Contacts of the helix formed by residues 782 - 800 (chain A) in PDB entry 1OH7
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 PRO 782 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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780A GLY 3.3 5.3 - - - +
781A VAL* 1.3 91.3 - - + +
783A LYS* 1.3 66.9 + - - +
784A GLU* 4.4 8.1 - - + +
785A VAL* 2.9 29.2 + - + +
786A ILE* 3.3 7.1 + - - +
678B ALA 4.4 6.3 - - - +
681B LEU* 3.7 36.1 - - + +
682B HIS* 3.9 24.9 - - + +
714B ASN* 5.1 2.0 - - - +
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Residues in contact with LYS 783 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
754A ASP* 4.5 24.0 + - - +
777A ALA* 6.0 7.0 - - - -
781A VAL 3.4 2.9 + - - -
782A PRO* 1.3 68.9 - - - +
784A GLU* 1.3 64.3 + - - +
785A VAL 3.0 0.5 + - - -
786A ILE* 3.2 10.0 + - - +
787A LYS* 2.9 23.8 + - - +
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Residues in contact with GLU 784 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
782A PRO* 3.2 7.2 + - + +
783A LYS* 1.3 78.7 - - - +
785A VAL* 1.3 59.6 + - + +
787A LYS* 3.4 40.5 + - - +
788A ARG* 3.7 9.8 + - - +
714B ASN* 4.8 12.6 - - - +
718B LYS* 6.4 1.3 - - + -
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Residues in contact with VAL 785 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
781A VAL* 3.7 20.0 - - + -
782A PRO* 2.9 22.1 + - + +
784A GLU* 1.3 75.8 - - + +
786A ILE* 1.3 69.5 + - - +
787A LYS 3.1 1.3 - - - -
788A ARG* 3.1 4.9 + - - -
789A ALA* 2.9 21.3 + - - +
681B LEU* 4.6 4.9 - - + -
707B LEU* 4.8 7.0 - - + -
710B ALA* 3.8 22.2 - - + +
711B CYS* 4.5 14.1 - - - +
714B ASN* 3.6 41.5 - - + +
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Residues in contact with ILE 786 (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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773A LEU* 3.9 24.9 - - + +
776A ALA* 3.9 13.0 - - + -
777A ALA* 3.9 20.9 - - + +
781A VAL* 3.5 39.5 - - + +
782A PRO 3.7 1.6 - - - +
783A LYS* 3.5 10.1 - - - +
785A VAL* 1.3 77.3 - - - +
787A LYS* 1.3 62.0 + - - +
789A ALA* 3.7 4.1 - - - +
790A ARG* 3.1 46.0 + - - +
707B LEU* 3.9 10.3 - - + -
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Residues in contact with LYS 787 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
783A LYS 2.9 12.3 + - - +
784A GLU* 3.4 37.8 + - - +
785A VAL 3.1 0.4 - - - -
786A ILE* 1.3 77.5 - - - +
788A ARG* 1.3 62.2 + - - +
790A ARG* 3.5 9.5 - - - +
791A GLN* 3.2 34.9 + - - +
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Residues in contact with ARG 788 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
784A GLU* 3.7 9.1 + - - +
785A VAL* 3.1 7.8 + - - +
787A LYS* 1.3 77.3 - - - +
789A ALA* 1.3 66.1 + - - +
790A ARG 3.2 0.2 - - - -
791A GLN* 3.0 51.3 + - - +
792A LYS* 3.0 19.8 + - + +
795A GLU* 3.4 31.1 + - - -
709B TRP* 3.7 14.0 - - + +
710B ALA* 4.2 16.4 - - + +
713B GLU* 2.8 48.9 + - + +
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Residues in contact with ALA 789 (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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773A LEU* 3.8 26.0 - - + -
785A VAL 2.9 15.5 + - - +
786A ILE* 3.7 9.4 - - - +
788A ARG* 1.3 75.0 - - - +
790A ARG* 1.3 57.5 + - - +
792A LYS* 3.1 2.6 + - - +
793A LEU* 2.9 26.5 + - - +
706B SER* 3.4 34.3 - - - +
707B LEU* 4.3 7.6 - - + +
710B ALA* 3.6 4.7 - - + +
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Residues in contact with ARG 790 (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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751A GLU* 3.9 21.0 + - - -
769A LYS* 5.6 5.7 - - - +
773A LEU* 3.6 36.8 - - + +
774A ALA* 4.6 6.9 - - - +
786A ILE* 3.1 27.4 + - - +
787A LYS* 3.5 13.0 - - - +
789A ALA* 1.3 78.1 - - - +
791A GLN* 1.3 61.3 + - - +
793A LEU* 3.8 7.3 - - + +
794A ARG* 3.3 39.3 + - - +
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Residues in contact with GLN 791 (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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787A LYS* 3.2 32.2 + - - +
788A ARG* 3.0 45.2 + - - +
790A ARG* 1.3 79.0 - - - +
792A LYS* 1.3 62.2 + - - +
794A ARG* 3.4 9.1 + - - +
795A GLU* 3.2 26.9 + - - +
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Residues in contact with LYS 792 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
788A ARG* 3.0 17.9 + - - +
789A ALA 3.1 4.0 + - - +
791A GLN* 1.3 72.7 - - - +
793A LEU* 1.3 66.5 + - - +
795A GLU* 2.9 42.1 + - - +
796A LEU* 2.9 41.8 + - + +
705B LEU* 5.1 4.5 - - + +
706B SER* 3.6 25.8 - - - +
709B TRP* 3.9 57.0 - - + +
710B ALA* 6.4 0.2 - - + -
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Residues in contact with LEU 793 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
769A LYS* 5.5 9.4 - - - +
770A SER 6.1 0.2 - - - +
773A LEU* 3.9 20.2 - - + -
789A ALA 2.9 16.7 + - - +
790A ARG* 3.8 9.6 - - + +
791A GLN 3.3 0.2 - - - -
792A LYS* 1.3 73.5 - - - +
794A ARG* 1.3 53.3 + - - +
796A LEU* 2.7 25.9 + - - +
797A GLU* 2.8 45.1 + - + +
702B TYR* 3.6 30.7 - - + -
703B ASP* 3.5 27.8 - - - +
706B SER* 3.1 8.0 + - - +
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Residues in contact with ARG 794 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
790A ARG* 3.3 25.0 + - - +
791A GLN* 3.4 11.9 - - - +
792A LYS 3.2 0.2 - - - -
793A LEU* 1.3 79.9 - - - +
795A GLU* 1.3 60.8 + - - +
797A GLU* 3.6 14.7 + - + +
798A SER* 3.5 20.3 + - - -
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Residues in contact with GLU 795 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
788A ARG* 3.4 23.3 + - - -
791A GLN* 3.2 15.1 + - - +
792A LYS* 2.9 44.9 + - - +
794A ARG* 1.3 79.2 - - + +
796A LEU* 1.3 59.9 + - - +
798A SER* 2.9 23.3 + - - -
799A ILE* 3.8 8.4 + - - +
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Residues in contact with LEU 796 (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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792A LYS* 2.9 32.5 + - + +
793A LEU* 2.7 12.7 + - - +
795A GLU* 1.3 68.6 - - - +
797A GLU* 1.3 56.2 + - - +
798A SER 3.1 8.3 + - - -
799A ILE* 3.4 30.0 + - + +
800A SER 4.3 1.2 + - - -
702B TYR* 3.4 63.8 + - + +
705B LEU* 3.8 29.4 - - + -
706B SER* 3.5 25.1 - - - +
731B GLU* 6.3 0.7 - - + -
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Residues in contact with GLU 797 (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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793A LEU* 2.8 51.7 + - + +
794A ARG* 4.0 13.0 + - + +
795A GLU 3.3 0.6 - - - -
796A LEU* 1.3 75.5 - - - +
798A SER* 1.3 57.9 + - - +
799A ILE 3.5 0.2 - - - -
800A SER* 3.1 22.1 - - - +
702B TYR* 4.6 12.5 - - + -
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Residues in contact with SER 798 (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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794A ARG 3.5 11.5 + - - -
795A GLU* 2.9 19.8 + - - -
796A LEU 3.1 1.2 - - - -
797A GLU* 1.3 78.0 - - - +
799A ILE* 1.3 67.4 + - - +
800A SER* 3.3 8.5 + - - +
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Residues in contact with ILE 799 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
795A GLU 3.8 4.9 + - - +
796A LEU* 3.6 39.0 - - + +
798A SER* 1.3 80.2 + - - +
800A SER* 1.3 61.9 + - - +
702B TYR* 3.9 16.6 - - + +
799B ILE* 3.2 41.1 - - + +
800B SER* 5.7 6.3 - - - +
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Residues in contact with SER 800 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
796A LEU 4.3 2.6 + - - -
797A GLU* 3.1 23.2 + - - +
798A SER* 3.6 9.5 - - - +
799A ILE* 1.3 82.0 - - - +
702B TYR* 5.1 5.3 + - - -
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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
------------------------------------------------------------
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