Contacts of the helix formed by residues 910 - 932 (chain C) in PDB entry 5X22
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 LYS 910 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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552C HIS* 6.3 1.8 - - - -
906C PHE 5.3 6.9 + - - -
907C ASP* 5.8 4.4 + - - +
908C GLY 4.5 13.0 - - - +
909C ALA* 1.3 78.6 - - - +
911C GLU* 1.3 69.5 + - - +
912C PRO* 3.5 10.5 - - + -
913C GLU* 2.5 22.6 + - + +
914C ILE* 3.2 19.9 + - - +
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Residues in contact with GLU 911 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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552C HIS* 6.4 0.2 - - - +
886C LEU* 4.8 17.0 - - + -
910C LYS* 1.3 76.3 - - - +
912C PRO* 1.4 69.6 - - + +
914C ILE* 3.0 11.8 + - - +
915C LYS* 2.9 49.4 + - - +
951D ILE* 4.2 13.3 - - + +
952D ASP* 4.2 0.9 - - - +
1062D ARG* 2.6 54.0 + - - +
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Residues in contact with PRO 912 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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910C LYS* 3.6 12.8 - - + -
911C GLU* 1.4 94.5 - - + +
913C GLU* 1.3 58.9 + - + +
915C LYS* 3.2 12.4 + - + +
916C GLU* 2.9 39.1 + - - +
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Residues in contact with GLU 913 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6C PHE* 3.2 36.0 - - + +
7C GLY 5.6 0.3 + - - -
908C GLY 3.8 3.5 - - - +
909C ALA* 3.4 6.7 - - + -
910C LYS* 2.5 44.8 + - + +
911C GLU 3.2 0.6 - - - -
912C PRO* 1.3 77.3 - - + +
914C ILE* 1.3 58.1 - - - +
916C GLU* 3.2 15.8 + - - +
917C LEU* 2.9 33.0 + - + +
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Residues in contact with ILE 914 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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549C PHE* 4.1 29.2 - - + -
886C LEU* 4.4 18.8 - - + +
889C HIS* 4.1 12.6 - - + -
890C LEU* 3.7 48.0 - - + +
893C ALA* 5.8 0.2 - - + -
909C ALA* 4.1 9.2 - - + +
910C LYS 3.2 19.1 - - - +
911C GLU* 3.0 8.0 + - - +
913C GLU* 1.3 72.8 - - - +
915C LYS* 1.3 61.7 + - + +
917C LEU* 3.9 5.6 - - + +
918C LEU* 2.9 35.4 + - + +
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Residues in contact with LYS 915 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
911C GLU* 2.9 45.3 + - + +
912C PRO* 3.2 11.9 - - + +
914C ILE* 1.3 76.7 - - + +
916C GLU* 1.3 60.2 + - + +
918C LEU* 3.4 6.3 + - + +
919C ALA* 2.9 29.3 + - - +
968C LEU* 2.8 45.9 + - + +
969C GLN* 4.1 2.2 - - - +
951D ILE* 4.9 6.7 - - - +
952D ASP* 2.8 32.3 + - - -
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Residues in contact with GLU 916 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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912C PRO* 2.9 24.9 + - - +
913C GLU* 3.5 15.0 - - - +
915C LYS* 1.3 76.8 - - + +
917C LEU* 1.3 58.8 + - + +
919C ALA* 3.1 9.3 + - - +
920C GLN* 2.9 44.7 + - - +
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Residues in contact with LEU 917 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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4C LYS* 4.5 15.5 - - + -
6C PHE* 3.8 17.5 - - + -
890C LEU* 3.6 19.5 - - + -
893C ALA* 3.9 12.6 - - + -
897C LEU* 3.6 12.3 - - + +
899C GLN* 3.6 24.9 - - - +
901C TYR* 3.5 24.7 - - + -
913C GLU* 2.9 19.7 + - + +
914C ILE* 3.9 4.7 - - - +
915C LYS 3.3 0.2 - - - -
916C GLU* 1.3 76.8 - - + +
918C LEU* 1.3 58.1 + - - +
920C GLN* 3.3 19.7 + - - +
921C ALA* 2.9 27.9 + - - +
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Residues in contact with LEU 918 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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889C HIS* 3.6 29.2 - - + +
892C LEU* 4.0 11.0 - - + -
893C ALA* 3.6 20.9 - - + +
914C ILE* 2.9 36.0 + - + +
915C LYS* 3.7 4.7 - - + +
916C GLU 3.3 0.2 - - - -
917C LEU* 1.3 72.4 - - - +
919C ALA* 1.3 61.1 + - - +
921C ALA* 3.3 0.6 + - - -
922C PHE* 2.9 24.6 + - - +
967C PHE* 3.3 43.5 - - + +
968C LEU* 3.7 24.5 - - + +
969C GLN 4.8 0.2 - - - -
970C GLY* 4.0 10.8 - - - +
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Residues in contact with ALA 919 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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915C LYS 2.9 14.8 + - - +
916C GLU* 3.3 13.0 - - - +
918C LEU* 1.3 77.5 - - - +
920C GLN* 1.3 61.1 + - + +
922C PHE* 3.5 12.0 + - - +
923C GLU* 3.5 16.3 - - - +
964C LYS* 3.9 19.9 + - - +
968C LEU* 3.6 20.4 - - + +
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Residues in contact with GLN 920 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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897C LEU* 3.8 23.0 - - + +
899C GLN* 5.4 0.3 + - - -
916C GLU* 2.9 32.0 + - - +
917C LEU* 3.6 19.9 - - - +
919C ALA* 1.3 77.7 - - + +
921C ALA* 1.3 60.8 + - - +
923C GLU* 3.4 20.9 + - - +
924C VAL* 3.8 10.2 - - - +
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Residues in contact with ALA 921 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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893C ALA* 3.7 25.6 - - - -
896C PHE* 3.8 18.4 - - + +
897C LEU* 3.7 14.1 - - + +
917C LEU 2.9 16.6 + - - +
918C LEU 3.3 4.9 + - - +
920C GLN* 1.3 74.5 - - - +
922C PHE* 1.3 60.5 + - - +
924C VAL* 3.2 5.7 + - - +
925C TYR* 2.9 27.5 + - - +
967C PHE* 4.1 8.5 - - + -
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Residues in contact with PHE 922 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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918C LEU 2.9 16.6 + - - +
919C ALA* 3.6 8.3 - - - +
920C GLN 3.2 0.2 - - - -
921C ALA* 1.3 77.2 - - - +
923C GLU* 1.3 73.4 + - - +
925C TYR* 4.1 10.8 - + - -
926C PHE* 2.9 57.8 + + + +
960C GLU* 3.6 19.7 - - + -
963C LEU* 3.8 13.5 - - + -
964C LYS* 3.5 51.8 - - + -
967C PHE* 3.6 36.3 - + + -
968C LEU* 5.3 0.4 - - + -
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Residues in contact with GLU 923 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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919C ALA 3.5 11.2 - - - +
920C GLN* 3.4 11.2 + - - +
921C ALA 3.2 0.6 - - - -
922C PHE* 1.3 89.0 - - - +
924C VAL* 1.3 59.5 + - + +
927C GLY* 2.9 35.5 + - - +
928C LYS 3.7 1.7 + - - -
960C GLU* 5.4 3.8 - - - +
964C LYS* 3.4 23.7 + - - +
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Residues in contact with VAL 924 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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896C PHE* 3.9 26.1 - - + +
897C LEU* 4.2 16.8 - - + -
920C GLN 3.8 15.0 - - - +
921C ALA 3.2 6.7 + - - +
923C GLU* 1.3 78.3 - - + +
925C TYR* 1.3 61.6 + - - +
928C LYS* 3.4 39.6 + - - +
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Residues in contact with TYR 925 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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861C LEU* 4.6 9.5 - - + +
862C PRO* 3.2 35.1 - - + +
863C ASP* 3.5 25.9 - - + +
896C PHE* 3.4 40.8 - + + -
921C ALA 2.9 16.5 + - - +
922C PHE* 3.7 18.4 - + - +
923C GLU 3.2 0.2 - - - -
924C VAL* 1.3 79.6 - - - +
926C PHE* 1.3 66.3 + + - +
928C LYS* 4.8 1.6 - - - +
929C ARG* 4.6 9.4 + - - +
940C GLU* 5.0 2.2 + - - -
963C LEU* 6.6 0.2 - - + -
967C PHE* 3.5 30.5 - + + -
972C VAL* 4.7 12.9 - - + +
973C VAL* 4.8 0.7 + - - +
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Residues in contact with PHE 926 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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922C PHE* 2.9 37.0 + + + +
925C TYR* 1.3 84.8 - + + +
927C GLY* 1.3 56.2 + - - +
928C LYS 3.0 2.0 - - - -
929C ARG* 2.6 64.7 + - - +
930C LYS* 2.9 34.9 + - + -
936C VAL* 3.9 23.1 - - + -
940C GLU* 5.6 0.7 - - - -
960C GLU* 3.3 47.1 - - + -
963C LEU* 3.9 20.2 - - + -
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Residues in contact with GLY 927 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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923C GLU* 2.9 25.3 + - - +
926C PHE* 1.3 75.5 - - - +
928C LYS* 1.3 56.4 + - - +
930C LYS* 3.3 12.3 + - - +
931C GLY* 2.9 25.3 + - - -
960C GLU* 5.4 1.5 + - - -
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Residues in contact with LYS 928 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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923C GLU 3.7 5.1 + - - -
924C VAL* 3.4 36.8 + - - +
925C TYR 4.9 2.2 - - - +
926C PHE 2.9 1.2 + - - -
927C GLY* 1.3 74.3 - - - +
929C ARG* 1.3 58.0 + - - +
931C GLY* 3.1 3.8 + - - -
932C GLU* 2.9 56.1 + - + +
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Residues in contact with ARG 929 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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180A GLN* 3.4 25.9 + - - +
198A ARG* 6.1 0.2 - - - +
862C PRO* 3.3 34.8 - - - +
863C ASP* 5.8 0.6 - - - +
925C TYR 4.6 5.9 + - - +
926C PHE* 2.6 49.0 + - - +
928C LYS* 1.3 75.2 - - - +
930C LYS* 1.3 60.3 + - - +
932C GLU* 3.1 26.5 + - - +
934C PHE* 3.1 45.0 + - + +
935C GLY 3.5 14.7 + - - -
936C VAL* 4.1 0.6 - - - +
937C ASP* 5.5 0.2 + - - -
940C GLU* 2.6 34.6 + - - -
975C TYR* 4.9 1.8 + - - -
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Residues in contact with LYS 930 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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926C PHE* 2.9 50.7 + - + +
927C GLY* 3.6 12.8 - - - +
929C ARG* 1.3 75.9 - - - +
931C GLY* 1.3 59.3 + - - +
933C GLY* 3.6 10.4 + - - -
934C PHE 3.4 13.3 + - - +
935C GLY* 3.5 25.1 - - - -
936C VAL* 4.5 3.2 - - - +
960C GLU* 4.4 13.6 + - - +
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Residues in contact with GLY 931 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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927C GLY 2.9 14.0 + - - -
928C LYS* 3.1 4.9 + - - -
930C LYS* 1.3 73.8 - - - +
932C GLU* 1.3 59.5 + - - +
933C GLY 3.1 5.9 + - - -
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Residues in contact with GLU 932 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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22A GLU* 4.7 6.6 - - - +
198A ARG* 3.1 28.2 + - - +
200A TRP* 5.8 1.9 - - - -
928C LYS* 2.9 40.9 + - + +
929C ARG* 3.1 22.5 + - - +
931C GLY* 1.3 77.1 - - - +
933C GLY* 1.3 62.0 + - - +
934C PHE* 3.4 21.0 - - + -
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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