Contacts of the helix formed by residues 426 - 452 (chain B) in PDB entry 2QUH
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 LEU 426 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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384B ILE* 4.0 40.2 - - + -
387B HIS* 3.6 23.3 - - + -
388B ARG* 3.6 42.8 - - - +
420B TYR* 3.9 0.9 - - - -
425B MET* 1.3 78.2 - - - +
427B THR* 1.3 67.0 + - - +
428B GLY* 3.0 7.4 - - - +
429B GLU* 2.9 30.9 + - + +
430B LEU* 2.9 10.0 + - - +
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Residues in contact with THR 427 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
378B SER* 3.3 22.0 + - - +
380B GLY* 3.6 15.7 - - - -
381B ARG 4.6 5.6 - - - +
387B HIS* 4.0 9.6 + - + +
397B ASP* 4.9 0.7 - - - -
420B TYR* 3.2 34.6 - - - +
426B LEU* 1.3 73.1 - - - +
428B GLY* 1.3 55.9 + - - +
430B LEU* 3.3 2.3 - - - +
431B LYS* 2.7 50.1 + - - +
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Residues in contact with GLY 428 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
373B ASN* 5.0 1.5 - - - +
426B LEU* 3.0 6.4 - - - +
427B THR* 1.3 83.0 + - - +
429B GLU* 1.3 56.2 + - - +
431B LYS* 3.4 8.5 - - - +
432B LYS* 3.0 26.0 + - - +
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Residues in contact with GLU 429 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
388B ARG* 4.1 6.3 + - - -
424B ALA 4.1 5.2 - - - +
425B MET* 3.6 24.4 - - + +
426B LEU* 2.9 41.7 + - + +
428B GLY* 1.3 73.9 - - - +
430B LEU* 1.3 65.7 + - - +
432B LYS* 3.4 15.5 + - + +
433B ALA* 2.9 23.2 + - - +
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Residues in contact with LEU 430 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
397B ASP* 3.4 27.4 - - - +
399B SER* 4.0 13.9 - - - +
400B PHE* 4.1 9.2 - - + +
403B LEU* 3.6 29.4 - - + -
416B ILE* 4.4 7.6 - - + -
420B TYR* 3.5 40.6 - - + +
425B MET* 3.9 14.7 - - - +
426B LEU 2.9 12.5 + - - +
427B THR* 3.3 8.3 - - - +
429B GLU* 1.3 74.0 - - - +
431B LYS* 1.3 66.0 + - + +
433B ALA* 2.9 12.5 + - + +
434B LEU* 2.9 11.0 + - - +
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Residues in contact with LYS 431 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
372B VAL* 3.2 24.1 + - + +
373B ASN* 3.1 46.9 + - - +
376B ALA 3.4 24.7 + - - -
377B PHE 5.1 0.4 - - - -
378B SER* 4.9 9.0 - - - +
397B ASP* 5.8 1.1 - - - +
399B SER* 3.6 22.4 - - - +
427B THR* 2.7 38.6 + - - +
428B GLY* 3.4 8.1 - - - +
430B LEU* 1.3 73.2 - - + +
432B LYS* 1.3 63.1 + - - +
434B LEU* 3.0 5.7 + - - +
435B ILE* 2.9 28.2 + - - +
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Residues in contact with LYS 432 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
373B ASN* 5.0 0.6 + - - -
428B GLY 3.0 10.1 + - - +
429B GLU* 3.4 18.4 - - + +
431B LYS* 1.3 78.6 - - - +
433B ALA* 1.3 63.4 + - - +
435B ILE* 3.3 12.0 + - - +
436B GLU* 3.1 47.0 + - - +
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Residues in contact with ALA 433 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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403B LEU* 4.6 4.3 - - + -
412B LYS* 6.1 3.1 - - - +
416B ILE* 4.4 16.8 - - + -
425B MET* 4.3 13.9 - - + -
429B GLU 2.9 12.6 + - - +
430B LEU* 2.9 13.9 + - + +
432B LYS* 1.3 75.1 - - - +
434B LEU* 1.3 63.1 + - - +
436B GLU* 3.1 21.3 + - - +
437B VAL* 3.3 16.5 + - - +
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Residues in contact with LEU 434 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
372B VAL* 4.1 17.5 - - + -
376B ALA* 5.5 0.9 - - + -
399B SER* 3.7 37.5 - - - +
402B TYR* 3.5 38.6 - - + +
403B LEU* 3.7 27.8 - - + +
430B LEU 2.9 11.2 + - - +
431B LYS* 3.0 9.4 + - - +
433B ALA* 1.3 76.7 - - - +
435B ILE* 1.3 58.2 + - - +
437B VAL* 2.9 22.8 + - + +
438B LEU* 2.9 31.6 + - + +
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Residues in contact with ILE 435 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
368B ILE* 5.0 1.6 - - + -
369B LYS* 3.6 42.4 - - + +
372B VAL* 3.6 22.9 - - + -
373B ASN* 3.7 23.1 - - - +
431B LYS 2.9 20.3 + - - +
432B LYS* 3.6 11.4 - - - +
433B ALA 3.3 0.2 - - - -
434B LEU* 1.3 75.8 - - - +
436B GLU* 1.3 57.8 + - + +
438B LEU* 4.6 5.4 - - - +
439B GLN* 3.1 57.1 + - + +
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Residues in contact with GLU 436 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
432B LYS* 3.1 46.6 + - - +
433B ALA* 3.4 14.4 - - - +
434B LEU 3.1 0.8 - - - -
435B ILE* 1.3 76.5 - - + +
437B VAL* 1.3 58.7 - - + +
439B GLN* 4.6 6.7 - - - +
440B PRO* 3.1 23.3 - - - +
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Residues in contact with VAL 437 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
403B LEU* 4.1 14.6 - - + -
406B PHE* 3.8 39.7 - - + +
407B LEU* 4.1 24.7 - - + +
412B LYS* 6.1 2.0 - - - -
433B ALA 3.7 11.7 - - - +
434B LEU* 2.9 9.7 + - + +
436B GLU* 1.3 81.1 - - + +
438B LEU* 1.3 64.8 + - + +
440B PRO* 3.1 18.3 - - - +
441B LEU* 3.2 12.0 + - + +
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Residues in contact with LEU 438 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171B VAL* 4.8 7.9 - - + -
359B ILE* 3.7 31.2 - - + -
368B ILE* 4.0 14.6 - - + -
372B VAL* 4.3 8.3 - - + -
402B TYR* 4.3 8.5 - - + -
406B PHE* 3.8 25.4 - - + -
434B LEU* 2.9 39.0 + - + +
435B ILE* 4.5 1.1 - - - +
437B VAL* 1.3 77.4 - - - +
439B GLN* 1.3 65.7 + - - +
441B LEU* 3.0 26.3 + - + +
442B ILE* 2.8 31.2 + - + +
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Residues in contact with GLN 439 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
365B ALA* 3.1 48.0 - - + +
368B ILE* 4.1 14.5 - - + +
369B LYS* 3.9 6.8 - - - +
435B ILE* 3.1 41.2 + - + +
436B GLU* 4.6 7.3 - - - +
438B LEU* 1.3 76.5 - - - +
440B PRO* 1.3 64.5 - - + +
442B ILE* 4.2 0.7 - - - +
443B ALA* 3.0 30.1 + - - +
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Residues in contact with PRO 440 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
436B GLU* 3.1 28.9 - - - +
437B VAL* 3.1 15.0 - - - +
439B GLN* 1.3 94.5 - - + +
441B LEU* 1.3 57.1 + - - +
443B ALA* 4.3 4.7 - - + -
444B GLU* 2.8 34.2 + - - +
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Residues in contact with LEU 441 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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171B VAL* 4.3 6.3 - - + -
174B LEU* 4.8 14.8 - - + -
178B ILE* 5.4 3.8 - - + -
406B PHE* 4.0 38.4 - - + -
437B VAL* 3.2 18.6 + - + +
438B LEU* 3.0 34.0 + - + +
440B PRO* 1.3 77.6 - - - +
442B ILE* 1.3 69.4 + - + +
444B GLU* 3.4 4.7 - - - +
445B HIS* 3.0 27.7 + - + +
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Residues in contact with ILE 442 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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171B VAL* 3.8 14.8 - - + -
359B ILE* 3.5 31.2 - - + -
360B PHE 3.9 8.1 - - - +
361B LEU* 3.7 29.6 - - + +
363B ASP 4.0 11.2 - - - +
368B ILE* 3.6 21.5 - - + -
438B LEU* 2.8 23.5 + - + +
441B LEU* 1.3 83.6 - - + +
443B ALA* 1.3 60.4 + - - +
445B HIS* 3.3 7.7 + - - +
446B GLN* 2.8 44.5 + - - +
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Residues in contact with ALA 443 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
439B GLN 3.0 21.9 + - - +
440B PRO* 4.0 5.2 - - + +
442B ILE* 1.3 77.0 - - - +
444B GLU* 1.3 63.2 + - - +
446B GLN* 3.3 15.9 + - - +
447B ALA* 3.0 22.0 + - - +
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Residues in contact with GLU 444 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
440B PRO 2.8 19.6 + - - +
441B LEU* 3.4 6.1 - - - +
443B ALA* 1.3 77.7 - - - +
445B HIS* 1.3 58.6 + - - +
447B ALA* 3.1 9.7 + - + +
448B ARG* 2.9 66.4 + - - +
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Residues in contact with HIS 445 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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174B LEU* 4.0 25.6 - - + +
221B ASP* 2.8 50.0 + - + -
224B ALA* 4.1 15.4 - - + +
225B CYS* 4.9 3.8 - - - -
361B LEU* 3.5 32.3 + - + +
441B LEU* 3.0 18.2 + - + +
442B ILE* 3.6 8.7 - - - +
444B GLU* 1.3 80.7 + - - +
446B GLN* 1.3 60.3 + - - +
448B ARG* 3.2 6.5 + - - +
449B ARG* 2.8 30.4 + - - +
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Residues in contact with GLN 446 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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361B LEU 3.0 26.0 + - - +
362B THR* 3.5 19.4 + - - +
363B ASP 3.5 16.5 + - - +
364B THR* 5.5 0.8 - - - +
442B ILE* 2.8 26.4 + - - +
443B ALA* 3.7 14.2 - - - +
444B GLU 3.3 0.2 - - - -
445B HIS* 1.3 79.9 - - - +
447B ALA* 1.3 63.5 + - - +
449B ARG* 3.4 7.0 + - - +
450B LYS* 3.0 25.1 + - - +
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Residues in contact with ALA 447 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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443B ALA 3.0 13.6 + - - +
444B GLU* 3.1 13.2 + - + +
446B GLN* 1.3 77.9 - - - +
448B ARG* 1.3 77.0 + - - +
450B LYS* 3.4 13.0 + - - +
451B GLU* 3.5 16.6 + - - +
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Residues in contact with ARG 448 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
224B ALA* 3.7 31.8 - - + +
444B GLU* 2.9 48.0 + - - +
445B HIS* 3.6 7.4 - - - +
447B ALA* 1.3 88.7 - - - +
449B ARG* 1.3 62.4 + - - +
451B GLU* 2.7 59.5 + - - +
452B VAL* 3.6 6.4 + - - +
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Residues in contact with ARG 449 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167B GLU* 5.5 4.2 + - - +
217B GLU* 2.9 52.0 + - - +
220B LYS* 4.0 27.8 - - + +
221B ASP* 2.8 32.4 + - - +
224B ALA* 3.7 8.9 - - + +
445B HIS* 2.8 21.0 + - + +
446B GLN* 3.7 8.1 - - - +
448B ARG* 1.3 77.9 - - - +
450B LYS* 1.3 63.1 + - - +
452B VAL* 3.0 27.6 + - - +
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Residues in contact with LYS 450 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
446B GLN 3.0 17.2 + - - +
447B ALA* 3.7 8.7 - - - +
448B ARG 3.2 0.2 - - - -
449B ARG* 1.3 77.3 - - - +
451B GLU* 1.3 60.6 + - + +
452B VAL 3.7 3.9 + - - +
453B THR* 5.4 2.6 - - - +
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Residues in contact with GLU 451 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
447B ALA 3.5 9.6 + - - +
448B ARG* 2.7 61.3 + - - +
450B LYS* 1.3 77.2 - - - +
452B VAL* 1.3 57.1 + - - +
453B THR* 3.1 19.5 + - - +
456B ILE* 5.0 2.4 - - - +
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Residues in contact with VAL 452 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
220B LYS* 3.7 48.6 - - + +
223B ILE* 4.2 27.1 - - + -
224B ALA* 5.0 2.0 - - - +
448B ARG 3.7 7.0 - - - +
449B ARG* 3.0 31.5 + - - +
450B LYS 4.5 3.3 - - - +
451B GLU* 1.3 70.0 - - - +
453B THR* 1.3 60.8 + - - +
456B ILE* 4.3 9.4 - - + -
457B VAL* 3.7 18.5 - - + +
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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