Contacts of the helix formed by residues 457 - 478 (chain A) in PDB entry 2WSL
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 457 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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426A SER* 4.0 17.0 + - - +
455A GLN 5.4 0.9 - - - +
456A TYR* 1.3 77.7 - - - +
458A LYS* 1.3 63.9 + - - +
459A ALA* 3.5 10.1 + - - +
460A GLU* 2.9 41.3 + - - +
461A GLU* 3.1 20.4 + - - +
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Residues in contact with LYS 458 (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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452A ARG* 3.4 18.9 - - - +
457A THR* 1.3 71.9 - - - +
459A ALA* 1.3 64.9 + - - +
461A GLU* 3.2 41.4 + - - +
462A ILE* 3.1 36.9 + - + +
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Residues in contact with ALA 459 (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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457A THR* 3.3 9.4 + - - +
458A LYS* 1.3 77.4 - - - +
460A GLU* 1.3 57.5 + - - +
462A ILE* 3.5 9.2 + - - +
463A LEU* 3.0 27.7 + - - +
505A THR* 3.7 31.7 - - + +
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Residues in contact with GLU 460 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
423A HIS* 2.6 39.0 + - + +
425A SER* 3.4 3.8 - - - -
426A SER* 2.6 45.8 + - - -
444A PHE* 3.8 14.8 - - + -
449A PRO* 3.8 4.5 - - + +
456A TYR* 3.4 19.7 - - + -
457A THR* 2.9 31.5 + - - +
458A LYS 3.1 0.6 - - - -
459A ALA* 1.3 74.7 - - - +
461A GLU* 1.3 61.2 + - - +
463A LEU* 3.7 3.7 - - - +
464A SER* 2.8 33.3 + - - -
505A THR* 4.6 0.2 - - - -
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Residues in contact with GLU 461 (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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449A PRO* 3.5 27.8 - - - +
450A LEU* 3.4 20.2 - - + +
452A ARG* 2.8 56.6 + - - +
457A THR 3.1 12.0 + - - +
458A LYS* 3.2 32.0 + - - +
460A GLU* 1.3 75.8 - - - +
462A ILE* 1.3 63.1 + - + +
464A SER 3.4 0.2 + - - -
465A ARG* 2.9 31.2 + - + +
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Residues in contact with ILE 462 (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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458A LYS* 3.1 34.1 + - + +
459A ALA* 3.7 10.3 - - - +
460A GLU 3.2 0.2 - - - -
461A GLU* 1.3 83.3 - - + +
463A LEU* 1.3 59.1 + - - +
465A ARG* 3.3 6.5 + - + +
466A SER* 3.0 30.2 + - - -
1536A NAG 4.5 23.7 - - - +
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Residues in contact with LEU 463 (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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421A PHE* 4.5 6.5 - - + -
423A HIS* 3.7 41.1 - - + -
444A PHE* 4.2 9.9 - - + -
459A ALA 3.0 18.6 + - - +
460A GLU* 3.3 4.2 + - - +
462A ILE* 1.3 74.0 - - - +
464A SER* 1.3 61.3 + - - +
466A SER* 3.3 7.1 + - - -
467A ILE* 2.9 48.7 + - + +
503A LEU* 4.5 6.1 - - + -
504A ASN* 3.7 29.8 - - - +
505A THR* 3.9 13.9 - - + -
508A THR* 6.0 0.9 - - - +
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Residues in contact with SER 464 (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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444A PHE* 2.7 33.2 + - - -
447A GLY* 3.4 18.9 - - - -
449A PRO* 3.5 22.6 - - - +
450A LEU* 4.1 5.1 - - - +
460A GLU 2.8 21.1 + - - -
461A GLU 3.8 3.8 - - - -
463A LEU* 1.3 73.0 - - - +
465A ARG* 1.3 58.5 + - - +
467A ILE* 3.2 3.2 + - - +
468A VAL* 2.8 32.2 + - - +
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Residues in contact with ARG 465 (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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136A VAL* 3.4 30.1 + - - +
137A GLU* 2.7 31.3 + - - -
450A LEU* 3.6 19.5 - - + +
461A GLU* 2.9 18.3 + - + +
462A ILE* 3.7 9.9 - - + +
464A SER* 1.3 76.6 - - - +
466A SER* 1.3 58.4 + - - +
468A VAL* 3.5 9.5 + - - +
469A LYS* 3.0 40.5 + - - +
1536A NAG 3.6 44.7 + - - +
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Residues in contact with SER 466 (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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462A ILE* 3.0 19.7 + - - -
463A LEU* 3.6 8.3 - - - -
465A ARG* 1.3 75.1 - - - +
467A ILE* 1.3 66.8 + - - +
469A LYS* 3.2 5.3 + - - +
470A ARG* 3.0 30.5 + - - +
482A GLU* 4.5 8.3 - - - +
1536A NAG 4.1 12.5 + - - -
1546A F 2.2 37.3 - - - -
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Residues in contact with ILE 467 (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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421A PHE* 3.9 26.2 - - + -
441A GLU* 6.2 0.2 - - + -
444A PHE* 4.2 10.8 - - + -
445A VAL* 3.9 32.1 - - + -
463A LEU* 2.9 42.5 + - + +
464A SER* 3.7 4.5 - - - +
466A SER* 1.3 74.7 - - - +
468A VAL* 1.3 58.0 + - - +
470A ARG* 3.2 5.8 + - - +
471A TRP* 2.9 52.8 + - + +
503A LEU* 4.2 24.5 - - + -
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Residues in contact with VAL 468 (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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133A LEU* 4.0 15.7 - - + +
136A VAL* 4.3 9.4 - - + -
137A GLU* 3.4 24.0 - - + -
444A PHE 3.7 7.9 - - - +
445A VAL 3.3 25.6 - - - +
447A GLY* 3.9 16.4 - - - -
450A LEU* 4.4 5.2 - - + -
464A SER* 2.8 23.6 + - - +
465A ARG* 3.7 14.6 - - - +
467A ILE* 1.3 74.0 - - - +
469A LYS* 1.3 62.5 + - - +
471A TRP* 3.5 4.3 + - - +
472A ALA* 3.0 23.6 + - - +
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Residues in contact with LYS 469 (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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137A GLU* 2.9 36.2 + - - +
465A ARG* 3.0 23.3 + - - +
466A SER 3.6 3.6 - - - +
468A VAL* 1.3 76.2 - - - +
470A ARG* 1.3 59.0 + - - +
472A ALA* 3.4 0.7 + - - +
473A ASN* 2.8 55.5 + - - +
476A LYS* 5.1 3.4 - - - +
481A GLN 4.3 1.1 - - - +
482A GLU* 3.9 17.3 - - + +
483A THR 5.5 0.2 - - - +
484A GLN* 5.0 10.2 + - - -
1536A NAG 3.5 29.8 - - + -
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Residues in contact with ARG 470 (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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466A SER* 3.0 21.8 + - - +
467A ILE* 3.2 5.6 + - - +
469A LYS* 1.3 75.7 - - - +
471A TRP* 1.3 67.7 + - + +
473A ASN 3.8 0.2 - - - -
474A PHE* 2.9 24.3 + - - +
480A PRO* 3.0 45.7 + - + +
481A GLN* 3.8 17.4 + - - +
482A GLU* 3.7 17.1 - - + +
487A SER* 3.6 13.9 - - - -
488A THR* 2.8 30.9 + - - +
490A TRP* 3.9 27.7 - - + +
501A LEU* 3.8 16.4 - - - +
503A LEU* 4.9 8.2 - - - +
508A THR* 4.5 4.4 - - - +
1546A F 3.5 27.7 - - - -
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Residues in contact with TRP 471 (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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110A LEU* 5.4 8.1 - - + -
133A LEU* 5.8 3.1 - - + -
195A PHE* 4.3 6.1 - + - -
221A ILE* 3.6 32.1 - - + +
223A GLN* 2.9 24.1 + - + -
318A LEU* 3.9 13.2 - - + -
419A TYR* 3.6 44.0 - + - -
441A GLU* 5.9 0.4 - - + -
445A VAL* 3.5 37.4 - - + +
467A ILE* 2.9 44.2 + - + +
468A VAL* 3.9 5.4 - - - +
470A ARG* 1.3 84.1 - - + +
472A ALA* 1.3 57.4 + - - +
474A PHE* 3.2 7.7 + - - +
475A ALA* 2.9 27.9 + - - +
490A TRP* 4.0 20.9 - + - -
503A LEU* 4.1 15.3 - - + -
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Residues in contact with ALA 472 (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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110A LEU* 5.3 6.0 - - + +
133A LEU* 5.8 1.5 - - + +
137A GLU* 3.5 38.1 - - + +
139A VAL* 4.6 8.5 - - + -
468A VAL 3.0 18.6 + - - +
469A LYS 3.7 1.8 - - - +
471A TRP* 1.3 72.8 - - - +
473A ASN* 1.3 60.8 + - - +
475A ALA* 3.2 6.1 + - - +
476A LYS* 2.8 42.2 + - - +
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Residues in contact with ASN 473 (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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137A GLU* 5.3 0.2 - - - +
469A LYS* 2.8 44.5 + - - +
470A ARG 3.9 1.3 - - - +
472A ALA* 1.3 71.6 - - - +
474A PHE* 1.3 60.3 + - - +
476A LYS* 4.8 2.6 + - - +
477A TYR* 2.8 60.7 + - + +
478A GLY 3.4 1.0 + - - -
479A ASN 3.4 17.5 - - - +
481A GLN* 2.8 26.0 + - - +
482A GLU* 4.6 1.6 - - - +
483A THR* 4.6 13.5 + - - +
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Residues in contact with PHE 474 (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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193A THR* 4.4 0.9 - - + -
219A ARG* 3.1 24.4 + - + -
220A ALA 3.4 19.1 - - - -
221A ILE* 3.6 24.5 - - + -
316A GLN* 3.5 42.0 - - + -
317A ILE 3.5 22.4 - - - -
318A LEU* 3.9 13.0 - - + -
417A PHE* 4.1 4.5 - + - -
470A ARG 2.9 19.4 + - - +
471A TRP 3.5 3.8 - - - +
473A ASN* 1.3 76.2 - - - +
475A ALA* 1.3 62.5 + - - +
478A GLY* 2.7 43.3 + - - -
479A ASN 3.6 7.1 + - - +
480A PRO* 3.9 19.7 - - + -
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Residues in contact with ALA 475 (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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108A THR* 3.7 20.0 - - + +
110A LEU* 3.5 28.7 - - + -
139A VAL* 5.7 0.4 - - + -
191A SER* 3.9 3.6 + - - -
193A THR* 3.2 27.7 + - + +
219A ARG* 2.9 22.9 + - - -
471A TRP 2.9 12.6 + - - +
472A ALA* 3.7 6.1 - - - +
474A PHE* 1.3 77.3 - - - +
476A LYS* 1.3 57.9 + - - +
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Residues in contact with LYS 476 (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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108A THR* 3.5 29.3 + - + +
137A GLU* 2.9 42.7 + - - -
138A ARG* 5.0 3.1 - - - +
139A VAL* 3.7 16.8 - - + +
219A ARG* 3.5 9.9 + - - -
469A LYS* 5.1 4.0 - - - +
472A ALA* 2.8 25.8 + - - +
473A ASN* 4.8 2.2 + - - +
475A ALA* 1.3 72.8 - - - +
477A TYR* 1.3 103.8 + - + +
2C FUC 3.8 12.6 + - - -
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Residues in contact with TYR 477 (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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219A ARG* 4.3 5.6 + - - -
473A ASN* 2.8 45.0 + - + +
476A LYS* 1.3 107.0 + - + +
478A GLY* 1.3 64.6 + - - +
479A ASN* 3.5 11.8 + - + +
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Residues in contact with GLY 478 (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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219A ARG* 3.5 26.8 - - - +
316A GLN* 3.9 13.8 - - - +
415A ASN* 5.3 1.9 + - - +
417A PHE* 3.5 18.9 - - - -
474A PHE* 2.7 31.4 + - - -
477A TYR* 1.3 71.6 - - - +
479A ASN* 1.3 58.3 + - - +
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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
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Atomic class I II III IV V VI VII VIII
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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