Contacts of the helix formed by residues 880 - 918 (chain C) in PDB entry 6UZA
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 ASN 880 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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875B GLU 3.6 15.8 + - - -
876B SER* 3.7 24.6 + - - +
877B ASP 3.3 14.8 - - - +
878B GLU* 4.2 0.9 - - - +
879B VAL* 4.0 9.6 - - - +
878C GLU 3.6 4.4 + - - +
879C VAL* 1.3 84.8 - - - +
881C GLU* 1.3 64.4 + - - +
882C GLY* 3.4 2.3 + - - -
883C GLU* 3.1 38.6 + - - +
884C LEU* 4.0 3.6 + - - +
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Residues in contact with GLU 881 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
874B LYS* 3.1 32.3 - - - +
875B GLU* 4.2 10.8 + - + +
877B ASP* 2.8 27.1 + - - +
878B GLU 5.1 1.5 - - - +
879B VAL* 4.6 7.2 - - - +
883B GLU* 3.3 38.2 - - - +
880C ASN* 1.3 74.7 - - - +
882C GLY* 1.3 59.3 + - - +
883C GLU 3.4 0.6 + - - -
884C LEU* 4.0 5.3 + - + +
885C LYS* 3.9 17.2 + - - +
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Residues in contact with GLY 882 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
875B GLU* 3.4 36.7 + - - -
171C LYS* 5.6 3.1 + - - -
173C TYR* 5.1 5.0 + - - -
880C ASN* 3.2 2.0 + - - -
881C GLU* 1.3 77.3 - - - +
883C GLU* 1.3 63.7 + - - +
884C LEU 3.6 0.2 - - - -
885C LYS* 4.2 13.5 + - - +
886C GLU* 4.3 11.1 + - - +
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Residues in contact with GLU 883 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
878C GLU 5.5 0.2 - - - -
879C VAL* 3.4 27.2 - - + +
880C ASN* 3.1 24.3 + - - +
881C GLU 3.4 0.2 - - - -
882C GLY* 1.3 81.4 - - - +
884C LEU* 1.3 60.1 + - - +
885C LYS 3.4 0.7 - - - -
886C GLU* 3.8 20.5 + - - +
887C ILE* 3.4 11.8 - - - +
881D GLU* 3.3 42.6 - - - +
884D LEU* 3.3 19.2 - - + +
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Residues in contact with LEU 884 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
879B VAL* 3.8 28.7 - - + -
883B GLU* 3.3 34.1 - - + +
884B LEU* 3.8 23.3 - - + +
887B ILE* 3.9 17.5 - - + +
879C VAL* 5.5 1.6 - - + -
880C ASN 4.0 9.0 + - - +
881C GLU* 4.0 6.9 + - + +
883C GLU* 1.3 74.4 - - - +
885C LYS* 1.3 59.4 + - - +
886C GLU 3.2 1.6 - - - -
887C ILE* 3.2 10.6 + - + +
888C LYS* 3.0 26.2 + - - +
884D LEU* 3.8 24.8 - - + +
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Residues in contact with LYS 885 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
875B GLU* 3.3 28.8 + - - +
142C ALA* 3.1 26.7 + - - +
143C ASN* 3.7 20.8 + - - +
171C LYS* 4.3 11.9 - - - +
173C TYR* 4.9 4.4 + - - -
881C GLU 3.9 14.2 + - - +
882C GLY* 4.4 10.6 + - - +
883C GLU 3.4 0.4 - - - -
884C LEU* 1.3 80.2 - - - +
886C GLU* 1.3 57.6 + - - +
888C LYS* 3.3 12.2 + - + +
889C GLN* 2.9 49.2 + - + +
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Residues in contact with GLU 886 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143C ASN 4.9 3.5 - - - +
144C GLU* 3.6 28.4 - - + +
173C TYR* 3.7 27.1 - - - +
882C GLY 4.3 6.5 + - - +
883C GLU* 3.8 23.1 + - - +
884C LEU 3.2 0.6 - - - -
885C LYS* 1.3 82.1 - - - +
887C ILE* 1.3 60.0 + - + +
889C GLN* 3.4 5.8 + - - +
890C ASP* 3.0 33.1 + - - +
888D LYS* 2.8 39.7 + - - +
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Residues in contact with ILE 887 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
887B ILE* 4.8 8.3 - - + -
883C GLU 3.4 18.4 - - - +
884C LEU* 3.2 13.8 + - + +
886C GLU* 1.3 77.1 - - + +
888C LYS* 1.3 64.5 + - - +
890C ASP* 3.2 6.1 + - - +
891C ILE* 3.0 36.1 + - + +
884D LEU* 3.9 27.6 - - + +
887D ILE* 4.8 10.5 - - + -
888D LYS* 3.7 39.3 - - + +
891D ILE* 3.7 23.8 - - + -
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Residues in contact with LYS 888 (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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144B GLU* 3.3 18.1 + - - -
886B GLU* 2.8 39.2 + - - +
887B ILE* 3.7 17.4 - - + +
890B ASP* 2.9 32.9 + - - +
884C LEU 3.0 13.8 + - - +
885C LYS* 3.3 15.9 + - + +
887C ILE* 1.3 76.8 - - - +
889C GLN* 1.3 69.4 + - - +
891C ILE* 3.3 8.2 + - - +
892C SER* 3.0 27.2 + - - -
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Residues in contact with GLN 889 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107C GLU* 3.4 19.7 - - - +
108C TYR* 3.7 29.5 - - - +
143C ASN* 3.8 33.9 + - + +
145C HIS* 3.6 15.9 + - + -
885C LYS* 2.9 40.5 + - + +
886C GLU 3.9 2.7 - - - +
888C LYS* 1.3 86.1 - - - +
890C ASP* 1.3 61.1 + - - +
892C SER* 3.7 6.7 - - - -
893C SER* 3.0 30.8 + - - -
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Residues in contact with ASP 890 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144C GLU* 3.2 24.2 - - - +
145C HIS* 5.7 0.3 + - - -
886C GLU 3.0 19.5 + - - +
887C ILE* 3.2 12.5 + - - +
889C GLN* 1.3 78.8 - - - +
891C ILE* 1.3 57.4 + - - +
893C SER* 3.5 4.2 + - - -
894C LEU* 3.0 29.9 + - - +
888D LYS* 2.9 36.2 + - - +
891D ILE* 4.5 18.9 - - + +
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Residues in contact with ILE 891 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
887B ILE* 3.7 31.6 - - + +
890B ASP* 4.5 21.8 - - + +
891B ILE* 3.8 22.2 - - + -
894B LEU* 4.1 22.5 - - + +
887C ILE* 3.0 16.6 + - + +
888C LYS* 3.3 6.0 + - - +
890C ASP* 1.3 74.4 - - - +
892C SER* 1.3 58.4 + - - +
894C LEU* 3.4 7.4 + - + +
895C ARG* 2.9 29.0 + - + +
891D ILE* 3.8 27.1 - - + -
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Residues in contact with SER 892 (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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175B ARG* 4.9 5.5 + - - -
108C TYR* 3.0 23.9 + - - +
888C LYS* 3.0 18.5 + - - -
889C GLN* 3.7 13.2 - - - -
890C ASP 3.3 0.2 - - - -
891C ILE* 1.3 76.8 - - - +
893C SER* 1.3 61.9 + - - +
895C ARG* 3.3 9.1 + - - +
896C TYR* 3.1 36.5 + - - -
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Residues in contact with SER 893 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108C TYR 4.5 0.6 + - - -
109C GLY* 3.7 20.7 - - - +
111C ILE* 3.6 22.0 - - - +
145C HIS* 4.2 15.5 - - - -
147C GLU* 3.8 7.8 + - - -
889C GLN 3.0 18.0 + - - -
890C ASP* 3.9 4.7 - - - -
892C SER* 1.3 75.8 + - - +
894C LEU* 1.3 61.8 + - - +
896C TYR* 3.4 2.3 + - - +
897C GLU* 3.0 28.1 + - - +
895D ARG* 5.3 2.1 + - - -
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Residues in contact with LEU 894 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
894B LEU* 4.6 15.0 - - + -
890C ASP 3.0 18.1 + - - +
891C ILE* 3.7 6.7 - - + +
893C SER* 1.3 78.1 + - - +
895C ARG* 1.3 56.5 + - - +
897C GLU* 3.9 6.0 - - + +
898C LEU* 3.0 62.9 + - + +
891D ILE* 4.1 25.6 - - + +
894D LEU* 4.6 20.6 - - + -
895D ARG* 3.7 39.3 - - + +
898D LEU* 5.3 0.9 - - + -
899D LEU* 5.7 1.1 - - + -
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Residues in contact with ARG 895 (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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147B GLU* 3.7 35.1 + - - +
893B SER* 5.3 2.3 + - - -
894B LEU* 3.7 33.4 - - + +
897B GLU* 3.0 37.8 + - - -
891C ILE* 2.9 18.3 + - + +
892C SER* 3.5 9.0 - - - +
894C LEU* 1.3 76.7 - - - +
896C TYR* 1.3 94.7 + - - +
898C LEU* 3.9 1.4 - - - +
899C LEU* 3.0 42.7 + - + +
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Residues in contact with TYR 896 (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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175B ARG* 3.4 28.5 + - - -
108C TYR* 3.6 28.2 - - + +
109C GLY 4.0 2.7 - - - +
110C ASN* 3.8 54.0 + - + +
112C PRO* 4.6 5.1 - - + +
892C SER* 3.1 30.6 + - - +
893C SER 3.9 3.6 - - - +
895C ARG* 1.3 100.1 + - - +
897C GLU* 1.3 63.8 + - - +
899C LEU* 4.1 3.6 - - + +
900C GLU* 3.1 25.8 + - - +
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Residues in contact with GLU 897 (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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111C ILE* 3.6 27.0 - - + +
112C PRO* 4.8 6.3 - - + -
115C ARG* 4.7 17.4 + - - +
147C GLU* 5.2 0.3 - - - +
893C SER* 3.0 19.4 + - - +
894C LEU* 3.9 5.0 - - + +
896C TYR* 1.3 75.5 - - - +
898C LEU* 1.3 59.8 + - + +
900C GLU* 3.9 6.6 - - - +
901C GLU* 3.0 29.2 + - - +
895D ARG* 3.0 41.4 + - - +
899D LEU* 3.6 25.5 - - + +
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Residues in contact with LEU 898 (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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894B LEU* 5.3 1.6 - - + -
898B LEU* 3.7 34.7 - - + +
894C LEU* 3.0 42.4 + - + +
895C ARG* 4.1 2.5 - - - +
897C GLU* 1.3 73.5 - - - +
899C LEU* 1.3 62.6 + - - +
901C GLU* 3.3 6.3 + - + +
902C LYS* 3.0 28.9 + - - +
898D LEU* 3.7 42.6 - - + +
899D LEU* 3.9 23.1 - - + -
902D LYS* 5.8 2.5 - - + -
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Residues in contact with LEU 899 (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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894B LEU* 5.7 0.7 - - + -
897B GLU* 3.6 44.2 - - + +
898B LEU* 3.9 23.1 - - + -
901B GLU* 4.8 10.1 - - + -
895C ARG* 3.0 47.8 + - + +
896C TYR* 4.1 2.9 - - + +
898C LEU* 1.3 75.5 - - - +
900C GLU* 1.3 58.9 + - - +
902C LYS* 3.4 4.5 + - + +
903C SER* 3.0 29.3 + - - -
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Residues in contact with GLU 900 (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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112C PRO* 3.4 37.7 - - + +
115C ARG* 4.4 10.3 + - - -
896C TYR 3.1 19.3 + - - +
897C GLU* 4.0 4.9 - - - +
899C LEU* 1.3 77.5 - - - +
901C GLU* 1.3 60.9 + - - +
903C SER* 2.9 23.0 + - - +
904C GLN* 2.9 36.1 + - - +
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Residues in contact with GLU 901 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
897C GLU 3.0 18.9 + - - +
898C LEU* 3.3 8.7 + - + +
900C GLU* 1.3 81.2 + - - +
902C LYS* 1.3 57.4 + - - +
904C GLN* 3.5 4.6 + - - +
905C ASN* 3.0 30.8 + - - +
899D LEU* 4.8 10.3 - - + -
902D LYS* 4.7 20.9 - - + +
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Residues in contact with LYS 902 (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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898B LEU* 5.8 2.7 - - + -
901B GLU* 4.7 21.5 - - + +
905B ASN* 5.6 2.4 - - - +
898C LEU 3.0 17.8 + - - +
899C LEU* 3.8 7.2 - - + +
901C GLU* 1.3 76.4 - - - +
903C SER* 1.3 57.2 + - - +
905C ASN* 3.4 6.1 + - - +
906C THR* 3.0 30.0 + - - -
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Residues in contact with SER 903 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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899C LEU 3.0 14.3 + - - -
900C GLU* 2.9 23.6 + - - +
902C LYS* 1.3 75.6 - - - +
904C GLN* 1.3 58.9 + - - +
906C THR* 3.4 6.0 + - - -
907C GLU* 2.9 30.2 + - - +
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Residues in contact with GLN 904 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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900C GLU* 2.9 36.4 + - - +
901C GLU* 3.9 6.7 - - - +
903C SER* 1.3 78.7 + - - +
905C ASN* 1.3 56.0 + - - +
907C GLU* 3.4 11.4 + - - +
908C ASP* 2.9 35.5 + - + +
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Residues in contact with ASN 905 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
901C GLU 3.0 18.8 + - - +
902C LYS* 3.8 4.9 - - - +
904C GLN* 1.3 77.2 - - - +
906C THR* 1.3 56.2 + - - +
908C ASP* 3.4 4.8 + - - +
909C LEU* 3.0 30.8 + - - +
902D LYS* 5.6 4.5 - - + +
906D THR* 4.8 20.6 - - - -
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Residues in contact with THR 906 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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905B ASN* 4.8 19.7 - - - -
908B ASP* 6.5 0.9 - - - -
902C LYS 3.0 17.8 + - - -
903C SER* 3.8 6.5 - - - -
904C GLN 3.3 0.2 - - - -
905C ASN* 1.3 75.5 - - - +
907C GLU* 1.3 57.9 + - - +
909C LEU* 3.5 4.8 + - - +
910C ALA* 2.9 31.2 + - - +
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Residues in contact with GLU 907 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
903C SER 2.9 18.7 + - - +
904C GLN* 3.8 13.5 - - - +
906C THR* 1.3 77.2 - - - +
908C ASP* 1.3 57.2 + - - +
910C ALA* 3.4 5.5 + - - +
911C GLU* 2.9 30.0 + - - +
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Residues in contact with ASP 908 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
904C GLN* 2.9 22.3 + - + +
905C ASN* 3.9 5.6 - - - +
906C THR 3.4 0.2 - - - -
907C GLU* 1.3 76.7 - - - +
909C LEU* 1.3 59.1 + - - +
911C GLU* 3.4 5.1 + - - +
912C LEU* 3.0 37.9 + - + +
906D THR* 6.5 0.7 - - - -
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Residues in contact with LEU 909 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
909B LEU* 5.8 8.5 - - + -
905C ASN 3.0 18.3 + - - +
906C THR* 3.9 5.8 - - - +
908C ASP* 1.3 77.2 - - - +
910C ALA* 1.3 56.9 + - - +
912C LEU* 3.5 4.2 + - - +
913C ILE* 2.9 38.3 + - + +
909D LEU* 5.8 8.1 - - + -
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Residues in contact with ALA 910 (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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912B LEU* 4.4 21.4 - - + +
906C THR 2.9 18.2 + - - +
907C GLU* 3.9 5.8 - - - +
909C LEU* 1.3 75.5 - - - +
911C GLU* 1.3 59.0 + - - +
913C ILE* 3.8 1.2 - - - +
914C ARG* 2.9 30.3 + - - +
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Residues in contact with GLU 911 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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907C GLU 2.9 18.7 + - - +
908C ASP* 3.9 5.4 - - - +
909C LEU 3.3 0.2 - - - -
910C ALA* 1.3 76.8 - - - +
912C LEU* 1.3 63.0 + - + +
914C ARG* 3.3 17.7 + - - +
915C GLU* 3.0 30.8 + - - +
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Residues in contact with LEU 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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908C ASP* 3.0 24.7 + - + +
909C LEU* 4.2 4.0 - - - +
911C GLU* 1.3 81.3 - - + +
913C ILE* 1.3 62.3 + - - +
915C GLU* 4.1 7.5 - - + +
916C LEU* 3.8 15.8 + - - +
910D ALA* 4.4 22.7 - - + +
913D ILE* 3.7 42.4 - - + +
914D ARG* 5.3 2.7 - - + +
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Residues in contact with ILE 913 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
912B LEU* 3.7 47.1 - - + +
913B ILE* 3.7 23.6 - - + -
916B LEU* 4.6 8.2 - - + +
909C LEU* 2.9 24.2 + - + +
910C ALA 4.0 2.5 - - - +
912C LEU* 1.3 80.3 - - - +
914C ARG* 1.3 58.3 + - - +
916C LEU* 3.3 12.2 + - + +
917C GLY* 2.9 25.5 + - - -
913D ILE* 3.7 32.1 - - + -
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Residues in contact with ARG 914 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
912B LEU* 5.3 2.8 - - + +
910C ALA 2.9 18.5 + - - +
911C GLU* 3.3 18.7 + - - +
913C ILE* 1.3 78.4 - - - +
915C GLU* 1.3 85.5 + - - +
917C GLY* 3.7 1.9 - - - +
918C GLU* 3.0 48.3 + - + +
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Residues in contact with GLU 915 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
911C GLU 3.0 18.6 + - - +
912C LEU* 4.5 8.1 - - + +
913C ILE 3.3 0.2 - - - -
914C ARG* 1.3 97.0 - - - +
916C LEU* 1.3 56.6 + - - +
918C GLU* 4.3 5.8 + - - +
919C LYS* 3.7 24.8 + - - +
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Residues in contact with LEU 916 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
916B LEU* 3.1 40.4 - - + -
912C LEU 3.8 15.3 + - - +
913C ILE* 3.3 11.0 + - + +
914C ARG 3.1 0.2 - - - -
915C GLU* 1.3 75.1 - - - +
917C GLY* 1.3 60.4 + - - +
918C GLU 3.3 2.0 - - - -
919C LYS* 3.4 20.7 + - - +
920C LEU* 3.6 17.5 - - + +
913D ILE* 4.6 10.8 - - + +
916D LEU* 3.1 37.7 - - + +
917D GLY* 4.0 23.3 - - - +
920D LEU* 4.9 12.8 - - + -
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Residues in contact with GLY 917 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
916B LEU* 4.0 14.1 - - - +
919B LYS* 5.5 5.9 - - - -
913C ILE 2.9 16.8 + - - -
914C ARG* 3.2 3.5 + - - -
916C LEU* 1.3 72.8 - - - +
918C GLU* 1.3 58.4 + - - +
919C LYS 3.2 7.1 + - - -
920C LEU* 4.0 15.5 + - - +
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Residues in contact with GLU 918 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
914C ARG* 3.0 42.7 + - + +
915C GLU 4.7 5.4 - - - +
916C LEU 3.3 0.8 - - - -
917C GLY* 1.3 78.9 - - - +
919C LYS* 1.3 61.4 + - + +
920C LEU 3.7 2.9 - - - -
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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
------------------------------------------------------------
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