Contacts of the helix formed by residues 575 - 590 (chain A) in PDB entry 2CEA
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 TYR 575 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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429A VAL* 4.1 16.6 - - + -
433A VAL* 3.7 33.4 - - + +
571A ILE* 2.9 35.6 + - + +
572A ILE* 3.2 4.0 + - - +
574A LYS* 1.3 113.3 + - + +
576A ARG* 1.3 64.2 + - - +
577A LYS 3.2 2.5 - - - -
578A GLN* 3.2 29.7 + - + -
579A LEU* 2.9 21.1 + - - +
601A LEU* 4.3 18.2 - - + -
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Residues in contact with ARG 576 (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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422A TYR* 5.1 1.2 + - - -
488A VAL* 3.9 20.3 + - - +
489A VAL* 3.7 48.8 + - - +
572A ILE 3.0 13.5 + - - +
573A ARG* 3.6 13.0 + - - +
574A LYS 3.5 3.0 + - - -
575A TYR* 1.3 75.2 - - - +
577A LYS* 1.3 69.1 + - + +
579A LEU* 3.0 11.5 + - - +
580A ASP* 2.9 48.8 + - - +
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Residues in contact with LYS 577 (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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574A LYS 5.8 3.1 - - - -
575A TYR 3.2 1.0 - - - -
576A ARG* 1.3 81.4 - - + +
578A GLN* 1.3 72.4 + - - +
580A ASP* 3.2 13.3 + - - +
581A ASN* 3.0 31.3 + - - +
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Residues in contact with GLN 578 (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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574A LYS 4.2 2.9 - - - +
575A TYR* 3.2 43.4 - - + +
576A ARG 3.9 0.2 + - - -
577A LYS* 1.3 91.1 + - - +
579A LEU* 1.3 65.9 - - - +
581A ASN* 3.1 5.9 + - - +
582A ILE* 2.9 30.5 + - - +
600A ILE* 3.9 24.8 + - + +
601A LEU* 3.6 31.4 - - + +
602A SER* 4.9 6.3 + - - -
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Residues in contact with LEU 579 (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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422A TYR* 3.9 29.4 - - + +
425A ALA* 3.2 45.1 - - + +
426A GLY* 4.0 3.8 - - - +
429A VAL* 4.2 11.1 - - + +
485A ALA* 4.2 5.8 - - + -
489A VAL* 4.3 5.4 - - + -
572A ILE* 3.7 35.9 - - + +
575A TYR* 2.9 14.0 + - + +
576A ARG* 3.3 12.1 - - - +
578A GLN* 1.3 76.2 - - - +
580A ASP* 1.3 58.6 + - - +
582A ILE* 3.0 11.1 + - - +
583A VAL* 2.9 28.9 + - - +
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Residues in contact with ASP 580 (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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422A TYR* 2.6 39.3 + - - +
576A ARG* 2.9 43.3 + - - +
577A LYS* 3.3 12.9 - - - +
579A LEU* 1.3 76.1 - - - +
581A ASN* 1.3 61.3 + - - +
583A VAL* 3.4 3.1 + - - +
584A GLU* 2.8 31.0 + - - +
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Residues in contact with ASN 581 (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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577A LYS* 3.0 20.4 + - - +
578A GLN* 3.1 9.4 + - - +
580A ASP* 1.3 77.4 - - - +
582A ILE* 1.3 64.3 + - - +
584A GLU* 3.1 22.0 - - - +
585A ILE* 3.0 26.1 + - + +
600A ILE* 4.0 25.0 - - + +
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Residues in contact with ILE 582 (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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425A ALA* 3.8 20.0 - - + -
429A VAL* 3.7 24.5 - - + -
443A ILE* 4.7 4.5 - - + -
578A GLN 2.9 22.8 + - - +
579A LEU* 3.3 7.2 - - - +
581A ASN* 1.3 75.0 - - - +
583A VAL* 1.3 66.9 + - - +
585A ILE* 3.2 6.0 + - - +
586A LEU* 2.9 24.0 + - + +
592A ILE* 4.1 19.0 - - + +
597A LEU* 3.4 31.2 - - + +
600A ILE* 4.1 24.7 - - + -
601A LEU* 4.3 9.6 - - + -
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Residues in contact with VAL 583 (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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418A ARG* 5.4 0.9 - - - +
421A ALA* 3.6 36.3 - - + +
422A TYR* 3.6 50.9 - - + +
425A ALA* 3.8 7.9 - - + -
579A LEU 2.9 16.8 + - - +
580A ASP 3.8 3.8 - - - +
582A ILE* 1.3 78.2 - - - +
584A GLU* 1.3 64.5 + - - +
586A LEU* 2.9 6.6 + - - -
587A LEU* 2.9 39.9 + - + +
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Residues in contact with GLU 584 (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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580A ASP* 2.8 14.9 + - - +
581A ASN* 3.1 31.6 - - - +
583A VAL* 1.3 78.7 - - - +
585A ILE* 1.3 59.9 + - + +
587A LEU* 4.0 6.7 + - - +
588A GLU* 3.7 23.7 + - - +
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Residues in contact with ILE 585 (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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581A ASN* 3.0 9.5 + - + +
582A ILE* 3.6 6.3 - - - +
584A GLU* 1.3 78.0 - - + +
586A LEU* 1.3 62.0 + - - +
588A GLU* 3.1 7.7 + - - +
589A LYS* 3.0 45.4 + - + +
592A ILE* 3.6 23.8 - - + -
596A GLU* 3.9 20.6 - - + +
600A ILE* 3.1 36.8 - - + -
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Residues in contact with LEU 586 (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 ALA* 4.0 22.2 - - + +
424A GLU* 4.6 0.7 - - + -
425A ALA* 4.7 2.9 - - + +
443A ILE* 3.9 25.8 - - + +
445A ILE* 3.7 29.1 - - + +
582A ILE* 2.9 24.8 + - + +
583A VAL* 2.9 6.3 + - - +
585A ILE* 1.3 78.7 - - - +
587A LEU* 1.3 56.7 + - - +
590A GLU* 2.7 36.8 + - - +
591A THR* 3.8 10.5 - - - +
592A ILE* 3.1 42.2 - - + +
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Residues in contact with LEU 587 (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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414A PRO 5.6 0.2 - - - +
417A LYS* 2.9 75.4 + - + +
418A ARG* 4.1 24.5 - - + +
421A ALA* 4.0 7.2 - - + -
445A ILE* 4.3 2.9 - - + -
583A VAL* 2.9 36.0 + - + +
584A GLU* 4.1 6.5 - - - +
586A LEU* 1.3 77.3 - - - +
588A GLU* 1.3 62.9 + - - +
590A GLU* 4.4 2.3 + - - +
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Residues in contact with GLU 588 (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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333A MET* 3.6 17.7 - - + +
356A GLU* 4.0 8.5 - - - +
360A LYS* 3.1 48.1 + - - +
584A GLU* 3.7 15.9 + - - +
585A ILE* 3.1 11.4 + - - +
587A LEU* 1.3 82.4 - - - +
589A LYS* 1.3 67.8 + - + +
590A GLU* 5.2 1.9 - - - +
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Residues in contact with LYS 589 (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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332A ASP* 3.9 5.9 - - - +
333A MET* 3.5 30.5 + - + +
334A LEU* 4.6 27.5 + - + +
585A ILE* 3.0 32.5 + - + +
588A GLU* 1.3 85.9 - - + +
590A GLU* 1.3 66.9 + - - +
591A THR 3.1 25.6 + - - +
592A ILE* 5.5 0.2 - - - +
593A GLU* 6.3 0.8 - - - +
596A GLU* 3.4 25.1 + - - -
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Residues in contact with GLU 590 (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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332A ASP* 3.7 4.6 - - + -
333A MET* 3.3 12.7 + - - +
336A ARG* 2.9 45.2 + - - -
360A LYS* 5.1 2.8 - - - +
363A PRO* 4.1 14.3 - - - +
417A LYS* 4.4 15.5 + - - +
444A SER* 3.4 1.7 + - - -
445A ILE* 3.0 49.2 + - + +
446A ILE* 4.8 10.4 + - + +
586A LEU* 2.7 27.5 + - - +
587A LEU 5.0 0.9 - - - +
588A GLU 3.6 1.7 - - - +
589A LYS* 1.3 71.3 - - - +
591A THR* 1.3 62.4 + - - +
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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