Contacts of the helix formed by residues 82 - 111 (chain E) in PDB entry 3E1N
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 82 (chain E).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35E TRP* 4.3 5.6 - - - -
80E GLY 3.7 0.6 - - - -
81E GLU* 1.3 79.3 - - - +
83E VAL* 1.3 67.2 + - - +
84E GLU* 3.5 10.4 + - - +
85E GLU* 3.0 41.6 + - - +
86E MET* 2.9 25.9 + - - +
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Residues in contact with VAL 83 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32E PHE* 4.0 15.9 - - + -
35E TRP* 4.3 6.9 - - + -
37E LEU* 3.8 27.6 - - + -
40E LEU* 4.1 13.0 - - + -
82E ASP* 1.3 73.2 - - - +
84E GLU* 1.3 58.7 + - - +
86E MET* 3.1 11.4 + - - +
87E LEU* 2.8 48.2 + - + +
141E ILE* 4.6 2.7 - - + -
146E LEU* 5.0 7.4 - - + -
149E TYR* 4.1 11.9 - - + -
150E LEU* 3.9 16.2 - - + -
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Residues in contact with GLU 84 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82E ASP* 3.3 7.9 + - - +
83E VAL* 1.3 77.9 - - - +
85E GLU* 1.3 65.2 + - - +
86E MET 3.0 0.2 + - - -
87E LEU* 3.1 1.9 + - - +
88E ARG* 2.8 62.1 + - - +
138E LEU* 3.9 18.2 - - + +
141E ILE* 4.2 22.4 - - + +
142E GLN* 3.7 19.6 + - - -
146E LEU* 5.6 4.1 - - + +
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Residues in contact with GLU 85 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78E ASN* 5.4 2.3 - - - +
80E GLY* 3.4 20.4 - - - -
81E GLU* 3.6 21.6 + - - +
82E ASP* 3.0 34.4 + - - +
84E GLU* 1.3 77.4 - - - +
86E MET* 1.3 59.0 + - - +
88E ARG* 3.4 8.8 + - - +
89E SER* 3.0 29.0 + - - -
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Residues in contact with MET 86 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28E HIS* 3.3 59.7 - - + +
31E MET* 3.7 39.7 - - + -
32E PHE* 3.5 28.3 - - + -
35E TRP* 3.7 21.5 - - + -
79E ILE 3.3 10.5 - - - +
80E GLY 4.3 2.5 - - - +
82E ASP 2.9 28.1 + - - +
83E VAL* 3.4 11.4 - - - +
85E GLU* 1.3 76.7 - - - +
87E LEU* 1.3 66.4 + - - +
89E SER* 3.2 2.0 + - - -
90E ASP* 3.1 18.4 + - - -
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Residues in contact with LEU 87 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32E PHE* 3.8 30.3 - - + -
40E LEU* 5.1 2.7 - - + -
44E GLU* 4.2 14.1 - - - +
83E VAL* 2.8 31.7 + - + +
86E MET* 1.3 75.5 - - - +
88E ARG* 1.3 63.4 + - - +
90E ASP* 3.1 9.5 + - - +
91E LEU* 2.9 21.8 + - - +
133E TRP* 4.9 7.0 - - + -
134E LEU* 4.0 17.0 - - + +
137E GLU* 4.3 13.2 - - + -
138E LEU* 3.7 17.7 - - + -
141E ILE* 4.3 13.9 - - + -
149E TYR* 3.9 18.2 - - - +
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Residues in contact with ARG 88 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84E GLU* 2.8 51.9 + - - +
85E GLU* 3.6 8.1 - - - +
87E LEU* 1.3 75.5 - - - +
89E SER* 1.3 62.2 + - - +
91E LEU* 3.4 11.2 + - + +
92E ALA* 3.1 21.1 + - - +
138E LEU* 3.8 38.3 + - + +
142E GLN* 4.9 10.5 - - - +
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Residues in contact with SER 89 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24E GLN* 3.2 10.7 + - - -
28E HIS* 4.7 0.2 - - - -
78E ASN* 2.6 52.5 + - - +
79E ILE 4.8 1.8 - - - -
80E GLY* 5.9 0.2 - - - -
85E GLU* 3.0 18.0 + - - -
86E MET* 3.5 7.9 - - - -
87E LEU 3.2 0.4 - - - -
88E ARG* 1.3 75.6 - - - +
90E ASP* 1.3 63.9 + - - +
92E ALA* 3.3 8.1 + - - +
93E LEU* 3.1 18.2 + - - +
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Residues in contact with ASP 90 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24E GLN* 2.7 34.2 + - - +
25E TYR* 3.6 26.5 - - + -
28E HIS* 2.9 19.7 + - - -
44E GLU* 2.7 31.4 - - - +
86E MET 3.1 8.9 + - - +
87E LEU* 3.1 9.5 + - - +
89E SER* 1.3 72.5 - - - +
91E LEU* 1.3 64.6 + - - +
93E LEU* 3.1 7.7 + - - +
94E GLU* 2.9 25.3 + - - +
134E LEU* 4.1 11.2 - - + -
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Residues in contact with LEU 91 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87E LEU 2.9 12.4 + - - +
88E ARG* 3.6 15.9 - - + +
89E SER 3.3 0.2 - - - -
90E ASP* 1.3 76.3 - - - +
92E ALA* 1.3 61.5 + - - +
94E GLU* 3.2 1.9 + - - +
95E LEU* 2.9 42.8 + - + +
131E ILE* 3.9 27.8 - - + -
134E LEU* 3.9 19.8 - - + +
135E GLU* 4.2 23.6 - - + +
138E LEU* 3.8 23.3 - - + -
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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
----------------------------------------------------------
88E ARG 3.1 14.9 + - - +
89E SER* 3.3 9.3 + - - +
91E LEU* 1.3 74.6 - - - +
93E LEU* 1.3 57.1 + - - +
95E LEU* 3.5 9.8 + - - +
96E ASP* 2.9 37.2 + - - +
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Residues in contact with LEU 93 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17E ASN* 5.3 6.9 - - + +
20E VAL* 3.7 26.7 - - + -
21E ALA* 3.8 33.9 - - + -
24E GLN* 3.9 25.1 - - + +
25E TYR* 5.9 4.0 - - + -
76E LYS 5.2 3.4 - - - +
89E SER 3.1 11.6 + - - +
90E ASP* 3.1 12.2 + - - +
92E ALA* 1.3 79.5 - - - +
94E GLU* 1.3 58.1 - - + +
96E ASP* 3.4 7.6 + - + +
97E GLY* 3.0 23.9 + - - -
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Residues in contact with GLU 94 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25E TYR* 2.4 30.3 + - + +
51E GLU* 3.1 3.3 - - - +
90E ASP 2.9 17.0 + - - +
91E LEU* 3.6 7.0 - - - +
93E LEU* 1.3 76.1 - - + +
95E LEU* 1.3 59.5 + - - +
97E GLY* 3.1 2.4 + - - -
98E ALA* 2.8 30.3 + - - +
127E GLU* 3.0 19.2 - - - +
130E HIS* 3.0 18.7 + - + +
131E ILE* 3.6 20.2 - - + +
134E LEU* 4.0 9.9 - - + -
301E FE2 2.2 30.5 - - - -
400E UNK 4.1 3.6 + - - -
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Residues in contact with LEU 95 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91E LEU* 2.9 40.1 + - + +
92E ALA* 3.7 8.3 - - - +
94E GLU* 1.3 75.6 - - - +
96E ASP* 1.3 62.6 + - - +
98E ALA* 3.4 5.7 + - + +
99E LYS* 3.2 29.7 + - - +
131E ILE* 3.8 34.1 - - + -
135E GLU* 5.3 3.8 - - - +
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Residues in contact with ASP 96 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17E ASN* 5.1 0.7 - - - +
92E ALA* 2.9 23.2 + - - +
93E LEU* 3.8 8.8 - - + +
95E LEU* 1.3 73.5 - - - +
97E GLY* 1.3 64.0 + - - +
99E LYS* 3.4 27.9 + - - +
100E ASN* 3.2 29.7 + - - +
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Residues in contact with GLY 97 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14E LEU* 4.6 0.2 - - - +
17E ASN* 3.8 25.5 + - - -
93E LEU 3.0 15.1 + - - -
94E GLU* 3.1 3.8 + - - -
96E ASP* 1.3 74.7 - - - +
98E ALA* 1.3 67.0 + - - +
100E ASN* 3.4 3.1 + - - +
101E LEU* 2.9 29.7 + - - +
127E GLU* 5.7 2.7 - - - -
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Residues in contact with ALA 98 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94E GLU 2.8 16.5 + - - +
95E LEU* 3.8 6.3 - - + +
97E GLY* 1.3 76.8 - - - +
99E LYS* 1.3 53.4 + - - +
101E LEU* 3.1 9.8 + - - +
102E ARG* 2.8 61.5 + - - +
124E LEU* 4.0 13.2 - - + +
127E GLU* 5.1 4.4 - - + +
128E GLU* 5.3 0.2 - - - +
131E ILE* 4.2 17.3 - - + -
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Residues in contact with LYS 99 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95E LEU* 3.2 18.1 + - - +
96E ASP* 3.5 31.8 + - - +
98E ALA* 1.3 79.6 - - - +
100E ASN* 1.3 68.7 + - - +
102E ARG* 3.2 10.4 + - - +
103E GLU* 3.2 21.7 + - - +
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Residues in contact with ASN 100 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10E TYR* 4.9 4.3 - - + -
13E LYS* 3.5 34.1 - - - +
14E LEU* 3.7 18.8 - - + +
17E ASN* 2.9 23.3 + - - +
96E ASP* 3.2 15.5 + - - +
97E GLY 3.8 4.0 - - - +
99E LYS* 1.3 80.9 - - - +
101E LEU* 1.3 61.8 - - - +
103E GLU* 3.3 16.8 + - - +
104E ALA* 3.0 23.4 + - - +
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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
----------------------------------------------------------
14E LEU* 3.8 19.2 - - + +
18E GLU* 5.5 1.3 - - - +
58E TYR* 3.6 20.0 - - - +
97E GLY 2.9 15.4 + - - +
98E ALA* 3.1 9.6 + - - +
100E ASN* 1.3 72.2 - - - +
102E ARG* 1.3 67.9 + - - +
104E ALA* 3.3 2.8 + - - +
105E ILE* 2.9 33.1 + - + +
120E MET* 3.8 30.1 - - + +
123E ILE* 4.0 6.7 - - + -
124E LEU* 3.7 26.7 - - + +
127E GLU* 3.7 31.0 - - + +
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Residues in contact with ARG 102 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98E ALA* 2.8 47.1 + - - +
99E LYS* 3.2 8.9 + - - +
101E LEU* 1.3 71.9 - - - +
103E GLU* 1.3 62.2 + - - +
105E ILE* 3.5 8.1 + - - +
106E GLY* 3.3 18.4 + - - -
124E LEU* 4.1 19.3 - - + +
128E GLU* 2.5 36.1 + - - -
131E ILE* 5.9 0.6 - - - +
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Residues in contact with GLU 103 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6E LYS* 5.4 0.3 + - - -
10E TYR* 2.6 34.1 + - + +
13E LYS* 5.8 2.2 - - - -
99E LYS* 3.2 11.8 + - - +
100E ASN* 3.5 19.8 + - - +
101E LEU 3.2 0.8 - - - -
102E ARG* 1.3 77.9 - - - +
104E ALA* 1.3 61.8 + - - +
106E GLY* 3.4 3.1 + - - -
107E TYR* 3.2 21.0 + - - +
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Residues in contact with ALA 104 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10E TYR* 3.8 35.2 - - + -
14E LEU* 3.9 9.9 - - + -
100E ASN 3.0 16.1 + - - +
101E LEU 3.3 2.7 + - - +
103E GLU* 1.3 76.2 - - - +
105E ILE* 1.3 58.3 + - - +
107E TYR* 3.1 2.1 + - - +
108E ALA* 2.8 31.2 + - - +
120E MET* 3.7 23.6 - - + +
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Residues in contact with ILE 105 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101E LEU* 2.9 24.0 + - + +
102E ARG* 3.9 6.1 - - - +
103E GLU 3.3 0.2 - - - -
104E ALA* 1.3 73.1 - - - +
106E GLY* 1.3 66.1 + - - +
108E ALA* 3.6 0.5 + - - +
109E ASP 3.1 17.5 + - - -
117E ARG* 3.3 41.1 + - + +
120E MET* 3.6 31.9 - - + +
121E ILE* 4.0 28.9 - - + +
124E LEU* 3.8 28.9 - - + -
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Residues in contact with GLY 106 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102E ARG 3.3 11.3 + - - -
103E GLU 3.9 2.9 - - - -
104E ALA 3.3 0.4 - - - -
105E ILE* 1.3 79.0 - - - +
107E TYR* 1.3 61.8 + - - +
109E ASP* 3.4 5.4 + - - +
110E SER* 3.2 21.0 + - - -
117E ARG* 4.3 7.9 - - - -
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Residues in contact with TYR 107 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4E ASP* 3.0 35.9 + - - -
6E LYS* 3.4 32.7 - - + +
7E VAL* 3.7 14.8 - - + -
10E TYR* 3.7 35.0 - + + +
103E GLU 3.2 10.9 + - - +
104E ALA 3.1 2.5 + - - +
106E GLY* 1.3 75.6 - - - +
108E ALA* 1.3 67.5 + - - +
110E SER* 2.8 26.2 + - - -
111E VAL* 3.1 28.1 + - + +
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Residues in contact with ALA 108 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7E VAL* 4.3 9.2 - - + -
104E ALA 2.8 20.3 + - - +
105E ILE 3.9 3.8 - - - +
107E TYR* 1.3 74.5 - - - +
109E ASP* 1.3 60.8 + - - +
110E SER 3.3 0.2 + - - -
111E VAL* 3.3 9.2 + - - +
112E HIS 3.1 3.6 + - - -
113E ASP* 2.9 48.9 + - + +
116E SER* 4.7 1.6 - - - -
117E ARG* 4.0 4.7 - - + +
120E MET* 3.7 21.1 - - + -
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Residues in contact with ASP 109 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105E ILE 3.1 6.5 + - - -
106E GLY 3.5 8.5 - - - +
107E TYR 3.2 0.2 - - - -
108E ALA* 1.3 75.6 - - - +
110E SER* 1.3 66.1 + - - +
112E HIS* 3.2 14.0 + - - -
114E TYR* 3.3 32.0 + - - -
117E ARG* 3.1 44.7 + - - +
----------------------------------------------------------
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Residues in contact with SER 110 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106E GLY 3.2 10.4 + - - -
107E TYR* 2.8 26.9 + - - -
109E ASP* 1.3 82.7 - - - +
111E VAL* 1.3 59.0 + - - +
112E HIS* 3.3 14.4 + - - -
----------------------------------------------------------
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Residues in contact with VAL 111 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4E ASP* 3.7 18.8 - - + +
7E VAL* 3.8 27.4 - - + -
107E TYR* 3.1 43.8 + - + +
108E ALA* 3.5 6.7 - - - +
110E SER* 1.3 78.0 - - - +
112E HIS* 1.3 71.6 + - - +
113E ASP* 3.3 5.6 + - + +
----------------------------------------------------------
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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