Contacts of the helix formed by residues 717 - 738 (chain A) in PDB entry 2KLQ
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 PHE 717 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
710A LYS* 6.1 3.4 - - + -
711A ALA 6.0 0.4 - - - -
712A SER* 3.9 12.3 - - - -
713A LEU* 3.1 67.8 - - + -
715A LEU* 6.1 1.1 - - + -
716A GLY* 1.3 75.0 - - - +
718A SER* 1.3 60.9 + - - +
719A GLU* 3.1 2.5 - - - -
720A TYR* 3.0 25.0 + - + -
721A SER* 2.8 39.9 + - - -
819A LEU* 5.1 12.3 - - + -
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Residues in contact with SER 718 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
716A GLY* 3.6 0.5 - - - -
717A PHE* 1.3 78.6 + - - +
719A GLU* 1.3 67.5 + - - +
721A SER* 3.2 9.9 + - - -
722A ARG* 2.9 38.3 + - - +
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Residues in contact with GLU 719 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
716A GLY* 3.5 17.0 - - - +
718A SER* 1.3 91.6 + - - +
720A TYR* 1.3 64.6 + - + +
722A ARG* 3.1 8.3 + - - +
723A ILE* 3.1 29.2 + - + +
768A ASN* 3.4 31.6 - - - +
769A LYS* 5.9 3.8 - - + +
772A ILE* 3.9 24.0 - - + -
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Residues in contact with TYR 720 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
713A LEU* 6.1 1.1 - - + -
715A LEU* 4.6 17.8 - - + +
716A GLY 4.4 8.1 - - - -
717A PHE* 3.0 29.6 + - + +
719A GLU* 1.3 81.9 - - + +
721A SER* 1.3 51.2 + - - +
723A ILE* 3.3 3.2 + - - +
724A SER* 2.7 43.6 + - - +
772A ILE* 3.7 30.3 - - + -
775A LYS* 2.7 37.1 + - + +
776A VAL* 3.7 25.7 - - + +
779A ARG* 5.7 6.7 - - - -
819A LEU* 5.0 13.0 - - + -
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Residues in contact with SER 721 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
717A PHE* 2.8 26.3 + - - -
718A SER* 3.4 13.9 - - - -
720A TYR* 1.3 77.7 - - - +
722A ARG* 1.3 53.7 + - - +
724A SER* 3.6 7.1 - - - -
725A ASN* 2.7 35.2 + - - +
819A LEU* 6.5 0.2 - - - -
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Residues in contact with ARG 722 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
718A SER* 2.9 24.1 + - - +
719A GLU* 3.1 9.4 + - - +
721A SER* 1.3 77.5 - - - +
723A ILE* 1.3 60.2 + - + +
725A ASN* 3.4 21.5 + - - +
726A LEU* 3.1 21.7 + - - +
752A TYR* 3.3 21.4 + - - +
759A GLU* 5.5 6.2 + - - +
769A LYS* 4.6 14.8 - - - +
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Residues in contact with ILE 723 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
719A GLU* 3.1 26.9 + - + +
720A TYR 3.7 5.4 - - - +
722A ARG* 1.3 76.3 - - + +
724A SER* 1.3 60.9 + - - +
726A LEU* 3.0 11.2 + - + +
727A ILE* 2.9 25.4 + - + +
752A TYR* 3.4 26.0 - - + +
769A LYS* 3.9 15.3 - - + +
772A ILE* 3.6 20.4 - - + -
773A ILE* 3.5 43.3 - - + -
776A VAL* 3.6 34.3 - - + -
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Residues in contact with SER 724 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
720A TYR* 2.7 29.1 + - - +
721A SER* 3.7 8.2 - - - -
723A ILE* 1.3 75.2 - - - +
725A ASN* 1.3 56.1 + - - +
727A ILE* 3.2 11.3 + - - +
728A VAL* 2.9 31.0 + - - +
776A VAL* 5.3 3.6 - - - +
817A TYR* 4.7 22.2 - - - +
819A LEU* 4.7 15.4 - - - +
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Residues in contact with ASN 725 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
721A SER 2.7 18.3 + - - +
722A ARG* 3.4 26.7 + - - +
724A SER* 1.3 74.2 - - - +
726A LEU* 1.3 54.4 + - - +
728A VAL* 3.1 12.4 - - - +
729A LEU* 2.7 65.6 + - - +
732A ARG* 5.6 1.6 + - - -
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Residues in contact with LEU 726 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
722A ARG 3.1 7.0 + - - +
723A ILE 3.0 13.2 + - - +
725A ASN* 1.3 75.8 - - - +
727A ILE* 1.3 73.8 + - + +
729A LEU* 4.4 7.6 - - - +
730A HIS* 2.8 30.4 + - + +
748A LEU* 4.4 12.8 - - + +
751A TRP* 3.2 43.7 - - + -
752A TYR* 3.5 43.1 - - + -
755A GLU* 5.8 0.4 - - - +
773A ILE* 3.7 24.5 - - + -
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Residues in contact with ILE 727 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
723A ILE* 2.9 21.5 + - + +
724A SER* 3.2 11.4 + - - +
726A LEU* 1.3 89.6 - - + +
728A VAL* 1.3 64.6 + - + +
730A HIS* 4.1 1.7 - - - +
731A LEU* 3.1 28.4 + - + +
748A LEU* 4.1 20.6 - - + -
773A ILE* 5.3 2.9 - - + -
776A VAL* 5.1 7.2 - - + -
777A ILE* 5.8 5.4 - - + -
780A LEU* 4.7 16.8 - - + -
813A VAL* 4.0 32.6 - - + +
814A ASN 5.1 2.7 - - - +
817A TYR* 4.4 22.0 - - + -
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Residues in contact with VAL 728 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
724A SER 2.9 17.4 + - - +
725A ASN* 3.1 31.2 - - - +
727A ILE* 1.3 80.0 - - + +
729A LEU* 1.3 55.6 + - + +
731A LEU* 3.8 6.6 - - + +
732A ARG* 2.8 66.9 + - + +
815A PRO* 5.1 12.1 - - - +
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Residues in contact with LEU 729 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
725A ASN* 2.7 57.6 + - - +
726A LEU* 3.8 6.3 - - - +
728A VAL* 1.3 70.7 - - + +
730A HIS* 1.3 66.4 + - - +
732A ARG* 3.2 28.2 - - - +
733A LYS* 3.1 37.1 + - + +
751A TRP* 5.8 4.7 - - + -
755A GLU* 5.8 3.8 - - - +
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Residues in contact with HIS 730 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
726A LEU* 2.8 23.0 + - + +
727A ILE* 4.1 2.5 - - - +
729A LEU* 1.3 73.1 - - - +
731A LEU* 1.3 59.8 + - - +
733A LYS* 3.7 5.1 - - - +
734A VAL* 2.9 54.0 + - + +
741A SER* 3.0 34.4 + - - -
742A ALA 5.2 0.4 - - - -
747A GLU* 5.4 5.5 + - - -
748A LEU* 3.7 28.8 - - + +
751A TRP* 3.5 42.2 + + + -
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Residues in contact with LEU 731 (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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727A ILE* 3.1 18.3 + - + +
728A VAL* 4.1 5.8 - - + +
730A HIS* 1.3 80.1 + - - +
732A ARG* 1.4 55.7 + - + +
734A VAL* 3.2 0.6 + - - -
735A GLU* 2.8 59.0 + - + +
740A GLU* 3.6 39.0 - - + -
741A SER* 3.8 11.0 - - - +
813A VAL* 3.9 31.0 - - + +
814A ASN 5.2 0.2 - - - +
815A PRO* 3.6 33.2 - - + -
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Residues in contact with ARG 732 (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 ASN* 5.6 1.8 + - - -
728A VAL* 2.8 58.1 + - + +
729A LEU* 3.2 34.3 - - - +
731A LEU* 1.4 74.8 - - + +
733A LYS* 1.3 66.6 + - + +
735A GLU* 3.3 28.6 - - - +
736A GLU* 3.4 15.2 - - - +
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Residues in contact with LYS 733 (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 LEU* 3.1 29.2 + - + +
730A HIS* 3.7 5.6 - - - +
732A ARG* 1.3 82.3 - - + +
734A VAL* 1.3 62.7 + - + +
736A GLU* 3.0 6.4 + - - +
737A GLU* 2.6 67.7 + - - +
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Residues in contact with VAL 734 (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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730A HIS* 2.9 51.4 + - + +
731A LEU 3.9 0.9 - - - +
733A LYS* 1.3 80.0 - - + +
735A GLU* 1.3 54.7 + - - +
737A GLU* 4.4 7.4 - - - +
738A GLU* 2.7 50.2 + - + +
739A ASP* 2.9 10.3 + - + +
740A GLU 4.2 3.8 - - - +
741A SER* 3.2 37.5 - - - +
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Residues in contact with GLU 735 (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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731A LEU* 2.8 41.7 + - + +
732A ARG* 3.3 25.3 - - - +
734A VAL* 1.3 73.1 - - - +
736A GLU* 1.3 63.5 + - + +
738A GLU 4.3 2.9 - - - +
739A ASP* 3.0 29.5 + - - +
740A GLU* 4.4 6.9 - - + +
815A PRO* 4.8 9.6 - - - +
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Residues in contact with GLU 736 (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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732A ARG 3.4 16.9 - - - +
733A LYS* 3.0 5.5 + - - +
735A GLU* 1.3 83.3 - - + +
737A GLU* 1.3 66.2 + - + +
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Residues in contact with GLU 737 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
733A LYS* 2.6 58.8 + - - +
734A VAL* 4.1 4.7 + - - +
736A GLU* 1.3 84.0 - - + +
738A GLU* 1.3 70.2 + - + +
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Residues in contact with GLU 738 (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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734A VAL* 2.7 33.4 + - + +
735A GLU 4.3 5.4 - - - +
736A GLU 3.6 0.2 - - - -
737A GLU* 1.3 86.7 - - + +
739A ASP* 1.3 67.6 + - + +
741A SER 5.4 0.7 - - - +
743A LEU* 6.0 2.4 - - - +
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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
------------------------------------------------------------
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