Contacts of the helix formed by residues 79 - 126 (chain E) in PDB entry 1GD2
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 SER 79 (chain E).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77E GLU 3.7 1.7 + - - -
78E PRO* 1.3 77.4 - - - +
80E SER* 1.3 60.3 + - - +
81E LYS* 3.7 8.9 + - - +
82E ARG* 3.1 22.7 + - - +
83E LYS* 2.9 28.0 + - - +
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Residues in contact with SER 80 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79E SER* 1.3 73.4 - - - +
81E LYS* 1.3 59.3 + - - +
83E LYS* 3.4 14.0 + - - +
84E ALA* 3.0 28.1 + - - +
87E ARG* 4.8 1.9 + - - -
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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
----------------------------------------------------------
79E SER* 3.2 8.1 + - - +
80E SER* 1.3 78.1 - - - +
82E ARG* 1.3 58.2 - - - +
84E ALA* 3.4 8.0 + - - +
85E GLN* 3.0 26.7 + - - +
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Residues in contact with ARG 82 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4A A 3.8 4.0 + - - +
5A C 3.5 13.5 - - - +
-6B G 3.5 21.8 + - - +
-5B G 2.9 27.7 + - - -
78E PRO* 4.0 16.6 - - + -
79E SER* 3.1 27.8 + - - +
81E LYS* 1.3 73.8 - - - +
83E LYS* 1.3 66.7 + - - +
85E GLN* 3.1 40.9 + - - +
86E ASN* 2.9 52.7 + - - +
89E ALA* 5.8 0.4 - - - +
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Residues in contact with LYS 83 (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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2A T 4.2 19.2 + - + +
3A A 2.7 38.9 + - - +
77E GLU* 3.2 29.3 + - - -
78E PRO* 3.7 19.7 - - + +
79E SER 2.9 15.2 + - - +
80E SER* 3.5 14.6 - - - +
82E ARG* 1.3 76.4 - - - +
84E ALA* 1.3 62.9 + - - +
86E ASN* 3.3 9.6 + - - +
87E ARG* 3.1 44.4 + - - +
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Residues in contact with ALA 84 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80E SER 3.0 12.9 + - - +
81E LYS* 3.5 12.3 - - - +
83E LYS* 1.3 77.8 - - - +
85E GLN* 1.3 56.5 + - - +
87E ARG* 3.4 26.5 + - - +
88E ALA* 3.0 27.7 + - - +
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Residues in contact with GLN 85 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
-7B A 5.1 0.5 - - - +
-6B G 2.9 62.2 + - + +
81E LYS 3.0 17.3 + - - +
82E ARG* 3.1 33.3 + - - +
84E ALA* 1.3 74.8 - - - +
86E ASN* 1.3 59.5 + - - +
88E ALA* 3.7 5.3 - - + +
89E ALA* 2.8 30.4 + - + +
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Residues in contact with ASN 86 (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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2A T 3.5 11.4 - - + +
3A A 3.4 42.9 + - + +
4A A 3.2 23.0 + - - +
-5B G 4.3 1.0 - - - +
-4B T 4.3 4.9 - - - +
78E PRO* 5.1 2.8 - - - +
82E ARG* 2.9 51.8 + - - +
83E LYS* 3.7 7.6 - - - +
85E GLN* 1.3 75.8 - - - +
87E ARG* 1.3 57.4 + - - +
89E ALA* 4.0 4.1 - - - +
90E GLN* 3.0 32.1 + - - +
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Residues in contact with ARG 87 (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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1A G 3.4 52.0 + - + +
2A T 2.8 55.4 + - + +
80E SER* 4.8 2.8 + - - -
83E LYS* 3.1 25.3 + - - +
84E ALA* 3.5 33.9 - - - +
85E GLN 3.2 0.2 - - - -
86E ASN* 1.3 76.0 - - - +
88E ALA* 1.3 57.3 + - - +
90E GLN* 3.3 2.3 + - - +
91E ARG* 2.9 30.6 + - - +
94E ARG* 4.8 1.5 + - - +
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Residues in contact with ALA 88 (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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84E ALA 3.0 17.7 + - - +
85E GLN* 3.7 7.4 - - + +
87E ARG* 1.3 76.5 - - - +
89E ALA* 1.3 56.1 + - - +
91E ARG* 3.3 10.6 + - - +
92E ALA* 3.0 30.1 + - - +
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Residues in contact with ALA 89 (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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-6B G 4.4 5.8 - - + +
-5B G 3.8 45.6 + - + +
-4B T 3.7 10.6 - - + +
82E ARG* 5.8 0.2 - - - +
85E GLN* 2.8 23.5 + - + +
86E ASN* 4.0 5.2 - - - +
88E ALA* 1.3 73.3 - - - +
90E GLN* 1.3 57.7 + - - +
92E ALA* 3.5 3.6 + - - +
93E PHE* 3.0 28.2 + - - +
96E ARG* 4.8 1.4 + - - -
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Residues in contact with GLN 90 (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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1A G 4.0 5.7 - - - +
2A T 3.2 25.7 + - + +
3A A 3.6 3.8 - - - +
-4B T 3.9 10.5 + - - +
-3B T 2.9 35.0 + - - +
-2B A 3.4 13.5 + - - -
-1B C 4.9 1.4 + - - -
86E ASN 3.0 19.0 + - - +
87E ARG 3.7 2.2 - - - +
88E ALA 3.3 0.2 - - - -
89E ALA* 1.3 73.7 - - - +
91E ARG* 1.3 60.6 + - - +
93E PHE* 3.6 9.1 - - - +
94E ARG* 2.9 65.9 + - - +
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Residues in contact with ARG 91 (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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-1A C 4.9 16.2 + - - -
1A G 5.3 7.2 - - - +
87E ARG 2.9 17.3 + - - +
88E ALA* 3.5 9.9 - - - +
90E GLN* 1.3 77.7 - - - +
92E ALA* 1.3 55.6 + - - +
94E ARG* 3.4 22.4 + - - +
95E LYS* 3.0 28.3 + - + +
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Residues in contact with ALA 92 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
-5B G 4.8 5.4 - - - +
88E ALA 3.0 15.7 + - - +
89E ALA* 3.8 7.2 - - - +
91E ARG* 1.3 76.0 - - - +
93E PHE* 1.3 63.4 + - - +
95E LYS* 3.3 7.9 + - - +
96E ARG* 3.1 44.8 + - - +
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Residues in contact with PHE 93 (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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-4B T 3.4 67.1 - + + -
-3B T 3.6 35.9 - - + -
89E ALA 3.0 18.4 + - - +
90E GLN* 3.6 13.5 - - - +
91E ARG 3.3 0.2 - - - -
92E ALA* 1.3 76.0 - - - +
94E ARG* 1.3 68.2 + - + +
96E ARG* 3.4 15.6 + - - +
97E LYS* 3.0 53.9 + - + +
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Residues in contact with ARG 94 (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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-1A C 3.6 52.6 + - - +
1A G 2.9 36.8 + - - -
87E ARG* 4.8 1.2 + - - +
90E GLN* 2.9 50.6 + - - +
91E ARG* 3.6 29.3 - - - +
93E PHE* 1.3 80.1 - - + +
95E LYS* 1.3 55.8 + - - +
97E LYS* 3.3 10.6 + - + +
98E GLU* 2.9 31.2 + - - +
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Residues in contact with LYS 95 (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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91E ARG* 3.0 18.3 + - + +
92E ALA* 3.5 9.4 - - - +
93E PHE 3.3 0.2 - - - -
94E ARG* 1.3 75.6 - - - +
96E ARG* 1.3 57.8 + - + +
98E GLU* 3.2 7.5 + - + +
99E ASP* 2.8 66.8 + - - +
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Residues in contact with ARG 96 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
-5B G 3.6 26.8 + - - +
-4B T 2.8 28.9 + - - -
89E ALA 4.8 1.8 + - - -
92E ALA* 3.1 36.4 + - - +
93E PHE* 3.6 22.4 - - - +
95E LYS* 1.3 77.4 - - + +
97E LYS* 1.3 62.4 + - - +
99E ASP* 3.5 9.4 + - - +
100E HIS* 3.2 22.9 + - - +
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Residues in contact with LYS 97 (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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-3B T 5.9 0.4 - - - +
93E PHE* 3.0 46.7 + - + +
94E ARG* 3.5 9.9 - - + +
95E LYS 3.2 0.2 - - - -
96E ARG* 1.3 77.9 - - - +
98E GLU* 1.3 56.6 + - - +
100E HIS* 3.5 7.9 + - - +
101E LEU* 3.1 25.7 + - - +
98F GLU* 4.1 20.9 + - - +
101F LEU* 5.0 13.0 - - + +
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Residues in contact with GLU 98 (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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94E ARG 2.9 17.3 + - - +
95E LYS* 3.8 7.4 - - + +
97E LYS* 1.3 74.0 - - - +
99E ASP* 1.3 66.9 + - - +
100E HIS 3.2 0.4 - - - -
101E LEU* 3.1 24.4 + - - +
102E LYS* 3.0 56.4 + - - +
97F LYS* 5.9 0.9 + - - -
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Residues in contact with ASP 99 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95E LYS* 2.8 57.6 + - - +
96E ARG* 3.8 8.8 - - - +
98E GLU* 1.3 78.4 - - - +
100E HIS* 1.3 61.0 + - - +
102E LYS* 3.6 13.8 + - - +
103E ALA* 3.2 23.6 + - - +
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Residues in contact with HIS 100 (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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96E ARG 3.2 17.5 + - - +
97E LYS* 3.7 7.0 - - - +
98E GLU 3.2 0.2 - - - -
99E ASP* 1.3 76.5 - - - +
101E LEU* 1.3 63.7 + - - +
103E ALA* 3.5 8.4 + - + +
104E LEU* 3.1 45.0 + - + +
101F LEU* 4.4 11.2 - - + -
105F GLU* 2.8 29.3 + - - -
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Residues in contact with LEU 101 (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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97E LYS 3.1 14.6 + - - +
98E GLU* 3.1 31.4 + - - +
100E HIS* 1.3 76.7 - - - +
102E LYS* 1.3 59.9 + - + +
104E LEU* 3.2 6.6 + - - +
105E GLU* 2.9 50.0 + - + +
97F LYS* 5.9 7.9 - - + +
100F HIS* 4.4 9.4 - - + -
101F LEU* 4.4 19.5 - - + -
104F LEU* 3.9 22.9 - - + -
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Residues in contact with LYS 102 (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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98E GLU* 3.0 48.0 + - + +
99E ASP* 4.0 11.6 + - - +
101E LEU* 1.3 77.9 - - + +
103E ALA* 1.3 53.7 + - - +
105E GLU* 3.5 8.3 + - - +
106E THR* 2.8 36.4 + - - -
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Residues in contact with ALA 103 (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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99E ASP 3.2 16.5 + - - +
100E HIS* 3.7 11.9 - - - +
101E LEU 3.2 0.2 - - - -
102E LYS* 1.3 77.1 - - - +
104E LEU* 1.3 58.7 - - - +
106E THR* 3.3 5.8 + - - -
107E GLN* 2.8 31.8 + - - +
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Residues in contact with LEU 104 (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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100E HIS* 3.1 33.6 + - + +
101E LEU* 3.6 4.5 - - - +
103E ALA* 1.3 72.7 - - - +
105E GLU* 1.3 62.1 + - - +
107E GLN* 3.2 12.2 + - - +
108E VAL* 2.8 37.6 + - - +
101F LEU* 3.6 22.2 - - + -
104F LEU* 4.1 21.8 - - + +
105F GLU* 3.3 43.3 - - + +
108F VAL* 3.8 27.8 - - + -
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Residues in contact with GLU 105 (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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101E LEU* 2.9 40.3 + - + +
102E LYS* 3.7 7.2 - - - +
104E LEU* 1.3 75.5 - - - +
106E THR* 1.3 61.7 + - - +
108E VAL* 3.6 4.2 + - - +
109E VAL* 3.3 28.3 + - - +
100F HIS* 2.6 31.2 + - - -
104F LEU* 3.4 23.3 - - + +
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Residues in contact with THR 106 (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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102E LYS* 2.8 22.3 + - - +
103E ALA* 3.5 7.2 - - - -
105E GLU* 1.3 74.9 - - - +
107E GLN* 1.3 59.4 + - - +
109E VAL* 3.1 8.5 + - + +
110E THR* 3.0 38.9 + - - +
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Residues in contact with GLN 107 (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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103E ALA 2.8 17.3 + - - +
104E LEU* 3.7 16.2 - - - +
106E THR* 1.3 77.9 - - - +
108E VAL* 1.3 56.9 + - - +
110E THR* 3.3 8.1 + - + -
111E LEU* 2.9 41.6 + - + +
108F VAL* 3.7 23.8 - - + +
112F LYS* 3.6 28.9 + - - -
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Residues in contact with VAL 108 (chain E).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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104E LEU 2.8 24.3 + - - +
105E GLU* 4.0 4.7 - - - +
107E GLN* 1.3 71.9 - - - +
109E VAL* 1.3 59.4 + - + +
111E LEU* 3.9 5.6 - - - +
112E LYS* 2.9 43.4 + - + +
104F LEU* 3.9 30.3 - - + +
107F GLN* 3.2 25.6 - - + +
108F VAL* 3.3 25.4 - - + +
111F LEU* 4.2 6.5 - - + -
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Residues in contact with VAL 109 (chain E).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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105E GLU* 3.3 15.1 + - - +
106E THR* 3.1 11.8 + - + +
108E VAL* 1.3 77.2 - - + +
110E THR* 1.3 65.1 + - - +
112E LYS* 3.9 5.5 - - + +
113E GLU* 3.1 48.1 + - + +
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Residues in contact with THR 110 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106E THR* 3.0 24.9 + - - +
107E GLN* 3.6 9.1 - - + -
109E VAL* 1.3 79.9 - - - +
111E LEU* 1.3 69.4 + - + +
113E GLU* 3.7 5.8 + - - +
114E LEU* 3.2 27.7 + - + +
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Residues in contact with LEU 111 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107E GLN* 2.9 32.6 + - + +
108E VAL 3.9 3.8 - - - +
110E THR* 1.3 83.2 - - + +
112E LYS* 1.3 59.6 + - - +
114E LEU* 3.3 20.3 + - + +
115E HIS* 2.9 28.9 + - - +
108F VAL* 3.6 42.0 - - + +
111F LEU* 3.9 31.3 - - + +
112F LYS* 3.9 17.9 - - + -
115F HIS* 5.8 4.2 - - + +
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Residues in contact with LYS 112 (chain E).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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108E VAL* 2.9 29.2 + - + +
109E VAL* 3.9 7.2 - - + +
111E LEU* 1.3 75.8 - - - +
113E GLU* 1.3 58.4 + - + +
115E HIS* 3.4 10.8 + - + +
116E SER* 3.1 27.2 + - - -
107F GLN* 4.1 32.7 + - - +
111F LEU* 3.5 18.8 - - + -
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Residues in contact with GLU 113 (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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109E VAL* 3.1 35.2 + - + +
110E THR* 4.2 6.0 - - - +
112E LYS* 1.3 75.7 - - + +
114E LEU* 1.3 59.7 + - - +
116E SER* 3.8 7.9 - - - -
117E SER* 3.1 27.0 + - - -
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Residues in contact with LEU 114 (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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110E THR* 3.2 24.0 + - + +
111E LEU* 3.5 20.0 - - + +
112E LYS 3.2 0.2 - - - -
113E GLU* 1.3 74.2 - - - +
115E HIS* 1.3 61.3 + - - +
117E SER* 3.2 7.3 + - - -
118E THR* 2.9 37.9 + - + +
115F HIS* 3.5 46.9 - - + +
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Residues in contact with HIS 115 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111E LEU 2.9 16.4 + - - +
112E LYS* 3.5 8.1 - - + +
114E LEU* 1.3 77.1 - - - +
116E SER* 1.3 58.6 + - - +
118E THR* 3.6 5.8 + - - -
119E THR* 2.7 55.1 + - + +
111F LEU* 4.1 20.2 - - + +
114F LEU* 3.7 44.3 + - + +
115F HIS* 5.2 6.7 + - + +
118F THR* 4.7 9.1 + - + +
----------------------------------------------------------
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Residues in contact with SER 116 (chain E).
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----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112E LYS 3.1 16.9 + - - -
113E GLU* 3.9 8.7 - - - -
114E LEU 3.3 0.2 - - - -
115E HIS* 1.3 81.1 - - - +
117E SER* 1.3 59.7 + - - +
119E THR* 4.0 5.3 - - - +
120E LEU* 3.3 22.3 + - - +
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Residues in contact with SER 117 (chain E).
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----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113E GLU 3.1 19.4 + - - -
114E LEU* 3.5 11.7 - - - -
115E HIS 3.2 0.2 - - - -
116E SER* 1.3 75.7 - - - +
118E THR* 1.3 63.2 + - - +
119E THR 3.1 4.0 - - - -
120E LEU* 3.3 8.9 + - - +
121E GLU* 3.2 21.8 + - - +
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Residues in contact with THR 118 (chain E).
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----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114E LEU* 2.9 28.0 + - + +
115E HIS* 3.6 5.2 + - - -
117E SER* 1.3 75.6 - - - +
119E THR* 1.3 58.6 + - - +
121E GLU* 3.9 11.0 - - - +
122E ASN* 3.2 13.7 + - - +
115F HIS* 3.8 16.5 + - + -
118F THR* 3.4 23.5 + - - -
119F THR* 3.8 17.9 - - + +
122F ASN* 3.1 30.2 + - - +
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Residues in contact with THR 119 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115E HIS* 2.7 43.4 + - + +
116E SER* 4.0 6.7 - - - -
117E SER 3.1 0.2 - - - -
118E THR* 1.3 77.1 - - - +
120E LEU* 1.3 66.9 + - - +
121E GLU 3.2 0.2 - - - -
122E ASN* 3.3 7.0 + - + +
123E ASP* 3.0 36.8 + - - +
118F THR* 4.7 8.6 - - - +
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Residues in contact with LEU 120 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116E SER 3.3 16.2 + - - +
117E SER* 3.6 7.6 - - - +
119E THR* 1.3 78.8 - - - +
121E GLU* 1.3 57.2 + - - +
123E ASP* 3.2 14.4 + - + +
124E GLN* 3.0 54.0 + - + +
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Residues in contact with GLU 121 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117E SER 3.2 13.1 + - - +
118E THR* 3.8 14.2 - - - +
119E THR 3.2 0.2 - - - -
120E LEU* 1.3 77.7 - - - +
122E ASN* 1.3 59.1 + - - +
124E GLN* 3.1 19.3 + - - +
125E LEU* 2.9 41.8 + - + +
122F ASN* 3.2 16.3 + - - +
126F ARG* 2.9 34.0 + - - -
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Residues in contact with ASN 122 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118E THR 3.2 11.2 + - - +
119E THR* 3.3 12.5 + - + +
121E GLU* 1.3 78.0 - - - +
123E ASP* 1.3 63.0 + - - +
125E LEU* 3.5 5.8 + - - +
126E ARG* 3.0 52.8 + - - +
118F THR* 4.7 6.7 + - + +
121F GLU* 2.9 37.2 + - - +
122F ASN* 3.3 24.0 + - - +
125F LEU* 3.9 6.4 - - - +
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Residues in contact with ASP 123 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119E THR* 3.0 29.2 + - - +
120E LEU* 3.4 16.3 - - + +
121E GLU 3.1 0.2 - - - -
122E ASN* 1.3 86.6 - - - +
124E GLN* 1.3 62.4 + - - +
126E ARG* 3.9 14.6 + - - +
127E GLN* 3.6 19.1 + - - +
130E ARG* 5.6 0.9 + - - -
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Residues in contact with GLN 124 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120E LEU* 3.0 41.1 + - + +
121E GLU* 3.1 28.1 + - - +
123E ASP* 1.3 76.5 - - - +
125E LEU* 1.3 65.9 + - + +
126E ARG 3.3 0.4 - - - -
127E GLN* 3.4 7.8 + - - +
128E LYS* 3.0 28.4 + - - +
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Residues in contact with LEU 125 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121E GLU* 2.9 31.8 + - + +
122E ASN 3.8 4.9 - - - +
123E ASP 3.4 0.2 - - - -
124E GLN* 1.3 81.4 - - + +
126E ARG* 1.3 60.0 + - - +
127E GLN 3.2 0.9 - - - -
128E LYS* 3.8 7.6 - - + +
129E VAL* 3.1 28.4 + - - +
122F ASN* 3.6 26.2 - - + +
125F LEU* 3.7 29.5 - - + +
126F ARG* 3.4 35.2 - - + -
129F VAL* 4.2 8.8 - - + +
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Residues in contact with ARG 126 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122E ASN* 3.0 34.3 + - - +
123E ASP* 4.1 15.0 + - - +
124E GLN 3.3 0.4 - - - -
125E LEU* 1.3 74.7 - - - +
127E GLN* 1.3 61.2 + - - +
129E VAL* 3.1 24.0 - - + +
130E ARG* 3.4 28.2 + - - +
121F GLU* 2.8 28.2 + - - -
125F LEU* 4.0 14.4 - - + +
----------------------------------------------------------
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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