Contacts of the helix formed by residues 675 - 696 (chain A) in PDB entry 1ILE
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 GLU 675 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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674A PRO* 1.3 90.3 - - - +
676A MET* 1.3 67.1 + - + +
677A ASP 3.1 1.9 + - - -
678A ARG* 3.1 20.4 + - - +
679A TRP* 3.6 7.6 + - - +
726A ARG* 4.4 3.6 + - - +
736A ARG* 4.4 7.8 + - - -
798A LEU* 5.8 1.2 - - - +
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Residues in contact with MET 676 (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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674A PRO* 4.9 0.6 - - - +
675A GLU* 1.3 78.7 - - + +
677A ASP* 1.3 60.0 + - - +
678A ARG 3.3 0.2 - - - -
679A TRP* 3.2 32.6 + - + -
680A LEU* 3.2 10.6 + - - +
718A TRP* 3.3 41.5 - - + +
719A TYR* 4.9 1.6 - - - -
721A ARG 5.9 0.9 - - - +
722A ARG* 2.9 58.7 + - + +
726A ARG* 5.3 2.9 - - - +
802A MET* 4.2 11.2 - - + -
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Residues in contact with ASP 677 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
673A ARG* 4.4 2.2 - - + -
674A PRO* 3.7 25.8 - - + +
675A GLU 3.1 0.8 - - - +
676A MET* 1.3 79.2 - - - +
678A ARG* 1.3 60.2 + - - +
680A LEU* 3.7 4.0 + - - +
681A LEU* 3.5 23.6 + - - +
719A TYR* 2.9 29.6 + - - -
722A ARG* 3.1 20.1 + - - +
726A ARG* 3.1 29.7 + - - -
738A ALA 3.8 2.9 - - - +
739A ALA* 3.4 12.6 + - - -
742A THR* 3.3 18.8 + - + +
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Residues in contact with ARG 678 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
670A PRO* 3.1 34.7 + - + +
671A GLU* 3.4 22.4 + - - +
673A ARG* 3.7 12.4 + - + -
674A PRO 3.7 19.5 + - - +
675A GLU* 3.1 11.3 + - - +
677A ASP* 1.3 78.0 - - - +
679A TRP* 1.3 65.4 + - - +
681A LEU* 3.7 9.6 + - + +
682A ALA* 3.5 12.5 + - - +
793A LEU 5.0 1.2 - - - +
795A ASP* 5.1 9.1 + - - +
798A LEU* 3.7 14.3 - - + +
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Residues in contact with TRP 679 (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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675A GLU 3.6 4.5 + - - +
676A MET* 3.2 35.8 + - + +
678A ARG* 1.3 77.4 - - - +
680A LEU* 1.3 96.2 + - + +
682A ALA* 2.8 27.5 + - - +
683A ARG* 3.0 27.1 + - + +
713A GLU* 4.3 23.6 - - - -
718A TRP* 3.9 28.9 - + + -
719A TYR* 4.4 7.0 - + + -
798A LEU* 3.3 35.8 - - + +
799A VAL* 3.9 17.7 - - + +
802A MET* 3.1 50.7 - - + +
803A ARG 5.2 0.2 - - - +
806A LEU* 4.5 6.1 - - + -
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Residues in contact with LEU 680 (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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676A MET 3.2 6.7 + - - +
677A ASP 3.8 3.4 - - - +
679A TRP* 1.3 108.2 - - + +
681A LEU* 1.3 57.8 + - + +
683A ARG* 3.3 7.7 + - - +
684A MET* 3.0 43.5 + - + +
710A PHE* 4.7 11.0 - - + -
714A ASP* 4.2 16.4 - - - +
719A TYR* 3.3 48.5 - - + -
742A THR* 4.2 24.2 - - - +
743A LEU* 5.6 0.7 - - + -
746A ALA* 4.6 3.8 - - + -
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Residues in contact with LEU 681 (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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670A PRO* 3.7 32.8 - - + -
673A ARG* 5.1 1.3 - - + -
677A ASP 3.5 14.5 + - - +
678A ARG* 4.0 14.6 - - + +
679A TRP 3.1 1.2 + - - -
680A LEU* 1.3 74.8 - - + +
682A ALA* 1.3 64.5 + - - +
684A MET* 3.2 23.9 + - + +
685A GLN* 3.1 31.2 + - - +
742A THR* 4.0 27.8 - - + -
745A GLU* 4.2 14.6 - - + +
793A LEU* 4.1 26.5 - - + +
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Residues in contact with ALA 682 (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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678A ARG 3.5 6.7 + - - +
679A TRP 2.8 13.3 + - - +
681A LEU* 1.3 74.3 - - - +
683A ARG* 1.3 64.4 + - - +
685A GLN* 3.2 5.6 + - - +
686A ASP* 3.2 16.6 + - - +
793A LEU 3.2 22.2 + - - +
794A ALA* 5.1 0.3 - - - -
795A ASP* 3.4 26.8 + - + +
798A LEU* 4.2 1.8 - - + -
799A VAL* 3.4 22.8 - - + +
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Residues in contact with ARG 683 (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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679A TRP* 3.0 23.0 + - + +
680A LEU* 3.3 17.7 - - - +
682A ALA* 1.3 78.0 - - - +
684A MET* 1.3 56.2 + - - +
686A ASP* 3.0 18.8 + - - -
687A LEU* 2.8 41.5 + - - +
690A ARG* 4.4 11.5 - - - +
706A ALA* 4.5 7.1 + - - +
709A ASP* 5.5 3.0 - - - +
710A PHE* 3.8 37.2 - - + +
713A GLU* 3.3 22.2 + - - +
799A VAL* 3.6 24.8 - - - +
803A ARG* 4.9 5.4 - - - +
806A LEU* 6.0 0.9 - - - -
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Residues in contact with MET 684 (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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680A LEU* 3.0 26.9 + - - +
681A LEU* 3.2 24.2 + - + +
683A ARG* 1.3 76.3 - - - +
685A GLN* 1.3 68.5 + - - +
687A LEU* 3.5 4.2 + - - +
688A ILE* 2.9 31.9 + - - +
710A PHE* 3.9 18.2 - - + -
742A THR 4.7 0.4 - - - +
745A GLU* 3.4 31.0 - - + +
746A ALA* 3.5 25.6 - - - -
749A LEU* 3.6 30.4 - - + +
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Residues in contact with GLN 685 (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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681A LEU* 3.1 20.3 + - - +
682A ALA 3.2 6.4 + - - +
684A MET* 1.3 92.6 + - - +
686A ASP* 1.3 59.8 + - - +
688A ILE* 3.8 9.4 + - - +
689A GLN* 3.5 23.9 + - - +
788A GLU 4.5 0.7 - - - +
789A ALA* 3.4 23.1 - - + +
790A ASP* 2.9 41.3 + - - +
793A LEU* 3.8 29.9 - - + +
794A ALA* 4.4 12.8 - - + -
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Residues in contact with ASP 686 (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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682A ALA 3.2 10.5 + - - +
683A ARG* 3.0 23.7 + - - +
685A GLN* 1.3 75.7 - - - +
687A LEU* 1.3 53.1 + - - +
688A ILE 3.0 1.3 - - - -
689A GLN* 2.6 37.7 + - - +
690A ARG* 2.8 59.3 + - - -
799A VAL* 4.7 9.5 - - + +
803A ARG* 3.4 10.6 + - - -
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Residues in contact with LEU 687 (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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683A ARG* 2.8 34.0 + - - +
684A MET* 3.9 4.5 - - - +
686A ASP* 1.3 71.4 - - - +
688A ILE* 1.3 61.7 + - - +
690A ARG* 3.9 6.1 - - - -
691A VAL* 3.0 28.5 + - + +
706A ALA* 3.4 29.2 - - + +
707A LEU* 3.9 16.4 - - + -
710A PHE* 3.7 37.0 - - + -
749A LEU* 4.0 17.0 - - + -
750A VAL* 5.1 1.6 - - + -
753A LEU* 3.1 26.9 - - + -
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Residues in contact with ILE 688 (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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684A MET* 2.9 21.5 - - + +
685A GLN* 3.8 19.1 - - - +
686A ASP 3.0 0.6 - - - -
687A LEU* 1.3 77.3 - - - +
689A GLN* 1.3 59.6 + - + +
691A VAL* 4.0 0.7 - - - +
692A THR* 2.6 38.3 + - - +
749A LEU* 3.7 36.1 - - + -
753A LEU* 4.7 10.1 - - + -
786A TRP* 4.8 0.7 - - - +
787A PRO* 3.5 33.0 - - + +
788A GLU* 3.9 22.9 - - - +
789A ALA* 4.5 3.1 - - + +
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Residues in contact with GLN 689 (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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685A GLN 3.5 13.3 + - - +
686A ASP* 2.6 26.4 + - - +
688A ILE* 1.3 74.3 - - + +
690A ARG* 1.3 64.0 + - - +
692A THR* 3.1 6.1 + - - -
693A GLU* 2.9 38.1 + - + +
789A ALA* 4.9 12.8 - - + +
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Residues in contact with ARG 690 (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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683A ARG* 4.4 10.5 - - - +
686A ASP* 2.8 49.6 + - - +
687A LEU* 3.8 9.4 - - - +
689A GLN* 1.3 77.2 - - - +
691A VAL* 1.3 65.3 + - - +
692A THR 3.0 0.3 + - - -
693A GLU* 3.0 22.3 + - - +
694A ALA* 3.2 14.9 + - - +
706A ALA* 4.2 22.2 - - + +
803A ARG* 3.1 33.9 - - - +
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Residues in contact with VAL 691 (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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687A LEU* 3.0 38.0 + - + +
688A ILE 4.2 1.3 - - - +
690A ARG* 1.3 76.0 - - - +
692A THR* 1.3 61.0 + - - +
694A ALA* 3.8 1.4 + - - +
695A LEU* 3.3 30.2 + - + +
703A SER* 3.6 27.1 - - - +
706A ALA* 4.4 2.5 - - + -
707A LEU* 4.3 12.1 - - + +
753A LEU* 4.2 15.3 - - + -
757A PHE* 4.5 14.1 - - + -
786A TRP* 3.9 26.5 - - + -
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Residues in contact with THR 692 (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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70A TYR* 3.8 11.4 + - - +
74A ARG* 3.5 28.7 - - - +
688A ILE* 2.6 32.6 + - - +
689A GLN* 3.6 4.7 - - - -
691A VAL* 1.3 75.7 - - - +
693A GLU* 1.3 64.4 + - - +
695A LEU* 3.5 2.8 + - - +
696A GLU* 3.2 25.0 + - + +
786A TRP* 3.0 33.0 + - + +
787A PRO 4.7 0.3 + - - -
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Residues in contact with GLU 693 (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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689A GLN* 2.9 28.8 + - + +
690A ARG* 3.6 15.8 + - - +
692A THR* 1.3 74.1 - - - +
694A ALA* 1.3 65.4 + - - +
696A GLU* 2.9 19.9 + - - +
697A ALA* 3.0 14.6 + - - +
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Residues in contact with ALA 694 (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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690A ARG 3.2 9.9 + - - +
691A VAL 4.1 0.2 - - - +
693A GLU* 1.3 77.3 - - - +
695A LEU* 1.3 55.6 + - - +
697A ALA* 3.1 10.3 + - - +
699A ASP* 2.6 42.8 + - + +
702A THR* 3.8 12.1 - - - +
703A SER* 3.3 36.6 - - - +
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Residues in contact with LEU 695 (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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66A LEU* 4.5 9.6 - - + -
67A PHE* 3.6 29.3 - - + -
70A TYR* 3.3 48.7 - - + -
71A LYS* 4.9 2.4 + - - -
691A VAL* 3.3 25.1 + - + +
692A THR 3.5 3.3 + - - +
693A GLU 3.2 0.4 - - - -
694A ALA* 1.3 76.5 - - - +
696A GLU* 1.3 62.8 + - - +
697A ALA 3.2 0.2 - - - -
698A TYR* 3.2 11.7 + - - +
699A ASP 4.1 5.6 - - - +
700A PRO* 4.4 4.9 - - + -
703A SER* 3.3 25.6 - - - +
756A PRO* 5.4 0.2 - - + -
757A PHE* 3.9 24.7 - - + -
786A TRP* 4.3 3.1 - - + -
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Residues in contact with GLU 696 (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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70A TYR* 2.5 32.7 + - - -
71A LYS* 4.5 13.8 + - - +
74A ARG* 4.3 11.4 + - - -
423A HIS* 5.6 0.5 - - - -
692A THR* 3.2 14.1 + - + +
693A GLU* 2.9 16.7 + - - +
695A LEU* 1.3 77.6 - - - +
697A ALA* 1.3 55.1 + - + +
698A TYR* 3.1 17.7 + - - -
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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