Contacts of the helix formed by residues 70 - 94 (chain 4) in PDB entry 1ILL
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 ALA 70 (chain 4).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
694 THR* 1.4 78.1 - - + +
714 GLN* 1.3 60.3 - - - +
734 PHE* 2.9 7.7 + - - +
744 HIS* 2.8 50.5 + - + +
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Residues in contact with GLN 71 (chain 4).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
694 THR* 3.3 3.4 - - + +
704 ALA* 1.3 79.5 - - - +
724 GLN* 1.3 63.5 + - + +
744 HIS* 4.4 7.0 - - + -
754 ARG* 2.5 76.6 + - + +
784 GLN* 5.9 0.7 - - - +
122R TYR* 5.8 1.6 - - - -
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Residues in contact with GLN 72 (chain 4).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
214 LYS* 3.3 17.3 + - - +
224 THR* 2.8 36.6 + - - +
234 LEU* 4.9 2.7 - - + +
664 LEU 3.0 12.1 - - - +
684 ALA* 3.7 17.5 - - + +
694 THR* 2.7 44.8 + - - +
714 GLN* 1.3 77.8 - - + +
734 PHE* 1.3 63.2 + - - +
754 ARG* 2.7 27.3 + - - +
764 HIS* 3.3 19.9 + - - +
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Residues in contact with PHE 73 (chain 4).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
634 THR* 6.2 4.3 - - + -
664 LEU* 3.2 42.4 + - + +
674 GLY* 4.3 8.7 - - - -
694 THR 2.8 10.5 + - - +
704 ALA* 2.9 10.5 + - - +
724 GLN* 1.3 73.2 - - - +
744 HIS* 1.3 75.7 + + - +
764 HIS* 2.8 29.1 + - - +
774 LYS* 3.9 2.8 + - - +
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Residues in contact with HIS 74 (chain 4).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
704 ALA* 2.8 45.6 + - + +
714 GLN* 4.1 7.2 - - + +
734 PHE* 1.3 90.5 - + + +
754 ARG* 1.3 61.7 + - - +
774 LYS* 3.1 21.1 + - - +
784 GLN* 3.9 9.2 + - - +
814 ARG* 5.5 0.5 + - - -
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Residues in contact with ARG 75 (chain 4).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
194 GLU 5.1 0.8 + - - -
204 GLN* 2.7 58.8 + - - +
214 LYS* 2.7 23.6 + - - +
224 THR* 3.9 10.8 - - + -
714 GLN* 2.5 58.4 + - + +
724 GLN* 2.7 25.4 + - - +
744 HIS* 1.3 69.1 - - - +
764 HIS* 1.3 60.5 + - - +
774 LYS 3.1 2.7 - - - -
784 GLN* 2.9 30.7 + - + +
794 LEU* 2.8 28.3 + - - +
824 PHE* 5.9 0.2 - - + -
122R TYR* 3.9 11.2 + - - -
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Residues in contact with HIS 76 (chain 4).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
224 THR* 2.9 36.5 + - + -
244 CYS* 3.1 38.2 - - + +
554 PHE* 5.6 3.1 - + - -
594 HIS* 5.4 2.7 - - + -
654 CYS 4.4 0.7 - - - -
664 LEU* 3.5 32.6 - - + +
724 GLN 3.3 11.8 + - - +
734 PHE 2.8 16.5 + - - +
754 ARG* 1.3 78.3 - - - +
774 LYS* 1.4 56.5 + - + +
794 LEU* 3.9 17.0 - - + +
804 ILE* 2.9 47.0 + - + +
1094 LEU* 5.8 0.2 - - + -
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Residues in contact with LYS 77 (chain 4).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
604 GLU* 2.5 48.9 + - - +
664 LEU* 6.4 1.3 - - + -
734 PHE 3.9 2.4 + - - +
744 HIS 3.1 11.4 + - - +
754 ARG 3.1 1.0 - - - -
764 HIS* 1.4 76.7 - - + +
784 GLN* 1.3 51.9 + - - +
804 ILE 3.9 9.1 + - - +
814 ARG* 2.6 41.4 + - - +
60R MET* 6.2 2.0 - - + -
61R ASP* 2.7 40.3 + - - +
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Residues in contact with GLN 78 (chain 4).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
714 GLN* 5.9 0.7 - - - +
744 HIS* 4.1 6.5 - - - +
754 ARG* 2.9 36.2 + - + +
774 LYS* 1.3 76.4 - - - +
794 LEU* 1.4 66.9 + - - +
804 ILE 3.2 0.9 - - - -
814 ARG* 2.9 25.0 + - - +
824 PHE* 2.9 46.5 + - + -
119R PRO* 4.8 14.9 - - + +
122R TYR* 3.3 50.3 + - + -
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Residues in contact with LEU 79 (chain 4).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174 LEU* 3.7 22.2 - - + +
204 GLN 4.3 12.8 - - - +
224 THR* 3.6 25.6 - - + +
254 THR* 3.6 31.4 - - + -
554 PHE* 5.5 0.4 - - + -
754 ARG* 2.8 15.9 + - + +
764 HIS* 3.8 13.2 - - + +
784 GLN* 1.4 76.6 - - - +
804 ILE* 1.4 69.5 + - + +
814 ARG 3.0 0.7 + - - -
824 PHE* 3.4 4.9 + - - +
834 LEU* 2.8 61.7 + - + +
1094 LEU* 4.1 9.0 - - + -
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Residues in contact with ILE 80 (chain 4).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
554 PHE* 6.0 2.2 - - + -
564 TYR* 3.3 50.0 - - + +
594 HIS* 4.6 1.8 - - + +
604 GLU* 3.0 56.5 - - + +
664 LEU* 5.1 0.9 - - + -
764 HIS* 2.9 40.5 + - + +
774 LYS* 3.9 10.3 - - - +
784 GLN 4.1 0.7 - - - -
794 LEU* 1.4 83.6 - - + +
814 ARG* 1.3 62.6 + - - +
834 LEU* 4.4 3.6 - - + -
844 LYS* 4.3 5.1 - - + +
61R ASP* 3.5 17.4 - - - +
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Residues in contact with ARG 81 (chain 4).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
744 HIS 5.5 0.2 + - - -
774 LYS* 2.6 32.2 + - - +
784 GLN* 2.9 29.0 + - - +
794 LEU 3.0 0.6 + - - -
804 ILE* 1.3 75.5 - - - +
824 PHE* 1.4 66.4 + - + +
834 LEU 3.5 1.8 - - - +
844 LYS* 3.4 33.2 - - - +
854 ARG* 2.9 24.1 + - - +
10R SER 5.9 1.3 + - - -
11R ILE* 5.1 2.2 - - - +
59R LEU* 4.6 12.0 + - - +
60R MET* 4.0 21.8 + - - +
61R ASP* 5.0 1.3 + - - +
63R VAL* 5.3 4.0 - - - +
117R TYR* 2.7 31.5 + - - -
119R PRO* 5.5 2.6 - - - +
124R TYR* 3.4 32.2 + - + +
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Residues in contact with PHE 82 (chain 4).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134 THR* 3.1 29.2 - - - +
164 SER* 3.7 21.5 - - - -
174 LEU* 3.6 35.9 - - + -
204 GLN* 5.1 5.2 - - + -
754 ARG* 5.9 0.4 - - + -
784 GLN* 2.9 44.5 + - + +
794 LEU* 4.1 1.6 - - - -
814 ARG* 1.4 79.0 - - + +
834 LEU* 1.4 53.2 + - - +
854 ARG 3.1 0.9 + - - -
864 LEU* 2.7 31.0 + - - +
122R TYR* 3.7 39.3 - + + -
124R TYR* 3.4 35.7 - + - -
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Residues in contact with LEU 83 (chain 4).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174 LEU* 3.7 24.9 - - + -
524 LEU* 3.9 26.7 - - + +
554 PHE* 4.6 3.1 - - + -
564 TYR* 3.7 32.0 - - + -
794 LEU* 2.8 47.6 + - + +
804 ILE* 4.4 2.9 - - + -
824 PHE* 1.4 68.5 - - - +
844 LYS* 1.3 61.7 + - - +
864 LEU* 3.2 20.4 - - + +
874 ASP* 2.8 32.9 + - - +
1094 LEU* 4.2 13.9 - - + -
1134 LEU* 4.6 5.4 - - + -
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Residues in contact with LYS 84 (chain 4).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
564 TYR* 3.8 28.1 - - + +
804 ILE* 4.3 4.4 - - + +
814 ARG* 3.4 45.4 + - - +
834 LEU* 1.3 79.2 - - - +
854 ARG* 1.4 59.0 + - - +
874 ASP* 3.7 1.7 - - - +
884 ARG* 2.9 55.4 + - - +
61R ASP* 2.5 46.5 + - + +
63R VAL 2.5 29.6 + - - -
64R VAL* 4.6 1.8 - - - +
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Residues in contact with ARG 85 (chain 4).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94 GLU* 4.9 2.2 + - - +
124 LYS 4.0 6.7 + - - -
134 THR* 2.9 36.8 - - + +
814 ARG 2.9 15.0 + - - +
824 PHE 3.4 1.6 - - - +
844 LYS* 1.4 78.9 - - - +
864 LEU* 1.3 57.4 + - - +
884 ARG* 4.2 7.6 - - - +
894 ASN* 2.7 42.2 + - - +
9R MET* 3.8 11.1 - - - +
10R SER* 2.5 30.5 + - - -
63R VAL 4.6 2.2 + - - -
64R VAL* 3.1 30.4 + - + +
65R SER* 2.7 33.5 + - - -
124R TYR* 2.7 43.0 + - - -
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Residues in contact with LEU 86 (chain 4).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104 ILE* 4.7 1.8 - - + -
134 THR* 4.1 4.3 - - + -
144 LEU* 4.4 20.2 - - + -
174 LEU* 4.8 1.6 - - + -
484 ALA* 5.9 1.8 - - + +
494 ALA* 5.7 0.2 - - - -
524 LEU* 4.1 17.0 - - + -
824 PHE 2.7 17.2 + - - +
834 LEU* 2.8 25.2 + - + +
854 ARG* 1.3 70.8 - - - +
874 ASP* 1.3 60.6 + - - +
894 ASN* 4.7 0.2 - - - +
904 LEU* 2.8 57.1 + - + +
1124 PHE* 5.7 1.1 - - + -
1134 LEU* 3.2 33.0 - - + -
1164 LEU* 3.7 28.9 - - + -
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Residues in contact with ASP 87 (chain 4).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
494 ALA* 3.7 20.6 - - - +
524 LEU* 5.4 3.1 - - + +
534 ARG* 2.6 58.3 + - - +
564 TYR* 2.9 31.1 + - + -
834 LEU 2.8 15.2 + - - +
844 LYS 3.7 1.6 - - - +
864 LEU* 1.3 78.3 - - - +
884 ARG* 1.4 57.9 + - - +
914 TRP* 2.8 41.0 + - - +
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Residues in contact with ARG 88 (chain 4).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
564 TYR* 5.2 1.3 - - - +
844 LYS* 2.9 48.2 + - + +
854 ARG* 4.0 3.4 - - - +
874 ASP* 1.4 87.2 - - - +
894 ASN* 1.3 66.2 + - - +
914 TRP* 3.3 13.3 + - + -
924 GLY 3.6 0.2 + - - -
34R LEU* 3.2 55.9 - - + +
36R PHE* 3.3 32.7 - - + -
62R ASP 5.7 1.0 + - - -
63R VAL 5.6 0.2 - - - -
64R VAL* 3.1 34.1 - - + +
66R ALA* 6.2 0.4 - - - -
67R ASP* 2.7 45.3 + - - -
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Residues in contact with ASN 89 (chain 4).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64 THR* 5.5 0.3 - - - +
94 GLU* 3.4 13.7 + - - +
104 ILE* 3.4 25.6 - - + +
134 THR* 2.9 33.1 + - - +
854 ARG* 2.7 38.2 + - - +
864 LEU* 4.0 1.3 - - - +
884 ARG* 1.3 75.8 - - - +
904 LEU* 1.4 64.2 + - + +
924 GLY* 3.2 8.3 + - - -
934 LEU* 3.1 18.9 - - + +
64R VAL* 4.9 2.6 - - - +
66R ALA* 3.5 29.2 + - + +
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Residues in contact with LEU 90 (chain 4).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104 ILE* 3.7 24.5 - - + -
444 THR* 6.2 0.4 - - + -
454 PHE* 3.7 47.9 - - + +
484 ALA* 4.1 16.4 - - + -
494 ALA* 4.3 4.0 - - + +
864 LEU* 2.8 47.5 + - + +
874 ASP 3.8 2.0 - - - +
894 ASN* 1.4 70.8 - - - +
914 TRP* 1.3 58.0 + - - +
934 LEU* 2.7 31.6 + - - +
944 ALA* 2.8 11.7 + - - +
1164 LEU* 3.8 29.6 - - + -
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Residues in contact with TRP 91 (chain 4).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
464 CYS* 6.1 0.7 - - - -
494 ALA* 4.3 4.4 - - + +
534 ARG* 3.2 36.8 - - - +
874 ASP* 2.8 24.0 + - - +
884 ARG* 3.3 12.1 - - + +
904 LEU* 1.3 77.0 - - - +
924 GLY* 1.4 56.4 + - - +
944 ALA* 3.3 12.5 - - + +
954 GLY* 2.9 27.8 + - - -
964 LEU 4.5 2.0 + - - -
974 ASN* 2.6 25.9 + - - +
984 SER* 3.7 15.7 + - - -
34R LEU* 5.9 3.4 - - + -
36R PHE* 3.9 51.9 - + + -
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Residues in contact with GLY 92 (chain 4).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
884 ARG 3.6 3.2 + - - -
894 ASN 3.2 8.9 + - - -
904 LEU 3.0 1.4 + - - -
914 TRP* 1.4 78.9 - - - +
934 LEU* 1.3 64.1 + - - +
954 GLY* 3.4 13.0 + - - -
36R PHE* 3.6 15.0 - - - -
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Residues in contact with LEU 93 (chain 4).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64 THR* 3.8 31.4 - - + -
74 LEU* 6.2 1.1 - - + -
104 ILE* 3.6 28.3 - - + -
414 GLU* 3.8 1.6 - - - +
424 LYS* 2.6 33.1 + - - -
454 PHE* 3.5 40.2 - - + -
894 ASN 3.1 21.3 - - - +
904 LEU* 2.7 9.8 + - - +
924 GLY* 1.3 72.9 - - - +
944 ALA* 1.3 57.9 - - - +
954 GLY* 4.6 0.2 - - - -
1204 MET* 4.4 11.2 - - + -
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Residues in contact with ALA 94 (chain 4).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
424 LYS* 2.9 28.9 - - - +
454 PHE* 3.7 7.8 - - - +
464 CYS* 3.4 38.6 - - + +
904 LEU 2.8 10.0 + - - +
914 TRP* 3.3 17.3 - - + +
934 LEU* 1.3 76.0 - - - +
954 GLY* 1.3 52.6 + - - +
964 LEU* 2.7 27.6 + - - +
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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) + - + + + + + -
------------------------------------------------------------
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