6 34.1 - - + +
381A GLN* 3.4 37.2 - - + -
384A PHE* 3.6 33.9 - + + -
448A LEU* 3.0 33.5 + - + +
449A ARG 3.3 2.2 + - - +
451A GLU* 1.3 86.4 + - + +
453A HIS* 1.3 66.0 + - - +
455A ARG* 3.2 41.3 - - - +
456A CYS* 2.9 35.2 + - - -
472A CYS* 4.5 2.2 - - - -
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Residues in contact with HIS 453 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
449A ARG 3.0 17.4 + - - +
450A ARG* 3.6 6.5 - - - +
452A TRP* 1.3 76.5 - - - +
454A ALA* 1.3 64.5 + - - +
456A CYS* 3.1 5.9 + - - +
457A GLN* 2.9 61.8 + - + +
472A CYS* 3.7 24.1 - - + -
475A TYR* 3.6 40.9 + + - -
487A PHE* 4.9 7.4 - + + -
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Residues in contact with ALA 454 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89A ASP* 5.5 0.2 - - - -
450A ARG 3.1 13.6 + - - +
451A GLU* 3.8 6.5 - - - +
453A HIS* 1.3 80.9 + - - +
455A ARG* 1.3 53.2 + - - +
457A GLN* 2.7 28.6 + - - +
458A SER* 2.8 15.5 + - - -
----------------------------------------------------------
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Residues in contact with ARG 455 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82A LEU* 3.0 24.2 + - + +
83A VAL 3.8 11.3 + - - -
84A ARG* 3.9 27.9 - - - +
89A ASP* 3.6 27.1 + - - +
110A ASN* 3.2 18.0 + - - +
111A THR* 3.1 21.2 + - - -
381A GLN* 4.8 0.8 - - - +
384A PHE* 3.4 36.6 - - + -
451A GLU* 2.9 28.0 + - + +
452A TRP* 3.2 43.1 - - - +
453A HIS 3.3 0.4 - - - -
454A ALA* 1.3 77.2 - - - +
456A CYS* 1.3 59.3 + - - +
458A SER* 3.8 13.2 + - - -
461A ALA* 4.0 4.0 - - - +
----------------------------------------------------------
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Residues in contact with CYS 456 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
384A PHE* 3.9 21.5 - - - -
452A TRP* 2.9 29.5 + - - +
453A HIS 3.3 4.9 - - - +
454A ALA 3.0 0.2 - - - -
455A ARG* 1.3 80.2 - - - +
457A GLN* 1.3 61.3 + - + +
458A SER 3.5 0.2 - - - -
461A ALA* 3.7 13.7 - - - +
462A ARG 5.2 0.3 + - - -
470A PRO* 4.1 19.3 - - + +
471A GLU 4.2 4.7 - - - -
472A CYS* 3.6 41.7 - - + +
----------------------------------------------------------
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Residues in contact with GLN 457 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
453A HIS* 2.9 53.5 + - + +
454A ALA* 2.7 10.5 + - - +
456A CYS* 1.3 80.1 - - + +
458A SER* 1.3 65.9 + - - +
459A ARG* 3.5 1.9 + - - -
461A ALA* 4.8 0.2 - - - -
462A ARG* 5.2 4.7 - - - +
----------------------------------------------------------
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Residues in contact with SER 458 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82A LEU* 4.6 0.9 - - - +
89A ASP* 3.2 26.7 + - - -
454A ALA 2.8 14.2 + - - -
455A ARG 3.8 4.5 + - - -
456A CYS 3.5 2.6 - - - -
457A GLN* 1.3 75.1 - - - +
459A ARG* 1.3 66.2 + - - +
460A ILE* 2.8 30.1 - - - +
461A ALA* 2.8 22.7 + - - +
462A ARG* 3.2 8.7 + - - +
----------------------------------------------------------
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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