Contacts of the helix formed by residues 585 - 601 (chain A) in PDB entry 2OZO
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 585 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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453A GLU* 3.5 15.3 - - - +
519A ARG* 3.8 26.3 + - - +
522A VAL* 4.2 1.6 - - - -
583A ARG 3.7 0.4 + - - -
584A PRO* 1.3 74.5 - - - +
586A PHE* 1.3 59.9 + - - +
587A LEU* 3.1 17.1 + - - +
588A THR* 2.8 27.9 + - - -
589A VAL* 2.9 24.6 + - - +
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Residues in contact with PHE 586 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
446A SER* 4.8 5.2 - - - -
449A MET* 3.6 43.5 - - + -
450A LYS* 3.7 21.9 - - - +
453A GLU* 2.9 24.8 + - + +
462A LEU* 4.4 0.2 - - + -
518A SER* 3.5 8.1 - - - -
521A ASP* 3.6 18.4 - - + -
522A VAL* 3.4 46.9 - - + -
525A TYR* 3.8 29.6 - + + -
585A ASP* 1.3 69.2 - - - +
587A LEU* 1.3 56.8 + - - +
589A VAL* 3.6 16.4 - - + -
590A GLU* 2.7 36.2 + - - +
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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
----------------------------------------------------------
450A LYS* 3.3 41.4 + - + +
453A GLU* 3.7 10.0 + - - +
454A GLU* 5.1 2.5 - - + +
585A ASP* 3.1 16.3 + - - +
586A PHE* 1.3 77.7 - - - +
588A THR* 1.3 64.8 + - - +
590A GLU* 3.9 3.3 - - - +
591A GLN* 3.2 39.2 + - - +
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Residues in contact with THR 588 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
584A PRO* 3.9 19.1 - - + -
585A ASP* 2.8 22.6 + - - -
587A LEU* 1.3 77.1 - - - +
589A VAL* 1.3 64.7 + - - +
591A GLN* 3.2 12.7 + - + +
592A ARG* 3.0 43.0 + - + +
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Residues in contact with VAL 589 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
446A SER* 4.4 5.2 - - - -
522A VAL* 3.9 24.0 - - + -
525A TYR* 3.8 32.1 - - + +
571A LEU* 4.3 19.4 - - + +
575A CYS* 4.5 6.7 - - - -
584A PRO* 4.0 11.9 - - + -
585A ASP 2.9 24.4 + - - +
586A PHE* 3.3 18.6 + - + +
588A THR* 1.3 77.6 - - - +
590A GLU* 1.3 57.8 + - - +
592A ARG* 3.3 2.1 + - - +
593A MET* 2.8 28.3 + - + +
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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
----------------------------------------------------------
143A ILE* 4.1 4.7 - - - +
443A HIS* 2.8 28.7 + - - +
446A SER* 3.8 40.2 - - - +
447A MET* 4.2 9.4 - - + -
450A LYS* 4.0 25.4 + - + +
586A PHE 2.7 22.3 + - - +
587A LEU 3.9 3.3 - - - +
589A VAL* 1.3 71.8 - - - +
591A GLN* 1.3 67.1 + - - +
593A MET 4.5 0.2 - - - +
594A ARG* 3.0 47.1 + - - +
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Residues in contact with GLN 591 (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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450A LYS* 6.2 0.9 - - - +
587A LEU* 3.2 31.6 + - - +
588A THR* 3.2 14.6 + - - +
590A GLU* 1.3 83.9 - - - +
592A ARG* 1.3 66.5 + - + +
594A ARG* 3.1 19.7 + - - +
595A ALA* 3.1 22.4 + - - +
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Residues in contact with ARG 592 (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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567A GLU 4.9 1.4 + - - -
570A ALA* 3.9 6.3 + - - +
571A LEU* 3.3 47.9 - - + +
574A ASP* 2.8 38.4 + - - +
584A PRO* 4.0 12.1 - - - +
588A THR* 3.0 32.4 + - + +
589A VAL 3.7 3.6 - - - +
591A GLN* 1.3 77.7 - - + +
593A MET* 1.3 61.3 + - - +
594A ARG 3.1 0.2 + - - -
595A ALA* 3.3 7.0 + - - +
596A CYS* 3.0 31.5 + - - -
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Residues in contact with MET 593 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
439A ALA* 4.2 14.1 - - - +
442A LEU* 4.0 30.1 - - + +
443A HIS* 4.2 6.6 - - + +
446A SER* 4.0 14.6 - - - +
525A TYR* 3.1 21.1 - - + +
529A MET* 3.5 25.1 - - + -
568A LEU* 3.3 34.3 - - + -
571A LEU* 3.6 16.1 - - + +
589A VAL 2.8 19.4 + - - +
590A GLU 4.1 1.3 - - - +
592A ARG* 1.3 73.2 - - - +
594A ARG* 1.3 56.6 + - - +
596A CYS* 4.4 2.2 - - - -
597A TYR* 3.1 29.2 + - - +
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Residues in contact with ARG 594 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143A ILE* 3.8 24.8 - - - +
443A HIS* 3.6 16.6 - - + +
450A LYS* 5.2 3.2 - - - +
590A GLU* 3.0 47.3 + - - +
591A GLN* 3.4 18.0 - - - +
592A ARG 3.0 0.8 - - - -
593A MET* 1.3 76.9 - - - +
595A ALA* 1.3 57.0 + - - +
596A CYS 3.2 0.2 - - - -
597A TYR* 3.1 2.9 + - - +
598A TYR* 2.7 79.1 + - + +
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Residues in contact with ALA 595 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7A HIS* 5.0 8.3 - - + +
591A GLN 3.1 9.3 + - - +
592A ARG* 3.7 9.6 - - - +
594A ARG* 1.3 79.3 - - - +
596A CYS* 1.3 66.9 + - - +
598A TYR* 4.0 6.8 - - - +
599A SER* 3.2 22.7 + - - -
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Residues in contact with CYS 596 (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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567A GLU* 3.6 39.9 - - - +
568A LEU* 3.7 29.4 - - + -
571A LEU* 5.4 3.6 - - - -
592A ARG* 3.0 27.8 + - - +
593A MET* 3.9 5.2 - - - +
595A ALA* 1.3 77.5 - - - +
597A TYR* 1.3 63.3 + - - +
599A SER* 2.6 24.8 + - - -
600A LEU* 3.1 13.5 + - + +
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Residues in contact with TYR 597 (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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144A SER* 3.5 22.0 + - - -
145A GLN* 5.4 0.3 - - - -
147A PRO* 4.1 16.7 - - + +
148A GLN* 5.5 1.9 + - - +
436A SER* 3.6 11.7 - - - -
439A ALA* 3.8 16.1 - - + +
440A GLU* 3.0 61.9 + - + +
443A HIS* 3.8 25.4 - - + -
593A MET* 3.1 18.4 + - - +
594A ARG 3.5 1.8 - - - +
596A CYS* 1.3 79.9 - - - +
598A TYR* 1.3 84.0 + + - +
600A LEU* 3.0 5.1 + - + +
601A ALA* 2.9 28.3 + - + +
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Residues in contact with TYR 598 (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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2A PRO* 3.8 35.0 - - + -
4A PRO* 6.0 0.6 - - - +
142A ILE* 5.8 0.2 - - - +
143A ILE* 2.4 39.5 + - - -
146A ALA* 4.1 13.6 - - + +
147A PRO* 3.5 29.9 - - + +
594A ARG* 2.7 52.8 + - + +
595A ALA* 4.0 5.6 - - - +
597A TYR* 1.3 83.0 - + - +
599A SER* 1.3 64.2 + - - +
601A ALA* 2.9 26.1 + - - +
602A SER* 4.0 2.6 + - - -
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Residues in contact with SER 599 (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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4A PRO* 5.4 5.7 - - - +
7A HIS* 3.4 49.5 + - - +
567A GLU* 5.4 3.1 + - - +
595A ALA 3.2 11.4 + - - -
596A CYS* 2.6 23.6 + - - -
598A TYR* 1.3 79.6 - - - +
600A LEU* 1.3 64.2 + - - +
601A ALA 3.4 0.3 + - - -
602A SER* 3.7 16.7 + - - -
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Residues in contact with LEU 600 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
435A VAL* 4.4 17.0 - - + +
436A SER* 3.5 29.4 - - - +
439A ALA* 3.6 27.4 - - + -
565A PRO* 4.6 27.1 - - + -
567A GLU* 5.0 7.4 - - - +
568A LEU* 4.6 7.9 - - + -
596A CYS 3.1 12.1 + - - +
597A TYR* 3.0 9.5 + - - +
599A SER* 1.3 84.1 + - - +
601A ALA* 1.3 56.8 + - - +
602A SER 2.9 8.5 + - - -
603A LYS* 3.9 7.4 + - - -
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Residues in contact with ALA 601 (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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147A PRO* 3.7 28.4 - - + +
151A LYS* 3.5 17.3 + - - +
436A SER* 4.5 7.4 - - - -
597A TYR* 2.9 25.0 + - + +
598A TYR 2.9 15.1 + - - +
600A LEU* 1.3 73.3 - - - +
602A SER* 1.3 64.6 + - - +
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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
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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