Contacts of the helix formed by residues 94 - 123 (chain E) in PDB entry 2BKC
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 THR 94 (chain E).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92E PRO 4.2 0.2 - - - -
93E LYS* 1.3 75.5 - - - +
95E MET* 1.3 67.8 + - + +
96E ASP* 3.2 28.7 - - + +
97E GLN* 2.9 34.9 + - + +
98E LEU* 3.1 13.5 + - - +
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Residues in contact with MET 95 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37C HIS* 5.5 3.1 - - + +
34E MET* 3.6 47.6 - - + -
35E ARG 3.6 30.5 + - - +
36E GLY* 5.2 1.3 - - - -
38E ASN* 3.9 33.9 - - + +
39E PHE 4.2 0.4 - - - +
42E LEU* 3.7 24.7 - - + -
93E LYS 4.0 0.8 + - - -
94E THR* 1.3 72.5 - - + +
96E ASP* 1.3 64.2 + - - +
98E LEU* 3.3 10.6 + - - +
99E MET* 3.0 28.9 + - - +
149E PHE* 4.3 11.2 - - + -
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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
----------------------------------------------------------
37C HIS* 2.7 41.1 + - - -
94E THR* 3.2 13.9 - - + +
95E MET* 1.3 78.4 - - - +
97E GLN* 1.3 58.1 + - + +
99E MET* 3.4 1.0 + - - -
100E GLU* 2.9 42.7 + - - +
149E PHE* 3.8 2.8 - - - -
150E LEU* 3.6 26.9 - - + +
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Residues in contact with GLN 97 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92E PRO 4.6 1.8 + - - +
93E LYS* 3.6 36.0 + - + +
94E THR* 2.9 44.4 + - + +
96E ASP* 1.3 74.4 - - + +
98E LEU* 1.3 62.1 + - - +
100E GLU* 3.7 18.5 - - - +
101E ASP* 3.0 26.7 + - - +
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Residues in contact with LEU 98 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29E GLN* 5.6 4.7 - - - +
30E ILE* 3.7 37.8 - - + +
33E TYR* 4.6 3.1 - - + +
34E MET* 3.8 37.9 - - + +
35E ARG 5.1 0.2 - - - +
89E TYR* 4.1 15.5 - - + -
93E LYS* 3.8 33.9 - - + +
94E THR 3.1 15.3 + - - +
95E MET* 3.3 11.6 + - - +
97E GLN* 1.3 72.8 - - - +
99E MET* 1.3 63.6 + - + +
101E ASP* 3.2 10.0 + - + +
102E LEU* 2.9 27.4 + - - +
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Residues in contact with MET 99 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30E ILE* 3.6 29.2 - - + -
34E MET* 4.4 2.5 - - + -
42E LEU* 4.1 13.2 - - + -
46E MET* 4.3 12.1 - - + -
95E MET* 3.0 28.0 + - - +
96E ASP 3.8 3.6 - - - +
98E LEU* 1.3 79.5 - - + +
100E GLU* 1.3 53.5 + - - +
102E LEU* 3.2 9.4 + - + +
103E VAL* 2.8 37.6 + - - +
146E PHE* 3.7 35.4 - - + +
149E PHE* 3.8 24.0 - - + -
150E LEU* 4.2 19.3 - - + -
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Residues in contact with GLU 100 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96E ASP* 2.9 31.0 + - - +
97E GLN* 3.7 21.4 - - - +
99E MET* 1.3 74.7 - - - +
101E ASP* 1.3 59.7 + - - +
103E VAL* 3.9 4.0 - - - +
104E GLY* 3.0 24.4 + - - -
150E LEU* 3.8 26.2 - - + +
152E LYS* 6.1 1.9 - - - -
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Residues in contact with ASP 101 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26E LYS* 2.8 40.8 + - - +
29E GLN* 4.8 6.6 + - - -
30E ILE* 5.0 4.7 - - + +
93E LYS* 4.6 15.0 + - - +
97E GLN 3.0 15.2 + - - +
98E LEU* 3.2 13.8 + - + +
100E GLU* 1.3 75.3 - - - +
102E LEU* 1.3 63.7 + - - +
104E GLY* 3.1 3.9 + - - -
105E THR* 3.1 23.1 + - - -
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Residues in contact with LEU 102 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23E PHE* 3.6 32.1 - - + -
26E LYS* 5.5 1.6 - - - -
27E ILE* 4.9 4.3 - - + -
30E ILE* 4.1 17.6 - - + +
46E MET* 4.0 12.1 - - + -
49E LEU* 3.9 14.8 - - + -
98E LEU 2.9 13.2 + - - +
99E MET* 3.2 12.8 + - + +
101E ASP* 1.3 75.0 - - - +
103E VAL* 1.3 61.8 + - - +
105E THR* 3.1 6.5 + - - -
106E LEU* 3.0 27.8 + - + +
146E PHE* 3.6 50.7 - - + -
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Residues in contact with VAL 103 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99E MET 2.8 21.8 + - - +
100E GLU* 3.9 7.4 - - - +
102E LEU* 1.3 73.1 - - - +
104E GLY* 1.3 63.7 + - - +
106E LEU* 3.1 11.8 + - + +
107E GLU* 3.0 36.8 + - + +
143E ILE* 4.8 7.6 - - + +
146E PHE* 3.6 33.9 - - + -
147E LYS* 3.7 33.0 - - + +
150E LEU* 4.2 13.7 - - + -
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Residues in contact with GLY 104 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100E GLU 3.0 15.6 + - - -
101E ASP* 3.1 4.9 + - - -
103E VAL* 1.3 76.4 - - - +
105E THR* 1.3 56.9 + - - +
107E GLU* 3.4 13.4 + - - +
108E LEU* 3.0 26.7 + - - +
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Residues in contact with THR 105 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23E PHE* 3.4 35.2 - - + -
26E LYS* 3.8 19.3 - - + +
84E VAL* 3.9 32.5 - - + +
85E GLU 5.1 0.5 + - - -
101E ASP* 3.1 13.8 + - - -
102E LEU 3.6 7.6 - - - -
103E VAL 3.1 0.2 - - - -
104E GLY* 1.3 73.8 - - - +
106E LEU* 1.3 59.7 + - - +
108E LEU* 3.1 8.6 + - - +
109E LEU* 2.9 30.2 + - + +
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Residues in contact with LEU 106 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23E PHE* 3.6 22.4 - - + -
49E LEU* 5.4 2.0 - - + -
53E PHE* 3.8 26.2 - - + -
102E LEU* 3.0 33.4 + - + +
103E VAL* 3.6 10.1 - - + +
105E THR* 1.3 75.6 - - - +
107E GLU* 1.3 56.8 + - - +
109E LEU* 3.3 5.8 + - + +
110E ARG 2.8 23.4 + - - -
139E ILE* 3.4 23.2 - - + +
142E HIS* 3.9 31.4 - - + -
143E ILE* 4.0 15.7 - - + +
146E PHE* 4.3 13.7 - - + -
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Residues in contact with GLU 107 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103E VAL* 3.0 25.4 + - - +
104E GLY* 3.6 15.4 - - - +
106E LEU* 1.3 74.0 - - - +
108E LEU* 1.3 66.4 + - - +
110E ARG* 3.3 22.9 + - - +
111E ASP* 3.1 33.5 + - - +
143E ILE* 3.7 23.0 - - + +
147E LYS* 3.6 26.3 + - - -
154E PRO 4.5 4.7 - - - +
155E LEU* 6.0 0.2 - - - -
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Residues in contact with LEU 108 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19E ASN* 4.5 1.6 - - - +
83E SER* 3.8 24.9 - - - +
84E VAL* 4.0 25.6 - - + -
85E GLU 5.4 0.9 - - - +
104E GLY 3.0 13.2 + - - +
105E THR* 3.4 11.0 - - + +
107E GLU* 1.3 78.3 - - - +
109E LEU* 1.3 64.9 + - - +
111E ASP* 3.3 4.7 + - - +
112E GLU* 3.2 48.9 + - + +
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Residues in contact with LEU 109 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16E GLN* 3.7 22.7 - - - +
19E ASN* 4.0 21.8 - - + +
20E LEU* 4.0 18.4 - - + -
23E PHE* 3.6 38.1 - - + -
53E PHE* 4.5 8.7 - - + -
84E VAL* 4.1 10.5 - - + -
105E THR* 2.9 19.3 + - + +
106E LEU* 3.8 8.3 - - + +
108E LEU* 1.3 73.6 - - + +
110E ARG* 1.3 60.0 + - - +
112E GLU* 4.6 2.9 - - - +
113E TYR* 2.9 42.2 + - + +
139E ILE* 4.3 9.9 - - + -
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Residues in contact with ARG 110 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106E LEU 2.8 17.2 + - - +
107E GLU* 3.6 28.7 + - - +
108E LEU 3.2 0.4 - - - -
109E LEU* 1.3 76.4 - - - +
111E ASP* 1.3 90.7 + - - +
113E TYR* 3.9 4.8 - - - +
114E LYS* 3.1 27.0 + - + +
136E LYS* 4.0 21.5 - - + +
139E ILE* 3.8 15.9 - - + +
140E ASP* 3.2 26.7 - - - +
143E ILE* 3.9 19.6 - - + +
154E PRO 5.1 0.6 + - - -
155E LEU* 3.6 28.2 - - - +
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Residues in contact with ASP 111 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107E GLU* 3.1 21.1 + - - +
108E LEU* 4.0 4.7 - - - +
110E ARG* 1.3 110.3 + - - +
112E GLU* 1.3 61.7 + - + +
114E LYS* 3.6 8.6 + - - +
115E GLN* 3.4 25.6 + - - +
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Residues in contact with GLU 112 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12E PHE* 3.1 14.5 - - + -
15E HIS* 3.1 17.9 + - - -
16E GLN* 2.9 30.6 + - - +
19E ASN* 3.1 3.4 + - - -
83E SER* 2.4 28.2 + - - -
108E LEU* 3.2 33.1 + - + +
109E LEU* 4.2 2.9 - - - +
111E ASP* 1.3 76.3 - - + +
113E TYR* 1.3 63.4 + - - +
114E LYS 3.2 0.2 - - - -
115E GLN* 3.1 19.3 + - - +
116E GLY 3.0 17.3 + - - -
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Residues in contact with TYR 113 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12E PHE* 4.0 8.5 - + - -
16E GLN* 3.7 38.1 - - + -
20E LEU* 3.3 25.7 - - + +
56E GLN* 3.0 17.8 + - - -
60E VAL* 5.2 1.2 - - + +
109E LEU* 2.9 23.9 + - + +
110E ARG* 3.9 4.3 - - - +
112E GLU* 1.3 73.5 - - - +
114E LYS* 1.3 61.4 + - - +
116E GLY* 3.0 1.7 + - - -
117E ILE* 2.7 36.6 + - + +
132E LEU* 4.2 24.7 - - + +
135E PHE* 3.7 32.8 - + + -
136E LYS* 4.2 6.3 - - + -
139E ILE* 3.3 33.2 - - + +
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Residues in contact with LYS 114 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124A GLY* 3.5 25.4 + - - -
126A ASP* 3.6 18.2 + - - +
110E ARG* 3.1 18.1 + - + +
111E ASP* 3.6 10.5 - - - +
112E GLU 3.2 0.4 - - - -
113E TYR* 1.3 75.9 - - - +
115E GLN* 1.3 61.8 + - + +
117E ILE* 3.3 12.3 + - + +
118E GLU* 3.1 45.3 + - + +
136E LYS* 4.8 16.8 - - - +
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Residues in contact with GLN 115 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7E VAL* 6.1 2.4 - - - +
12E PHE* 4.6 4.9 - - + -
111E ASP* 3.4 17.1 + - - +
112E GLU* 3.1 24.4 + - - +
114E LYS* 1.3 75.0 - - + +
116E GLY* 1.3 60.1 + - - +
118E GLU* 3.5 13.7 + - - +
119E LEU* 3.0 29.9 + - - +
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Residues in contact with GLY 116 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12E PHE* 3.5 34.7 - - - -
112E GLU 3.0 7.3 + - - -
113E TYR 3.0 7.6 + - - -
115E GLN* 1.3 73.4 - - - +
117E ILE* 1.3 61.6 + - - +
119E LEU* 3.8 4.2 - - - +
120E THR* 2.8 32.7 + - - -
132E LEU* 3.7 6.7 - - - +
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Residues in contact with ILE 117 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126A ASP* 3.4 33.9 - - + +
113E TYR 2.7 23.4 + - - +
114E LYS* 3.5 14.1 - - + +
115E GLN 3.3 0.2 - - - -
116E GLY* 1.3 77.8 - - - +
118E GLU* 1.3 61.7 + - + +
120E THR* 3.9 5.2 - - - -
121E ASP* 3.1 10.2 + - + +
129E ASN* 2.9 32.9 + - - +
132E LEU* 3.7 21.8 - - + +
133E ILE* 3.7 34.3 - - + +
136E LYS* 4.1 18.8 - - + -
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Residues in contact with GLU 118 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114E LYS* 3.1 44.2 + - + +
115E GLN* 3.8 14.6 - - - +
116E GLY 3.3 0.2 - - - -
117E ILE* 1.3 76.2 - - + +
119E LEU* 1.3 65.6 - - - +
120E THR 3.3 0.2 + - - -
121E ASP* 3.4 7.1 + - - +
122E LYS* 3.1 45.8 + - + +
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Residues in contact with LEU 119 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7E VAL* 3.6 37.9 - - + +
8E ASP* 3.7 27.6 - - - +
9E THR* 4.1 10.8 - - - +
12E PHE* 3.8 26.9 - - + -
115E GLN 3.0 17.5 + - - +
116E GLY* 3.8 4.0 - - - +
118E GLU* 1.3 76.4 - - - +
120E THR* 1.3 58.4 + - - +
122E LYS* 3.3 13.6 + - + +
123E GLU* 3.0 32.2 + - + +
----------------------------------------------------------
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Residues in contact with THR 120 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9E THR* 3.6 22.0 + - - +
116E GLY 2.8 21.1 + - - +
117E ILE* 3.4 2.2 - - - +
119E LEU* 1.3 76.6 - - - +
121E ASP* 1.3 60.5 + - - +
123E GLU* 3.7 1.5 + - - +
124E GLY 3.2 4.0 + - - -
125E ASP* 2.9 34.9 + - - +
128E THR* 3.7 24.1 - - - +
129E ASN* 3.1 47.3 - - + +
132E LEU* 4.4 3.3 - - + +
----------------------------------------------------------
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Residues in contact with ASP 121 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117E ILE* 3.1 18.9 + - + +
118E GLU* 3.5 7.9 - - - +
120E THR* 1.3 78.6 - - - +
122E LYS* 1.3 59.1 + - - +
124E GLY* 3.2 16.8 + - - -
126E ASP* 5.6 1.4 - - - +
129E ASN* 3.8 14.8 + - - +
----------------------------------------------------------
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Residues in contact with LYS 122 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118E GLU* 3.1 42.7 + - + +
119E LEU* 3.3 14.3 + - + +
121E ASP* 1.3 77.0 - - + +
123E GLU* 1.3 57.7 + - - +
124E GLY 3.2 0.8 + - - -
----------------------------------------------------------
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Residues in contact with GLU 123 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7E VAL 4.7 0.5 - - - +
8E ASP* 3.3 17.0 - - - +
9E THR* 2.8 47.8 + - - +
119E LEU* 3.0 21.3 + - + +
120E THR* 4.1 4.3 - - - +
121E ASP 3.3 0.4 - - - -
122E LYS* 1.3 75.6 - - - +
124E GLY* 1.3 62.4 + - - +
125E ASP* 3.4 7.3 + - + +
----------------------------------------------------------
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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