Contacts of the helix formed by residues 864 - 889 (chain H) in PDB entry 6X34
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 PRO 864 (chain H).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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863H LEU* 1.3 77.8 - - - +
865H PRO* 1.3 66.2 - - - +
866H HIS* 3.2 10.1 - - + +
867H LEU* 3.2 22.6 + - + +
868H GLU* 3.7 4.9 + - - +
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Residues in contact with PRO 865 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
864H PRO* 1.3 71.7 - - - +
866H HIS* 1.3 59.9 + - - +
868H GLU* 3.3 9.0 + - + +
869H ARG* 2.9 28.0 + - - +
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Residues in contact with HIS 866 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
864H PRO* 3.2 7.6 - - + +
865H PRO* 1.3 77.0 - - - +
867H LEU* 1.3 56.8 + - - +
869H ARG* 3.7 9.1 - - - +
870H ILE* 2.9 31.0 + - - +
1051H TYR* 4.4 21.1 + - + +
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Residues in contact with LEU 867 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
863H LEU* 4.8 6.7 - - + -
864H PRO* 3.2 23.0 + - + +
865H PRO 3.2 1.0 - - - -
866H HIS* 1.3 78.6 - - - +
868H GLU* 1.3 58.2 + - - +
870H ILE* 3.3 4.5 + - - +
871H ARG* 2.9 28.7 + - - +
929H LEU* 5.2 10.0 - - + +
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Residues in contact with GLU 868 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
864H PRO 3.7 4.7 + - - +
865H PRO* 3.3 10.4 + - + +
867H LEU* 1.3 77.1 - - - +
869H ARG* 1.3 59.7 + - - +
871H ARG* 3.7 7.8 - - - +
872H GLU* 2.9 30.8 + - - +
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Residues in contact with ARG 869 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
865H PRO 2.9 17.4 + - - +
866H HIS* 3.7 9.0 - - - +
868H GLU* 1.3 78.0 - - - +
870H ILE* 1.3 60.6 + - - +
872H GLU* 3.8 6.5 + - - +
873H LYS* 3.7 16.8 + - - +
1050H GLY* 5.4 5.4 - - - -
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Residues in contact with ILE 870 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
866H HIS 2.9 17.4 + - - +
867H LEU* 3.9 4.7 - - - +
869H ARG* 1.3 75.2 - - - +
871H ARG* 1.3 61.0 + - - +
873H LYS* 3.4 6.8 + - - +
874H LEU* 2.9 28.2 + - - +
1046H LEU* 4.3 21.5 - - + +
1050H GLY* 4.8 5.3 - - - -
1051H TYR* 4.4 20.0 - - + +
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Residues in contact with ARG 871 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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867H LEU 2.9 18.0 + - - +
868H GLU* 3.2 9.4 + - - +
870H ILE* 1.3 74.4 - - - +
872H GLU* 1.3 59.5 + - - +
874H LEU* 4.0 7.2 - - - -
875H ALA* 2.9 26.2 + - - +
922H LEU* 6.3 1.1 - - + -
925H SER* 3.2 31.7 - - - +
926H GLY* 5.1 2.2 - - - +
929H LEU* 4.9 9.4 - - + +
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Residues in contact with GLU 872 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
868H GLU 2.9 16.7 + - - +
869H ARG* 3.9 7.6 - - - +
871H ARG* 1.3 77.0 - - - +
873H LYS* 1.3 57.5 + - - +
875H ALA* 3.3 6.3 + - - +
876H GLU* 2.9 28.1 + - - +
910H PHE* 4.6 9.6 - - + -
922H LEU* 6.1 3.1 - - - -
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Residues in contact with LYS 873 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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869H ARG 3.7 9.2 + - - +
870H ILE* 3.4 9.2 + - - +
872H GLU* 1.3 79.0 - - - +
874H LEU* 1.3 58.0 + - - +
876H GLU* 3.3 7.7 + - - +
877H ASN* 2.9 30.1 + - - +
971H ASP* 4.8 5.5 - - + +
1046H LEU* 5.5 1.6 - - - -
1049H TYR* 3.7 30.5 - - + -
1050H GLY 5.2 0.7 - - - +
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Residues in contact with LEU 874 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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870H ILE 2.9 18.1 + - - +
871H ARG* 3.6 9.0 - - - +
872H GLU 3.2 0.2 - - - -
873H LYS* 1.3 77.0 - - - +
875H ALA* 1.3 56.6 + - - +
877H ASN* 3.3 6.4 + - - +
878H ILE* 2.9 28.8 + - - +
925H SER* 4.3 13.2 - - - +
928H THR* 4.9 10.3 - - + -
1042H ALA* 5.4 4.3 - - + +
1046H LEU* 3.7 25.9 - - + +
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Residues in contact with ALA 875 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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871H ARG 2.9 16.3 + - - +
872H GLU* 3.7 5.6 - - - +
874H LEU* 1.3 72.6 - - - +
876H GLU* 1.3 60.6 + - - +
878H ILE* 3.3 7.2 + - - +
879H HIS* 2.9 30.3 + - - +
910H PHE* 4.4 10.8 - - + -
921H ASN* 3.5 38.3 - - + +
922H LEU* 4.6 8.3 - - + +
925H SER* 3.7 7.3 - - - -
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Residues in contact with GLU 876 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
872H GLU 2.9 16.7 + - - +
873H LYS* 3.6 8.7 - - - +
875H ALA* 1.3 76.3 - - - +
877H ASN* 1.3 56.5 + - - +
879H HIS* 3.3 3.7 + - - +
880H GLU* 2.9 28.3 + - - +
910H PHE* 3.7 21.9 - - + -
969H PRO 5.8 0.4 - - - -
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Residues in contact with ASN 877 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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873H LYS 2.9 18.0 + - - +
874H LEU* 3.8 5.8 - - - +
876H GLU* 1.3 76.2 - - - +
878H ILE* 1.3 58.1 + - - +
880H GLU* 3.3 3.1 + - - +
881H LEU* 2.9 30.1 + - - +
969H PRO* 3.8 29.6 - - + +
971H ASP* 4.2 15.5 - - + -
1042H ALA* 5.7 5.6 - - + +
1045H THR* 4.2 11.7 - - - -
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Residues in contact with ILE 878 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
874H LEU 2.9 17.8 + - - +
875H ALA* 3.7 8.1 - - - +
877H ASN* 1.3 77.7 - - - +
879H HIS* 1.3 56.4 + - - +
881H LEU* 3.3 5.9 + - - +
882H TRP* 2.9 28.8 + - - +
920H TYR* 6.3 3.8 - - + -
921H ASN* 5.7 2.7 - - - +
924H MET* 4.9 17.0 - - + -
925H SER 6.0 0.2 - - - +
1042H ALA* 6.0 8.7 - - + +
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Residues in contact with HIS 879 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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875H ALA 2.9 16.7 + - - +
876H GLU 3.7 4.7 - - - +
878H ILE* 1.3 75.4 - - - +
880H GLU* 1.3 58.0 + - - +
882H TRP* 3.3 14.2 + - + +
883H ALA* 2.9 28.6 + - - +
907H LEU 4.6 3.5 - - - +
908H VAL 5.0 2.7 - - - +
909H ASP* 4.2 27.7 - - + -
910H PHE* 4.3 14.4 - - + +
921H ASN* 5.2 6.0 - - + +
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Residues in contact with GLU 880 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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876H GLU 2.9 17.6 + - - +
877H ASN* 3.7 0.9 - - - +
878H ILE 3.3 0.4 - - - -
879H HIS* 1.3 76.8 - - - +
881H LEU* 1.3 57.6 + - - +
883H ALA* 3.3 2.6 + - - +
884H LEU* 2.9 23.2 + - - +
909H ASP* 6.0 0.8 - - - +
966H LYS* 3.9 22.4 - - + +
967H PRO 3.3 11.1 - - - +
968H ALA 3.3 32.8 - - - +
969H PRO* 3.6 9.9 - - + +
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Residues in contact with LEU 881 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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877H ASN 2.9 17.1 + - - +
878H ILE* 3.8 6.3 - - - +
880H GLU* 1.3 73.4 - - - +
882H TRP* 1.3 60.5 + - - +
884H LEU* 3.2 11.2 + - - +
885H THR* 2.9 31.5 + - - +
969H PRO* 5.0 5.8 - - + -
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Residues in contact with TRP 882 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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878H ILE 2.9 16.8 + - - +
879H HIS* 3.3 11.6 + - + +
881H LEU* 1.3 76.3 - - - +
883H ALA* 1.3 57.2 + - - +
885H THR* 3.1 17.5 - - + +
886H ARG* 2.9 34.4 + - + +
906H CYS* 3.8 26.9 - - + -
907H LEU* 4.8 15.7 - - + +
908H VAL 5.6 1.3 - - - -
917H GLU* 5.0 10.3 - - + -
920H TYR* 4.2 37.5 - + + -
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Residues in contact with ALA 883 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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879H HIS 2.9 15.8 + - - +
880H GLU* 3.3 5.1 + - - +
882H TRP* 1.3 75.9 - - - +
884H LEU* 1.3 58.5 + - - +
886H ARG* 3.7 6.3 - - - +
887H ILE* 2.9 31.2 + - - +
907H LEU* 3.8 20.1 + - - +
909H ASP 5.9 0.2 - - - +
963H ASN* 5.2 9.0 - - + -
965H TYR* 4.9 11.0 - - + -
966H LYS 3.9 15.5 - - - +
967H PRO* 4.8 1.6 - - + -
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Residues in contact with LEU 884 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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880H GLU 2.9 11.6 + - - +
881H LEU* 3.5 10.5 - - - +
882H TRP 3.2 0.2 - - - -
883H ALA* 1.3 75.7 - - - +
885H THR* 1.3 62.3 + - - +
887H ILE* 3.3 6.1 + - - +
888H GLU* 2.9 36.0 + - + +
967H PRO* 3.2 26.2 + - - +
968H ALA* 4.0 19.1 - - + -
969H PRO 5.3 0.9 - - - -
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Residues in contact with THR 885 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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881H LEU 2.9 16.9 + - - +
882H TRP* 3.1 31.0 - - + +
884H LEU* 1.3 81.2 - - - +
886H ARG* 1.3 57.3 + - - +
888H GLU* 3.8 7.5 - - - +
889H GLN* 2.9 32.4 + - - +
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Residues in contact with ARG 886 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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882H TRP* 2.9 24.4 + - + +
883H ALA* 3.7 7.4 - - - +
885H THR* 1.3 80.1 - - - +
887H ILE* 1.3 59.0 + - - +
889H GLN* 3.7 4.2 + - - +
890H GLY 3.5 1.7 + - - -
891H TRP* 3.0 48.5 + - + +
892H THR* 4.6 2.0 - - - -
893H TYR 5.4 0.2 - - - +
904H HIS* 5.0 2.2 - - + -
907H LEU* 4.4 17.7 - - + -
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Residues in contact with ILE 887 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
883H ALA 2.9 17.6 + - - +
884H LEU* 3.8 4.9 - - - +
886H ARG* 1.3 76.5 - - - +
888H GLU* 1.3 62.4 + - - +
890H GLY* 3.4 11.1 + - - -
892H THR* 4.4 20.3 - - + +
958H THR* 5.4 13.2 - - - -
961H MET* 5.7 6.1 - - + -
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Residues in contact with GLU 888 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
884H LEU* 2.9 23.6 + - + +
885H THR* 3.9 7.6 - - - +
886H ARG 3.3 0.2 - - - -
887H ILE* 1.3 75.7 - - - +
889H GLN* 1.3 57.3 + - - +
890H GLY* 3.1 8.6 + - - -
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Residues in contact with GLN 889 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
885H THR* 2.9 20.6 + - - +
886H ARG* 3.7 5.1 + - - +
887H ILE 3.4 0.2 - - - -
888H GLU* 1.3 75.4 - - - +
890H GLY* 1.3 55.6 + - - +
891H TRP* 3.2 13.4 + - + +
902H ARG* 5.7 0.3 - - - +
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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