Contacts of the helix formed by residues 591 - 605 (chain A) in PDB entry 2O2C
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 591 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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590A HIS* 1.3 80.2 - - - +
592A SER* 1.3 59.1 + - - +
593A SER* 3.1 18.2 + - - -
594A THR* 2.8 39.7 + - - -
595A ASN* 2.9 26.1 + - - -
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Residues in contact with SER 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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590A HIS 4.0 0.2 + - - -
591A ASP* 1.3 72.6 - - - +
593A SER* 1.3 57.8 + - - +
595A ASN* 3.9 9.7 - - - +
596A GLY* 3.0 23.7 + - - -
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Residues in contact with SER 593 (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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591A ASP* 3.1 10.8 + - - -
592A SER* 1.3 77.1 + - - +
594A THR* 1.3 62.3 + - - +
596A GLY* 3.2 3.1 + - - -
597A LEU* 2.9 45.7 + - - +
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Residues in contact with THR 594 (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 ILE* 4.2 11.7 - - + -
590A HIS* 3.8 22.2 - - + +
591A ASP* 2.8 28.9 + - - -
593A SER* 1.3 75.8 + - - +
595A ASN* 1.3 62.7 + - - +
597A LEU* 3.4 9.7 + - + +
598A ILE* 3.0 50.8 + - + +
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Residues in contact with ASN 595 (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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587A VAL* 3.6 19.0 - - - +
588A ASN* 3.4 27.8 + - - +
590A HIS* 2.9 49.8 + - - +
591A ASP 2.9 16.5 + - - +
592A SER* 3.9 8.6 - - - +
594A THR* 1.3 76.6 - - - +
596A GLY* 1.3 56.3 + - - +
598A ILE* 3.9 1.0 - - - +
599A ASN* 2.9 39.6 + - - +
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Residues in contact with GLY 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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592A SER 3.0 15.7 + - - -
593A SER* 3.2 3.8 + - - -
595A ASN* 1.3 76.1 - - - +
597A LEU* 1.3 56.2 + - - +
599A ASN* 4.0 6.5 - - - +
600A MET* 3.1 32.3 + - - +
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Residues in contact with LEU 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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593A SER* 2.9 34.3 + - - +
594A THR* 3.8 8.3 - - + +
595A ASN 3.3 0.2 - - - -
596A GLY* 1.3 74.7 - - - +
598A ILE* 1.3 60.8 + - + +
600A MET* 3.4 13.0 + - + +
601A PHE* 3.0 28.5 + - - +
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Residues in contact with ILE 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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577A ILE* 3.9 25.1 - - + -
580A GLN* 4.1 5.8 - - + +
581A LEU* 3.9 16.4 - - + -
587A VAL* 3.8 20.4 - - + -
590A HIS* 3.8 24.7 - - + +
594A THR* 3.0 39.0 + - + +
595A ASN 3.9 2.9 - - - +
597A LEU* 1.3 75.5 - - + +
599A ASN* 1.3 59.1 + - - +
601A PHE* 3.3 7.1 + - - +
602A ASN* 3.0 45.7 + - - +
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Residues in contact with ASN 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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585A MET 3.9 5.8 - - - +
586A ARG* 3.3 37.3 - - + +
587A VAL* 2.9 46.7 + - - +
595A ASN* 2.9 25.5 + - - +
596A GLY* 4.0 5.8 - - - +
598A ILE* 1.3 77.1 - - - +
600A MET* 1.3 54.2 + - - +
602A ASN* 3.4 2.8 + - - +
603A GLU* 2.7 45.0 + - - +
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Residues in contact with MET 600 (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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596A GLY 3.1 22.1 + - - +
597A LEU* 3.7 13.0 - - + +
599A ASN* 1.3 73.4 - - - +
601A PHE* 1.3 64.1 + - - +
603A GLU* 3.3 17.0 + - - +
604A LEU* 3.3 38.0 + - + +
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Residues in contact with PHE 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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581A LEU* 4.2 36.3 - - + -
597A LEU 3.0 14.2 + - - +
598A ILE* 3.3 11.2 + - - +
600A MET* 1.3 79.3 - - - +
602A ASN* 1.3 69.1 + - - +
604A LEU* 3.7 1.0 - - - -
605A SER* 2.9 54.7 + - - -
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Residues in contact with ASN 602 (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 GLN 2.9 21.8 + - - -
581A LEU* 3.5 9.2 - - - +
582A ARG 3.2 31.7 + - - +
583A PRO* 3.5 6.9 - - - +
584A GLY* 2.9 23.5 + - - +
585A MET* 2.9 31.3 + - - +
587A VAL* 5.1 0.8 - - - +
598A ILE* 3.0 27.6 + - - +
599A ASN 3.7 3.4 - - - +
601A PHE* 1.3 83.5 - - - +
603A GLU* 1.3 65.5 + - - +
605A SER* 3.7 8.2 + - - -
606A HIS 4.2 2.4 - - - +
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Residues in contact with GLU 603 (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 GLY* 4.9 5.6 - - - +
586A ARG* 5.1 10.0 + - + +
599A ASN* 2.7 31.1 + - - +
600A MET* 3.6 22.0 + - - +
601A PHE 3.3 0.4 - - - -
602A ASN* 1.3 79.3 - - - +
604A LEU* 1.3 70.7 + - + +
606A HIS 4.1 8.9 - - - +
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Residues in contact with LEU 604 (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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600A MET* 3.3 31.9 + - + +
601A PHE* 3.7 1.3 - - - +
603A GLU* 1.3 91.6 - - + +
605A SER* 1.3 62.6 + - - +
606A HIS* 3.2 5.3 + - - -
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Residues in contact with SER 605 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
582A ARG 5.0 0.2 - - - -
583A PRO* 3.8 18.0 - - - +
601A PHE* 2.9 47.4 + - - -
602A ASN* 3.7 13.5 + - - -
603A GLU 3.8 0.2 - - - -
604A LEU* 1.3 73.8 - - - +
606A HIS* 1.3 64.8 + - - +
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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