Contacts of the helix formed by residues 574 - 588 (chain A) in PDB entry 1Z7B
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 ILE 574 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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511A ALA* 4.7 18.8 - - + -
515A LEU* 4.6 17.4 - - + +
526A LYS 4.7 8.7 - - - +
527A LEU* 4.2 16.2 - - + +
528A ILE 5.9 0.4 - - - +
531A GLY* 3.3 11.2 + - - +
533A GLN* 3.1 31.7 + - + +
535A ARG* 4.0 27.1 - - + +
537A PHE* 5.3 0.4 - - + -
573A SER* 1.3 73.8 - - - +
575A GLU* 1.3 57.2 + - - +
577A LEU* 3.7 13.2 - - + +
578A GLY* 3.0 23.7 + - - -
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Residues in contact with GLU 575 (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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527A LEU* 3.7 29.4 - - + +
530A GLY* 3.6 19.2 - - - +
531A GLY 3.0 18.6 + - - +
532A LYS* 5.9 0.9 - - - -
573A SER* 3.8 4.8 + - - +
574A ILE* 1.3 75.5 - - - +
576A GLU* 1.3 62.7 + - + +
578A GLY* 3.2 3.1 + - - -
579A GLU* 3.0 47.7 + - + +
600A PHE* 4.5 3.8 - - + -
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Residues in contact with GLU 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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534A LYS* 4.9 7.8 + - - -
571A GLU 5.0 0.4 - - - +
572A ALA* 3.7 12.7 - - + -
573A SER* 3.0 41.2 + - - +
575A GLU* 1.3 76.1 - - + +
577A LEU* 1.3 60.0 + - - +
579A GLU* 3.2 18.8 + - - +
580A MET* 2.8 37.8 + - + +
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Residues in contact with LEU 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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511A ALA* 5.1 4.0 - - + -
512A ILE* 3.6 15.0 - - + +
515A LEU* 3.5 24.7 - - + -
537A PHE* 3.3 49.8 - - + -
572A ALA* 4.4 6.2 - - + +
573A SER 2.9 17.0 + - - +
574A ILE* 3.7 9.6 - - + +
576A GLU* 1.3 75.8 - - - +
578A GLY* 1.3 64.4 + - - +
580A MET* 3.1 7.4 + - + +
581A LEU* 2.9 28.1 + - + +
638A MET* 5.1 4.0 - - - -
642A ILE* 3.6 30.3 - - + -
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Residues in contact with GLY 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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515A LEU* 4.2 13.2 - - - +
525A ILE* 4.4 11.0 - - - +
574A ILE 3.0 15.6 + - - -
575A GLU 3.2 4.7 + - - -
576A GLU 3.2 0.4 - - - -
577A LEU* 1.3 77.2 - - - +
579A GLU* 1.3 59.9 + - - +
581A LEU* 3.5 3.6 + - - +
582A LEU* 3.1 23.9 + - - +
600A PHE* 3.8 19.9 - - - -
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Residues in contact with GLU 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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575A GLU* 3.0 27.1 + - + +
576A GLU* 3.2 25.8 + - - +
578A GLY* 1.3 76.3 - - - +
580A MET* 1.3 57.9 + - + +
582A LEU* 3.4 5.3 + - - +
583A ALA* 3.0 30.0 + - - +
600A PHE* 4.0 21.5 - - + -
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Residues in contact with MET 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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572A ALA* 5.2 7.4 - - - -
576A GLU* 2.8 25.2 + - + +
577A LEU* 3.1 9.2 + - - +
579A GLU* 1.3 75.9 - - + +
581A LEU* 1.3 63.4 + - - +
583A ALA* 3.6 5.3 + - - +
584A SER* 3.1 23.4 + - - -
638A MET* 3.5 37.5 - - + +
639A GLN* 3.3 32.9 + - - +
642A ILE* 4.0 21.2 - - + +
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Residues in contact with LEU 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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494A MET* 5.5 4.0 - - + -
512A ILE* 4.4 7.0 - - + +
515A LEU* 3.6 43.3 - - + -
516A ILE* 4.1 28.3 - - + +
519A LEU* 4.1 11.0 - - + -
525A ILE* 6.0 0.9 - - + -
577A LEU* 2.9 19.4 + - + +
578A GLY* 3.9 4.5 - - - +
580A MET* 1.3 73.4 - - - +
582A LEU* 1.3 55.6 + - - +
584A SER* 3.3 2.3 + - - -
585A PHE* 2.7 37.3 + - - +
642A ILE* 3.8 32.3 - - + +
645A THR* 6.2 0.2 - - - -
646A LEU* 3.7 18.7 - - + +
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Residues in contact with LEU 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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519A LEU* 4.1 13.8 - - + +
525A ILE* 5.5 0.2 - - + -
578A GLY 3.1 17.9 + - - +
579A GLU* 3.6 7.2 - - + +
581A LEU* 1.3 75.6 - - - +
583A ALA* 1.3 53.0 + - - +
585A PHE* 3.0 8.8 + - + +
586A GLU* 2.7 67.2 + - + +
597A PHE* 3.5 55.2 - - + -
600A PHE* 4.1 11.7 - - + -
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Residues in contact with ALA 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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579A GLU 3.0 14.1 + - - +
580A MET* 3.9 6.1 - - - +
582A LEU* 1.3 81.7 - - - +
584A SER* 1.3 62.2 + - - +
586A GLU* 3.4 8.3 + - - +
587A LYS* 3.3 21.1 + - - +
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Residues in contact with SER 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 MET 3.1 16.2 + - - -
581A LEU 3.7 3.6 - - - -
583A ALA* 1.3 78.6 - - - +
585A PHE* 1.3 62.2 + - - +
587A LYS* 3.5 6.1 + - - +
588A HIS* 3.3 22.9 + - - +
639A GLN* 4.8 2.9 - - - -
642A ILE* 4.1 8.1 - - - -
643A ASP* 2.8 35.8 + - - -
646A LEU* 3.5 16.3 - - - +
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Residues in contact with PHE 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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519A LEU* 3.7 60.3 - - + -
581A LEU 2.7 20.8 + - - +
582A LEU* 3.2 13.0 - - + +
584A SER* 1.3 71.3 - - - +
586A GLU* 1.3 65.6 + - - +
588A HIS* 3.1 18.8 + - - +
591A ARG* 3.4 56.9 - - - +
594A PHE* 3.8 15.5 - + + -
595A PRO 4.5 1.1 - - - -
597A PHE* 5.5 3.1 - - + -
646A LEU* 3.5 9.8 - - + +
650A LEU* 4.1 34.1 - - + -
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Residues in contact with GLU 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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582A LEU* 2.7 59.0 + - + +
583A ALA* 3.4 7.4 + - - +
585A PHE* 1.3 72.1 - - - +
587A LYS* 1.3 59.5 + - - +
588A HIS 3.6 0.9 + - - +
591A ARG* 3.2 38.6 + - - +
597A PHE* 4.7 5.9 - - - +
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Residues in contact with LYS 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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583A ALA 3.3 13.8 + - - +
584A SER* 3.9 6.1 - - - +
585A PHE 3.2 1.2 - - - -
586A GLU* 1.3 77.3 - - - +
588A HIS* 1.3 62.4 + - - +
589A PRO* 3.7 4.7 - - - +
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Residues in contact with HIS 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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584A SER* 3.3 12.4 + - - +
585A PHE 3.1 15.3 + - - +
586A GLU 3.4 0.9 - - - +
587A LYS* 1.3 77.9 - - - +
589A PRO* 1.3 77.8 - - + +
590A LEU* 2.8 48.5 + - + +
591A ARG* 3.1 22.3 + - - +
643A ASP 5.8 0.2 - - - -
646A LEU* 5.3 2.7 - - + -
647A ASP* 2.8 41.9 + - + -
650A LEU* 3.5 32.6 - - + +
651A ARG* 4.0 8.0 + - + -
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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