Contacts of the helix formed by residues 772 - 786 (chain A) in PDB entry 2HWK
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 ASN 772 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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737A ALA* 5.1 9.8 - - - +
738A ARG* 6.0 0.5 - - - -
743A SER* 3.9 37.5 + - - +
770A THR 3.4 6.9 + - - +
771A HIS* 1.3 70.4 - - - +
773A PRO* 1.3 60.6 - - - +
774A TYR 3.9 0.7 - - - -
775A LYS* 4.4 30.2 + - + +
776A LEU* 4.3 18.5 - - - +
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Residues in contact with PRO 773 (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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724A TYR* 3.9 5.9 + - - -
771A HIS* 2.7 35.2 - - + +
772A ASN* 1.3 75.9 - - - +
774A TYR* 1.3 96.5 + - + +
775A LYS 3.2 2.5 + - - +
776A LEU* 3.7 3.6 + - + +
777A SER* 3.2 21.9 + - - -
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Residues in contact with TYR 774 (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 PRO* 1.3 96.3 - - + +
775A LYS* 1.3 57.9 + - - +
776A LEU 3.4 0.2 - - - -
777A SER* 3.8 9.8 - - - -
778A SER* 2.6 42.7 + - - +
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Residues in contact with LYS 775 (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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743A SER 5.9 1.1 - - - +
772A ASN* 4.4 31.9 - - + +
773A PRO* 3.2 2.0 - - + +
774A TYR* 1.3 79.5 - - - +
776A LEU* 1.3 66.7 + - + +
778A SER* 3.6 4.7 - - - -
779A THR* 3.0 27.7 + - - +
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Residues in contact with LEU 776 (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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724A TYR* 3.5 17.5 - - + +
733A ILE* 4.4 22.7 - - + -
737A ALA* 4.7 8.1 - - + -
743A SER* 3.2 45.3 - - - +
744A ARG* 3.9 11.0 - - - +
745A VAL* 3.9 21.2 - - + +
759A PHE* 5.3 2.2 - - + -
761A PHE* 5.2 3.1 - - + -
772A ASN* 4.3 16.8 + - - +
773A PRO* 3.7 4.6 + - + +
774A TYR 3.4 0.2 - - - -
775A LYS* 1.3 79.0 - - + +
777A SER* 1.3 57.6 + - - +
779A THR* 3.7 5.9 - - - +
780A LEU* 2.9 34.0 + - - +
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Residues in contact with SER 777 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
607A PRO* 3.3 27.0 + - - +
608A HIS* 3.5 7.6 - - - +
724A TYR* 3.1 23.0 + - - -
773A PRO 3.2 13.6 + - - -
774A TYR* 3.4 12.7 + - - -
775A LYS 3.2 0.4 - - - -
776A LEU* 1.3 75.5 - - - +
778A SER* 1.3 59.9 + - - +
780A LEU* 3.4 1.3 + - - -
781A THR* 2.8 34.7 + - - -
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Residues in contact with SER 778 (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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774A TYR* 2.6 25.7 + - - +
775A LYS* 3.6 6.2 - - - -
777A SER* 1.3 77.0 - - - +
779A THR* 1.3 53.6 + - - +
781A THR* 3.2 6.7 + - - -
782A ASN* 2.7 47.1 + - - -
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Residues in contact with THR 779 (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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744A ARG* 4.3 17.6 + - - +
745A VAL* 3.6 31.4 - - + +
775A LYS* 3.0 17.6 + - - +
776A LEU* 3.7 9.0 - - - +
778A SER* 1.3 79.4 - - - +
780A LEU* 1.3 57.7 + - - +
782A ASN* 3.8 7.7 - - - +
783A ILE* 2.9 47.2 + - + +
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Residues in contact with LEU 780 (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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608A HIS* 3.5 36.3 - - + +
723A GLY* 4.1 5.4 - - - -
724A TYR* 3.6 27.6 - - + -
745A VAL* 3.6 30.3 - - + -
757A VAL* 3.9 17.9 - - + -
759A PHE* 4.5 4.5 - - + -
776A LEU 2.9 22.9 + - - +
777A SER 3.7 3.4 - - - +
779A THR* 1.3 75.9 - - - +
781A THR* 1.3 57.5 + - - +
783A ILE* 3.2 3.1 + - - +
784A TYR* 2.8 54.3 + - + +
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Residues in contact with THR 781 (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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607A PRO 4.6 0.3 + - - -
608A HIS* 3.1 6.8 - - - +
609A ALA* 3.0 39.4 + - + +
777A SER 2.8 23.8 + - - -
778A SER* 3.5 7.6 - - - +
780A LEU* 1.3 73.2 - - - +
782A ASN* 1.3 67.2 + - - +
785A THR* 2.8 35.2 + - + +
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Residues in contact with ASN 782 (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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778A SER* 2.7 32.9 + - - +
779A THR* 3.9 6.4 - - - +
781A THR* 1.3 77.6 - - - +
783A ILE* 1.3 63.7 + - + +
785A THR* 3.4 4.2 + - - -
786A GLY 3.0 5.2 + - - -
787A SER* 2.7 58.2 + - - +
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Residues in contact with ILE 783 (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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745A VAL* 3.8 32.1 - - + +
747A LYS* 3.8 45.5 - - + +
754A GLU 5.2 0.4 - - - +
757A VAL* 4.3 9.9 - - + -
779A THR* 2.9 39.4 + - + +
780A LEU* 3.6 4.9 - - - +
782A ASN* 1.3 72.8 - - + +
784A TYR* 1.3 72.1 + - + +
786A GLY* 3.0 18.8 + - - -
787A SER* 5.0 0.4 - - - +
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Residues in contact with TYR 784 (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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608A HIS* 3.8 17.9 - + - -
609A ALA 3.3 28.5 - - - +
610A LEU 4.1 2.2 - - - +
611A VAL* 3.6 37.1 - - + +
612A LEU 4.4 2.9 + - - -
689A HIS* 3.5 22.2 - + - -
722A TYR 3.1 17.0 - - - -
723A GLY 3.5 0.7 + - - -
754A GLU 3.4 26.5 - - - -
755A THR 2.8 23.3 + - - -
757A VAL* 3.2 25.0 - - + +
780A LEU* 2.8 37.1 + - + +
781A THR 4.3 0.9 - - - +
783A ILE* 1.3 78.4 - - + +
785A THR* 1.3 58.0 + - - +
786A GLY 3.2 0.9 - - - -
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Residues in contact with THR 785 (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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609A ALA* 3.7 24.7 - - + -
610A LEU 5.3 2.2 - - - +
781A THR* 2.8 26.9 + - + +
782A ASN* 3.4 5.0 + - - -
784A TYR* 1.3 77.5 - - - +
786A GLY* 1.3 64.9 + - - +
787A SER* 3.2 17.3 + - - -
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Residues in contact with GLY 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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782A ASN 3.0 6.4 + - - -
783A ILE* 3.0 11.5 + - - -
784A TYR 3.2 1.6 + - - -
785A THR* 1.3 82.6 - - - +
787A SER* 1.3 60.6 + - - -
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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