Contacts of the helix formed by residues 757 - 773 (chain A) in PDB entry 4KXA
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 757 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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721A GLN* 3.6 23.5 + - + +
725A LYS* 3.1 41.2 + - - +
728A ALA* 5.4 1.6 - - - +
729A ASP* 4.8 0.7 - - - +
752A ALA* 3.0 27.2 + - + +
753A CYS 4.4 0.2 + - - -
755A MET 3.5 1.8 - - - -
756A GLY* 1.3 71.8 - - - +
758A ARG* 1.3 66.5 + - - +
759A GLU* 3.0 19.9 + - - +
760A ALA* 3.1 19.0 + - + +
761A LEU* 2.9 22.7 + - - +
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Residues in contact with ARG 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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721A GLN* 4.8 3.2 - - - +
756A GLY 3.1 12.5 + - - +
757A ASP* 1.3 72.5 + - - +
759A GLU* 1.3 60.1 + - + +
761A LEU* 3.2 10.0 + - + +
762A ASN* 2.8 42.8 + - - +
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Residues in contact with GLU 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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725A LYS* 2.8 31.4 + - - +
729A ASP* 4.6 1.0 - - - +
757A ASP* 3.0 7.6 + - - +
758A ARG* 1.3 79.0 - - + +
760A ALA* 1.3 58.0 + - - +
762A ASN* 3.5 7.3 + - - +
763A ASN* 2.7 36.0 + - - -
1E NAG 3.4 27.1 - - - +
2E NAG 3.3 37.9 + - - +
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Residues in contact with ALA 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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728A ALA* 6.1 0.4 - - + -
733A TRP* 3.2 29.7 - - + +
749A LEU* 4.6 2.9 - - + +
752A ALA* 3.9 18.8 - - + -
753A CYS* 3.8 14.7 - - - +
757A ASP* 3.1 26.9 + - + +
759A GLU* 1.3 78.1 - - - +
761A LEU* 1.3 62.9 + - - +
763A ASN 3.4 0.5 + - - -
764A ALA* 3.2 18.7 + - - +
1E NAG 5.1 0.7 - - - -
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Residues in contact with LEU 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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753A CYS* 3.8 36.1 - - + +
756A GLY* 4.1 24.9 - - - +
757A ASP 2.9 17.1 + - - +
758A ARG* 3.6 7.9 - - + +
760A ALA* 1.3 77.0 - - - +
762A ASN* 1.3 57.5 + - - +
764A ALA* 3.3 4.9 + - - +
765A SER* 2.9 30.1 + - - -
789A TYR* 3.9 13.0 - - + -
792A GLN* 5.1 2.2 - - - +
793A ASN* 3.3 34.2 + - - +
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Residues in contact with ASN 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 ARG* 2.8 30.4 + - - +
759A GLU* 3.8 4.6 - - - +
761A LEU* 1.3 76.0 - - - +
763A ASN* 1.3 59.5 + - - +
765A SER* 3.9 8.7 - - - +
766A SER* 2.9 31.5 + - - -
1E NAG 3.3 20.4 - - - +
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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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733A TRP* 3.3 46.4 - - + +
759A GLU 2.7 18.0 + - - -
760A ALA 3.5 2.7 - - - +
761A LEU 3.3 0.2 - - - -
762A ASN* 1.3 72.8 - - - +
764A ALA* 1.3 65.1 + - - +
766A SER* 3.4 3.8 + - - -
767A LEU* 3.0 33.4 + - + +
1E NAG 1.4 66.8 + - - +
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Residues in contact with ALA 764 (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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733A TRP* 4.2 19.0 - - + -
753A CYS* 4.7 0.9 - - - -
760A ALA 3.2 10.6 + - - +
761A LEU* 3.4 9.4 - - - +
762A ASN 3.3 0.2 - - - -
763A ASN* 1.3 80.5 - - - +
765A SER* 1.3 57.9 + - - +
767A LEU* 3.4 1.4 + - - +
768A PHE* 2.9 31.0 + - - +
785A LEU 4.4 6.1 - - - +
786A VAL* 3.9 9.3 - - - +
789A TYR* 3.9 27.8 - - + -
790A GLY* 4.2 6.7 - - - +
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Residues in contact with SER 765 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
761A LEU 2.9 15.4 + - - -
762A ASN* 3.9 11.9 - - - -
763A ASN 3.4 0.2 - - - -
764A ALA* 1.3 74.3 - - - +
766A SER* 1.3 58.3 + - - +
768A PHE* 3.3 5.1 + - - +
769A GLU* 2.8 31.9 + - - +
790A GLY* 4.5 2.7 + - - -
793A ASN* 3.8 19.2 - - - +
794A SER* 3.0 27.8 + - - -
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Residues in contact with SER 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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762A ASN 2.9 19.2 + - - -
763A ASN* 3.7 4.3 - - - -
764A ALA 3.3 0.2 - - - -
765A SER* 1.3 77.9 - - - +
767A LEU* 1.3 63.0 + - - +
769A GLU* 3.3 11.0 + - - +
770A GLN* 3.1 39.4 + - - +
1E NAG 4.1 20.1 - - - +
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Residues in contact with LEU 767 (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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733A TRP* 3.7 34.8 - - + +
763A ASN* 3.0 22.6 + - + +
766A SER* 1.3 72.9 - - - +
768A PHE* 1.3 61.7 + - - +
770A GLN* 3.1 24.0 + - + +
771A TRP* 2.8 29.5 + - - +
776A VAL* 5.9 1.6 - - + -
778A LEU* 3.8 18.0 - - + +
779A PRO* 4.9 12.3 - - + -
782A LEU* 4.5 11.2 - - + -
786A VAL* 3.8 25.4 - - + -
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Residues in contact with PHE 768 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
764A ALA 2.9 19.0 + - - +
765A SER 3.3 3.8 + - - +
767A LEU* 1.3 74.9 - - - +
769A GLU* 1.3 63.9 + - - +
771A TRP* 3.1 30.4 + + - +
772A LEU* 2.9 53.5 + - + +
786A VAL* 3.4 24.1 - - + +
787A TYR* 4.4 11.9 - + + -
790A GLY* 3.5 32.3 - - - -
791A MET* 3.9 36.8 - - + -
794A SER* 4.2 9.9 - - - -
795A GLY* 4.5 4.9 - - - -
799A SER* 4.3 9.4 - - - -
803A THR* 4.5 0.9 - - + -
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Residues in contact with GLU 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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765A SER 2.8 16.6 + - - +
766A SER* 3.4 14.5 + - - +
768A PHE* 1.3 72.5 - - - +
770A GLN* 1.3 65.7 + - - +
772A LEU* 3.3 23.5 + - + +
773A ASN* 3.4 17.4 + - - +
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Residues in contact with GLN 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 SER* 3.1 36.7 + - - +
767A LEU* 3.1 22.4 + - - +
769A GLU* 1.3 77.3 - - - +
771A TRP* 1.3 61.7 + - - +
773A ASN* 2.9 29.3 + - - +
774A GLY 3.9 1.7 + - - -
776A VAL* 4.2 37.7 + - + +
778A LEU* 5.5 0.2 - - + -
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Residues in contact with TRP 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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767A LEU 2.8 16.1 + - - +
768A PHE* 3.1 26.0 + + - +
770A GLN* 1.3 72.8 - - - +
772A LEU* 1.3 70.3 + - + +
774A GLY* 2.9 22.3 + - - -
775A THR 4.7 0.3 + - - -
776A VAL 3.8 22.4 - - - +
777A SER* 5.5 0.4 - - - -
778A LEU* 3.7 32.2 - - + +
783A ARG* 6.1 0.4 - - - +
787A TYR* 3.6 20.5 + + - -
802A TYR* 3.8 25.1 + + - -
803A THR* 3.7 22.0 - - + -
806A GLN* 3.9 27.1 - - + +
815A GLU* 4.8 3.0 + - - -
819A LEU* 3.7 31.4 - - + -
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Residues in contact with LEU 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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768A PHE* 2.9 37.8 + - + +
769A GLU* 3.5 17.5 - - + +
770A GLN 3.2 0.2 - - - -
771A TRP* 1.3 88.3 - - + +
773A ASN* 1.3 62.0 + - - +
774A GLY* 3.1 1.9 + - - -
794A SER 6.0 0.7 - - - +
799A SER* 3.7 36.3 - - - +
802A TYR* 3.6 42.7 - - + -
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Residues in contact with ASN 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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769A GLU* 3.4 11.1 + - - +
770A GLN* 2.9 18.6 + - - +
772A LEU* 1.3 77.9 - - - +
774A GLY* 1.3 59.6 + - - +
775A THR* 3.4 9.2 + - - +
776A VAL* 6.1 1.6 - - + +
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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