Contacts of the helix formed by residues 437 - 456 (chain A) in PDB entry 3CTZ
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 437 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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435A THR 5.5 0.9 - - - +
436A PRO* 1.3 76.8 - - - +
438A ALA* 1.3 64.9 + - - +
439A TYR* 3.4 8.3 + - - +
440A GLU* 2.9 48.0 + - - +
441A LYS* 3.0 23.0 + - - +
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Residues in contact with ALA 438 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
437A THR* 1.3 74.7 - - - +
439A TYR* 1.3 58.4 + - - +
441A LYS* 3.3 9.6 + - - +
442A GLU* 2.7 30.3 + - - +
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Residues in contact with TYR 439 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
437A THR* 3.2 7.4 + - - +
438A ALA* 1.3 78.0 - - - +
440A GLU* 1.3 64.7 + - - +
442A GLU* 3.4 24.7 - - - +
443A CYS* 2.9 42.5 + - - -
481A LEU* 4.2 12.7 - - + +
526A TYR* 3.7 8.1 + - - -
528A GLU* 2.7 35.3 + - + -
532A PHE* 3.7 27.1 - + - -
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Residues in contact with GLU 440 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
409A ASP 5.2 4.7 - - - +
410A GLU* 5.5 0.3 - - - -
411A VAL* 3.6 28.0 + - + +
432A HIS* 4.1 3.9 + - - -
436A PRO* 3.4 17.2 - - + +
437A THR* 2.9 48.5 + - - +
439A TYR* 1.3 76.7 - - + +
441A LYS* 1.3 57.0 + - - +
443A CYS 3.5 0.2 + - - -
444A PHE* 3.0 29.6 + - - +
531A ALA 5.5 1.0 - - - +
532A PHE* 3.7 39.3 - - + +
534A ILE* 3.8 6.3 - - + +
571A MET* 4.0 3.9 - - + +
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Residues in contact with LYS 441 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
436A PRO* 3.7 26.5 - - + +
437A THR 3.0 17.9 + - - +
438A ALA* 3.6 10.3 - - - +
440A GLU* 1.3 72.2 - - - +
442A GLU* 1.3 60.1 + - - +
444A PHE* 3.3 0.6 + - - -
445A THR* 2.8 38.4 + - - -
570A LYS* 3.4 17.3 + - - +
571A MET* 3.3 15.9 - - - +
572A ILE 3.3 27.8 + - - -
573A ASP* 4.1 12.9 - - + +
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Residues in contact with GLU 442 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
438A ALA 2.7 20.7 + - - +
439A TYR* 3.2 29.2 + - + +
441A LYS* 1.3 74.7 - - - +
443A CYS* 1.3 62.1 + - - +
445A THR* 3.3 5.6 + - - -
446A TYR* 2.5 67.9 + - + +
479A SER* 4.5 2.1 + - - -
481A LEU* 6.2 0.2 - - - -
573A ASP* 5.3 5.1 - - - +
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Residues in contact with CYS 443 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
439A TYR* 2.9 55.0 + - - +
440A GLU 3.9 0.2 - - - +
442A GLU* 1.3 76.2 - - - +
444A PHE* 1.3 66.2 + - - +
446A TYR* 3.2 10.9 + - - +
447A VAL* 3.0 26.9 + - - +
476A LEU* 4.6 0.6 - - - +
481A LEU* 4.0 10.5 - - - -
526A TYR* 3.6 28.7 - - + -
532A PHE* 4.1 3.4 - - + -
534A ILE* 3.6 19.3 - - + -
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Residues in contact with PHE 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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430A THR* 3.4 33.9 - - + -
440A GLU 3.0 19.8 + - - +
443A CYS* 1.3 75.8 - - - +
445A THR* 1.3 58.8 + - - +
447A VAL* 3.2 3.5 + - - +
448A LEU* 2.8 27.3 + - + +
534A ILE* 3.4 26.1 - - + +
536A ILE* 3.7 25.2 - - + +
567A ILE* 3.8 20.4 - - + -
568A GLN 4.1 4.7 - - - -
571A MET* 3.4 55.0 - - + +
572A ILE* 3.7 21.3 - - + -
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Residues in contact with THR 445 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
441A LYS 2.8 20.9 + - - -
442A GLU* 3.7 4.5 - - - -
443A CYS 3.1 0.2 - - - -
444A PHE* 1.3 75.8 - - - +
446A TYR* 1.3 63.4 + - + +
448A LEU* 3.7 4.8 - - + +
449A LYS* 2.8 35.8 + - + +
572A ILE* 3.4 8.5 - - + -
573A ASP* 2.8 32.3 + - - +
576A SER* 3.4 25.8 - - - +
577A LEU* 4.0 18.4 - - + -
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Residues in contact with TYR 446 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
442A GLU* 2.5 60.2 + - + +
443A CYS* 3.2 6.0 + - - +
445A THR* 1.3 79.4 - - + +
447A VAL* 1.3 62.9 + - - +
449A LYS* 3.4 11.0 + - + +
450A GLY* 3.1 18.4 + - - -
472A ALA 4.8 1.2 - - - +
475A ALA* 3.9 31.3 - - + +
476A LEU* 3.6 35.0 + - + +
479A SER* 2.8 34.6 + - - -
481A LEU* 4.1 14.1 - - + -
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Residues in contact with VAL 447 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
443A CYS 3.0 18.7 + - - +
444A PHE 3.5 7.2 - - - +
446A TYR* 1.3 76.4 - - - +
448A LEU* 1.3 57.1 - - - +
450A GLY* 3.1 2.8 + - - -
451A HIS* 2.8 24.8 + - - +
476A LEU* 4.4 9.0 - - + -
524A PRO* 3.4 37.4 - - + +
525A GLY* 3.5 30.3 - - - +
526A TYR* 3.7 11.4 - - + +
534A ILE* 4.0 13.2 - - + -
536A ILE* 3.8 22.0 - - + +
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Residues in contact with LEU 448 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
444A PHE* 2.8 19.7 + - + +
445A THR* 3.7 5.2 - - - +
447A VAL* 1.3 75.7 - - - +
449A LYS* 1.3 65.0 + - - +
451A HIS* 3.1 9.9 + - + +
452A ILE* 2.9 48.5 + - + +
536A ILE* 3.9 19.9 - - + +
567A ILE* 4.2 24.2 - - + -
572A ILE* 3.5 43.7 - - + -
577A LEU* 4.7 9.0 - - + -
585A LEU* 4.5 11.2 - - + -
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Residues in contact with LYS 449 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
445A THR* 2.8 27.6 + - + +
446A TYR* 3.6 11.7 - - + +
448A LEU* 1.3 75.9 - - - +
450A GLY* 1.3 58.1 + - - +
452A ILE* 3.4 4.1 + - - +
453A ALA* 2.9 29.9 + - - +
475A ALA* 4.0 22.0 - - + -
576A SER* 2.9 40.9 + - - -
577A LEU* 3.9 6.7 - - + +
578A THR* 4.1 7.5 - - - +
581A GLU* 2.8 50.1 + - - +
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Residues in contact with GLY 450 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
446A TYR 3.1 7.6 + - - -
447A VAL 3.1 6.9 + - - -
449A LYS* 1.3 75.4 - - - +
451A HIS* 1.3 65.3 + - - +
453A ALA* 3.2 1.3 + - - +
454A VAL* 3.1 20.4 + - - +
471A PHE 3.9 5.4 - - - -
472A ALA* 3.3 42.7 - - - -
475A ALA* 5.1 2.8 - - - +
524A PRO* 4.1 2.2 - - - -
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Residues in contact with HIS 451 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
447A VAL 2.8 14.2 + - - +
448A LEU* 3.4 15.7 - - + +
450A GLY* 1.3 78.4 - - - +
452A ILE* 1.3 58.7 + - + +
455A SER* 3.0 16.2 + - - -
522A ASP* 2.6 62.4 + - - +
524A PRO* 3.6 8.4 - - + +
536A ILE* 2.9 36.5 + - + +
538A ASN* 3.5 38.6 + - + +
540A VAL* 5.7 0.2 - - - +
567A ILE* 5.1 1.5 - - + +
584A TRP* 4.1 23.3 - + - -
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Residues in contact with ILE 452 (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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448A LEU* 2.9 42.1 + - + +
449A LYS* 3.9 3.1 - - - +
451A HIS* 1.3 75.7 - - + +
453A ALA* 1.3 61.6 + - - +
455A SER* 4.4 4.5 - - - +
456A ALA* 2.8 36.6 + - + +
577A LEU* 5.5 1.8 - - + -
580A LYS* 5.4 3.8 - - + -
581A GLU* 3.8 44.4 - - + +
584A TRP* 3.6 56.1 - - + -
585A LEU* 4.9 2.9 - - + -
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Residues in contact with ALA 453 (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 LYS 2.9 17.6 + - - +
450A GLY 3.2 1.3 + - - +
452A ILE* 1.3 77.4 - - - +
454A VAL* 1.3 61.2 + - - +
456A ALA* 4.3 1.5 - - - -
457A ALA* 3.4 20.8 + - - +
471A PHE* 3.4 40.0 - - + +
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Residues in contact with VAL 454 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
450A GLY 3.1 7.8 + - - +
451A HIS 3.8 0.7 - - - +
453A ALA* 1.3 76.2 - - - +
455A SER* 1.3 66.7 + - - +
457A ALA* 3.1 20.8 + - - +
468A LEU* 3.7 24.2 - - + +
471A PHE* 4.2 2.7 - - + -
472A ALA* 3.7 33.4 - - + +
487A THR* 4.2 5.8 - - + -
504A ILE* 4.0 18.6 - - + -
522A ASP* 3.6 27.8 - - + +
559A LEU* 3.4 25.9 - - + +
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Residues in contact with SER 455 (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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451A HIS* 3.0 15.7 + - - -
452A ILE 4.1 1.1 - - - -
454A VAL* 1.3 77.3 - - - +
456A ALA* 1.3 60.7 + - - +
457A ALA 3.3 0.4 + - - -
522A ASP* 3.4 15.2 + - - -
538A ASN* 5.7 0.3 + - - -
540A VAL* 4.0 16.9 - - - +
558A THR* 3.6 3.6 + - - -
559A LEU* 3.4 34.1 + - - +
561A PRO* 4.2 10.6 - - - +
584A TRP* 3.6 31.7 + - - -
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Residues in contact with ALA 456 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
452A ILE* 2.8 24.7 + - + +
453A ALA* 4.3 2.2 - - - +
455A SER* 1.3 71.3 - - - +
457A ALA* 1.3 67.6 + - - +
458A VAL* 3.5 11.6 + - - +
558A THR* 3.9 4.0 + - - -
580A LYS* 4.2 31.4 + - + -
584A TRP* 4.0 23.6 - - + +
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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