Contacts of the helix formed by residues 510 - 528 (chain s) in PDB entry 6QX2
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 ASP 510 (chain s).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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508s ASP* 3.1 25.1 - - - +
509s ALA* 1.3 80.3 - - - +
511s VAL* 1.3 64.4 + - + +
512s ASP* 3.4 9.0 + - - +
513s GLY* 2.7 34.7 + - - -
514s ALA* 3.4 18.5 + - - +
517s ARG* 5.4 1.2 + - - -
581s LYS* 6.0 5.8 - - + +
582s GLY* 5.3 2.6 + - - -
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Residues in contact with VAL 511 (chain s).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24r ASP* 3.8 15.3 - - + +
25r TYR* 3.4 18.6 - - + +
28r SER* 3.3 42.0 - - - +
29r VAL 5.5 0.4 - - - +
33r ARG* 4.5 7.2 - - - +
81r HIS* 6.3 0.9 - - + -
510s ASP* 1.3 76.2 - - + +
512s ASP* 1.3 78.8 + - - +
513s GLY 3.2 0.4 - - - -
514s ALA* 3.2 10.2 + - - +
515s HIS 3.1 21.0 + - - -
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Residues in contact with ASP 512 (chain s).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25r TYR* 3.3 10.1 - - - -
33r ARG* 2.4 41.6 + - - -
81r HIS* 4.7 3.3 - - - -
460s LYS* 2.9 26.3 + - - -
510s ASP* 3.4 8.3 + - - +
511s VAL* 1.3 81.8 - - - +
513s GLY* 1.3 59.8 + - - +
515s HIS* 3.6 2.3 + - - +
516s ILE* 3.2 35.0 + - - +
7v A 4.1 0.5 - - - +
8v C 3.6 34.8 - - - +
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Residues in contact with GLY 513 (chain s).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
507s THR* 3.3 26.4 + - - +
508s ASP* 3.6 18.6 - - - -
510s ASP* 2.7 18.7 + - - -
511s VAL 3.2 0.2 - - - -
512s ASP* 1.3 73.2 - - - +
514s ALA* 1.3 57.7 + - - +
516s ILE* 3.2 5.3 + - - -
517s ARG* 2.9 26.6 + - - +
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Residues in contact with ALA 514 (chain s).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21r SER* 3.1 28.5 - - - +
24r ASP* 4.4 8.1 - - + +
510s ASP 3.4 11.7 + - - +
511s VAL* 3.2 12.8 + - - +
513s GLY* 1.3 73.7 - - - +
515s HIS* 1.3 58.0 + - - +
517s ARG* 3.3 30.3 + - - +
518s THR* 3.0 32.3 + - - +
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Residues in contact with HIS 515 (chain s).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22r PHE* 4.2 5.4 - + - -
25r TYR* 3.3 63.8 - + + +
460s LYS* 3.3 17.4 + - - +
511s VAL 3.1 5.7 + - - -
512s ASP 3.8 7.4 - - - +
513s GLY 3.2 0.4 - - - -
514s ALA* 1.3 75.8 - - - +
516s ILE* 1.3 57.3 + - - +
518s THR* 2.7 32.0 + - - -
519s LEU* 3.0 26.0 + - + +
2015w A 3.0 48.2 + - + -
2016w C 3.3 12.6 + - - -
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Residues in contact with ILE 516 (chain s).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
435s GLU* 3.6 34.5 - - + -
457s LEU* 4.8 8.5 - - + -
459s GLY* 4.1 21.8 - - - +
460s LYS* 4.0 25.4 - - + +
461s ILE* 5.2 6.1 - - + +
507s THR* 4.0 15.9 - - + -
512s ASP 3.2 20.1 + - - +
513s GLY* 3.8 6.1 - - - +
515s HIS* 1.3 74.2 - - - +
517s ARG* 1.3 57.5 + - - +
519s LEU* 3.7 7.0 - - - +
520s LEU* 3.1 41.6 + - + +
8v C 4.7 5.4 - - + +
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Residues in contact with ARG 517 (chain s).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17r GLU* 2.5 25.8 + - - +
21r SER* 2.9 20.7 + - - +
505s ILE* 4.1 21.0 - - + +
507s THR* 2.9 29.5 + - - +
508s ASP 4.3 6.5 + - - -
510s ASP 5.4 1.0 + - - -
513s GLY 2.9 15.3 + - - +
514s ALA* 3.3 26.8 - - - +
516s ILE* 1.3 75.6 - - - +
518s THR* 1.3 57.9 + - - +
520s LEU* 3.4 3.1 + - - +
521s LEU* 3.0 46.2 + - + +
539s ILE* 3.9 28.0 - - + +
540s ALA 5.9 0.4 + - - -
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Residues in contact with THR 518 (chain s).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18r MET* 3.8 29.9 - - + +
21r SER* 3.7 9.2 - - - -
22r PHE* 3.5 38.1 - - + +
514s ALA 3.0 20.5 + - - +
515s HIS* 2.7 26.4 + - - -
517s ARG* 1.3 75.1 - - - +
519s LEU* 1.3 52.4 + - - +
521s LEU* 4.9 0.7 - - + -
522s THR* 2.6 37.4 + - - -
622s MET* 3.7 16.4 - - - +
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Residues in contact with LEU 519 (chain s).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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460s LYS* 4.1 10.5 - - + -
461s ILE* 3.5 38.7 - - + +
462s LEU 4.6 5.0 - - - +
463s ASN* 3.7 37.2 - - + -
464s VAL* 5.2 1.0 + - - +
515s HIS* 3.0 48.0 + - + +
516s ILE* 3.7 6.7 - - - +
517s ARG 3.2 0.6 - - - -
518s THR* 1.3 74.1 + - - +
520s LEU* 1.3 60.0 + - - +
522s THR* 3.5 4.6 + - - -
523s PHE* 3.2 23.4 + - - +
622s MET* 3.7 16.6 - - + -
2015w A 4.0 13.2 - - - +
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Residues in contact with LEU 520 (chain s).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
433s LEU* 4.5 12.1 - - + +
457s LEU* 3.9 27.4 - - + -
461s ILE* 3.9 14.1 - - + -
481s MET* 3.6 32.8 - - + -
505s ILE* 4.0 37.0 - - + -
507s THR* 4.8 2.2 - - + -
516s ILE* 3.1 29.2 + - + +
517s ARG 3.8 4.0 - - - +
519s LEU* 1.3 73.5 - - - +
521s LEU* 1.3 53.6 + - - +
522s THR 3.2 0.2 - - - -
523s PHE* 3.0 8.9 + - + +
524s PHE* 2.9 42.3 + - + -
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Residues in contact with LEU 521 (chain s).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14r ILE* 4.8 10.5 - - + -
17r GLU* 3.7 32.3 - - + -
18r MET* 3.8 26.7 - - + -
21r SER* 6.4 0.2 - - - -
505s ILE* 3.9 20.9 - - + -
517s ARG* 3.0 29.0 + - + +
518s THR* 3.9 0.4 - - + +
520s LEU* 1.3 75.3 - - - +
522s THR* 1.3 57.0 + - - +
524s PHE* 3.8 6.4 - - + +
525s TYR* 2.9 32.6 + - - +
532s ILE* 4.6 2.5 - - + +
537s VAL* 4.2 17.0 - - + -
539s ILE* 4.4 2.7 - - + -
606s VAL* 4.3 17.0 - - + -
618s PHE* 3.7 6.9 - - + -
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Residues in contact with THR 522 (chain s).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18r MET* 3.8 0.2 - - - +
463s ASN* 4.2 4.3 - - - +
464s VAL* 3.8 12.1 - - + +
465s GLU* 3.9 34.8 - - + +
518s THR 2.6 23.1 + - - -
519s LEU* 3.6 9.0 - - - -
520s LEU 3.2 0.2 - - - -
521s LEU* 1.3 74.7 - - - +
523s PHE* 1.3 61.6 + - - +
525s TYR* 3.6 0.9 + - - +
526s ARG* 3.2 26.4 + - + +
618s PHE* 3.2 19.2 - - + -
622s MET* 3.2 27.4 - - + +
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Residues in contact with PHE 523 (chain s).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
461s ILE* 6.0 1.1 - - + -
462s LEU 5.6 0.7 - - - +
464s VAL* 3.6 24.2 - - + +
472s ILE* 5.2 0.2 - - + -
478s ILE* 3.7 44.6 - - + -
481s MET* 3.6 30.5 - - + -
482s ILE* 4.0 9.9 - - + -
519s LEU 3.2 12.9 + - - +
520s LEU* 3.0 10.6 + - + +
522s THR* 1.3 73.2 - - - +
524s PHE* 1.3 82.1 + + - +
526s ARG 3.4 1.2 + - - -
527s PHE* 3.0 55.6 + + + +
528s MET* 4.0 25.8 - - + -
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Residues in contact with PHE 524 (chain s).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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433s LEU* 3.7 22.4 - - + -
481s MET* 4.5 5.4 - - - -
485s PHE* 3.4 26.7 - + - -
503s ILE* 3.8 16.4 - - + -
505s ILE* 3.8 31.0 - - + -
520s LEU* 2.9 29.0 + - + +
521s LEU* 3.9 6.5 - - - +
523s PHE* 1.3 90.1 - + - +
525s TYR* 1.3 58.9 + - - +
528s MET* 2.8 50.0 + - - +
529s ARG* 3.7 0.3 - - - -
531s LEU* 4.5 7.0 - - + -
532s ILE* 3.8 17.3 - - + -
537s VAL* 4.2 17.3 - - + -
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Residues in contact with TYR 525 (chain s).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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14r ILE* 4.2 11.0 - - + -
521s LEU 2.9 18.3 + - - +
522s THR 4.1 2.2 - - - +
524s PHE* 1.3 76.7 - - - +
526s ARG* 1.3 79.1 + - - +
529s ARG* 3.4 41.7 + - + +
532s ILE* 3.6 12.8 - - + -
608s LEU* 3.8 22.2 - - + -
611s ALA* 3.0 20.8 + - - -
614s ALA* 3.4 19.5 - - + +
615s ASP* 3.0 31.1 + - - -
618s PHE* 3.6 38.8 - + + -
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Residues in contact with ARG 526 (chain s).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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464s VAL* 4.4 6.5 - - + -
465s GLU* 2.9 42.1 + - - +
490s GLY* 5.6 2.3 - - - -
522s THR* 3.2 20.3 + - + +
525s TYR* 1.3 92.0 - - + +
527s PHE* 1.3 81.9 + - + +
529s ARG* 5.1 0.7 - - - -
615s ASP* 3.1 50.0 + - - +
618s PHE* 3.8 10.9 - - + +
619s GLU* 4.4 2.4 - - - +
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Residues in contact with PHE 527 (chain s).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
464s VAL* 4.1 19.1 - - + -
469s LEU* 3.9 25.4 - - + -
472s ILE* 3.7 32.8 - - + -
482s ILE* 6.0 0.2 - - + -
489s ILE* 3.6 35.9 - - + -
490s GLY* 3.1 32.2 + - - +
493s PHE* 4.6 2.1 - - - +
523s PHE* 3.0 37.2 + + + +
526s ARG* 1.3 98.5 - - + +
528s MET* 1.3 63.7 + - + +
529s ARG 3.9 1.3 - - - -
530s PRO* 5.6 0.4 - - - +
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Residues in contact with MET 528 (chain s).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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482s ILE* 3.9 20.4 - - + -
485s PHE* 3.6 37.0 - - + -
487s THR* 3.9 15.7 - - - +
488s GLY 3.9 2.0 - - - +
489s ILE* 3.8 21.8 - - + -
493s PHE* 3.9 20.4 - - + -
523s PHE* 4.0 9.4 - - + -
524s PHE* 2.8 25.5 + - + +
527s PHE* 1.3 87.1 - - + +
529s ARG* 1.3 65.1 + - - +
530s PRO* 3.3 8.7 - - - -
531s LEU* 3.1 31.9 - - + +
532s ILE* 3.8 2.6 + - - +
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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