Contacts of the helix formed by residues 113 - 144 (chain E) in PDB entry 3E1J
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 ASP 113 (chain E).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1E MET* 6.0 0.6 - - - +
3E GLY* 5.8 0.3 - - - -
4E ASP* 5.5 4.2 + - + -
7E VAL* 3.4 29.5 - - + +
61E ARG* 2.8 25.3 + - - -
65E LEU* 3.8 11.4 - - - +
108E ALA* 2.8 17.2 + - + +
111E VAL* 3.3 5.8 + - + +
112E HIS* 1.3 72.3 - - - +
114E TYR* 1.3 56.9 + - - +
115E VAL* 3.8 2.1 + - - +
116E SER* 2.7 28.9 + - - -
117E ARG* 3.0 26.0 + - - +
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Residues in contact with TYR 114 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109E ASP* 3.4 43.1 + - - -
112E HIS* 2.9 59.5 + + + -
113E ASP* 1.3 75.5 - - - +
115E VAL* 1.3 61.1 + - + +
117E ARG* 3.4 9.5 + - - +
118E ASP* 2.9 27.9 + - - +
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Residues in contact with VAL 115 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61E ARG* 3.2 35.7 - - - +
113E ASP* 3.3 2.4 + - - +
114E TYR* 1.3 76.7 - - + +
116E SER* 1.3 65.1 + - - +
118E ASP* 3.1 7.7 + - + +
119E MET* 2.9 25.7 + - + +
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Residues in contact with SER 116 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7E VAL* 4.1 10.8 - - - +
11E LEU* 4.2 7.8 - - - +
61E ARG* 2.9 29.7 + - - +
65E LEU* 3.8 6.2 - - - +
108E ALA* 4.7 0.7 - - - -
113E ASP* 2.7 36.4 + - - -
115E VAL* 1.3 75.2 - - - +
117E ARG* 1.3 63.0 + - - +
119E MET* 3.3 6.5 + - - +
120E MET* 2.9 36.0 + - - +
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Residues in contact with ARG 117 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105E ILE* 3.4 41.9 + - + +
106E GLY* 4.3 4.2 - - - -
108E ALA* 4.0 6.7 - - + -
109E ASP* 3.2 46.1 + - - +
113E ASP 3.0 14.8 + - - +
114E TYR* 3.5 16.3 - - - +
115E VAL 3.2 0.2 - - - -
116E SER* 1.3 75.0 - - - +
118E ASP* 1.3 56.9 + - - +
120E MET* 3.0 15.5 + - - +
121E ILE* 2.8 46.3 + - + +
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Residues in contact with ASP 118 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114E TYR 2.9 16.1 + - - +
115E VAL* 3.5 9.3 - - + +
117E ARG* 1.3 78.8 - - - +
119E MET* 1.3 62.7 + - - +
121E ILE* 3.3 11.4 + - - +
122E GLU* 3.2 32.5 + - - +
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Residues in contact with MET 119 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11E LEU* 5.5 1.6 - - - -
57E ARG* 3.6 62.7 + - + +
58E TYR* 4.4 16.6 - - - -
61E ARG* 3.6 34.1 - - + -
115E VAL* 2.9 17.0 + - + +
116E SER* 3.7 6.5 - - - +
118E ASP* 1.3 79.5 + - - +
120E MET* 1.3 63.9 + - - +
122E GLU* 3.4 3.3 + - - +
123E ILE* 3.2 31.0 + - + +
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Residues in contact with MET 120 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7E VAL* 5.8 1.1 - - + -
10E TYR* 5.7 0.4 - - + -
11E LEU* 3.9 15.5 - - + -
14E LEU* 3.6 30.7 - - + -
58E TYR* 4.4 10.8 - - + -
101E LEU* 3.7 11.3 - - + +
104E ALA* 3.6 35.2 - - + +
105E ILE* 3.6 18.2 - - + -
108E ALA* 3.6 21.1 - - + -
116E SER* 2.9 25.2 + - - +
117E ARG* 3.0 6.3 + - - +
119E MET* 1.3 79.3 - - + +
121E ILE* 1.3 56.5 + - - +
123E ILE* 3.2 6.5 + - - +
124E LEU* 2.9 28.6 + - - +
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Residues in contact with ILE 121 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105E ILE* 4.0 23.6 - - + -
117E ARG* 2.8 49.7 + - + +
118E ASP* 3.3 10.5 + - - +
120E MET* 1.3 75.8 - - - +
122E GLU* 1.3 73.7 + - - +
124E LEU* 3.3 8.0 + - + +
125E ARG* 3.0 23.1 + - + +
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Residues in contact with GLU 122 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57E ARG* 4.2 20.4 - - - +
118E ASP* 3.2 21.6 + - - +
119E MET 3.9 7.0 - - - +
120E MET 3.3 0.2 - - - -
121E ILE* 1.3 89.2 - - - +
123E ILE* 1.3 62.4 + - - +
125E ARG* 3.2 35.9 + - - +
126E ASP* 3.1 27.0 + - - +
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Residues in contact with ILE 123 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18E GLU* 3.8 18.4 - - - +
54E HIS* 3.7 37.0 - - + +
57E ARG* 3.8 13.5 - - + +
58E TYR* 3.6 44.9 - - + +
101E LEU* 4.1 8.5 - - + -
119E MET* 3.2 29.0 + - + +
120E MET* 3.2 6.3 + - - +
122E GLU* 1.3 75.8 - - - +
124E LEU* 1.3 56.8 + - - +
126E ASP* 2.9 19.6 + - - +
127E GLU* 2.9 24.3 + - - +
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Residues in contact with LEU 124 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98E ALA* 3.9 32.3 - - + +
101E LEU* 3.9 19.3 - - + +
102E ARG* 4.1 26.7 - - + +
105E ILE* 3.9 21.3 - - + -
120E MET 2.9 16.1 + - - +
121E ILE* 3.6 9.4 - - + +
122E GLU 3.3 0.2 - - - -
123E ILE* 1.3 75.5 - - - +
125E ARG* 1.3 57.9 + - - +
127E GLU* 3.1 4.1 + - + +
128E GLU* 2.8 52.8 + - - +
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Residues in contact with ARG 125 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121E ILE* 3.0 14.6 + - + +
122E GLU* 3.3 35.1 + - - +
124E LEU* 1.3 78.0 - - - +
126E ASP* 1.3 64.3 + - - +
128E GLU* 3.6 8.4 + - + +
129E GLY* 3.2 17.2 + - - -
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Residues in contact with ASP 126 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50E ASP* 3.8 12.0 - - - +
54E HIS* 2.9 34.1 + - + -
57E ARG* 5.0 4.7 + - - -
122E GLU* 3.1 13.6 + - - +
123E ILE* 2.9 9.4 + - - +
125E ARG* 1.3 81.2 - - - +
127E GLU* 1.3 63.3 + - - +
129E GLY* 3.2 3.9 + - - -
130E HIS* 3.1 26.9 + - - +
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Residues in contact with GLU 127 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18E GLU* 2.7 29.6 - - - +
51E GLU* 2.8 24.5 - - - +
54E HIS* 3.4 8.3 + - - -
94E GLU* 2.6 33.0 - - - +
97E GLY 6.1 0.4 - - - -
98E ALA* 5.4 2.7 - - + +
101E LEU* 3.9 20.4 - - + -
123E ILE* 2.9 19.4 + - - +
124E LEU* 3.1 9.8 + - + +
126E ASP* 1.3 73.6 - - - +
128E GLU* 1.3 57.0 + - - +
130E HIS* 2.9 12.0 + - - +
131E ILE* 2.8 43.9 + - + +
----------------------------------------------------------
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Residues in contact with GLU 128 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98E ALA* 5.2 1.4 - - - +
102E ARG* 2.7 34.3 + - - -
124E LEU* 2.8 30.2 + - - +
125E ARG* 3.6 9.2 - - - +
127E GLU* 1.3 76.2 - - - +
129E GLY* 1.3 54.3 + - - +
131E ILE* 3.3 16.9 + - + +
132E ASP* 2.9 28.6 + - - +
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Residues in contact with GLY 129 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125E ARG 3.2 14.0 + - - -
126E ASP* 3.5 6.1 - - - -
127E GLU 3.1 0.8 - - - -
128E GLU* 1.3 72.8 - - - +
130E HIS* 1.3 65.8 + - - +
132E ASP* 3.2 10.3 + - - +
133E TRP* 3.1 21.0 + - - +
----------------------------------------------------------
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Residues in contact with HIS 130 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25E TYR* 4.0 4.9 + - - +
47E GLU* 3.3 41.3 - - + +
50E ASP* 3.3 33.9 + - + -
51E GLU* 3.5 21.3 - - - -
54E HIS* 4.7 0.2 - + - -
94E GLU* 3.0 29.6 + - - +
126E ASP* 3.1 13.0 + - - +
127E GLU* 2.9 16.2 + - - +
129E GLY* 1.3 72.2 - - - +
131E ILE* 1.3 66.4 + - - +
133E TRP* 3.1 4.1 + - - +
134E LEU* 2.9 30.2 + - + +
----------------------------------------------------------
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Residues in contact with ILE 131 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91E LEU* 4.0 15.0 - - + -
94E GLU* 3.6 32.3 - - + +
95E LEU* 3.6 26.5 - - + -
98E ALA* 4.3 13.0 - - + -
102E ARG* 5.9 0.7 - - - +
127E GLU* 2.8 22.5 + - + +
128E GLU* 3.5 20.4 - - + +
130E HIS* 1.3 72.2 - - - +
132E ASP* 1.3 63.1 + - - +
134E LEU* 3.9 2.3 - - - +
135E GLU* 3.0 48.7 + - - +
----------------------------------------------------------
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Residues in contact with ASP 132 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128E GLU 2.9 14.1 + - - +
129E GLY* 3.2 12.8 + - - +
131E ILE* 1.3 76.3 - - - +
133E TRP* 1.3 58.8 + - - +
135E GLU* 3.4 10.5 + - - +
136E THR* 2.6 42.5 + - - -
----------------------------------------------------------
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Residues in contact with TRP 133 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39E ARG* 4.2 10.4 - - - +
40E LEU* 4.2 15.9 - - + -
43E VAL* 3.5 45.4 - - + +
44E GLU* 3.7 17.5 - - + -
47E GLU* 4.1 14.8 - - - +
87E LEU* 4.7 5.8 - - + -
129E GLY 3.1 12.5 + - - +
130E HIS 3.1 5.8 + - - +
132E ASP* 1.3 77.8 - - - +
134E LEU* 1.3 99.5 + - + +
136E THR* 3.2 8.1 + - - -
137E GLU* 3.0 61.0 + - + +
----------------------------------------------------------
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Residues in contact with LEU 134 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25E TYR* 3.6 22.9 - - - +
44E GLU* 4.0 10.8 - - - +
47E GLU* 4.9 1.3 - - - +
87E LEU* 4.1 16.3 - - + +
90E ASP* 4.2 9.2 - - + -
91E LEU* 4.1 32.8 - - + +
94E GLU* 4.1 12.1 - - + -
130E HIS* 2.9 30.1 + - + +
131E ILE* 3.9 3.8 - - - +
133E TRP* 1.3 105.8 - - + +
135E GLU* 1.3 63.7 + - - +
137E GLU* 3.3 4.4 + - - +
138E LEU* 3.0 30.2 + - + +
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Residues in contact with GLU 135 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91E LEU* 4.1 21.1 - - + +
95E LEU* 5.3 4.0 - - - +
131E ILE* 3.0 37.9 + - - +
132E ASP* 3.8 9.7 - - - +
134E LEU* 1.3 76.5 - - - +
136E THR* 1.3 64.8 + - - +
138E LEU* 3.3 10.1 + - - +
139E ASP* 2.9 33.0 + - - +
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Residues in contact with THR 136 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132E ASP* 2.6 33.1 + - - -
133E TRP* 3.2 7.8 + - - -
135E GLU* 1.3 77.9 - - - +
137E GLU* 1.3 65.5 + - - +
139E ASP* 3.2 8.6 + - + +
140E LEU* 2.9 39.7 + - + +
----------------------------------------------------------
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Residues in contact with GLU 137 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39E ARG* 3.3 21.6 + - - -
87E LEU* 4.2 11.2 - - + -
133E TRP* 3.0 62.4 + - + +
134E LEU* 3.7 7.6 - - - +
136E THR* 1.3 78.0 - - - +
138E LEU* 1.3 63.9 + - - +
140E LEU* 3.0 29.1 + - - +
141E ILE* 3.0 18.5 + - - +
149E TYR* 2.5 40.1 + - - +
153E GLN* 4.3 0.2 + - - -
----------------------------------------------------------
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Residues in contact with LEU 138 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84E GLU* 3.9 32.2 - - + +
87E LEU* 3.7 28.3 - - + -
88E ARG* 4.0 39.6 + - - +
91E LEU* 3.7 29.6 - - + -
134E LEU 3.0 21.1 + - - +
135E GLU* 3.7 4.9 - - - +
137E GLU* 1.3 75.6 - - - +
139E ASP* 1.3 64.2 + - - +
141E ILE* 3.4 16.6 + - + +
142E GLN* 3.5 17.2 + - - +
----------------------------------------------------------
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Residues in contact with ASP 139 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135E GLU* 2.9 23.8 + - - +
136E THR* 3.7 6.8 - - + +
138E LEU* 1.3 77.3 - - - +
140E LEU* 1.3 65.0 + - - +
142E GLN* 3.2 7.8 + - - +
143E LYS* 2.9 50.2 + - + +
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Residues in contact with LEU 140 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39E ARG* 5.5 4.9 - - - +
136E THR* 2.9 29.2 + - + +
137E GLU* 3.0 32.1 + - - +
139E ASP* 1.3 77.2 - - + +
141E ILE* 1.3 63.9 + - - +
143E LYS* 4.0 16.3 - - + +
144E MET* 2.9 56.6 + - + +
149E TYR* 4.2 9.2 - - + -
----------------------------------------------------------
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Residues in contact with ILE 141 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83E VAL* 4.3 7.9 - - + -
84E GLU* 4.3 27.8 - - + +
87E LEU* 4.2 17.9 - - + -
137E GLU 3.0 17.9 + - - +
138E LEU* 3.6 11.4 - - + +
139E ASP 3.2 0.4 - - - -
140E LEU* 1.3 76.3 - - - +
142E GLN* 1.3 72.4 + - - +
145E GLY* 3.0 28.1 + - - -
146E LEU* 3.8 27.3 + - + +
149E TYR* 3.6 41.3 - - + -
----------------------------------------------------------
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Residues in contact with GLN 142 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84E GLU* 3.9 25.4 + - - -
88E ARG* 5.0 7.1 - - - +
138E LEU 3.5 11.6 + - - +
139E ASP* 3.2 10.1 + - - +
141E ILE* 1.3 89.9 + - - +
143E LYS* 1.3 65.8 + - + +
145E GLY* 3.8 4.9 + - - -
----------------------------------------------------------
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Residues in contact with LYS 143 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139E ASP* 2.9 43.4 + - + +
140E LEU* 4.0 17.2 - - + +
142E GLN* 1.3 82.1 - - + +
144E MET* 1.3 58.9 + - + +
----------------------------------------------------------
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Residues in contact with MET 144 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140E LEU* 2.9 51.8 + - + +
143E LYS* 1.3 77.1 - - + +
145E GLY* 1.3 67.9 + - - +
148E ASN* 3.4 35.6 + - + +
149E TYR* 3.8 29.8 - - + +
152E ALA* 4.9 8.1 - - + -
250E SO4 4.7 1.6 + - - -
----------------------------------------------------------
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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