Contacts of the helix formed by residues 426 - 450 (chain A) 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 A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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384A ILE* 3.8 27.4 - - + -
387A HIS* 3.7 20.2 - - + -
388A ARG* 3.4 42.4 - - - +
420A TYR* 3.8 0.9 - - - -
425A MET* 1.3 75.9 - - - +
427A THR* 1.3 68.6 + - + +
428A GLY 4.1 5.8 - - - +
429A GLU* 2.9 37.9 + - + +
430A LEU* 3.2 7.8 + - - +
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Residues in contact with THR 427 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
378A SER* 3.4 20.9 + - - +
380A GLY* 4.0 12.3 - - - -
381A ARG 5.3 3.1 - - - +
387A HIS* 4.3 5.1 + - + +
397A ASP* 4.8 1.3 - - - -
420A TYR* 3.0 36.0 - - + +
426A LEU* 1.3 72.7 - - + +
428A GLY* 1.3 57.0 + - - +
430A LEU* 3.4 3.5 - - - +
431A LYS* 3.0 43.4 + - - +
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Residues in contact with GLY 428 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
373A ASN* 5.0 2.3 - - - +
426A LEU* 2.9 6.1 + - - +
427A THR* 1.3 81.4 + - - +
429A GLU* 1.3 57.3 - - - +
431A LYS* 3.5 8.8 - - - +
432A LYS* 3.2 32.6 + - - +
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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
----------------------------------------------------------
388A ARG* 4.7 2.4 + - - -
424A ALA 4.1 6.6 - - - +
425A MET* 3.6 24.7 - - + +
426A LEU* 2.9 46.5 + - + +
428A GLY* 1.3 74.9 - - - +
430A LEU* 1.3 65.4 + - - +
432A LYS* 3.0 27.6 - - - +
433A ALA* 3.1 9.5 + - - +
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Residues in contact with LEU 430 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
397A ASP* 3.6 19.1 - - - +
399A SER* 4.3 11.9 - - - -
400A PHE* 4.4 9.9 - - + +
403A LEU* 3.5 28.9 - - + -
416A ILE* 4.0 17.3 - - + -
420A TYR* 3.5 46.2 - - + -
425A MET* 3.8 10.2 - - - -
426A LEU 3.2 5.9 + - - +
427A THR* 3.4 12.6 - - - +
429A GLU* 1.3 75.9 - - - +
431A LYS* 1.3 68.2 + - + +
433A ALA* 2.8 18.2 + - - +
434A LEU* 3.1 9.8 + - + +
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Residues in contact with LYS 431 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
372A VAL* 2.9 43.6 + - + +
373A ASN* 3.0 38.5 + - - +
376A ALA 3.4 22.5 + - - -
377A PHE 5.2 0.4 - - - -
378A SER* 5.0 5.9 - - - +
397A ASP* 5.8 1.6 - - - +
399A SER* 3.4 21.3 - - - +
427A THR* 3.0 29.9 + - - +
428A GLY* 3.5 13.0 - - - +
430A LEU* 1.3 80.0 - - + +
432A LYS* 1.3 64.1 + - - +
434A LEU* 3.0 6.0 + - - +
435A ILE* 3.0 28.3 + - - +
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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
----------------------------------------------------------
369A LYS* 6.4 2.0 - - - -
373A ASN* 5.2 4.0 + - - +
428A GLY 3.2 16.1 + - - +
429A GLU* 3.0 20.7 - - - +
431A LYS* 1.3 79.7 - - - +
433A ALA* 1.3 58.0 + - - +
435A ILE* 3.4 12.1 + - + +
436A GLU* 2.9 42.5 + - + +
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Residues in contact with ALA 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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403A LEU* 4.3 6.3 - - + -
412A LYS* 5.8 4.7 - - - -
416A ILE* 4.1 26.2 - - + -
425A MET* 5.8 2.9 - - + -
429A GLU 3.1 9.8 + - - +
430A LEU* 2.8 17.9 + - - +
432A LYS* 1.3 69.8 - - - +
434A LEU* 1.3 64.9 + - - +
436A GLU* 3.2 21.5 + - - +
437A VAL* 3.2 17.3 + - + +
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Residues in contact with LEU 434 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
343A LEU* 6.2 1.3 - - + -
372A VAL* 3.8 22.0 - - + -
376A ALA* 5.5 1.3 - - + -
399A SER* 3.7 29.6 - - - +
402A TYR* 3.6 31.0 - - + -
403A LEU* 3.6 29.5 - - + +
406A PHE* 5.3 0.7 - - + -
430A LEU 3.1 5.8 + - - +
431A LYS* 3.0 11.7 + - - +
433A ALA* 1.3 77.7 - - - +
435A ILE* 1.3 57.4 + - - +
437A VAL* 3.0 6.4 + - + +
438A LEU* 2.8 56.6 + - + +
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Residues in contact with ILE 435 (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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368A ILE* 4.6 2.0 - - + +
369A LYS* 3.5 48.2 - - + +
372A VAL* 3.8 23.8 - - + -
373A ASN* 3.8 13.5 - - - +
431A LYS 3.0 15.3 + - - +
432A LYS* 3.7 13.0 - - + +
434A LEU* 1.3 75.6 - - - +
436A GLU* 1.3 63.2 + - + +
438A LEU* 4.4 5.6 - - - +
439A GLN* 3.0 62.3 + - + +
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Residues in contact with GLU 436 (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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412A LYS* 5.3 6.6 + - - -
432A LYS* 2.9 31.6 - - + +
433A ALA* 3.2 10.6 + - - +
435A ILE* 1.3 78.5 - - + +
437A VAL* 1.3 59.7 + - + +
439A GLN* 4.8 4.3 - - - +
440A PRO* 3.0 24.4 - - - +
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Residues in contact with VAL 437 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
403A LEU* 3.9 19.7 - - + -
406A PHE* 3.6 41.5 - - + +
407A LEU* 4.2 18.4 - - + +
433A ALA* 3.3 14.1 - - + +
434A LEU* 3.0 9.3 + - + +
436A GLU* 1.3 79.3 - - + +
438A LEU* 1.3 67.2 + - + +
440A PRO* 3.2 15.2 - - - +
441A LEU* 3.5 10.6 - - + +
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Residues in contact with LEU 438 (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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171A VAL* 4.5 4.7 - - + -
359A ILE* 3.2 32.8 - - + -
368A ILE* 3.9 15.3 - - + -
372A VAL* 4.3 5.6 - - + -
402A TYR* 3.8 5.4 - - + -
406A PHE* 4.0 32.1 - - + -
434A LEU* 2.8 47.7 + - + +
435A ILE 3.5 0.4 + - - +
437A VAL* 1.3 73.2 - - - +
439A GLN* 1.3 64.6 + - - +
441A LEU* 3.1 17.0 + - + -
442A ILE* 2.9 38.0 + - + +
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Residues in contact with GLN 439 (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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365A ALA* 2.7 46.9 + - + +
368A ILE* 3.9 20.2 - - + +
369A LYS* 4.2 6.3 - - - +
435A ILE* 3.0 37.2 + - + +
436A GLU* 4.8 3.9 - - - +
438A LEU* 1.3 75.6 - - - +
440A PRO* 1.3 63.9 - - + +
442A ILE* 4.2 0.7 - - - +
443A ALA* 2.9 31.9 + - - +
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Residues in contact with PRO 440 (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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436A GLU* 3.0 27.6 - - - +
437A VAL* 3.2 12.8 - - - +
439A GLN* 1.3 94.9 - - + +
441A LEU* 1.3 54.5 + - - +
443A ALA* 3.6 6.2 - - + +
444A GLU* 2.9 33.6 + - - +
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Residues in contact with LEU 441 (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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171A VAL* 4.3 4.7 - - + -
178A ILE* 6.0 4.3 - - + -
406A PHE* 3.6 42.0 - - + +
437A VAL* 3.5 12.6 - - + +
438A LEU* 3.1 17.5 + - + +
440A PRO* 1.3 82.8 - - - +
442A ILE* 1.3 79.1 + - + +
444A GLU* 3.8 6.2 - - - +
445A HIS* 3.0 22.8 + - + +
448A ARG* 4.8 4.5 + - - +
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Residues in contact with ILE 442 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171A VAL* 3.8 27.1 - - + -
359A ILE* 4.4 9.0 - - + -
360A PHE 4.4 12.8 - - - +
361A LEU* 3.9 17.3 - - + +
363A ASP 3.6 11.9 - - - +
368A ILE* 3.9 14.6 - - + -
438A LEU* 2.9 30.4 + - + +
441A LEU* 1.3 82.6 - - + +
443A ALA* 1.3 66.4 + - - +
445A HIS* 3.1 6.1 + - - +
446A GLN* 2.8 58.8 + - + +
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Residues in contact with ALA 443 (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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439A GLN 2.9 21.2 + - - +
440A PRO* 3.6 7.9 - - + +
442A ILE* 1.3 79.2 - - - +
444A GLU* 1.3 62.5 + - - +
446A GLN* 3.3 14.0 + - - +
447A ALA* 3.0 21.9 + - - +
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Residues in contact with GLU 444 (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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440A PRO 2.9 19.0 + - - +
441A LEU* 3.8 6.0 - - - +
443A ALA* 1.3 75.3 - - - +
445A HIS* 1.3 65.1 + - - +
447A ALA* 3.1 8.5 + - + +
448A ARG* 2.9 79.9 + - + +
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Residues in contact with HIS 445 (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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174A LEU* 3.9 18.8 - - + +
221A ASP* 2.9 50.0 + - + +
224A ALA* 3.9 12.9 - - + +
225A CYS* 4.8 4.5 - - - -
361A LEU* 3.4 33.4 + - + +
441A LEU* 3.0 18.7 + - + +
442A ILE* 3.7 7.0 - - - +
444A GLU* 1.3 76.0 - - - +
446A GLN* 1.3 62.0 + - - +
448A ARG* 3.3 24.6 + - - +
449A ARG* 2.9 31.5 + - - +
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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
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361A LEU 2.9 29.4 + - - +
362A THR* 3.1 16.7 + - - +
363A ASP 3.0 24.7 + - - +
364A THR* 5.5 1.4 - - - -
442A ILE* 2.8 34.6 + - + +
443A ALA* 3.5 10.9 - - - +
445A HIS* 1.3 79.0 - - - +
447A ALA* 1.3 61.2 + - - +
449A ARG* 3.5 8.0 + - - +
450A LYS* 3.2 22.0 + - - +
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Residues in contact with ALA 447 (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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443A ALA 3.0 13.1 + - - +
444A GLU* 3.1 13.4 + - + +
446A GLN* 1.3 78.5 - - - +
448A ARG* 1.3 61.4 - - + +
450A LYS* 3.4 14.6 + - - +
451A GLU* 3.3 22.6 + - - +
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Residues in contact with ARG 448 (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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224A ALA* 3.4 31.3 + - + +
225A CYS* 4.8 10.7 + - - +
226A GLY* 5.7 1.9 - - - +
441A LEU* 4.8 4.9 + - - +
444A GLU* 2.9 53.1 + - + +
445A HIS* 3.4 29.7 - - - +
447A ALA* 1.3 75.0 - - + +
449A ARG* 1.3 66.7 + - - +
450A LYS 3.1 0.7 - - - -
451A GLU* 3.1 37.8 + - - +
452A VAL* 3.5 11.1 + - - +
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Residues in contact with ARG 449 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167A GLU* 5.6 2.6 + - - +
217A GLU* 2.8 48.5 + - - +
220A LYS* 3.7 32.6 - - + +
221A ASP* 2.7 37.5 + - - -
224A ALA* 3.9 13.4 - - + +
361A LEU 6.2 0.2 - - - -
362A THR* 6.3 2.9 - - - -
445A HIS* 2.9 21.1 + - + +
446A GLN* 3.7 9.2 - - - +
447A ALA 3.3 0.2 - - - -
448A ARG* 1.3 76.8 - - - +
450A LYS* 1.3 62.7 + - - +
452A VAL* 3.2 22.1 + - - +
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Residues in contact with LYS 450 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
446A GLN 3.2 13.4 + - - +
447A ALA* 3.6 13.2 - - - +
448A ARG 3.1 0.8 - - - -
449A ARG* 1.3 78.7 - - - +
451A GLU* 1.3 60.1 + - + +
452A VAL 3.2 5.2 + - - +
453A THR* 5.9 0.2 - - - +
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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) + - + + + + + -
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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