Contacts of the helix formed by residues 96 - 124 (chain H) in PDB entry 1R5I
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 96 (chain H).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93H GLU* 3.2 37.2 + - - +
94H ALA 3.6 0.2 - - - -
95H ASN* 1.3 76.4 - - - +
97H VAL* 1.3 63.2 + - - +
98H GLU* 3.0 32.4 + - - +
99H GLN* 3.0 25.4 + - + +
100H ILE* 3.0 15.0 + - - +
102H ARG* 5.8 0.2 - - - +
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Residues in contact with VAL 97 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40H GLU* 3.7 24.2 - - + +
41H THR* 3.8 20.6 - - + -
44H VAL* 4.0 15.2 - - + +
95H ASN 3.3 2.1 + - - +
96H ASN* 1.3 71.5 + - - +
98H GLU* 1.3 64.9 + - + +
100H ILE* 3.1 11.1 + - - +
101H LYS* 2.9 40.8 + - - +
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Residues in contact with GLU 98 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96H ASN* 3.0 25.6 + - - +
97H VAL* 1.3 84.2 - - + +
99H GLN* 1.3 57.8 + - - +
101H LYS* 3.4 16.6 + - - +
102H ARG* 3.1 61.0 + - - +
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Residues in contact with GLN 99 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37E ALA* 3.2 31.1 + - - +
38E LYS* 5.0 1.9 + - - +
89H THR* 3.6 18.2 - - + +
93H GLU* 3.6 26.6 - - + +
96H ASN* 3.0 34.6 + - + +
98H GLU* 1.3 74.0 - - - +
100H ILE* 1.3 62.2 + - - +
102H ARG* 3.1 26.1 + - - +
103H ASN* 2.8 54.9 + - - +
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Residues in contact with ILE 100 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36H SER* 4.4 4.7 - - - +
41H THR* 4.7 2.9 - - - -
44H VAL* 3.5 35.9 - - + -
45H LEU* 5.2 2.2 - - + +
48H PHE* 3.8 36.3 - - + -
90H GLN* 3.8 19.3 - - - +
93H GLU 4.2 6.3 - - - +
94H ALA 3.7 23.8 - - - +
95H ASN* 4.7 2.0 - - - -
96H ASN 3.0 18.7 + - - +
97H VAL* 3.6 5.6 - - - +
99H GLN* 1.3 72.8 - - - +
101H LYS* 1.3 60.5 + - - +
103H ASN* 3.6 8.0 - - - +
104H ILE* 3.0 29.5 + - + +
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Residues in contact with LYS 101 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
213D ASP* 3.9 33.6 + - - +
44H VAL* 3.6 18.4 - - + -
47H LEU* 5.8 2.9 - - + -
97H VAL* 2.9 30.3 + - + +
98H GLU* 3.7 16.4 - - - +
100H ILE* 1.3 79.5 - - - +
102H ARG* 1.3 60.8 + - - +
104H ILE* 3.3 11.4 + - + +
105H ALA* 3.0 21.3 + - - +
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Residues in contact with ARG 102 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38E LYS* 3.8 59.0 - - - +
40E GLU* 5.6 1.2 + - - -
96H ASN* 5.8 0.4 - - - +
98H GLU* 3.1 52.3 + - - +
99H GLN* 3.1 34.6 + - - +
101H LYS* 1.3 74.1 - - + +
103H ASN* 1.3 54.8 + - - +
105H ALA* 2.8 10.4 + - - +
106H ILE* 2.7 43.9 + - + +
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Residues in contact with ASN 103 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37E ALA 4.4 3.1 - - - +
48H PHE* 4.5 8.7 - - + -
86H VAL* 3.7 26.6 - - + +
89H THR* 4.2 5.7 - - - +
90H GLN* 2.9 46.2 + - - +
99H GLN* 2.8 45.9 + - - +
100H ILE* 3.6 6.3 - - - +
102H ARG* 1.3 75.4 - - - +
104H ILE* 1.3 63.2 + - - +
106H ILE* 3.0 9.9 + - - +
107H LEU* 2.9 29.9 + - - +
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Residues in contact with ILE 104 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44H VAL* 4.3 6.3 - - + +
47H LEU* 3.7 19.1 - - + +
48H PHE* 3.5 45.8 - - + +
51H LYS* 3.4 32.9 - - + +
100H ILE* 3.0 23.2 + - + +
101H LYS* 3.4 13.0 - - + +
103H ASN* 1.3 76.3 - - - +
105H ALA* 1.3 63.4 + - - +
107H LEU* 3.3 9.0 + - - +
108H ASP* 3.2 16.3 + - - +
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Residues in contact with ALA 105 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101H LYS 3.0 11.9 + - - +
102H ARG* 2.8 13.8 + - - +
104H ILE* 1.3 77.5 - - - +
106H ILE* 1.3 60.9 + - + +
108H ASP* 3.2 9.8 + - - +
109H GLU* 2.8 35.4 + - - +
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Residues in contact with ILE 106 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36E MSE 4.9 1.6 - - - +
37E ALA 3.8 18.8 - - - +
38E LYS 4.3 4.9 - - - +
39E LYS* 3.7 34.8 - - + -
57E GLN* 5.6 0.2 - - - +
60E LEU* 4.1 20.9 - - + -
86H VAL* 3.7 25.8 - - + -
102H ARG* 2.7 27.8 + - + +
103H ASN* 3.0 14.3 + - - +
105H ALA* 1.3 70.7 - - + +
107H LEU* 1.3 67.8 + - - +
108H ASP 3.0 1.3 - - - -
109H GLU* 2.7 26.8 + - - +
110H ILE* 2.8 13.7 + - + +
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Residues in contact with LEU 107 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48H PHE* 4.9 9.0 - - + -
51H LYS* 4.1 30.7 - - + -
52H VAL* 4.2 26.2 - - + +
55H PHE* 3.9 15.2 - - + -
83H LEU* 3.5 28.7 - - + -
86H VAL* 4.2 21.3 - - + -
87H PHE* 5.6 0.2 - - + -
103H ASN 2.9 24.4 + - - +
104H ILE* 3.3 7.2 + - - +
106H ILE* 1.3 72.4 - - - +
108H ASP* 1.3 62.2 + - - +
110H ILE* 3.2 14.3 + - + +
111H MET* 3.1 28.2 + - - +
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Residues in contact with ASP 108 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
198D ILE* 4.5 21.0 - - - +
201D LYS* 5.6 8.5 + - - -
51H LYS* 3.0 26.7 + - - +
54H GLN* 4.2 2.8 + - - +
104H ILE 3.2 11.4 + - - +
105H ALA* 3.3 12.8 - - - +
106H ILE 3.0 0.8 - - - -
107H LEU* 1.3 78.7 - - - +
109H GLU* 1.3 62.5 + - + +
111H MET* 3.3 13.6 + - - +
112H ALA* 3.1 20.8 + - - +
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Residues in contact with GLU 109 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39E LYS* 2.4 38.4 + - - +
57E GLN* 4.2 8.4 - - - +
105H ALA* 2.8 30.3 - - - +
106H ILE* 2.7 20.0 + - - +
108H ASP* 1.3 71.0 - - + +
110H ILE* 1.3 65.5 + - - +
112H ALA* 3.1 9.2 + - - +
113H LYS* 2.8 24.9 + - - +
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Residues in contact with ILE 110 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57E GLN* 4.0 9.0 - - - +
60E LEU* 4.0 15.9 - - + -
55H PHE* 3.5 30.5 - - + -
79H MET* 4.1 15.0 - - + -
82H LYS* 3.4 51.7 + - + +
83H LEU 4.0 2.9 - - - +
86H VAL* 4.2 17.7 - - + -
106H ILE* 2.8 16.0 + - + +
107H LEU* 3.5 12.3 - - + +
109H GLU* 1.3 75.8 - - - +
111H MET* 1.3 58.0 + - - +
113H LYS* 3.2 3.5 + - - +
114H ALA* 2.9 26.2 + - - +
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Residues in contact with MET 111 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
198D ILE* 4.2 17.0 - - + -
51H LYS* 3.4 26.2 - - + -
54H GLN* 3.4 28.3 - - - +
55H PHE* 3.8 33.0 - - + -
58H HIS* 3.6 47.7 + - + +
79H MET* 5.0 3.1 - - - -
107H LEU 3.1 17.7 + - - +
108H ASP* 3.5 11.2 - - - +
110H ILE* 1.3 77.3 - - - +
112H ALA* 1.3 61.6 + - - +
114H ALA* 3.2 9.9 + - - +
115H ASP* 3.0 19.4 + - - -
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Residues in contact with ALA 112 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
198D ILE* 3.9 17.6 - - + +
5H VAL* 4.9 1.2 - - - +
108H ASP* 3.1 14.7 + - - +
109H GLU* 3.1 11.4 + - - +
111H MET* 1.3 71.5 - - - +
113H LYS* 1.3 62.5 + - - +
115H ASP* 3.0 6.8 + - - +
116H ASN* 2.8 28.0 + - - +
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Residues in contact with LYS 113 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57E GLN* 3.4 29.2 - - + +
204E PO4 3.2 29.1 + - - -
9H LYS* 6.2 0.4 - - - +
10H LYS 4.6 3.8 + - - -
82H LYS* 3.4 20.9 - - - +
109H GLU 2.8 8.5 + - - +
110H ILE 3.4 8.7 - - - +
112H ALA* 1.3 76.5 - - - +
114H ALA* 1.3 61.8 + - - +
116H ASN* 3.2 12.3 + - + +
117H ASP* 2.4 68.3 + - - +
214H PO4 2.8 21.4 + - - -
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Residues in contact with ALA 114 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58H HIS* 4.7 0.2 - - - +
62H ILE* 3.9 14.1 - - + -
75H ILE* 4.0 12.1 - - + +
79H MET* 3.8 32.8 - - + -
82H LYS* 5.6 0.2 - - - +
110H ILE 2.9 13.3 + - - +
111H MET* 3.2 10.5 - - - +
113H LYS* 1.3 76.7 - - - +
115H ASP* 1.3 58.1 + - - +
117H ASP* 3.4 3.7 + - - +
118H LEU* 2.8 32.7 + - - +
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Residues in contact with ASP 115 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
198D ILE* 3.2 30.0 - - + +
199D GLU* 5.2 0.9 - - - +
4H ARG* 2.9 50.3 + - + +
5H VAL* 3.8 9.0 - - + -
58H HIS* 3.0 19.6 + - - -
62H ILE* 4.1 4.0 - - - +
111H MET 3.0 6.9 + - - -
112H ALA* 3.0 9.2 + - - +
114H ALA* 1.3 75.9 - - - +
116H ASN* 1.3 64.3 + - - +
118H LEU* 3.5 6.5 - - - +
119H SER* 2.8 27.5 + - - -
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Residues in contact with ASN 116 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5H VAL* 3.6 22.4 - - + +
8H PRO* 3.5 7.1 - - - +
9H LYS* 2.9 57.2 + - - +
112H ALA 2.8 12.3 + - - +
113H LYS* 3.5 17.2 - - + +
115H ASP* 1.3 76.0 - - - +
117H ASP* 1.3 78.3 + - - +
119H SER* 2.9 7.4 + - - -
120H TYR* 2.9 18.5 + - - +
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Residues in contact with ASP 117 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11H ALA* 3.3 22.6 - - + +
12H GLN 5.1 0.9 + - - +
75H ILE* 3.9 9.6 - - + -
113H LYS* 2.4 51.9 + - - +
114H ALA* 3.9 3.3 - - - +
116H ASN* 1.3 82.9 + - - +
118H LEU* 1.3 62.4 + - - +
120H TYR* 3.2 2.1 + - - +
121H PHE* 3.0 38.4 + - + -
214H PO4 2.9 20.6 + - - -
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Residues in contact with LEU 118 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4H ARG* 4.1 25.1 - - + +
62H ILE* 4.2 25.4 - - + -
66H TYR* 3.8 39.5 - - + -
69H LEU* 4.3 11.0 - - + -
72H TYR* 5.6 2.5 - - - -
75H ILE* 3.1 27.5 - - + +
114H ALA 2.8 22.3 + - - +
115H ASP* 3.5 3.6 - - - +
117H ASP* 1.3 73.5 - - - +
119H SER* 1.3 64.4 + - - +
121H PHE* 3.3 2.1 + - - +
122H ILE* 3.1 44.1 + - + +
----------------------------------------------------------
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Residues in contact with SER 119 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3H LEU* 3.8 17.0 - - - +
4H ARG* 3.3 10.6 + - - +
5H VAL* 3.0 42.2 + - - -
8H PRO* 3.6 6.4 - - - +
115H ASP 2.8 13.8 + - - -
116H ASN 2.9 8.8 + - - -
118H LEU* 1.3 75.9 - - - +
120H TYR* 1.3 58.3 + - - +
122H ILE* 3.3 7.5 + - - +
123H SER* 2.9 29.3 + - - -
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Residues in contact with TYR 120 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8H PRO* 3.6 23.0 - - + +
9H LYS 3.9 14.1 - - - +
10H LYS* 3.0 40.4 + - + +
11H ALA* 3.2 43.5 - - + -
116H ASN 2.9 9.1 + - - +
117H ASP 3.5 7.4 - - - +
118H LEU 3.2 0.2 - - - -
119H SER* 1.3 76.9 - - - +
121H PHE* 1.3 72.8 + + - +
123H SER* 2.5 26.8 + - - -
124H GLN* 3.0 45.4 + - + +
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Residues in contact with PHE 121 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11H ALA* 4.0 27.1 - - + -
12H GLN* 4.3 18.2 - - - -
13H LYS* 4.4 19.5 - - + -
69H LEU* 4.3 5.2 - - + -
71H GLU* 3.6 46.0 - - + +
74H GLU* 4.9 9.2 - - + -
75H ILE* 3.7 26.7 - - + -
117H ASP* 3.0 29.0 + - + +
118H LEU* 3.9 3.4 - - - +
120H TYR* 1.3 85.7 - + - +
122H ILE* 1.3 61.2 + - - +
124H GLN* 3.3 9.3 + - + +
125H ASN* 3.2 23.0 + - - +
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Residues in contact with ILE 122 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1H MET* 3.7 27.8 - - - -
2H LYS 5.8 1.3 - - - +
3H LEU* 3.7 17.0 - - + -
66H TYR* 3.9 30.7 - - + +
69H LEU* 3.5 20.0 - - + -
118H LEU* 3.1 33.8 + - + +
119H SER* 3.6 9.6 - - - +
120H TYR 3.1 0.2 - - - -
121H PHE* 1.3 75.1 - - - +
123H SER* 1.3 59.4 + - - +
125H ASN* 3.0 13.5 + - - +
128H PHE* 4.6 9.4 - - + -
129H GLN* 2.7 35.5 + - + +
----------------------------------------------------------
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Residues in contact with SER 123 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3H LEU* 4.5 15.7 - - - +
8H PRO* 4.8 5.4 - - - +
119H SER 2.9 13.6 + - - -
120H TYR* 2.5 29.0 + - - -
122H ILE* 1.3 77.5 - - - +
124H GLN* 1.3 73.0 + - - +
126H LYS* 4.6 1.4 + - - +
129H GLN* 3.4 17.8 + - - +
----------------------------------------------------------
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Residues in contact with GLN 124 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10H LYS* 5.4 0.7 + - - -
120H TYR* 3.0 52.7 + - + +
121H PHE* 3.8 9.6 - - + +
122H ILE 3.1 0.4 - - - -
123H SER* 1.3 93.5 + - - +
125H ASN* 1.3 57.3 + - - +
126H LYS 3.6 3.1 + - - -
----------------------------------------------------------
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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