Contacts of the helix formed by residues 52 - 92 (chain E) in PDB entry 5G04
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 ARG 52 (chain E).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53E PHE* 1.3 91.5 + - + +
54E LEU* 3.4 4.4 - - - +
55E CYS* 3.3 15.7 + - - +
56E GLU* 3.2 17.3 + - - +
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Residues in contact with PHE 53 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52E ARG* 1.3 96.5 - - + +
54E LEU* 1.3 64.1 + - - +
56E GLU* 3.2 23.7 + - - +
57E SER* 3.3 7.8 + - - -
329X CYS* 6.3 2.9 - - - -
332X PHE* 6.0 7.6 - - + +
333X ASN* 4.2 27.4 - - - +
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Residues in contact with LEU 54 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52E ARG 3.4 1.3 - - - +
53E PHE* 1.3 78.7 - - - +
55E CYS* 1.3 60.6 + - - +
57E SER* 3.3 12.0 - - - -
58E VAL* 3.3 18.4 + - - +
329X CYS* 5.3 13.0 - - - -
332X PHE* 5.9 5.8 - - + -
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Residues in contact with CYS 55 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52E ARG* 3.3 16.4 + - - +
54E LEU* 1.3 74.9 - - - +
56E GLU* 1.3 59.2 + - - +
58E VAL* 3.2 17.3 - - + +
59E PHE* 3.0 25.3 + - - +
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Residues in contact with GLU 56 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52E ARG 3.2 9.5 + - - +
53E PHE* 3.2 19.8 + - - +
55E CYS* 1.3 73.2 - - - +
57E SER* 1.3 56.5 + - - +
59E PHE* 3.0 21.0 + - - +
60E SER* 2.9 25.1 + - - -
367Y GLN* 2.8 41.3 + - - +
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Residues in contact with SER 57 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53E PHE 3.3 7.9 + - - -
54E LEU* 3.3 14.6 - - - -
56E GLU* 1.3 75.6 - - - +
58E VAL* 1.3 64.8 + - - +
60E SER* 3.0 19.0 + - - +
61E TYR 3.2 8.3 + - - -
332X PHE* 3.1 41.8 - - - -
342X TRP* 3.4 19.1 - - - -
361X LEU* 4.1 9.5 - - - +
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Residues in contact with VAL 58 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54E LEU 3.3 9.7 + - - +
55E CYS* 3.2 23.1 + - + +
57E SER* 1.3 77.8 - - - +
59E PHE* 1.3 63.2 + - + +
61E TYR* 3.0 42.3 + - + -
62E GLN* 3.0 18.3 + - + +
357X ARG* 3.5 41.1 - - + +
361X LEU* 5.0 3.3 - - + +
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Residues in contact with PHE 59 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55E CYS 3.0 12.4 + - - +
56E GLU* 3.0 25.9 + - - +
58E VAL* 1.3 77.3 - - + +
60E SER* 1.3 58.6 + - - +
62E GLN* 3.4 7.5 + - + +
63E VAL* 2.9 34.7 + - + +
360Y TYR* 3.7 32.8 - + + -
363Y ALA* 3.6 21.1 - - + -
364Y LYS* 3.3 37.5 - - + -
367Y GLN* 3.2 32.3 - - + -
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Residues in contact with SER 60 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56E GLU 2.9 11.1 + - - -
57E SER* 3.0 12.1 + - - -
59E PHE* 1.3 80.5 - - - +
61E TYR* 1.3 59.6 + - - +
63E VAL* 3.1 23.1 - - - +
64E ALA* 3.2 8.5 + - - +
342X TRP* 3.5 26.3 - - - -
364X LYS* 4.2 14.3 + - - +
364Y LYS* 4.2 14.0 + - - +
367Y GLN* 5.7 2.5 - - - -
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Residues in contact with TYR 61 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57E SER 3.2 4.8 + - - -
58E VAL* 3.0 43.7 + - + +
60E SER* 1.3 75.4 - - - +
62E GLN* 1.3 84.5 + - + +
64E ALA* 3.1 9.9 + - - +
65E SER* 3.0 30.7 + - - -
342X TRP* 5.1 1.9 - - + -
356X SER* 5.2 7.5 - - - -
357X ARG* 4.7 23.5 + - + -
360X TYR* 3.2 54.2 - + + -
361X LEU* 4.4 18.6 - - + +
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Residues in contact with GLN 62 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58E VAL* 3.0 18.6 + - + +
59E PHE* 3.6 13.2 - - + +
61E TYR* 1.3 108.2 + - + +
63E VAL* 1.3 55.1 + - - +
65E SER* 2.8 26.0 + - - -
66E THR* 3.0 19.7 + - - +
360Y TYR* 4.6 30.7 - - + -
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Residues in contact with VAL 63 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59E PHE* 2.9 19.7 + - + +
60E SER* 3.1 21.3 - - - +
61E TYR 3.2 0.2 - - - -
62E GLN* 1.3 74.3 - - - +
64E ALA* 1.3 58.8 - - + +
66E THR* 3.4 12.0 - - + +
67E LEU* 3.0 30.8 + - - +
342Y TRP* 3.5 23.0 - - + -
360Y TYR* 4.6 8.3 - - - +
361Y LEU* 5.1 0.2 - - - -
364Y LYS* 3.3 58.6 - - + +
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Residues in contact with ALA 64 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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60E SER 3.2 8.2 + - - +
61E TYR* 3.1 13.2 + - - +
63E VAL* 1.3 83.9 - - + +
65E SER* 1.3 59.7 + - - +
67E LEU* 3.5 10.6 + - - +
68E LYS* 3.3 29.2 + - - +
360X TYR* 4.9 11.2 - - + +
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Residues in contact with SER 65 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61E TYR* 3.0 19.1 + - - -
62E GLN* 2.8 30.0 + - - -
64E ALA* 1.3 73.9 - - - +
66E THR* 1.3 64.3 + - - +
68E LYS* 3.3 22.5 + - - +
69E GLN* 3.4 18.7 + - - +
360X TYR* 4.0 28.0 - - - -
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Residues in contact with THR 66 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62E GLN* 3.0 14.5 + - - +
63E VAL* 3.4 23.8 - - + +
65E SER* 1.3 78.2 + - - +
67E LEU* 1.3 59.5 + - - +
69E GLN* 3.2 11.3 + - - +
70E VAL* 3.0 28.9 + - - +
357Y ARG* 4.0 25.5 + - - +
360Y TYR* 4.8 15.9 - - + +
361Y LEU* 3.9 21.0 - - + +
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Residues in contact with LEU 67 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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63E VAL 3.0 19.4 + - - +
64E ALA* 3.5 10.8 - - - +
66E THR* 1.3 74.5 - - - +
68E LYS* 1.3 58.5 + - - +
70E VAL* 3.2 10.0 + - + +
71E LYS* 2.9 64.1 + - + +
332Y PHE* 3.7 26.9 - - + -
336Y ASP* 4.4 9.0 - - - +
342Y TRP* 3.6 35.4 - - + -
361Y LEU* 5.3 0.4 - - + -
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Residues in contact with LYS 68 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64E ALA* 3.3 14.3 + - - +
65E SER* 3.3 13.9 + - - +
67E LEU* 1.3 78.4 - - - +
69E GLN* 1.3 64.6 + - - +
71E LYS* 3.8 6.7 - - - +
72E HIS* 2.9 31.1 + - - +
360X TYR* 3.9 29.6 - - + +
379X LYS* 6.2 0.4 - - - +
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Residues in contact with GLN 69 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65E SER* 3.4 21.7 + - - +
66E THR* 3.2 13.7 + - - +
68E LYS* 1.3 81.5 - - - +
70E VAL* 1.3 59.8 + - - +
72E HIS* 3.6 6.5 + - + +
73E ASP* 2.9 30.0 + - - +
357Y ARG* 4.1 25.5 + - - +
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Residues in contact with VAL 70 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66E THR 3.0 16.1 + - - +
67E LEU* 3.6 13.9 - - + +
69E GLN* 1.3 74.6 - - - +
71E LYS* 1.3 64.3 + - + +
73E ASP* 3.1 18.3 + - - +
74E GLN* 3.3 37.1 + - - +
332Y PHE* 4.4 12.8 - - + -
345Y SER* 4.1 14.1 - - - +
357Y ARG* 4.0 17.5 - - + +
361Y LEU* 3.8 34.5 - - + -
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Residues in contact with LYS 71 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67E LEU* 2.9 54.8 + - + +
68E LYS* 3.8 6.7 - - - +
70E VAL* 1.3 78.7 - - + +
72E HIS* 1.3 61.4 + - - +
74E GLN* 3.8 12.8 + - - +
75E GLN* 3.4 21.4 + - - +
78E ARG* 4.9 3.3 + - - -
550H VAL* 6.0 0.9 - - - +
332Y PHE* 4.7 20.7 - - + +
333Y ASN* 6.2 0.2 - - - -
336Y ASP* 5.0 4.8 + - - -
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Residues in contact with HIS 72 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68E LYS 2.9 19.7 + - - +
69E GLN* 3.9 7.4 - - + +
71E LYS* 1.3 74.4 - - - +
73E ASP* 1.3 57.5 + - - +
75E GLN* 3.5 15.8 - - + +
76E VAL* 3.2 47.7 + - + +
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Residues in contact with ASP 73 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69E GLN 2.9 19.0 + - - +
70E VAL* 3.1 9.8 + - - +
72E HIS* 1.3 73.8 - - - +
74E GLN* 1.3 64.9 + - - +
76E VAL* 2.9 28.8 - - - +
77E ALA* 3.1 12.6 + - - +
325Y GLU* 4.2 19.6 - - - +
348Y HIS* 4.9 6.6 + - - -
354Y ARG* 5.2 7.6 + - - -
357Y ARG* 4.2 20.9 + - - +
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Residues in contact with GLN 74 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70E VAL* 3.3 35.6 + - - +
71E LYS* 4.1 14.4 - - - +
72E HIS 3.5 0.2 - - - -
73E ASP* 1.3 75.7 + - - +
75E GLN* 1.3 54.6 - - - +
77E ALA* 3.1 4.2 + - - +
78E ARG* 2.9 44.1 + - - +
325Y GLU* 3.9 42.5 + - + +
328Y GLY* 4.6 3.5 - - - -
329Y CYS* 3.3 41.8 - - - +
332Y PHE* 5.3 3.3 - - - -
345Y SER* 4.5 8.7 + - - -
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Residues in contact with GLN 75 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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71E LYS 3.4 13.6 + - - +
72E HIS* 3.5 25.1 - - + +
74E GLN* 1.3 77.4 - - - +
76E VAL* 1.3 62.7 + - + +
78E ARG* 3.2 33.8 + - - +
79E MET* 3.2 43.5 + - + +
549H ASP* 5.0 8.2 + - - +
550H VAL* 4.1 22.0 - - + +
553H SER* 4.2 3.2 + - - -
580H GLN* 5.8 2.8 + - - -
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Residues in contact with VAL 76 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72E HIS* 3.2 37.4 + - + +
73E ASP* 2.9 31.6 - - - +
75E GLN* 1.3 75.8 - - + +
77E ALA* 1.3 57.7 + - - +
79E MET* 4.1 3.4 - - - +
80E GLU* 2.8 41.0 + - + +
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Residues in contact with ALA 77 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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73E ASP* 3.1 12.0 + - - +
74E GLN 3.1 9.4 + - - +
76E VAL* 1.3 76.2 - - - +
78E ARG* 1.3 52.8 + - + +
80E GLU* 3.9 4.4 - - - +
81E LYS* 2.9 41.5 + - + +
557H LYS* 4.8 2.2 - - - +
325Y GLU* 3.6 24.2 - - - +
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Residues in contact with ARG 78 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71E LYS 4.9 2.6 + - - -
74E GLN* 2.9 19.5 + - + +
75E GLN* 3.2 51.2 - - - +
76E VAL 3.4 0.2 - - - -
77E ALA* 1.3 70.2 - - + +
79E MET* 1.3 65.4 + - - +
81E LYS* 4.1 1.9 - - - +
82E LEU* 3.2 30.9 + - - +
550H VAL* 3.5 20.8 - - - +
553H SER* 2.9 38.8 + - - +
554H VAL* 3.4 39.1 - - - +
557H LYS* 4.3 23.5 - - + +
329Y CYS* 3.9 25.7 - - - -
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Residues in contact with MET 79 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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75E GLN* 3.2 32.0 + - + +
76E VAL* 4.2 3.8 - - - +
78E ARG* 1.3 75.7 - - + +
80E GLU* 1.4 54.7 + - - +
82E LEU* 3.5 31.1 - - + +
83E ALA* 2.9 32.8 + - - +
549H ASP 5.5 0.7 - - - +
553H SER* 3.4 31.4 - - - -
576H CYS* 3.7 13.0 - - + -
577H PHE* 4.9 14.9 - - + -
580H GLN* 4.2 25.4 - - + +
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Residues in contact with GLU 80 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76E VAL* 2.8 29.9 + - + +
77E ALA* 3.9 4.5 - - - +
78E ARG 3.3 0.2 - - - -
79E MET* 1.4 70.5 - - - +
81E LYS* 1.3 68.1 + - + +
82E LEU 3.2 0.7 - - - -
83E ALA* 3.5 16.9 + - - +
84E GLY* 3.3 17.0 + - - -
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Residues in contact with LYS 81 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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77E ALA* 2.9 23.8 + - + +
78E ARG 4.1 0.2 - - - +
80E GLU* 1.3 73.3 - - + +
82E LEU* 1.3 61.0 + - - +
84E GLY* 3.5 5.7 + - - -
85E LEU* 3.4 16.9 + - - +
557H LYS* 4.0 27.6 - - + -
561H ASP* 4.8 7.4 + - - +
322Y GLU* 3.0 35.8 + - - +
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Residues in contact with LEU 82 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78E ARG 3.2 22.8 + - - +
79E MET* 3.5 32.5 - - + +
81E LYS* 1.3 76.5 - - - +
83E ALA* 1.3 61.1 + - - +
85E LEU* 3.0 46.9 + - + +
86E VAL* 3.5 9.5 + - - +
553H SER 5.0 2.2 - - - +
556H SER* 4.6 11.0 - - - -
557H LYS* 4.4 16.6 - - + +
560H THR* 4.3 10.3 - - - +
573H ALA* 4.4 9.4 - - + -
576H CYS* 4.7 1.8 - - - -
577H PHE* 3.6 28.0 - - + -
589H PHE* 4.0 9.3 - - + -
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Residues in contact with ALA 83 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79E MET 2.9 20.1 + - - +
80E GLU* 3.8 21.5 - - - +
81E LYS 3.5 0.4 - - - -
82E LEU* 1.3 72.8 - - - +
84E GLY* 1.3 62.7 + - - +
86E VAL* 3.2 27.0 + - - +
87E GLU* 3.7 12.2 - - - +
577H PHE* 4.6 4.0 - - + -
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Residues in contact with GLY 84 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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80E GLU 3.3 10.8 + - - -
81E LYS 3.7 6.7 - - - -
82E LEU 3.3 0.4 - - - -
83E ALA* 1.3 78.5 - - - +
85E LEU* 1.3 57.8 + - - +
86E VAL 3.5 0.7 + - - -
87E GLU* 3.7 10.9 + - - +
88E GLU* 3.6 17.0 + - - +
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Residues in contact with LEU 85 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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81E LYS 3.4 7.4 + - - +
82E LEU* 3.0 27.9 + - + +
84E GLY* 1.3 74.6 - - - +
86E VAL* 1.3 56.1 + - - +
87E GLU 3.4 0.2 - - - -
88E GLU* 3.2 22.6 - - + +
89E LEU* 3.0 27.5 + - - +
560H THR* 3.8 23.8 - - + +
561H ASP* 5.9 2.5 - - - +
564H LYS* 3.3 30.5 - - - +
570H TRP* 3.7 20.6 - - + -
589H PHE* 3.6 26.2 - - + -
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Residues in contact with VAL 86 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82E LEU 3.6 11.7 - - - +
83E ALA* 3.2 17.6 + - - +
85E LEU* 1.3 73.9 - - - +
87E GLU* 1.3 77.7 + - - +
89E LEU* 3.2 17.3 - - - +
90E GLU* 3.4 11.7 + - - +
577H PHE* 4.9 2.0 - - + -
585H ILE* 3.5 37.9 - - + -
588H LYS* 3.9 24.7 - - + -
589H PHE* 3.8 12.1 - - + -
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Residues in contact with GLU 87 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83E ALA 3.7 11.9 - - - +
84E GLY* 3.9 10.2 - - - +
85E LEU 3.4 0.2 - - - -
86E VAL* 1.3 88.4 - - - +
88E GLU* 1.3 64.7 + - - +
90E GLU* 3.2 16.1 + - - +
91E ALA* 3.3 11.4 + - - +
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Residues in contact with GLU 88 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84E GLY 3.6 8.0 + - - +
85E LEU* 3.2 33.2 + - + +
86E VAL 3.3 0.2 - - - -
87E GLU* 1.3 75.4 - - - +
89E LEU* 1.3 72.4 + - - +
91E ALA* 3.1 18.5 + - + +
92E ASP* 3.2 23.9 + - - +
564H LYS* 4.4 10.7 - - - +
570H TRP* 3.6 28.8 - - - -
592H ARG* 4.3 5.5 + - - -
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Residues in contact with LEU 89 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
85E LEU 3.0 10.1 + - - +
86E VAL* 3.2 15.9 - - - +
88E GLU* 1.3 83.6 - - - +
90E GLU* 1.3 61.8 - - - +
93E GLU* 3.6 22.1 + - - +
570H TRP* 3.8 24.5 - - + -
588H LYS* 3.4 34.1 - - + +
589H PHE* 3.8 37.2 - - + -
592H ARG* 3.5 39.9 + - + +
595H GLN* 4.9 5.3 + - - +
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Residues in contact with GLU 90 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86E VAL* 3.4 10.7 + - - +
87E GLU* 3.2 13.8 + - - +
88E GLU 3.1 0.4 - - - -
89E LEU* 1.3 80.3 - - - +
91E ALA* 1.3 61.1 + - - +
93E GLU* 3.1 42.8 - - - +
588H LYS* 3.6 26.0 - - - +
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Residues in contact with ALA 91 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87E GLU 3.3 8.1 + - - +
88E GLU* 3.1 13.3 + - + +
90E GLU* 1.3 76.2 - - - +
92E ASP* 1.3 58.7 + - + +
93E GLU* 3.1 8.8 + - - +
94E TRP* 3.2 17.2 + - - -
595F GLN* 4.2 10.6 + - - +
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Residues in contact with ASP 92 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88E GLU* 3.2 17.3 + - - +
91E ALA* 1.3 75.5 - - + +
93E GLU* 1.3 62.7 + - - +
94E TRP* 3.2 7.8 + - - -
95E ARG* 2.8 44.0 + - - +
96E PHE* 3.7 21.5 - - - -
595F GLN* 3.4 17.4 - - - +
565H ASN* 5.3 3.6 + - - +
592H ARG* 3.2 25.8 + - - +
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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