Contacts of the helix formed by residues 428 - 456 (chain H) in PDB entry 4P0S
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 428 (chain H).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
364H VAL* 4.6 7.0 - - - -
365H ASP 4.9 1.0 - - - +
366H GLN* 4.5 22.0 - - - -
426H VAL* 3.7 4.7 + - - +
427H GLN* 1.3 79.1 - - - +
429H TRP* 1.3 64.5 + - - +
430H LYS* 3.4 15.4 + - - +
431H GLU* 3.3 17.4 + - - +
432H LEU* 3.3 18.5 + - - +
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Residues in contact with TRP 429 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
263H MET* 3.6 39.5 - - + -
264H GLU* 3.4 44.2 + - + +
265H GLY* 3.5 30.1 - - - +
268H GLN* 4.5 14.4 - - + +
315H LEU* 4.3 0.2 - - + -
317H ARG* 4.3 6.3 - - - -
364H VAL* 3.6 32.4 - - + +
366H GLN* 3.7 24.1 + - - +
428H SER* 1.3 71.1 - - - +
430H LYS* 1.3 61.1 + - - +
432H LEU* 3.2 41.2 + - + +
433H ALA* 2.7 28.3 + - - +
----------------------------------------------------------
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Residues in contact with LYS 430 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
268H GLN* 3.7 28.4 + - - +
272H ALA* 6.3 0.8 - - - +
428H SER* 3.2 10.1 + - - +
429H TRP* 1.3 77.4 - - - +
431H GLU* 1.3 51.3 + - - +
433H ALA* 2.7 12.5 + - + +
434H ASP* 2.6 59.8 + - - +
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Residues in contact with GLU 431 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
425H ILE 4.1 3.5 - - - +
426H VAL* 3.3 28.5 - - + +
427H GLN* 2.8 47.3 + - - +
428H SER* 3.3 16.8 + - - +
430H LYS* 1.3 76.6 - - - +
432H LEU* 1.3 64.3 + - - +
434H ASP* 4.2 8.9 + - - -
435H PHE* 2.9 30.4 + - + +
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Residues in contact with LEU 432 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
265H GLY 5.2 2.2 - - - +
269H LEU* 3.8 30.1 - - + -
313H LEU* 6.6 0.2 - - + -
315H LEU* 3.5 28.5 - - + -
362H VAL* 4.3 21.8 - - + -
364H VAL* 4.8 5.4 - - + -
426H VAL* 4.7 10.0 - - + +
428H SER 3.3 10.5 + - - +
429H TRP* 3.3 42.0 - - + +
430H LYS 3.1 0.2 - - - -
431H GLU* 1.3 81.5 - - - +
433H ALA* 1.3 54.4 + - - +
435H PHE* 4.6 1.8 - - - +
436H THR* 2.2 37.1 + - - +
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Residues in contact with ALA 433 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
268H GLN* 4.1 27.8 - - + +
269H LEU* 4.3 15.6 - - + +
272H ALA* 4.4 9.4 - - + +
273H LEU* 5.1 0.3 - - - +
429H TRP 2.7 13.7 + - - +
430H LYS* 2.7 16.3 + - + +
432H LEU* 1.3 78.1 - - - +
434H ASP* 1.3 58.4 + - - +
436H THR* 3.0 23.7 - - - +
437H CYS* 3.1 15.1 + - - -
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Residues in contact with ASP 434 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
385G LEU* 4.7 16.4 - - + +
272H ALA* 5.8 1.0 - - - +
430H LYS* 2.6 50.0 + - - +
431H GLU* 3.2 8.1 + - - +
433H ALA* 1.3 71.2 - - - +
435H PHE* 1.3 66.5 + - - +
436H THR 2.9 1.3 - - - -
437H CYS* 3.1 20.5 + - - +
438H ALA* 3.3 13.9 + - - +
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Residues in contact with PHE 435 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
385G LEU* 5.1 8.1 - - + -
389G THR* 4.3 15.5 - - + -
392G GLN* 3.2 26.2 - - - -
401G ARG* 3.4 28.0 - - - -
313H LEU* 4.1 10.5 - - + -
360H SER* 5.4 1.1 - - - -
362H VAL* 4.5 14.4 - - + -
424H GLN* 3.2 33.0 - - - +
426H VAL* 5.4 7.0 - - + -
431H GLU* 2.9 18.3 + - + +
432H LEU* 4.6 2.5 - - - +
434H ASP* 1.3 74.7 - - - +
436H THR* 1.3 54.3 + - - +
438H ALA* 3.4 6.1 + - - +
439H PHE* 2.7 67.0 + + + +
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Residues in contact with THR 436 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
256H LEU* 6.2 1.1 - - + -
269H LEU* 3.2 32.6 - - + +
273H LEU* 3.6 12.7 - - + +
313H LEU* 5.9 4.3 - - + +
432H LEU* 2.2 29.6 + - - +
433H ALA* 3.0 13.4 - - - -
435H PHE* 1.3 80.1 - - - +
437H CYS* 1.3 62.8 + - - +
439H PHE* 4.1 6.8 - - + +
440H THR* 3.0 27.6 + - - +
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Residues in contact with CYS 437 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
272H ALA* 3.5 45.5 - - - -
273H LEU* 3.8 9.2 - - - -
276H MET* 3.8 20.1 - - + +
433H ALA 3.1 10.4 + - - -
434H ASP* 3.1 15.8 + - - +
436H THR* 1.3 74.2 - - - +
438H ALA* 1.3 58.9 + - - +
440H THR* 3.1 7.4 + - - -
441H LYS* 3.0 24.2 + - - +
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Residues in contact with ALA 438 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
385G LEU* 4.7 13.5 - - + +
386G GLN* 3.5 25.5 + - - +
389G THR* 3.5 23.3 - - + +
434H ASP 3.3 8.9 + - - +
435H PHE* 3.6 9.0 - - - +
437H CYS* 1.3 78.0 - - - +
439H PHE* 1.3 54.6 + - - +
441H LYS* 3.0 4.3 + - - +
442H ALA* 2.8 35.7 + - - +
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Residues in contact with PHE 439 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
389G THR* 3.7 9.4 - - + +
392G GLN* 4.1 4.9 - - - -
393G VAL* 3.3 30.1 - - + -
293H TRP* 3.4 35.9 - + + -
311H THR* 4.1 13.5 - - + -
313H LEU* 3.6 21.3 - - + -
360H SER* 3.6 25.1 - - - -
435H PHE* 2.7 54.8 + + + +
436H THR* 4.1 8.3 - - + +
437H CYS 3.4 0.2 - - - -
438H ALA* 1.3 72.7 - - - +
440H THR* 1.3 57.8 + - - +
442H ALA* 3.2 1.8 + - - +
443H VAL* 2.8 47.6 + - + +
----------------------------------------------------------
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Residues in contact with THR 440 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
249H LEU* 4.5 8.5 - - + -
252H ILE* 5.0 6.9 - - + +
254H VAL* 3.9 21.9 - - + +
273H LEU* 3.9 13.7 - - - +
276H MET* 3.6 22.0 - - + -
278H CYS* 4.8 2.2 - - + -
293H TRP* 3.8 23.9 + - + +
436H THR* 3.0 14.2 + - - +
437H CYS 3.1 10.5 + - - -
439H PHE* 1.3 79.8 - - - +
441H LYS* 1.3 61.5 + - - +
443H VAL* 3.4 1.7 + - - +
444H ALA* 3.1 22.9 + - - +
----------------------------------------------------------
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Residues in contact with LYS 441 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
382G SER* 5.9 2.8 + - - -
386G GLN* 3.2 40.4 + - - +
249H LEU* 5.0 19.3 - - + -
276H MET* 4.7 14.8 - - - -
437H CYS 3.0 12.4 + - - +
438H ALA* 3.4 4.0 - - - +
440H THR* 1.3 76.2 - - - +
442H ALA* 1.3 59.7 + - - +
444H ALA* 3.7 4.8 + - - +
445H GLU* 3.2 36.6 + - - +
2M A 3.2 33.3 + - - +
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Residues in contact with ALA 442 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
389G THR* 3.8 17.9 - - + +
390G ASN* 2.9 34.5 + - - +
393G VAL* 4.3 10.1 - - + -
394G ILE* 3.8 5.7 - - + +
438H ALA 2.8 15.3 + - - +
439H PHE* 3.5 5.8 - - - +
441H LYS* 1.3 76.5 - - - +
443H VAL* 1.3 58.7 + - - +
445H GLU* 2.9 5.2 + - - +
446H ALA* 2.9 28.1 + - - -
----------------------------------------------------------
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Residues in contact with VAL 443 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
393G VAL* 4.4 14.8 - - + +
252H ILE* 5.3 1.8 - - + -
293H TRP* 3.4 67.1 - - + +
295H ARG* 3.2 15.9 + - - +
309H GLU* 3.9 16.0 - - + +
311H THR* 4.8 3.1 - - + +
439H PHE* 2.8 42.8 + - + +
440H THR 3.7 4.5 - - - +
442H ALA* 1.3 69.2 - - - +
444H ALA* 1.3 65.8 + - - +
446H ALA* 3.4 10.3 + - - +
447H PRO* 3.6 2.6 - - - +
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Residues in contact with ALA 444 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
242H ALA 5.0 0.5 - - - +
243H GLN* 5.3 1.4 - - - -
248H CYS* 3.6 28.1 - - - +
249H LEU* 4.6 8.7 - - + -
252H ILE* 4.0 20.6 - - + -
295H ARG* 3.3 26.0 + - - +
440H THR* 3.1 16.1 + - + +
441H LYS* 3.8 7.4 - - - +
443H VAL* 1.3 78.5 - - - +
445H GLU* 1.3 58.4 + - - +
446H ALA 3.3 0.2 - - - -
447H PRO* 3.4 8.1 - - - +
448H PHE* 4.9 2.1 + - - +
----------------------------------------------------------
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Residues in contact with GLU 445 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
386G GLN* 4.5 1.9 + - - -
390G ASN* 3.9 17.8 + - - +
394G ILE* 3.8 14.6 - - + +
245H PRO* 3.7 25.7 - - + +
248H CYS* 4.5 14.4 - - - -
441H LYS* 3.2 24.5 + - + +
442H ALA 2.9 6.5 + - - +
444H ALA* 1.3 79.4 - - - +
446H ALA* 1.3 64.8 + - - +
447H PRO* 3.5 0.9 - - - -
448H PHE* 3.3 29.9 + - + +
449H LYS* 3.5 18.9 + - - +
2M A 2.8 33.1 + - - -
----------------------------------------------------------
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Residues in contact with ALA 446 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
393G VAL* 4.5 9.6 - - + -
394G ILE* 3.5 33.6 - - + +
309H GLU* 4.7 5.2 - - - +
442H ALA 2.9 5.6 + - - +
443H VAL* 3.7 9.9 - - - +
444H ALA 3.3 0.2 - - - -
445H GLU* 1.3 79.2 - - - +
447H PRO* 1.4 73.0 - - + +
448H PHE 3.1 1.4 + - - -
449H LYS 3.4 0.5 + - - -
450H LYS* 3.2 33.4 + - - +
----------------------------------------------------------
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Residues in contact with PRO 447 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
243H GLN* 3.4 26.3 - - + +
295H ARG* 3.2 40.4 - - - +
309H GLU* 3.9 11.0 - - - +
443H VAL 3.6 0.4 - - - +
444H ALA 3.4 6.3 - - - +
446H ALA* 1.4 94.5 - - + +
448H PHE* 1.3 54.9 + - - +
450H LYS* 3.9 7.6 - - + -
451H LEU* 3.1 36.1 + - + +
----------------------------------------------------------
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Residues in contact with PHE 448 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
350G ARG* 5.4 1.3 - - - -
243H GLN* 2.9 44.8 + - + +
244H ARG* 4.8 2.0 - - + -
245H PRO* 3.8 30.7 - - + -
445H GLU* 3.3 20.8 + - + +
446H ALA 3.1 0.8 + - - -
447H PRO* 1.3 80.8 - - - +
449H LYS* 1.3 101.3 + - + +
451H LEU* 3.8 3.1 - - - +
452H ARG* 3.2 63.7 + - + +
----------------------------------------------------------
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Residues in contact with LYS 449 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
350G ARG* 4.1 15.3 - - - +
390G ASN* 4.4 3.6 - - - +
394G ILE* 4.1 25.8 - - + -
395G ASP* 5.6 0.9 - - - +
445H GLU* 3.5 14.8 + - - +
446H ALA 3.4 2.6 + - - -
448H PHE* 1.3 106.1 - - + +
450H LYS* 1.3 60.6 + - - +
451H LEU 3.2 0.4 - - - -
452H ARG* 4.1 6.7 - - + -
453H ASP* 2.8 43.8 + - - +
1M G 2.3 70.2 + - - +
----------------------------------------------------------
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Residues in contact with LYS 450 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
357G LYS* 4.5 16.6 - - - +
393G VAL 4.5 3.6 + - - -
394G ILE* 2.7 47.9 + - + +
395G ASP* 4.9 0.9 - - - +
446H ALA* 3.2 25.2 + - - +
447H PRO* 4.1 7.2 - - + +
449H LYS* 1.3 75.5 - - - +
451H LEU* 1.3 72.7 + - + +
452H ARG 3.4 0.3 + - - -
453H ASP* 4.9 2.6 - - - +
454H GLU* 3.1 34.8 + - - +
----------------------------------------------------------
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Residues in contact with LEU 451 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
240H MET* 3.6 27.4 - - + -
243H GLN* 3.5 26.2 - - - +
447H PRO* 3.1 24.1 + - + +
448H PHE 3.8 4.3 - - - +
450H LYS* 1.3 88.1 - - + +
452H ARG* 1.3 60.2 + - + +
454H GLU* 3.8 14.4 - - - +
455H THR* 3.5 22.0 + - - -
----------------------------------------------------------
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Residues in contact with ARG 452 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
350G ARG* 4.0 30.7 - - - +
488G GLU* 5.0 12.1 - - - -
448H PHE* 3.2 50.7 + - + +
449H LYS* 3.7 8.3 - - + +
450H LYS 3.2 0.6 - - - -
451H LEU* 1.3 75.0 - - + +
453H ASP* 1.3 64.6 + - - +
454H GLU 2.9 4.9 - - - -
455H THR* 2.8 16.9 + - - +
456H THR* 3.0 32.4 + - + +
----------------------------------------------------------
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Residues in contact with ASP 453 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
350G ARG* 5.0 15.2 + - - +
353G LYS* 5.6 2.1 + - - -
354G PHE* 4.4 29.8 - - + -
357G LYS* 3.7 26.0 + - - +
394G ILE* 6.0 0.2 - - - +
395G ASP* 3.8 13.2 - - - +
449H LYS* 2.8 28.5 + - - +
450H LYS* 4.9 1.8 - - - +
452H ARG* 1.3 71.4 - - - +
454H GLU* 1.3 63.0 + - + +
456H THR* 3.6 18.9 - - - +
457H PHE 5.9 0.2 - - - -
----------------------------------------------------------
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Residues in contact with GLU 454 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
354G PHE* 6.1 0.2 - - - -
450H LYS* 3.1 28.7 + - - +
451H LEU* 3.8 17.3 - - - +
452H ARG 2.9 1.4 + - - -
453H ASP* 1.3 82.5 - - + +
455H THR* 1.3 61.8 + - - +
456H THR 3.8 1.9 - - - +
457H PHE* 5.8 1.9 - - - -
----------------------------------------------------------
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Residues in contact with THR 455 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
487G GLY 5.6 0.2 - - - +
488G GLU* 4.2 26.9 - - + +
491G ALA* 5.3 6.9 - - + +
526G GLY* 5.1 11.4 - - - +
451H LEU 3.5 12.2 + - - -
452H ARG* 2.8 14.4 + - - -
454H GLU* 1.3 74.0 - - - +
456H THR* 1.3 70.3 + - - +
457H PHE* 3.7 16.6 - - - -
----------------------------------------------------------
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Residues in contact with THR 456 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
350G ARG* 6.2 1.8 - - - +
487G GLY* 4.8 7.9 - - - -
488G GLU* 4.9 13.4 - - - +
452H ARG* 3.0 37.8 + - + +
453H ASP* 3.6 21.1 - - - +
454H GLU 3.8 2.1 - - - +
455H THR* 1.3 86.6 - - - +
457H PHE* 1.3 74.6 + - - +
460H CYS* 4.0 14.4 - - + +
----------------------------------------------------------
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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