Contacts of the helix formed by residues 92 - 119 (chain E) in PDB entry 1IES
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 92 (chain E).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37E PHE* 4.0 10.2 - - - -
44E LEU* 4.2 5.9 - - - +
47E VAL* 3.9 34.9 - - + +
51E PHE* 5.9 0.2 - - + -
91E THR* 1.3 71.2 - - - +
93E LEU* 1.3 56.4 + - - +
95E ALA* 3.2 2.3 + - + +
96E MET* 2.8 36.2 + - + +
151E ILE* 3.7 24.9 - - + -
163E GLU* 2.7 31.7 + - - +
166E PHE* 4.2 13.7 - - + -
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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
----------------------------------------------------------
91E THR* 3.2 8.7 + - - +
92E THR* 1.3 75.2 - - - +
94E ASP* 1.3 71.5 + - - +
96E MET* 3.9 0.6 - - - +
97E LYS* 3.0 50.9 + - - +
148E LEU* 3.5 28.9 - - + -
151E ILE* 4.1 27.5 - - + +
152E GLN* 3.7 31.0 - - + +
155E VAL* 4.4 20.6 - - + +
163E GLU* 5.6 0.6 - - - +
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Residues in contact with ASP 94 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89E TRP 3.4 18.2 - - - +
90E GLY* 3.5 6.9 - - - -
91E THR* 2.8 30.5 + - - +
93E LEU* 1.3 82.9 - - - +
95E ALA* 1.3 59.6 + - - +
97E LYS* 3.6 12.7 + - - +
98E ALA* 3.2 21.8 + - - +
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Residues in contact with ALA 95 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33E LEU* 3.6 25.9 - - + +
37E PHE* 3.5 24.2 - - + -
51E PHE* 3.8 11.8 - - + -
89E TRP* 3.8 6.9 + - - +
91E THR 2.8 20.4 + - - +
92E THR 3.2 3.6 + - - +
94E ASP* 1.3 69.9 - - - +
96E MET* 1.3 59.1 + - - +
98E ALA* 3.3 6.2 + - - +
99E ALA* 2.9 28.1 + - - +
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Residues in contact with MET 96 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47E VAL* 5.6 0.7 - - + -
50E PHE* 3.5 40.2 - - + -
51E PHE* 4.3 10.0 - - + -
92E THR* 2.8 24.9 + - + +
93E LEU 3.9 2.7 - - - +
95E ALA* 1.3 66.9 - - - +
97E LYS* 1.3 60.2 + - - +
99E ALA* 3.2 3.9 + - - +
100E ILE* 2.8 33.1 + - - +
144E MET* 4.7 14.0 - - + +
147E HIS* 3.9 31.0 - - + -
148E LEU* 3.9 19.0 - - + +
151E ILE* 3.4 28.9 - - + -
166E PHE* 4.7 4.9 - - + -
171E LEU* 5.0 4.5 - - + -
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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
----------------------------------------------------------
93E LEU* 3.0 39.2 + - + +
94E ASP* 3.7 11.2 + - - +
96E MET* 1.3 78.9 - - - +
98E ALA* 1.3 61.4 + - - +
100E ILE* 3.2 24.1 - - + +
101E VAL* 3.2 15.5 + - + +
148E LEU* 3.5 15.5 - - + -
152E GLN* 3.7 25.2 - - - +
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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
----------------------------------------------------------
33E LEU* 5.3 3.6 - - + -
86E GLN* 5.1 4.9 - - - +
89E TRP* 4.4 26.5 - - + -
94E ASP 3.2 11.4 + - - +
95E ALA 3.3 8.5 + - - +
97E LYS* 1.3 78.5 - - - +
99E ALA* 1.3 57.7 + - - +
101E VAL* 3.4 7.1 + - - +
102E LEU* 2.9 28.1 + - - +
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Residues in contact with ALA 99 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30E TYR* 3.7 20.1 + - + +
33E LEU* 4.9 3.1 - - + +
51E PHE* 3.9 22.4 - - + -
95E ALA 2.9 16.8 + - - +
96E MET* 3.6 6.5 - - - +
98E ALA* 1.3 74.1 - - - +
100E ILE* 1.3 59.9 + - - +
102E LEU* 2.9 9.2 + - - +
103E GLU* 2.8 29.5 + - - +
144E MET* 3.9 13.2 - - + -
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Residues in contact with ILE 100 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3D GLN* 4.3 15.3 - - + +
4D ILE* 4.0 27.8 - - + -
96E MET 2.8 19.0 + - - +
97E LYS* 3.2 18.6 - - - +
99E ALA* 1.3 69.7 - - - +
101E VAL* 1.3 59.1 + - + +
103E GLU* 3.2 2.5 + - - +
104E LYS* 2.8 47.1 + - + +
141E ILE* 4.1 12.1 - - + -
144E MET* 4.0 18.1 - - + -
145E GLY* 4.2 14.4 - - - +
148E LEU* 4.0 18.8 - - + -
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Residues in contact with VAL 101 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97E LYS* 3.2 13.6 + - + +
98E ALA* 3.5 10.5 - - - +
99E ALA 3.2 0.2 - - - -
100E ILE* 1.3 78.6 - - + +
102E LEU* 1.3 67.1 + - - +
104E LYS* 3.3 9.9 + - + +
105E SER* 3.1 24.4 + - - -
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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
----------------------------------------------------------
25E ARG* 5.6 7.2 - - - +
26E ALA* 4.1 23.1 - - + +
29E THR* 3.7 34.1 - - + +
30E TYR* 3.7 33.7 - - + +
33E LEU* 5.7 0.2 - - + -
98E ALA 2.9 15.7 + - - +
99E ALA* 3.2 9.4 - - - +
101E VAL* 1.3 76.3 - - - +
103E GLU* 1.3 63.4 + - - +
105E SER* 2.8 29.3 + - - +
106E LEU* 3.1 11.5 + - + +
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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
----------------------------------------------------------
30E TYR* 2.5 30.7 + - - +
58E LYS* 2.9 34.9 + - - -
99E ALA 2.8 15.0 + - - +
100E ILE* 3.7 7.0 - - - +
102E LEU* 1.3 71.4 - - - +
104E LYS* 1.3 57.4 + - - +
106E LEU* 3.0 9.8 + - - +
107E ASN* 2.8 30.1 + - - +
137E GLU* 2.7 30.5 - - - +
140E LEU* 3.5 18.6 - - + +
141E ILE* 3.7 14.6 - - + -
144E MET* 4.0 15.7 - - - -
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Residues in contact with LYS 104 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3D GLN 3.0 28.4 + - - -
4D ILE* 4.0 20.2 - - - +
5D ARG 4.5 7.2 + - - -
6D GLN* 2.8 46.6 + - + +
100E ILE* 2.8 39.5 + - + +
101E VAL* 3.5 10.5 - - - +
103E GLU* 1.3 73.6 - - - +
105E SER* 1.3 57.0 + - - +
107E ASN* 3.3 1.4 + - - -
108E GLN* 2.9 13.9 + - - +
141E ILE* 4.2 10.1 - - + -
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Residues in contact with SER 105 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22E LEU* 4.8 4.9 - - - +
101E VAL* 3.1 13.7 + - - -
102E LEU* 2.8 27.7 + - - +
104E LYS* 1.3 72.3 - - - +
106E LEU* 1.3 68.3 + - - +
108E GLN* 3.4 7.4 + - - +
109E ALA* 3.0 22.5 + - - +
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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
----------------------------------------------------------
19E LEU* 4.8 1.1 - - + +
22E LEU* 3.9 42.4 - - + +
23E TYR* 4.1 21.1 - - + +
26E ALA* 3.8 24.5 - - + -
58E LYS* 3.9 30.1 - - + +
102E LEU* 3.1 9.4 + - + +
103E GLU* 3.0 19.7 + - - +
105E SER* 1.3 84.7 + - - +
107E ASN* 1.3 58.7 + - - +
109E ALA* 3.1 7.5 + - - +
110E LEU* 3.0 33.2 + - - +
137E GLU* 4.6 4.5 - - - +
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Residues in contact with ASN 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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6D GLN* 2.7 29.8 - - - +
72D ARG* 5.9 0.9 + - - -
103E GLU 2.8 13.1 + - - +
104E LYS 3.4 4.7 - - - +
106E LEU* 1.3 74.0 - - - +
108E GLN* 1.3 65.9 + - - +
110E LEU* 3.2 11.6 + - - +
111E LEU* 2.9 37.2 + - - +
134E LEU* 4.6 7.1 + - - +
137E GLU* 3.3 34.1 - - + +
138E VAL* 4.9 10.2 - - - +
141E ILE* 4.1 8.6 - - + +
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Residues in contact with GLN 108 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6D GLN* 3.5 19.3 + - - +
7D ASN* 5.6 1.4 - - - +
104E LYS 2.9 17.3 + - - +
105E SER* 3.6 10.3 - - - +
107E ASN* 1.3 72.4 - - - +
109E ALA* 1.3 56.9 + - - +
111E LEU* 3.1 22.7 + - - +
112E ASP* 2.8 63.1 + - - +
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Residues in contact with ALA 109 (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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19E LEU* 3.7 14.3 - - + +
22E LEU* 3.6 26.5 - - + -
105E SER 3.0 13.4 + - - +
106E LEU 3.1 9.8 + - - +
108E GLN* 1.3 74.8 - - - +
110E LEU* 1.3 57.3 + - - +
112E ASP* 3.4 8.7 + - - +
113E LEU* 2.9 28.9 + - - +
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Residues in contact with LEU 110 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19E LEU* 3.7 24.9 - - + +
23E TYR* 3.5 24.7 - - + +
106E LEU 3.0 14.7 + - - +
107E ASN* 3.5 10.8 - - - +
109E ALA* 1.3 72.5 - - - +
111E LEU* 1.3 56.2 + - - +
113E LEU* 3.1 5.5 + - - +
114E HIS* 2.7 36.5 + - - +
129E LEU* 3.9 13.1 - - + +
133E PHE* 3.6 40.4 - - + +
134E LEU* 3.8 12.3 - - + -
137E GLU* 3.8 26.2 - - + +
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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
----------------------------------------------------------
6D GLN* 4.6 4.9 - - - +
7D ASN* 3.7 39.7 - - + +
123D PRO* 3.9 24.1 - - + +
124D HIS* 5.8 2.0 - - + +
107E ASN* 2.9 33.2 + - - +
108E GLN* 3.3 32.3 - - - +
110E LEU* 1.3 76.1 - - - +
112E ASP* 1.3 56.3 + - - +
114E HIS* 3.3 6.0 + - - +
115E ALA* 3.0 26.3 + - - +
134E LEU* 4.3 15.9 - - + -
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Residues in contact with ASP 112 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108E GLN* 2.8 50.9 + - - +
109E ALA* 3.7 7.4 - - - +
111E LEU* 1.3 69.1 - - - +
113E LEU* 1.3 66.2 + - - +
115E ALA* 3.0 8.9 + - - +
116E LEU* 2.9 22.2 + - - +
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Residues in contact with LEU 113 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12E VAL* 4.4 9.6 - - + -
15E ALA* 3.6 30.1 - - + +
16E VAL* 4.2 20.6 - - + +
19E LEU* 3.5 30.5 - - + -
65E LEU* 5.0 0.9 - - + -
109E ALA 2.9 17.5 + - - +
110E LEU* 3.1 4.7 + - - +
112E ASP* 1.3 74.9 - - - +
114E HIS* 1.3 64.0 + - - +
116E LEU* 3.1 12.1 + - + +
117E GLY* 2.9 20.4 + - - -
125E LEU* 3.9 17.9 - - + +
129E LEU* 3.7 24.2 - - + -
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Residues in contact with HIS 114 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123D PRO* 3.4 33.7 - - + +
110E LEU 2.7 20.7 + - - +
111E LEU* 3.5 9.0 - - - +
113E LEU* 1.3 74.0 - - - +
115E ALA* 1.3 62.3 + - - +
117E GLY* 3.3 2.9 + - - +
118E SER* 3.1 23.6 + - - -
125E LEU* 5.4 0.2 - - - -
126E CYS* 3.8 35.6 + - + +
129E LEU* 3.7 13.4 - - + +
130E GLU* 2.8 28.6 + - - -
134E LEU* 3.7 15.5 - - + -
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Residues in contact with ALA 115 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121D ALA* 6.4 2.7 - - + -
111E LEU 3.0 13.8 + - - +
112E ASP* 3.0 12.1 + - - +
114E HIS* 1.3 73.7 + - - +
116E LEU* 1.3 59.9 + - - +
118E SER* 2.8 12.8 + - - -
119E ALA* 2.8 29.3 + - - +
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Residues in contact with LEU 116 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11E GLU* 3.7 36.3 - - + +
12E VAL* 4.0 8.3 - - + -
15E ALA* 3.9 18.8 - - + -
18E ARG* 6.1 0.2 - - - +
112E ASP 2.9 12.3 + - - +
113E LEU* 3.3 11.2 - - + +
115E ALA* 1.3 74.0 - - - +
117E GLY* 1.3 57.1 + - - +
119E ALA* 3.1 7.6 + - + +
120E GLN* 2.8 62.1 + - + +
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Residues in contact with GLY 117 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12E VAL* 4.5 3.4 - - - -
113E LEU 2.9 10.9 + - - -
114E HIS 3.7 4.0 - - - -
115E ALA 3.2 0.4 - - - -
116E LEU* 1.3 77.7 - - - +
118E SER* 1.3 53.5 + - - +
120E GLN 3.4 1.2 + - - -
121E ALA 3.0 7.6 + - - -
122E ASP* 2.7 34.6 + - - +
125E LEU* 3.7 25.3 - - - +
126E CYS* 3.7 10.1 - - - -
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Residues in contact with SER 118 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114E HIS* 3.1 18.8 + - - -
115E ALA* 2.8 21.7 + - - -
117E GLY* 1.3 71.8 - - - +
119E ALA* 1.3 65.0 + - - +
121E ALA* 3.0 15.7 + - - +
122E ASP 4.7 0.2 - - - +
126E CYS* 3.5 12.8 - - - -
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Residues in contact with ALA 119 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115E ALA 2.8 16.5 + - - +
116E LEU* 3.5 14.6 - - + +
118E SER* 1.3 72.4 + - - +
120E GLN* 1.3 66.3 + - + +
121E ALA* 3.3 2.4 + - - +
----------------------------------------------------------
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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