Contacts of the helix formed by residues 731 - 752 (chain A) in PDB entry 2REI
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 THR 731 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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729A GLN 5.8 0.2 - - - +
730A PHE* 1.3 77.0 - - - +
732A VAL* 1.3 66.0 + - - +
733A ILE* 3.3 13.9 - - + +
734A GLN* 2.9 39.8 + - - +
735A LEU* 2.9 21.9 + - - +
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Residues in contact with VAL 732 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
731A THR* 1.3 73.8 - - - +
733A ILE* 1.3 58.7 + - - +
735A LEU* 3.2 9.5 + - + +
736A VAL* 2.7 48.7 + - + +
830A MET* 4.3 10.8 - - + -
860A ASP* 3.6 27.8 - - + +
862A PRO* 3.9 28.9 - - + -
865A LEU* 4.8 1.1 - - + -
900A ALA* 5.1 5.8 - - + -
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Residues in contact with ILE 733 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
731A THR* 3.2 15.7 + - + +
732A VAL* 1.3 80.5 - - - +
734A GLN* 1.3 64.1 + - + +
736A VAL* 3.5 5.5 + - + +
737A GLY* 2.9 23.7 + - - -
893A MET 5.1 1.1 - - - +
894A ILE* 4.3 40.4 - - + +
897A PRO* 5.1 14.6 - - + -
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Residues in contact with GLN 734 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
729A GLN 4.0 3.1 + - - +
730A PHE* 3.3 28.5 - - + -
731A THR* 2.9 49.3 + - - +
733A ILE* 1.3 76.3 - - + +
735A LEU* 1.3 65.9 + - - +
737A GLY 3.2 0.5 + - - -
738A MET* 3.1 13.5 + - - +
770A LEU* 5.5 2.2 - - - +
910A MPD 2.7 43.0 + - + +
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Residues in contact with LEU 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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723A LEU* 4.2 12.8 - - + -
730A PHE* 3.8 20.2 - - + +
731A THR 2.9 18.8 + - - +
732A VAL* 3.6 7.0 - - + +
734A GLN* 1.3 72.1 - - - +
736A VAL* 1.3 67.7 + - - +
738A MET* 3.1 13.7 + - - +
739A LEU* 3.0 26.7 + - - +
829A VAL* 3.8 27.9 - - + +
830A MET* 3.7 35.4 - - + +
832A TYR* 3.6 34.8 - - + +
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Residues in contact with VAL 736 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
732A VAL* 2.7 32.8 + - + +
733A ILE* 3.8 7.4 - - - +
735A LEU* 1.3 73.4 - - - +
737A GLY* 1.3 56.2 + - - +
739A LEU* 3.2 7.3 + - - +
740A ARG* 2.8 27.7 + - - +
830A MET* 5.1 0.4 - - - -
865A LEU* 3.9 33.9 - - + -
890A LEU* 3.8 29.2 - - + +
893A MET* 4.5 11.7 - - + -
894A ILE* 3.7 23.8 - - + +
900A ALA* 6.0 0.9 - - + -
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Residues in contact with GLY 737 (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 ILE 2.9 15.3 + - - -
734A GLN 3.2 5.5 + - - -
736A VAL* 1.3 75.8 - - - +
738A MET* 1.3 61.3 + - - +
740A ARG* 3.3 3.6 + - - +
741A GLY* 3.1 19.4 + - - -
894A ILE* 4.2 13.7 - - - +
910A MPD 3.7 26.7 + - - +
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Residues in contact with MET 738 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
719A LEU* 4.2 14.8 - - + -
722A PHE* 4.5 7.4 - - + -
723A LEU* 4.2 16.8 - - + -
730A PHE* 3.9 39.0 - - + -
734A GLN 3.1 11.0 + - - +
735A LEU* 3.1 19.4 + - + +
737A GLY* 1.3 76.4 - - - +
739A LEU* 1.3 62.6 + - - +
741A GLY* 3.2 3.9 + - - -
742A ILE* 3.1 30.3 + - + +
766A VAL* 6.2 0.7 - - + -
770A LEU* 4.5 4.0 - - + +
772A CYS* 3.8 22.2 - - - +
829A VAL* 4.8 7.0 - - + -
910A MPD 3.6 36.7 + - + +
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Residues in contact with LEU 739 (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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735A LEU 3.0 17.0 + - - +
736A VAL* 3.2 12.1 + - - +
738A MET* 1.3 76.4 - - - +
740A ARG* 1.3 57.8 + - - +
742A ILE* 3.3 12.3 + - + +
743A ALA 2.9 19.4 + - - -
822A TYR* 2.7 29.9 + - + +
825A VAL* 4.3 3.1 - - + +
826A MET* 3.8 42.8 - - + +
829A VAL* 3.7 29.6 - - + -
830A MET* 4.1 24.9 - - + -
865A LEU* 4.7 6.5 - - + -
890A LEU* 3.8 6.3 - - + -
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Residues in contact with ARG 740 (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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693A ASN* 5.6 0.4 + - - -
736A VAL 2.8 20.1 + - - +
737A GLY* 3.6 6.5 - - - +
738A MET 3.2 0.2 - - - -
739A LEU* 1.3 73.9 - - - +
741A GLY* 1.3 59.5 + - - +
743A ALA* 3.3 2.6 + - - +
744A ALA* 2.9 47.2 + - - +
747A ARG* 4.4 7.9 - - - +
887A VAL* 3.6 21.2 - - + +
890A LEU* 3.7 24.8 - - + +
891A ASP* 2.6 42.2 + - - +
894A ILE* 4.2 11.2 - - + -
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Residues in contact with GLY 741 (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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693A ASN* 3.1 35.7 - - - +
737A GLY 3.1 13.2 + - - -
738A MET* 3.2 4.0 + - - -
740A ARG* 1.3 77.4 - - - +
742A ILE* 1.3 62.8 + - - +
744A ALA* 3.2 2.7 + - - -
745A GLY 3.0 19.4 + - - -
772A CYS* 4.3 3.8 - - - -
910A MPD 6.1 0.4 - - - -
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Residues in contact with ILE 742 (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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693A ASN* 5.1 0.2 - - - -
719A LEU* 3.8 28.9 - - + -
738A MET 3.1 20.5 + - - +
739A LEU* 3.7 14.1 - - + +
741A GLY* 1.3 74.8 - - - +
743A ALA* 1.3 59.3 + - - +
745A GLY* 3.3 2.6 + - - -
746A MET* 2.9 34.6 + - + +
759A LEU* 4.5 4.7 - - + -
764A ILE* 3.9 28.7 - - + -
772A CYS* 3.8 17.9 + - + +
774A VAL* 4.2 6.6 - - + +
822A TYR* 3.7 20.2 - - + -
825A VAL* 4.1 16.8 - - + -
829A VAL* 4.8 0.2 - - + -
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Residues in contact with ALA 743 (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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739A LEU 2.9 17.9 + - - +
740A ARG 3.7 4.7 - - - +
741A GLY 3.2 0.2 - - - -
742A ILE* 1.3 77.8 - - - +
744A ALA* 1.3 51.1 + - - +
746A MET* 3.3 5.4 + - - +
747A ARG* 2.7 35.0 + - - +
822A TYR* 3.6 19.0 - - + +
883A PHE* 4.1 6.0 - - + +
886A ILE* 3.8 19.3 - - + -
887A VAL* 3.7 17.0 - - + +
890A LEU* 4.3 3.8 - - + -
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Residues in contact with ALA 744 (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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691A HIS* 3.6 11.8 + - + +
693A ASN* 3.9 12.3 - - - +
740A ARG* 2.9 39.8 + - - +
741A GLY* 3.2 5.1 + - - +
743A ALA* 1.3 73.9 - - - +
745A GLY* 1.3 65.9 + - - +
747A ARG* 3.4 17.3 + - - +
748A TYR* 3.1 23.6 + - - +
887A VAL* 3.7 8.7 - - + +
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Residues in contact with GLY 745 (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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691A HIS* 3.9 7.6 - - - -
693A ASN* 3.7 28.7 - - - +
694A VAL* 4.0 4.5 - - - +
741A GLY 3.0 11.7 + - - -
742A ILE 3.3 3.5 + - - -
744A ALA* 1.3 76.6 - - - +
746A MET* 1.3 56.6 + - - +
748A TYR* 3.2 4.7 + - - +
749A LEU* 3.0 33.1 + - - +
774A VAL* 4.4 3.6 - - - -
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Residues in contact with MET 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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742A ILE* 2.9 25.4 + - + +
743A ALA 3.7 0.7 - - - +
745A GLY* 1.3 71.9 - - - +
747A ARG* 1.3 61.2 + - - +
749A LEU* 3.3 18.4 + - + +
750A ALA* 2.8 33.7 + - + +
754A TYR 5.4 1.3 - - - +
756A HIS* 4.2 11.2 - - + +
759A LEU* 3.9 29.6 - - + -
774A VAL* 4.0 22.0 - - + -
818A ASP* 3.6 29.4 - - + +
822A TYR* 4.8 0.2 - - + -
883A PHE* 3.5 40.6 - - + -
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Residues in contact with ARG 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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691A HIS* 5.3 4.4 + - - -
740A ARG* 4.4 8.7 - - - +
743A ALA 2.7 20.4 + - - +
744A ALA* 3.6 23.5 + - - +
745A GLY 3.3 0.2 - - - -
746A MET* 1.3 73.4 - - - +
748A TYR* 1.3 62.8 + - - +
750A ALA* 3.5 3.0 + - - +
751A ASP* 3.0 25.3 + - + +
883A PHE* 3.6 16.7 - - + +
884A GLU* 3.8 40.6 + - + +
887A VAL* 3.8 29.4 - - + +
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Residues in contact with TYR 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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688A GLN 4.0 2.4 + - - -
689A PHE* 3.4 36.0 - + + -
690A ASP* 2.9 35.7 + - - +
691A HIS* 3.5 44.0 - + + +
694A VAL* 4.2 4.7 - - + -
744A ALA 3.1 7.4 + - - +
745A GLY 3.4 6.5 - - - +
747A ARG* 1.3 76.7 - - - +
749A LEU* 1.3 73.0 + - + +
751A ASP* 3.2 8.6 + - + +
752A MET* 3.0 48.7 + - + +
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Residues in contact with LEU 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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689A PHE* 3.6 49.8 - - + -
694A VAL* 4.1 12.8 - - + -
745A GLY 3.0 20.0 + - - +
746A MET* 3.8 19.1 - - + +
748A TYR* 1.3 81.9 - - + +
750A ALA* 1.3 62.7 + - - +
752A MET* 3.0 11.4 + - - +
754A TYR* 2.9 40.5 + - + +
756A HIS* 4.8 1.3 - - + -
774A VAL* 3.9 28.3 - - + -
777A PHE* 3.9 10.3 - - + -
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Residues in contact with ALA 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 MET* 2.8 22.7 + - + +
747A ARG* 3.9 4.3 - - - +
749A LEU* 1.3 71.6 - - - +
751A ASP* 1.3 58.7 + - - +
753A GLY* 3.0 19.1 + - - -
754A TYR 4.0 5.6 + - - -
815A SER* 3.5 32.6 + - - +
883A PHE* 4.2 13.5 - - + -
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Residues in contact with ASP 751 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
607A THR* 5.3 2.6 - - - +
747A ARG* 3.0 20.3 + - + +
748A TYR* 3.6 7.2 - - + +
750A ALA* 1.3 77.5 - - - +
752A MET* 1.3 63.3 - - - +
753A GLY 3.1 1.6 + - - -
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Residues in contact with MET 752 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
607A THR* 3.4 46.2 - - - +
608A TYR* 2.8 33.4 + - + +
688A GLN* 3.7 25.1 - - + +
689A PHE* 4.1 18.6 - - + -
748A TYR* 3.0 50.9 + - + +
749A LEU 3.0 9.1 + - - +
751A ASP* 1.3 80.3 - - + +
753A GLY* 1.3 56.9 + - - +
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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