Contacts of the helix formed by residues 419 - 447 (chain S) in PDB entry 1I84
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 THR 419 (chain S).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
369S LYS* 3.5 13.9 - - - +
374S ASP* 3.3 25.4 - - + +
375S GLN* 4.3 6.5 - - - +
418S GLN* 1.3 72.7 - - - +
420S LYS* 1.3 68.4 + - - +
421S GLU* 2.4 14.1 + - - +
422S GLN* 2.5 42.0 + - - +
423S ALA* 3.0 5.5 + - - -
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Residues in contact with LYS 420 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
367S PHE* 2.8 26.0 + - + +
368S LYS* 4.6 6.7 - - - +
369S LYS* 2.9 36.1 - - + +
376S ALA* 3.1 31.9 + - + +
418S GLN 4.3 0.2 + - - -
419S THR* 1.3 72.5 - - - +
421S GLU* 1.3 93.1 + - - +
423S ALA* 2.7 16.4 - - - +
424S ASP* 2.6 30.5 - - - +
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Residues in contact with GLU 421 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
369S LYS* 3.0 23.8 + - - +
419S THR* 2.4 13.3 + - - +
420S LYS* 1.3 98.4 + - + +
422S GLN* 1.3 58.6 + - + +
424S ASP* 2.5 32.0 + - - +
425S PHE* 2.8 14.9 + - + +
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Residues in contact with GLN 422 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
416S LYS* 3.7 12.5 + - - +
418S GLN* 2.9 47.7 + - + +
419S THR* 2.5 47.0 + - - +
421S GLU* 1.3 79.5 - - + +
423S ALA* 1.3 60.7 + - - +
424S ASP 3.1 1.2 + - - -
425S PHE* 4.1 11.4 - - - +
426S ALA* 3.3 18.0 + - - +
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Residues in contact with ALA 423 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
367S PHE* 2.9 47.0 - - + -
376S ALA* 5.2 2.5 - - + +
402S ILE* 4.1 19.1 - - - +
403S LEU* 5.2 6.5 - - + -
418S GLN* 4.3 6.2 - - + +
419S THR 3.0 7.2 + - - +
420S LYS* 2.7 22.9 - - - +
422S GLN* 1.3 77.5 - - - +
424S ASP* 1.3 57.0 - - - +
426S ALA* 4.4 1.2 - - - +
427S ILE* 3.6 11.4 + - - +
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Residues in contact with ASP 424 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
279S ARG* 5.7 4.5 - - - +
365S ILE 4.4 9.5 - - - +
366S VAL* 5.1 0.9 - - - +
367S PHE* 3.0 32.7 + - - +
420S LYS* 2.6 29.6 - - - +
421S GLU* 2.5 15.0 + - - +
423S ALA* 1.3 70.6 - - - +
425S PHE* 1.3 51.1 + - - +
426S ALA 2.5 17.0 + - - -
427S ILE* 2.8 10.3 + - + +
428S GLU* 2.5 32.9 + - + +
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Residues in contact with PHE 425 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
279S ARG* 5.9 0.4 - - - +
421S GLU* 2.8 16.8 + - + +
422S GLN* 4.1 11.9 - - - +
424S ASP* 1.3 71.8 - - - +
426S ALA* 1.3 57.9 + - + +
428S GLU* 4.3 17.3 - - - -
429S ALA* 3.0 34.4 + - + +
599S THR* 3.2 37.0 - - + -
604S PRO* 4.2 27.6 - - + -
605S LEU* 5.9 1.1 - - - -
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Residues in contact with ALA 426 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
402S ILE* 5.3 7.4 - - + +
418S GLN* 4.2 12.6 - - - +
422S GLN 3.3 16.1 + - - +
423S ALA* 4.4 3.1 - - - +
424S ASP 2.5 4.9 + - - -
425S PHE* 1.3 76.8 - - + +
427S ILE* 1.3 53.9 + - - +
428S GLU 2.7 5.5 + - - -
429S ALA 3.1 0.2 + - - -
430S LEU* 2.7 40.3 + - - +
605S LEU* 3.3 9.6 - - + +
606S ASN* 4.4 21.8 - - + +
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Residues in contact with ILE 427 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
315S PHE* 5.1 0.2 - - - -
362S LEU* 2.8 52.5 - - + +
365S ILE* 3.4 33.0 - - + +
367S PHE* 4.1 9.2 - - + -
398S PHE* 3.3 37.0 - - + -
402S ILE* 3.5 14.5 - - + +
423S ALA 3.6 9.3 + - - +
424S ASP* 2.8 32.0 + - + +
426S ALA* 1.3 75.7 - - - +
428S GLU* 1.3 66.0 + - + +
430S LEU* 3.9 7.6 - - - -
431S ALA* 3.6 3.3 + - - +
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Residues in contact with GLU 428 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
278S ILE* 3.6 27.9 - - + +
279S ARG* 3.0 44.6 + - - +
315S PHE* 4.9 10.1 - - + -
424S ASP* 2.5 24.5 + - + +
425S PHE* 3.4 18.4 - - - +
427S ILE* 1.3 72.6 - - + +
429S ALA* 1.3 83.3 + - - +
430S LEU 2.6 14.7 + - - -
431S ALA* 3.1 4.2 + - - +
432S LYS* 2.9 31.4 + - - +
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Residues in contact with ALA 429 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
425S PHE* 3.0 25.2 + - + +
426S ALA 3.1 1.4 + - - -
428S GLU* 1.3 92.9 + - - +
430S LEU* 1.3 56.8 + - - +
432S LYS* 3.9 19.4 - - + +
433S ALA* 3.6 12.8 + - - +
604S PRO* 4.4 11.8 - - + +
605S LEU* 3.2 24.4 - - + +
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Residues in contact with LEU 430 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
362S LEU* 3.6 21.3 - - + -
391S MET* 4.2 11.7 - - + -
398S PHE* 4.1 24.2 - - + -
402S ILE* 4.5 1.6 - - + -
426S ALA 2.7 17.3 + - - +
427S ILE* 3.8 7.2 - - - +
428S GLU 2.6 6.3 + - - -
429S ALA* 1.3 75.0 - - - +
431S ALA* 1.3 56.6 + - - +
433S ALA* 3.0 4.7 + - - +
434S LYS* 2.7 34.7 + - + +
605S LEU* 3.4 24.0 - - + +
609S VAL* 4.3 21.1 - - + -
610S THR* 5.6 1.6 - - - +
613S LEU* 4.7 9.0 - - + -
625S TRP* 4.2 19.6 - - + -
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Residues in contact with ALA 431 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
278S ILE* 5.5 0.2 - - + -
315S PHE* 4.3 10.5 - - + -
359S VAL* 4.0 27.1 - - + +
362S LEU* 3.6 32.1 - - + -
427S ILE 3.6 3.2 + - - +
428S GLU 3.1 5.1 + - - +
430S LEU* 1.3 81.2 - - - +
432S LYS* 1.3 57.7 + - - +
434S LYS* 2.7 31.3 + - - +
435S PHE* 2.8 12.8 + - - +
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Residues in contact with LYS 432 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
274S LYS* 4.1 45.1 - - + +
275S SER* 4.1 17.9 - - - +
277S ALA* 5.0 3.4 - - - -
278S ILE* 3.0 50.3 - - + +
359S VAL* 5.8 0.4 - - - -
428S GLU* 2.9 30.2 + - - +
429S ALA* 3.9 14.1 - - + +
431S ALA* 1.3 78.1 - - - +
433S ALA* 1.3 61.4 + - + +
435S PHE* 3.5 16.5 - - - +
436S GLU 3.7 3.5 + - - -
600S LYS* 5.4 8.1 - - - +
603S ASP* 5.9 0.9 - - - +
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Residues in contact with ALA 433 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
274S LYS* 4.6 8.3 - - - +
429S ALA 3.6 16.2 - - - +
430S LEU 3.0 4.8 + - - +
432S LYS* 1.3 79.1 - - + +
434S LYS* 1.3 66.1 + - - +
435S PHE 2.9 1.8 - - - -
436S GLU* 3.5 11.6 + - + +
437S ARG* 3.1 26.0 + - - +
603S ASP* 4.9 9.4 - - - +
605S LEU* 4.6 10.5 - - + -
625S TRP* 4.7 6.1 - - + -
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Residues in contact with LYS 434 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
355S VAL* 4.3 18.8 - - + +
358S SER* 3.3 26.4 + - - +
359S VAL* 4.0 10.9 - - + +
362S LEU* 5.2 1.8 - - + -
390S LEU 5.0 0.8 + - - -
391S MET* 3.2 43.8 - - + +
430S LEU* 2.7 14.2 + - + +
431S ALA* 2.7 17.8 + - - +
433S ALA* 1.3 78.2 - - - +
435S PHE* 1.3 63.3 + - - +
437S ARG* 3.3 13.2 - - - +
438S LEU* 3.5 4.9 + - - +
621S VAL* 3.7 17.1 - - - +
624S LEU* 4.2 5.4 - - + +
625S TRP* 3.4 41.7 - - + +
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Residues in contact with PHE 435 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
234S PHE* 4.3 21.3 - + + -
272S LEU* 4.6 10.1 - - + -
274S LYS* 3.9 17.3 - - + -
277S ALA* 4.5 7.4 - - + -
287S PHE* 3.6 50.7 - + + -
289S ILE* 4.9 4.0 - - + -
290S PHE* 3.8 32.5 - + - -
356S VAL* 5.5 2.9 - - + -
359S VAL* 4.1 17.0 - - + +
431S ALA 2.8 9.3 + - - +
432S LYS* 3.5 13.2 - - - +
433S ALA 2.9 0.2 - - - -
434S LYS* 1.3 72.8 - - - +
436S GLU* 1.3 59.0 + - - +
437S ARG 2.9 1.1 - - - -
438S LEU* 2.3 50.0 + - + +
439S PHE* 3.2 5.7 + - + -
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Residues in contact with GLU 436 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
272S LEU* 4.9 14.9 - - + +
274S LYS* 4.0 39.0 + - + +
432S LYS 3.7 3.4 + - - +
433S ALA* 3.5 12.1 + - - +
435S PHE* 1.3 84.6 - - - +
437S ARG* 1.3 64.7 + - - +
438S LEU 3.0 0.9 + - - -
439S PHE* 4.4 5.2 - - - +
440S ARG* 3.1 41.5 + - + +
603S ASP* 5.7 0.7 - - - +
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Residues in contact with ARG 437 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
433S ALA 3.1 14.6 + - - +
434S LYS* 3.3 14.1 - - - +
435S PHE 2.9 0.4 - - - -
436S GLU* 1.3 79.5 - - - +
438S LEU* 1.3 60.8 + - - +
440S ARG* 4.6 4.0 - - - +
441S TRP* 3.3 19.1 + - - +
624S LEU* 2.9 46.8 + - + +
625S TRP* 2.8 51.3 + - + +
627S ASP* 3.0 32.7 + - - -
628S VAL* 3.3 15.6 - - - +
631S ILE* 4.4 7.1 - - - +
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Residues in contact with LEU 438 (chain S).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
234S PHE* 5.6 10.8 - - + -
352S ILE* 3.6 44.6 - - + +
355S VAL* 4.1 17.5 - - + +
356S VAL* 4.7 7.9 - - + -
359S VAL* 6.5 0.2 - - + -
434S LYS 3.5 5.1 + - - +
435S PHE* 2.3 44.7 + - + +
437S ARG* 1.3 68.2 - - - +
439S PHE* 1.3 67.5 + - - +
441S TRP* 2.7 20.7 + - + +
442S ILE* 2.9 19.8 + - + +
620S PHE* 3.7 22.7 - - + -
624S LEU* 4.3 10.8 - - + -
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Residues in contact with PHE 439 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
231S LEU* 4.2 14.4 - - + -
234S PHE* 2.9 38.1 - + + +
235S GLY* 4.4 0.4 - - - -
248S PHE* 3.8 38.6 - + - -
269S THR* 3.0 27.6 - - + -
272S LEU* 3.3 32.8 - - + -
435S PHE* 3.2 7.6 + - + +
436S GLU* 3.3 6.9 + - - +
438S LEU* 1.3 77.9 - - - +
440S ARG* 1.3 66.2 + - + +
441S TRP 2.8 11.3 + - - -
442S ILE* 3.0 8.0 + - + +
443S LEU* 2.9 47.0 + - + +
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Residues in contact with ARG 440 (chain S).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
268S GLU* 5.3 5.7 + - - -
269S THR* 2.8 55.4 + - - +
270S TYR* 3.2 22.2 + - - +
272S LEU* 6.1 1.4 - - - +
436S GLU* 3.1 30.7 + - + +
437S ARG* 4.6 4.0 - - - +
439S PHE* 1.3 84.7 - - + +
441S TRP* 1.3 51.0 + - - +
443S LEU* 3.8 6.7 - - - +
444S THR* 2.4 31.9 + - - -
666S GLN* 4.9 7.2 + - - +
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Residues in contact with TRP 441 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
344S PHE* 4.6 1.1 - + - -
348S GLU* 4.1 18.6 - - + -
352S ILE* 3.4 31.2 - - + -
437S ARG 3.3 14.8 + - - +
438S LEU* 2.7 21.5 + - + +
440S ARG* 1.3 71.4 - - - +
442S ILE* 1.3 97.8 + - + +
444S THR* 2.9 18.0 + - - -
445S ARG* 3.1 38.0 + - + +
620S PHE* 3.6 36.7 - + - -
623S ASP* 5.5 9.6 + - + +
624S LEU* 5.0 15.5 - - + +
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Residues in contact with ILE 442 (chain S).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
230S ILE* 4.0 22.4 - - + -
231S LEU* 4.7 3.1 - - + -
234S PHE* 3.7 26.0 - - + -
344S PHE* 3.5 21.8 - - + -
352S ILE* 3.2 44.0 - - + -
438S LEU* 2.9 25.5 + - + +
439S PHE* 3.6 6.3 - - + +
441S TRP* 1.3 88.5 - - + +
443S LEU* 1.3 53.0 + - - +
444S THR 2.8 0.2 + - - -
445S ARG* 2.4 28.5 + - - +
446S VAL* 2.6 19.0 + - + -
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Residues in contact with LEU 443 (chain S).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
231S LEU* 3.9 23.7 - - + +
267S ILE* 3.2 30.3 - - + +
269S THR* 2.9 35.7 - - + -
439S PHE* 2.9 39.7 + - + +
440S ARG* 3.8 10.1 - - - +
442S ILE* 1.3 79.6 - - - +
444S THR* 1.3 58.0 + - + +
445S ARG 3.3 0.2 - - - -
446S VAL* 3.9 7.6 - - + +
447S ASN* 3.0 34.2 + - - +
----------------------------------------------------------
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Residues in contact with THR 444 (chain S).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
440S ARG 2.4 27.8 + - - +
441S TRP* 2.9 8.7 + - - -
442S ILE 2.8 1.0 + - - -
443S LEU* 1.3 77.7 - - + +
445S ARG* 1.3 60.8 + - - +
446S VAL 3.4 0.2 - - - -
447S ASN* 4.0 9.5 - - + -
448S LYS* 3.2 32.4 + - - +
----------------------------------------------------------
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Residues in contact with ARG 445 (chain S).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
342S MET* 4.3 7.2 + - - +
343S GLY* 3.6 29.7 + - - -
344S PHE* 3.2 21.9 - - + -
348S GLU* 2.9 32.6 + - - -
441S TRP* 3.1 43.4 + - + +
442S ILE* 2.4 21.9 + - - +
444S THR* 1.3 72.9 - - - +
446S VAL* 1.3 63.9 + - - +
448S LYS* 3.2 33.1 + - - +
449S ALA* 3.7 4.9 + - - +
----------------------------------------------------------
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Residues in contact with VAL 446 (chain S).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
227S ALA* 4.1 10.3 - - + -
230S ILE* 4.1 14.8 - - + -
231S LEU* 4.1 24.5 - - + -
267S ILE* 3.9 12.1 - - + -
342S MET* 3.7 25.5 - - + +
344S PHE* 4.2 7.6 - - + -
442S ILE* 2.6 13.5 + - + +
443S LEU* 4.0 7.0 - - + +
445S ARG* 1.3 72.3 - - - +
447S ASN* 1.3 55.2 + - - +
448S LYS 2.7 14.5 + - - -
449S ALA* 2.9 13.9 + - - -
450S LEU* 3.2 38.4 + - + +
----------------------------------------------------------
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Residues in contact with ASN 447 (chain S).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
265S ALA 3.3 4.2 - - - +
266S ASN* 2.9 39.6 + - - +
267S ILE* 2.9 50.6 + - - +
443S LEU* 3.0 22.8 + - + +
444S THR* 4.0 11.0 - - + -
445S ARG 3.4 0.2 - - - -
446S VAL* 1.3 80.4 - - - +
448S LYS* 1.3 58.7 + - - +
449S ALA 3.3 0.7 - - - -
450S LEU* 4.2 6.1 - - - -
451S ASP* 3.4 23.4 - - - +
----------------------------------------------------------
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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).
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