Contacts of the helix formed by residues 745 - 763 (chain A) in PDB entry 1HU3
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 745 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1A SER* 1.3 68.7 + - - +
746A PRO* 1.4 73.3 - - + +
747A GLU 3.3 0.4 - - - -
748A ASN* 2.8 32.2 + - - +
749A ILE* 3.2 16.7 + - - +
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Residues in contact with PRO 746 (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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1A SER 2.7 17.0 - - - +
745A ASP* 1.4 83.3 - - + +
747A GLU* 1.3 64.4 + - + +
749A ILE* 3.1 25.0 + - + +
750A LYS* 3.5 11.0 + - - +
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Residues in contact with GLU 747 (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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1A SER* 4.1 21.1 - - - +
745A ASP 3.3 0.6 - - - -
746A PRO* 1.3 74.6 - - + +
748A ASN* 1.3 68.0 + - - +
749A ILE 2.9 1.8 - - - -
750A LYS* 2.9 13.6 + - - +
751A THR* 2.9 21.9 + - - +
784A THR* 5.6 0.3 + - - -
787A ARG* 2.9 36.4 + - - +
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Residues in contact with ASN 748 (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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1A SER* 3.4 18.9 + - - +
745A ASP* 2.8 41.3 + - - +
747A GLU* 1.3 77.5 - - - +
749A ILE* 1.3 62.6 + - + +
751A THR* 3.9 7.9 - - - -
752A GLN* 3.2 26.2 + - - +
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Residues in contact with ILE 749 (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 ASP 3.2 13.3 + - - +
746A PRO* 3.1 14.7 + - + +
747A GLU 2.9 1.0 - - - -
748A ASN* 1.3 78.5 - - + +
750A LYS* 1.3 60.3 + - + +
752A GLN* 2.9 26.6 + - + +
753A GLU* 3.0 29.1 + - + +
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Residues in contact with LYS 750 (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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746A PRO 3.5 10.7 + - - +
747A GLU* 2.9 17.0 + - - +
749A ILE* 1.3 75.9 - - + +
751A THR* 1.3 60.2 + - - +
753A GLU* 3.3 16.9 + - - +
754A LEU* 2.8 30.1 + - - +
783A ASP* 6.1 1.6 - - - +
787A ARG* 3.9 14.1 - - - +
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Residues in contact with THR 751 (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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747A GLU* 2.9 10.1 + - - +
748A ASN* 3.9 8.8 + - - -
750A LYS* 1.3 76.9 - - - +
752A GLN* 1.3 61.4 + - - +
754A LEU* 3.5 3.8 + - - -
755A PHE* 3.1 57.0 + - + -
786A GLU* 6.1 0.7 - - + -
787A ARG* 2.7 44.2 + - + +
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Residues in contact with GLN 752 (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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748A ASN* 3.2 14.5 + - - +
749A ILE* 2.9 17.4 + - + +
751A THR* 1.3 77.6 - - - +
753A GLU* 1.3 59.4 + - + +
755A PHE* 3.4 13.2 + - - +
756A ARG* 3.0 64.0 + - - +
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Residues in contact with GLU 753 (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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749A ILE* 3.0 27.5 + - + +
750A LYS* 3.3 21.4 + - - +
752A GLN* 1.3 78.3 - - + +
754A LEU* 1.3 61.1 + - - +
756A ARG* 3.8 8.5 - - - +
757A LYS* 2.8 44.2 + - + +
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Residues in contact with LEU 754 (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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750A LYS 2.8 17.4 + - - +
751A THR* 3.6 4.5 - - - +
753A GLU* 1.3 76.5 - - - +
755A PHE* 1.3 71.9 + - + +
757A LYS* 3.0 11.4 + - + +
758A VAL* 2.8 45.8 + - + +
780A LEU* 4.2 21.8 - - + -
781A THR 3.9 24.7 - - - +
782A VAL* 4.4 5.4 - - + -
787A ARG* 3.7 35.4 - - + -
791A VAL* 3.8 18.8 - - + -
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Residues in contact with PHE 755 (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 THR* 3.1 36.9 + - + +
752A GLN* 3.4 12.8 + - - +
754A LEU* 1.3 100.7 - - + +
756A ARG* 1.3 59.6 + - + +
758A VAL* 3.3 2.7 + - - +
759A ARG* 2.8 38.9 + - - +
786A GLU 4.4 7.9 - - - -
787A ARG* 4.0 13.2 - - - -
790A GLY* 3.8 24.9 - - - -
791A VAL* 4.0 3.8 - - + -
794A LEU* 3.7 23.2 - - + +
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Residues in contact with ARG 756 (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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752A GLN* 3.0 48.6 + - - +
753A GLU* 3.8 8.3 - - - +
755A PHE* 1.3 73.7 - - + +
757A LYS* 1.3 61.4 + - + +
759A ARG* 3.3 13.1 + - - +
760A SER* 3.0 28.9 + - - -
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Residues in contact with LYS 757 (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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753A GLU* 2.8 33.8 + - + +
754A LEU* 3.3 7.6 - - - +
756A ARG* 1.3 77.7 - - + +
758A VAL* 1.3 56.9 + - - +
760A SER* 3.2 8.6 - - - -
761A ILE* 3.0 32.5 + - + +
779A GLY* 3.0 29.8 + - - -
780A LEU* 3.8 20.2 - - + +
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Residues in contact with VAL 758 (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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754A LEU* 2.8 39.4 + - + +
755A PHE* 3.6 6.5 - - - +
757A LYS* 1.3 73.5 - - - +
759A ARG* 1.3 64.6 + - - +
761A ILE* 3.2 7.9 + - - +
762A LEU* 3.0 41.4 + - + +
780A LEU* 4.2 11.9 - - + -
791A VAL* 3.9 31.2 - - + +
794A LEU* 4.0 13.9 - - + -
795A VAL* 5.0 0.4 - - + -
812A MSE 3.9 14.8 - - + -
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Residues in contact with ARG 759 (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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755A PHE* 2.8 28.8 + - - +
756A ARG* 3.8 12.8 - - - +
758A VAL* 1.3 72.3 - - - +
760A SER* 1.3 51.7 + - - +
762A LEU* 3.6 7.5 - - + -
763A ASN* 2.7 58.3 + - - +
794A LEU* 3.4 34.8 - - + +
797A GLU* 4.1 13.1 + - - +
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Residues in contact with SER 760 (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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756A ARG 3.0 14.2 + - - -
757A LYS* 3.2 13.7 - - - -
759A ARG* 1.3 77.7 - - - +
761A ILE* 1.3 63.9 + - - +
763A ASN* 3.1 14.6 + - - +
764A LYS* 3.5 34.2 + - - +
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Residues in contact with ILE 761 (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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757A LYS* 3.0 15.7 + - + +
758A VAL* 3.2 10.1 + - - +
760A SER* 1.3 78.0 + - - +
762A LEU* 1.3 61.9 + - - +
764A LYS* 3.8 19.7 + - - +
768A GLN* 5.2 6.6 + - + +
773A LEU* 4.5 8.7 - - + +
776A GLN* 3.8 48.6 - - + +
777A VAL* 4.6 3.1 - - + +
780A LEU* 4.1 33.0 - - + -
812A MSE 3.7 25.8 - - + -
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Residues in contact with LEU 762 (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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758A VAL* 3.0 43.0 + - + +
759A ARG* 3.9 7.2 - - + +
761A ILE* 1.3 76.7 - - - +
763A ASN* 1.3 60.4 + - - +
764A LYS 3.3 8.8 + - - +
794A LEU* 3.9 26.9 - - + +
795A VAL* 4.0 13.2 - - + +
798A LYS* 3.7 33.3 - - + +
809A TYR* 3.7 37.7 + - + -
812A MSE 3.5 23.1 - - + -
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Residues in contact with ASN 763 (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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759A ARG* 2.7 48.8 + - - +
760A SER* 3.1 8.5 + - - +
762A LEU* 1.3 72.1 - - - +
764A LYS* 1.3 64.6 + - - +
765A LEU* 3.1 4.9 + - - +
798A LYS* 2.9 32.0 + - - +
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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