Contacts of the helix formed by residues 765 - 781 (chain A) in PDB entry 3L6X
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 SER 765 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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718A GLU* 2.7 25.2 + - - -
763A ASN 3.6 1.6 + - - -
764A PHE* 1.3 76.2 - - - +
766A GLU* 1.3 65.4 + - - +
767A ASP* 3.5 8.2 + - - +
768A THR* 3.1 21.1 + - - -
769A VAL* 3.1 13.1 + - - +
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Residues in contact with GLU 766 (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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764A PHE 3.9 0.6 + - - -
765A SER* 1.3 71.4 - - - +
767A ASP* 1.3 65.7 + - - +
769A VAL* 3.3 3.1 + - - +
770A ILE* 2.9 51.3 + - + +
809A SER* 2.8 36.8 + - - +
811A LYS* 3.9 15.6 + - - +
812A GLU* 4.0 18.4 - - - +
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Residues in contact with ASP 767 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
722A LYS* 3.4 24.8 + - - +
765A SER* 3.3 7.5 + - - +
766A GLU* 1.3 88.0 - - - +
768A THR* 1.3 56.8 + - - +
770A ILE* 3.9 5.5 - - - +
771A SER* 3.0 28.8 + - - -
811A LYS* 4.7 10.7 + - - -
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Residues in contact with THR 768 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
718A GLU* 2.6 40.9 + - + +
721A VAL* 4.2 11.9 - - + -
722A LYS* 4.3 21.2 - - + +
764A PHE* 3.9 26.0 - - + -
765A SER* 3.1 8.2 + - - -
767A ASP* 1.3 75.3 - - - +
769A VAL* 1.3 67.5 + - - +
771A SER* 3.1 7.7 + - - -
772A ILE* 2.9 32.6 + - + +
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Residues in contact with VAL 769 (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 ASN 5.3 0.4 - - - +
753A LEU* 4.2 6.5 - - + -
754A PRO* 4.3 17.0 - - + -
761A SER 4.9 0.7 - - - +
764A PHE* 4.0 23.6 - - + +
765A SER 3.1 14.0 + - - +
766A GLU 3.8 5.4 - - - +
768A THR* 1.3 75.8 - - - +
770A ILE* 1.3 58.5 + - - +
772A ILE* 3.2 9.2 + - - +
773A LEU* 2.9 45.1 + - + +
802A ILE* 4.1 13.9 - - + -
808A ARG* 4.5 4.9 - - - +
812A GLU* 3.4 28.5 - - - +
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Residues in contact with ILE 770 (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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766A GLU* 2.9 43.2 + - + +
767A ASP* 4.0 7.0 - - - +
769A VAL* 1.3 75.2 - - - +
771A SER* 1.3 58.6 + - - +
773A LEU* 3.7 6.2 - - - -
774A ASN* 2.8 52.2 + - - +
811A LYS* 3.9 43.3 - - + +
812A GLU* 4.0 22.2 - - + +
815A ALA* 4.2 10.1 - - + -
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Residues in contact with SER 771 (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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722A LYS* 3.9 24.8 + - - +
725A SER* 2.6 29.4 + - - -
726A GLY 4.3 1.2 + - - -
729A ARG* 3.2 19.5 + - - +
767A ASP 3.0 19.4 + - - -
768A THR 3.3 6.1 - - - -
770A ILE* 1.3 78.5 - - - +
772A ILE* 1.3 57.6 + - - +
774A ASN* 4.7 2.5 - - - +
775A THR* 2.8 33.8 + - - -
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Residues in contact with ILE 772 (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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713A LEU* 5.7 0.2 - - + -
721A VAL* 4.1 14.1 - - + -
725A SER* 3.8 17.5 - - - +
749A LEU* 3.6 32.1 - - + +
752A ASN* 3.4 41.7 - - + +
753A LEU* 3.7 15.7 - - + -
764A PHE* 4.6 1.1 - - + -
768A THR* 2.9 24.1 + - + +
769A VAL* 3.6 7.0 - - - +
771A SER* 1.3 76.6 - - - +
773A LEU* 1.3 53.2 + - - +
775A THR* 3.1 3.7 + - - -
776A ILE* 2.7 44.5 + - + +
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Residues in contact with LEU 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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753A LEU* 3.9 18.8 - - + -
769A VAL* 2.9 39.7 + - + +
770A ILE* 3.7 4.0 - - - +
772A ILE* 1.3 72.7 - - - +
774A ASN* 1.3 56.5 + - - +
776A ILE* 3.0 8.4 + - + +
777A ASN 2.8 25.3 + - - -
799A LEU* 3.3 34.1 - - + -
802A ILE* 4.1 9.9 - - + -
812A GLU* 4.0 8.7 - - + +
815A ALA* 3.8 32.8 - - + +
816A ALA* 3.9 16.6 - - + +
819A VAL* 3.4 11.0 - - + +
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Residues in contact with ASN 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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729A ARG* 4.1 20.3 - - - +
770A ILE* 2.8 43.4 + - - +
771A SER* 3.8 5.1 - - - +
773A LEU* 1.3 72.0 - - - +
775A THR* 1.3 57.3 + - - +
777A ASN* 3.3 8.8 + - - +
778A GLU* 2.9 29.5 + - - +
815A ALA* 4.1 13.7 - - - +
818A LEU* 5.3 6.1 - - - +
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Residues in contact with THR 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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725A SER* 2.7 41.3 + - - +
728A LEU* 4.0 8.3 - - + -
729A ARG* 3.0 34.1 + - - +
749A LEU* 3.9 23.3 - - + -
771A SER 2.8 13.5 + - - -
772A ILE* 3.5 4.3 - - - -
774A ASN* 1.3 72.9 - - - +
776A ILE* 1.3 67.1 + - - +
778A GLU* 3.2 2.4 + - - +
779A VAL* 2.9 32.5 + - + +
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Residues in contact with ILE 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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746A ILE* 4.6 5.6 - - + -
749A LEU* 3.9 29.2 - - + -
750A VAL* 4.4 12.1 - - + -
753A LEU* 3.6 31.0 - - + -
772A ILE* 2.7 29.7 + - + +
773A LEU* 3.0 12.3 + - + +
775A THR* 1.3 73.4 - - - +
777A ASN* 1.3 62.5 + - - +
779A VAL* 3.1 4.6 + - - +
780A ILE* 3.0 28.6 + - + +
790A LEU* 4.0 22.0 - - + -
799A LEU* 5.3 1.6 - - + -
819A VAL* 3.8 23.8 - - + -
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Residues in contact with ASN 777 (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 2.8 12.1 + - - +
774A ASN* 3.5 11.7 - - - +
775A THR 3.2 0.2 - - - -
776A ILE* 1.3 77.1 - - - +
778A GLU* 1.3 64.3 + - - +
780A ILE* 3.3 6.7 + - - +
781A ALA* 3.0 24.8 + - - +
818A LEU* 4.2 18.9 - - + +
819A VAL* 3.5 23.6 - - + +
822A THR* 2.7 33.3 + - - -
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Residues in contact with GLU 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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729A ARG* 3.9 32.3 - - + +
732A ALA* 4.0 16.2 - - + +
733A VAL* 3.7 31.3 - - + +
774A ASN 2.9 14.0 + - - +
775A THR 3.2 7.4 + - - +
777A ASN* 1.3 81.1 + - - +
779A VAL* 1.3 61.1 + - - +
780A ILE 3.3 0.9 + - - -
781A ALA* 3.4 20.3 + - - +
782A GLU 5.1 0.3 + - - -
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Residues in contact with VAL 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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728A LEU 4.8 2.9 - - - +
732A ALA* 3.7 22.9 - - + -
741A ILE* 3.6 28.5 - - + -
742A GLY* 4.2 7.2 - - - -
745A ALA* 4.6 9.4 - - + -
746A ILE* 3.9 29.2 - - + -
749A LEU* 4.7 1.8 - - + -
775A THR* 2.9 33.6 + - + +
776A ILE* 3.1 4.7 + - - +
778A GLU* 1.3 75.9 - - - +
780A ILE* 1.3 57.9 + - - +
781A ALA 3.5 0.2 - - - -
783A ASN* 3.5 22.2 + - - +
786A ALA* 3.6 2.6 - - + +
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Residues in contact with ILE 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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746A ILE* 3.9 16.8 - - + -
776A ILE 3.0 19.6 + - - +
777A ASN* 3.6 6.7 - - - +
779A VAL* 1.3 78.4 - - - +
781A ALA* 1.3 56.2 + - - +
782A GLU 3.2 3.1 + - - -
783A ASN* 3.5 3.9 + - - +
786A ALA* 3.9 12.3 - - - +
787A ALA* 3.8 29.8 - - + +
790A LEU* 4.0 9.9 - - + -
819A VAL* 3.9 18.4 - - + -
822A THR* 3.8 18.7 - - + +
823A ILE* 3.7 30.5 - - + +
826A TYR* 2.7 33.3 + - + -
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Residues in contact with ALA 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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777A ASN* 3.0 16.3 + - - +
778A GLU* 3.4 20.6 + - - +
779A VAL 3.5 0.2 - - - -
780A ILE* 1.3 74.9 - - - +
782A GLU* 1.3 72.4 + - + +
822A THR* 3.9 14.9 - - + +
826A TYR* 2.7 16.3 + - - -
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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