Contacts of the helix formed by residues 71 - 97 (chain E) in PDB entry 6BAA
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 HIS 71 (chain E).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67E HIS* 3.1 46.3 + + + +
68E PHE 3.2 21.5 - - - +
70E GLY* 1.3 75.9 - - - +
72E ASN* 1.3 93.3 + - - +
73E LEU 3.3 2.5 - - - -
74E ARG* 3.2 8.4 - - - +
75E TRP* 3.0 47.6 + - - -
124E TYR* 3.3 27.8 - - + +
128E GLU* 3.6 8.1 + - - +
222E VAL 4.4 4.9 - - - -
224E LEU 5.4 0.9 - - - -
227E LYS* 5.9 1.6 - - - -
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Residues in contact with ASN 72 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70E GLY* 5.8 0.5 - - - -
71E HIS* 1.3 105.6 + - - +
73E LEU* 1.3 62.4 + - - +
75E TRP* 3.1 11.8 + - - +
76E ILE* 3.0 26.9 + - - +
224E LEU* 4.0 20.6 - - + +
227E LYS* 5.4 9.5 - - - +
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Residues in contact with LEU 73 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70E GLY* 3.3 36.3 - - - +
72E ASN* 1.3 75.3 - - - +
74E ARG* 1.3 62.1 + - - +
76E ILE* 3.4 16.2 - - + +
77E LEU* 2.9 38.2 + - + +
181E MET* 4.8 12.8 - - + -
185E VAL* 3.8 30.1 - - + -
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Residues in contact with ARG 74 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70E GLY 4.6 3.1 + - - +
71E HIS* 3.2 20.3 + - - +
73E LEU* 1.3 83.6 - - - +
75E TRP* 1.3 62.8 + - + +
77E LEU* 3.9 5.9 - - - +
78E THR* 3.0 38.3 + - + +
121E VAL* 5.5 2.9 - - + -
124E TYR* 3.3 56.5 + - + +
136E LEU* 5.9 0.8 - - - +
139E LEU* 4.3 15.8 - - - +
143E TRP* 5.4 5.7 - - - +
182E LEU* 4.5 16.5 + - - +
185E VAL* 3.4 29.6 - - + +
186E GLU* 3.4 36.3 + - - +
189E VAL* 4.5 6.5 - - - +
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Residues in contact with TRP 75 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71E HIS* 3.0 46.0 + + - +
72E ASN* 3.1 10.1 + - - +
74E ARG* 1.3 77.4 - - + +
76E ILE* 1.3 59.1 + - - +
78E THR* 2.3 27.9 + - - -
79E PHE* 3.0 23.0 + + + -
121E VAL* 3.6 33.4 - - + -
124E TYR* 4.6 8.4 - + - -
125E HIS* 4.0 24.9 - + + -
128E GLU* 4.0 17.7 + - - -
223E ASN* 3.6 25.9 - - + +
224E LEU* 3.7 37.5 - - + +
225E LEU* 3.6 27.6 - - + -
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Residues in contact with ILE 76 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72E ASN 3.0 14.7 + - - +
73E LEU* 3.4 21.1 - - + +
75E TRP* 1.3 76.8 - - - +
77E LEU* 1.3 73.7 + - + +
79E PHE* 3.2 10.7 + - + +
80E ILE* 3.0 37.4 + - + +
224E LEU* 4.2 23.1 - - + -
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Residues in contact with LEU 77 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73E LEU* 2.9 27.9 + - + +
74E ARG* 3.9 4.9 - - - +
76E ILE* 1.3 85.2 - - + +
78E THR* 1.3 61.0 + - - +
80E ILE* 3.5 11.3 - - + +
81E LEU* 2.9 33.4 + - - +
178E LEU* 3.7 24.4 - - + +
181E MET* 3.6 40.8 - - + -
182E LEU* 3.8 31.2 - - + +
185E VAL* 4.6 5.2 - - + -
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Residues in contact with THR 78 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74E ARG* 3.0 26.1 + - - +
75E TRP* 2.3 35.3 + - - -
77E LEU* 1.3 78.6 - - + +
79E PHE* 1.3 61.4 + - - -
81E LEU* 3.4 15.4 - - + +
82E LEU* 2.9 36.8 + - - +
117E ALA* 5.4 1.8 - - + +
120E SER* 5.2 6.3 - - - +
121E VAL* 3.8 35.1 - - + +
143E TRP* 5.7 6.1 - - + -
182E LEU* 6.1 2.0 - - + -
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Residues in contact with PHE 79 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75E TRP* 3.0 35.2 + + + -
76E ILE* 3.2 14.1 + - + +
78E THR* 1.3 78.2 + - - +
80E ILE* 1.3 61.4 + - + +
82E LEU* 3.2 15.4 + - + +
83E PHE* 3.0 24.3 + - - +
224E LEU* 3.7 28.3 - - + -
225E LEU* 3.6 39.5 - - + -
368E LEU* 5.9 12.6 - - + -
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Residues in contact with ILE 80 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76E ILE* 3.0 21.9 + - + +
77E LEU* 3.5 13.7 - - + +
79E PHE* 1.3 78.6 - - + +
81E LEU* 1.3 62.6 + - - +
83E PHE* 3.3 13.8 - - + +
84E VAL* 3.0 34.4 + - + +
174E LEU* 6.1 0.4 - - + -
178E LEU* 3.6 38.1 - - + -
368E LEU* 6.2 3.6 - - + -
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Residues in contact with LEU 81 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77E LEU 2.9 24.7 + - - +
78E THR* 3.4 20.9 - - + +
80E ILE* 1.3 78.3 - - - +
82E LEU* 1.3 64.4 + - + +
84E VAL* 3.3 12.1 - - + +
85E LEU* 2.8 41.3 + - + +
117E ALA* 3.7 29.8 - - + -
143E TRP* 4.8 6.7 - - + -
175E LEU* 6.0 2.2 - - + -
178E LEU* 4.9 11.4 - - + -
179E TYR* 4.3 22.4 - - + +
182E LEU* 3.7 29.2 - - + -
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Residues in contact with LEU 82 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78E THR* 2.9 27.7 + - - +
79E PHE* 3.2 17.7 + - + +
81E LEU* 1.3 79.2 - - + +
83E PHE* 1.3 61.1 + - - +
85E LEU* 3.6 6.1 - - - +
86E VAL* 3.0 30.6 + - + +
114E PHE* 3.9 23.2 - - + -
117E ALA* 3.4 38.4 - - + -
118E ILE* 4.0 21.8 - - + +
121E VAL* 6.1 1.1 - - + -
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Residues in contact with PHE 83 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79E PHE 3.0 13.4 + - - +
80E ILE* 3.3 17.3 - - + +
82E LEU* 1.3 77.2 - - - +
84E VAL* 1.3 76.2 + - + +
86E VAL* 3.3 4.7 + - - +
87E CYS* 3.1 33.8 + - - -
361E LEU* 3.9 29.8 - - + -
364E LEU* 3.6 36.1 - - + +
365E ALA 5.9 0.2 - - - -
368E LEU* 5.5 9.6 - - + -
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Residues in contact with VAL 84 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80E ILE* 3.0 19.7 + - + +
81E LEU* 3.3 20.4 - - + +
83E PHE* 1.3 86.5 - - + +
85E LEU* 1.3 67.6 + - + +
87E CYS* 3.0 12.5 + - + +
88E GLU* 2.8 41.4 + - - +
171E LEU* 5.7 3.8 - - + -
174E LEU* 3.7 32.1 - - + -
175E LEU* 4.5 13.2 - - + -
178E LEU* 5.8 2.0 - - + -
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Residues in contact with LEU 85 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81E LEU* 2.8 35.8 + - + +
82E LEU* 3.6 7.2 - - - +
83E PHE 3.2 0.2 - - - -
84E VAL* 1.3 77.2 - - + +
86E VAL* 1.3 58.5 + - - +
88E GLU* 2.9 20.7 + - + +
89E ILE* 2.8 33.0 + - + +
110E ALA* 4.2 10.4 - - + +
113E ALA* 3.4 23.6 - - + +
114E PHE* 3.4 40.8 - - + +
117E ALA* 4.7 0.9 - - + -
175E LEU* 3.6 24.2 - - + -
179E TYR* 4.8 3.4 - - - +
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Residues in contact with VAL 86 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82E LEU* 3.0 15.7 + - + +
83E PHE 3.5 7.9 - - - +
85E LEU* 1.3 74.1 - - - +
87E CYS* 1.3 63.8 + - - +
89E ILE* 3.3 13.8 + - + +
90E ALA* 3.0 22.8 + - + +
114E PHE* 4.5 20.9 - - + -
360E VAL* 3.6 30.7 - - + -
361E LEU* 5.9 2.0 - - + -
364E LEU* 4.3 16.8 - - + -
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Residues in contact with CYS 87 (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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83E PHE* 3.1 34.5 + - - -
84E VAL* 3.0 17.3 + - + +
86E VAL* 1.3 77.6 - - - +
88E GLU* 1.3 58.7 + - - +
90E ALA* 3.2 10.4 + - - +
91E GLU* 2.9 23.9 + - - +
171E LEU* 5.0 15.6 - - + +
361E LEU* 4.1 27.4 - - - -
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Residues in contact with GLU 88 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84E VAL* 2.8 37.8 + - - +
85E LEU* 2.9 25.5 + - - +
87E CYS* 1.3 74.2 - - - +
89E ILE* 1.3 60.9 + - - +
91E GLU* 3.6 11.4 - - - +
92E GLY* 2.8 24.6 + - - -
106E LEU 5.5 0.2 - - - +
107E TYR* 5.5 0.5 - - - +
110E ALA* 4.7 15.3 - - + +
168E ARG* 5.9 4.3 - - + -
171E LEU* 3.3 50.5 - - + +
172E THR* 5.9 1.1 - - - +
174E LEU* 5.3 0.3 - - - +
175E LEU* 3.7 16.0 - - + +
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Residues in contact with ILE 89 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
85E LEU 2.8 18.1 + - - +
86E VAL* 3.4 13.9 - - + +
88E GLU* 1.3 77.2 - - - +
90E ALA* 1.3 58.2 + - - +
92E GLY* 3.2 2.4 + - - -
93E ILE* 3.0 39.6 + - + +
107E TYR* 3.5 20.9 - - + +
110E ALA* 3.8 7.4 - - + +
111E GLY* 3.4 36.6 - - - +
114E PHE* 5.6 5.2 - - + -
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Residues in contact with ALA 90 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86E VAL* 3.0 12.7 + - + +
87E CYS* 3.2 13.2 + - - +
89E ILE* 1.3 78.9 - - - +
91E GLU* 1.3 56.3 + - - +
93E ILE* 3.4 5.5 + - - +
94E LEU* 2.9 31.2 + - - +
357E VAL* 4.1 29.6 - - + -
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Residues in contact with GLU 91 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87E CYS 2.9 13.3 + - - +
88E GLU* 3.3 13.6 + - - +
90E ALA* 1.3 76.1 - - - +
92E GLY* 1.3 57.3 + - - +
94E LEU* 3.4 10.6 + - + +
95E SER* 2.9 34.5 + - - +
167E LEU* 3.3 28.5 - - + +
168E ARG* 2.8 61.6 + - - +
171E LEU* 3.3 20.6 - - + +
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Residues in contact with GLY 92 (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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88E GLU 2.8 14.8 + - - -
89E ILE 3.2 3.6 + - - -
91E GLU* 1.3 77.1 - - - +
93E ILE* 1.3 56.5 + - - +
95E SER* 3.3 5.8 + - - -
96E ASP* 2.9 28.6 + - - +
106E LEU* 3.8 14.0 - - - +
107E TYR* 3.7 24.7 - - - +
168E ARG* 5.1 2.9 - - - +
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Residues in contact with ILE 93 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89E ILE* 3.0 26.7 + - + +
90E ALA* 3.9 6.1 - - - +
92E GLY* 1.3 73.4 - - - +
94E LEU* 1.3 61.1 + - - +
96E ASP* 3.3 5.0 + - + +
97E GLY* 2.9 25.8 + - - -
107E TYR* 3.7 38.1 - - + -
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Residues in contact with LEU 94 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90E ALA 2.9 18.8 + - - +
91E GLU* 3.6 10.5 - - + +
93E ILE* 1.3 77.0 - - - +
95E SER* 1.3 64.8 + - - +
97E GLY* 3.3 13.6 + - - -
98E VAL* 4.5 1.4 + - - +
354E ASN* 6.0 7.9 - - + +
357E VAL* 6.2 4.0 - - + -
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Residues in contact with SER 95 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91E GLU* 2.9 17.9 + - - +
92E GLY* 3.7 5.6 - - - -
94E LEU* 1.3 79.4 - - - +
96E ASP* 1.3 65.5 + - - +
97E GLY 3.3 0.3 + - - -
98E VAL* 3.7 19.9 + - - +
103E HIS* 5.6 1.2 + - - -
106E LEU* 5.6 11.7 - - - -
168E ARG* 2.6 32.1 + - - -
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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
----------------------------------------------------------
92E GLY 2.9 17.3 + - - +
93E ILE* 3.8 7.8 - - + +
95E SER* 1.3 72.4 - - - +
97E GLY* 1.3 54.9 + - - +
98E VAL* 3.1 5.8 - - - +
99E THR* 2.9 25.5 + - - +
101E SER 3.4 6.6 - - - +
102E ARG* 3.8 23.8 + - - +
103E HIS* 3.3 43.5 + - + +
106E LEU* 6.1 1.5 - - + +
107E TYR* 3.2 30.7 - - + -
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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
----------------------------------------------------------
93E ILE 2.9 14.6 + - - -
94E LEU* 3.3 8.9 + - - -
95E SER 3.1 2.4 - - - -
96E ASP* 1.3 71.8 - - - +
98E VAL* 1.3 63.0 + - - +
99E THR* 3.2 14.6 + - - +
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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