Contacts of the helix formed by residues 75 - 107 (chain E) in PDB entry 2B05
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 ASN 75 (chain E).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70E THR 4.3 2.1 + - - +
73E ASP* 3.5 12.3 + - - +
74E GLY* 1.3 73.5 - - - +
76E GLU* 1.3 60.1 + - - +
77E LYS* 3.0 29.8 + - - +
78E LYS* 3.3 26.5 + - + +
79E ILE* 3.0 30.5 + - - +
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Residues in contact with GLU 76 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74E GLY 3.3 9.3 + - - +
75E ASN* 1.3 74.3 - - - +
77E LYS* 1.3 62.9 + - - +
79E ILE* 4.0 23.6 - - + +
80E GLU* 3.4 23.0 + - + +
83E ARG* 5.7 1.7 + - - -
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Residues in contact with LYS 77 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75E ASN* 3.0 10.6 + - - +
76E GLU* 1.3 73.9 - - - +
78E LYS* 1.3 65.0 + - + +
80E GLU* 3.5 5.0 + - - +
81E MET* 3.3 22.6 + - - +
6F GLN* 5.5 8.7 - - + +
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Residues in contact with LYS 78 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70E THR* 4.9 11.7 - - + +
75E ASN* 3.3 26.0 + - + +
77E LYS* 1.3 75.8 - - + +
79E ILE* 1.3 62.8 + - - +
81E MET* 3.4 12.9 + - + +
82E VAL* 3.0 30.9 + - + +
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Residues in contact with ILE 79 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67E GLU* 5.3 4.0 - - + +
70E THR* 3.9 12.8 + - - +
71E SER* 3.9 33.9 - - - +
74E GLY* 3.6 23.1 - - - +
75E ASN 3.0 28.7 + - - +
76E GLU* 4.1 22.2 - - + +
77E LYS 3.3 0.4 - - - -
78E LYS* 1.3 75.7 - - - +
80E GLU* 1.3 60.9 + - - +
82E VAL* 3.2 3.9 + - - +
83E ARG* 2.8 64.6 + - - +
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Residues in contact with GLU 80 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76E GLU* 3.4 19.8 + - + +
77E LYS* 3.9 4.0 - - - +
78E LYS 3.4 0.6 - - - -
79E ILE* 1.3 83.0 - - - +
81E MET* 1.3 56.8 + - - +
83E ARG* 3.6 6.3 - - - +
84E ALA* 2.9 29.6 + - - +
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Residues in contact with MET 81 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77E LYS 3.3 11.8 + - - +
78E LYS* 3.5 13.7 - - + +
79E ILE 3.2 1.0 - - - -
80E GLU* 1.3 77.8 - - - +
82E VAL* 1.3 76.0 + - + +
84E ALA* 3.9 5.3 - - - +
85E TYR* 3.0 27.6 + - - +
6F GLN* 4.4 23.8 - - + +
9F GLN* 3.5 40.6 - - + +
10F LYS* 4.0 15.9 - - - +
13F LEU* 4.0 18.2 - - + -
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Residues in contact with VAL 82 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63E ILE* 3.9 29.2 - - + +
66E ILE* 4.3 13.0 - - + -
67E GLU* 4.1 22.0 - - + +
70E THR* 4.1 15.7 - - + +
78E LYS* 3.0 23.1 + - + +
79E ILE* 3.9 2.5 - - - +
81E MET* 1.3 92.1 - - + +
83E ARG* 1.3 57.8 + - - +
85E TYR* 3.3 5.6 + - - +
86E ARG* 2.9 28.6 + - - +
13F LEU* 4.6 12.1 - - + -
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Residues in contact with ARG 83 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67E GLU* 2.9 39.9 + - - +
68E GLN* 5.6 2.8 + - - -
71E SER* 4.4 13.7 + - - -
76E GLU* 5.7 2.2 + - - -
79E ILE* 2.8 44.1 + - - +
80E GLU* 3.6 6.5 - - - +
82E VAL* 1.3 74.6 - - - +
84E ALA* 1.3 60.9 + - - +
86E ARG* 3.2 11.1 + - - +
87E GLU* 2.9 50.4 + - - +
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Residues in contact with ALA 84 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80E GLU 2.9 18.4 + - - +
81E MET* 3.9 7.2 - - - +
82E VAL 3.3 0.2 - - - -
83E ARG* 1.3 76.3 - - - +
85E TYR* 1.3 57.6 + - - +
87E GLU* 3.3 15.5 + - - +
88E LYS* 3.0 26.9 + - - +
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Residues in contact with TYR 85 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63E ILE* 4.0 25.1 - - + -
81E MET* 3.0 20.0 + - - +
82E VAL* 3.7 6.3 - - + +
83E ARG 3.2 0.2 - - - -
84E ALA* 1.3 74.7 - - - +
86E ARG* 1.3 64.0 + - - +
88E LYS* 3.2 29.2 + - + +
89E ILE* 3.2 42.4 + - + +
10F LYS* 5.5 6.1 - - + -
13F LEU* 4.7 10.5 - - + -
14F ALA* 3.8 19.0 - - + +
17F ALA* 4.8 0.4 - - + -
19F ARG* 3.0 21.4 + - - +
22F ASP* 2.7 40.7 + - + +
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Residues in contact with ARG 86 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60E TRP* 4.0 14.4 - - + +
63E ILE* 3.8 19.6 - - + +
64E SER* 3.6 22.2 - - - +
67E GLU* 2.8 40.4 + - - +
82E VAL 2.9 13.8 + - - +
83E ARG* 3.5 23.8 - - - +
85E TYR* 1.3 76.8 - - - +
87E GLU* 1.3 83.5 + - - +
89E ILE* 3.3 6.9 + - - +
90E GLU* 2.9 57.7 + - - +
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Residues in contact with GLU 87 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83E ARG* 2.9 41.6 + - - +
84E ALA* 3.3 16.6 + - - +
86E ARG* 1.3 96.2 + - - +
88E LYS* 1.3 63.1 + - - +
90E GLU* 3.2 9.4 + - + +
91E LYS* 2.9 30.4 + - + +
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Residues in contact with LYS 88 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84E ALA 3.0 13.4 + - - +
85E TYR* 3.2 35.9 + - + +
87E GLU* 1.3 76.6 - - - +
89E ILE* 1.3 63.6 + - + +
91E LYS* 3.4 8.0 + - - +
92E GLU* 3.2 34.6 + - + +
19F ARG* 3.6 24.2 - - - +
22F ASP* 4.0 10.3 + - - -
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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
----------------------------------------------------------
56E ARG* 3.7 31.9 - - + +
59E SER* 4.3 8.5 - - - +
60E TRP* 4.2 13.5 - - + +
63E ILE* 3.9 22.0 - - + -
85E TYR* 3.2 43.7 + - + +
86E ARG* 3.8 5.2 - - - +
88E LYS* 1.3 77.2 - - + +
90E GLU* 1.3 64.7 + - - +
92E GLU* 3.1 9.1 + - - +
93E LEU* 2.9 22.2 + - + +
19F ARG* 4.1 31.6 - - - +
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Residues in contact with GLU 90 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60E TRP* 3.1 30.0 + - + +
86E ARG* 2.9 45.2 + - - +
87E GLU* 3.4 11.5 - - - +
89E ILE* 1.3 76.7 - - - +
91E LYS* 1.3 57.7 + - + +
93E LEU* 3.2 7.5 + - - +
94E GLU* 2.8 50.3 + - - +
137E VAL* 3.7 34.6 - - + +
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Residues in contact with LYS 91 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87E GLU* 2.9 20.6 + - + +
88E LYS* 3.6 11.2 - - - +
89E ILE 3.3 0.2 - - - -
90E GLU* 1.3 72.0 - - + +
92E GLU* 1.3 61.9 + - + +
94E GLU* 3.4 13.1 + - - +
95E ALA* 3.0 23.6 + - - +
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Residues in contact with GLU 92 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56E ARG* 3.1 32.2 + - - +
88E LYS* 3.2 28.0 + - + +
89E ILE* 3.1 12.0 + - - +
91E LYS* 1.3 75.5 - - - +
93E LEU* 1.3 63.4 + - - +
95E ALA* 3.1 9.0 + - - +
96E VAL* 3.1 27.9 + - + +
19F ARG* 3.2 36.1 + - - -
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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
----------------------------------------------------------
53E VAL* 4.4 10.7 - - + +
56E ARG* 3.9 23.9 - - + +
57E ARG* 3.8 33.0 - - + +
60E TRP* 4.3 9.9 - - + -
89E ILE 2.9 14.3 + - - +
90E GLU* 3.5 5.2 - - - +
92E GLU* 1.3 76.1 - - - +
94E GLU* 1.3 64.4 + - - +
96E VAL* 3.4 5.3 + - - +
97E CYS* 3.1 44.4 + - - -
133E TYR* 4.0 21.8 - - + +
134E LEU* 4.9 1.1 - - + +
137E VAL* 4.2 26.9 - - + -
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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
----------------------------------------------------------
90E GLU* 2.8 46.6 + - - +
91E LYS* 3.8 13.3 + - - +
93E LEU* 1.3 69.2 - - - +
95E ALA* 1.3 59.8 + - - +
97E CYS* 3.4 1.9 + - - +
98E GLN* 2.9 39.9 + - + +
134E LEU* 3.6 25.1 - - + +
137E VAL* 3.9 18.2 - - + +
138E ALA* 5.4 0.5 - - - -
142E LYS* 3.1 33.9 + - - +
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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
----------------------------------------------------------
91E LYS 3.0 13.7 + - - +
92E GLU* 3.1 11.6 + - - +
94E GLU* 1.3 75.7 - - - +
96E VAL* 1.3 64.3 + - + +
98E GLN* 3.3 5.4 + - - +
99E ASP* 3.0 26.8 + - - +
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Residues in contact with VAL 96 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49E TYR* 4.0 22.2 - - + -
52E VAL* 3.7 23.1 - - + -
53E VAL* 3.9 31.6 - - + +
56E ARG* 5.0 11.2 - - + +
92E GLU* 3.1 18.6 + - + +
93E LEU* 3.7 10.3 - - - +
95E ALA* 1.3 76.9 - - + +
97E CYS* 1.3 63.3 + - - +
99E ASP* 3.0 10.0 - - - +
100E VAL* 3.0 24.5 + - + +
130E TYR* 4.8 0.2 - - + -
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Residues in contact with CYS 97 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53E VAL* 3.9 13.9 - - - -
93E LEU* 3.1 19.4 + - - +
94E GLU 3.7 0.2 - - - +
96E VAL* 1.3 80.0 - - - +
98E GLN* 1.3 55.9 + - - +
100E VAL* 3.3 2.3 + - - +
101E LEU* 2.9 35.5 + - + +
130E TYR* 3.7 35.4 - - + +
133E TYR* 3.7 20.2 - - - -
134E LEU* 3.5 31.6 - - + -
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Residues in contact with GLN 98 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94E GLU* 2.9 29.4 + - + +
95E ALA* 4.1 4.9 - - - +
96E VAL 3.3 0.2 - - - -
97E CYS* 1.3 68.2 - - - +
99E ASP* 1.3 59.5 + - - +
101E LEU* 3.8 13.7 - - - +
102E SER* 2.9 31.7 + - - -
131E TYR* 5.3 4.3 + - - -
134E LEU* 3.5 27.5 - - - +
142E LYS* 6.1 3.6 - - - +
146E VAL* 5.5 2.8 - - - +
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Residues in contact with ASP 99 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28E LYS* 3.1 24.7 + - - +
49E TYR* 2.8 28.4 + - + -
95E ALA 3.0 14.7 + - - +
96E VAL* 3.0 14.6 - - - +
98E GLN* 1.3 74.9 - - - +
100E VAL* 1.3 62.7 + - - +
102E SER* 3.2 8.1 + - - -
103E LEU* 3.1 26.9 + - - +
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Residues in contact with VAL 100 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49E TYR* 3.1 39.7 - - + -
96E VAL 3.0 9.9 + - - +
97E CYS 3.5 7.4 - - - +
99E ASP* 1.3 80.0 - - - +
101E LEU* 1.3 57.5 + - - +
103E LEU* 3.1 14.2 + - - +
104E LEU* 2.9 39.4 + - + +
126E MET* 3.6 27.6 - - + -
130E TYR* 3.7 31.9 - - + -
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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
----------------------------------------------------------
97E CYS 2.9 21.5 + - - +
98E GLN* 3.9 20.4 - - - +
100E VAL* 1.3 76.3 - - - +
102E SER* 1.3 57.1 + - - +
104E LEU* 3.4 8.1 + - + +
105E ASP* 2.9 35.9 + - - +
127E LYS* 3.7 40.6 - - + +
130E TYR* 4.1 15.7 - - + -
131E TYR* 3.8 43.5 - - + +
134E LEU* 3.9 14.8 - - + -
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Residues in contact with SER 102 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98E GLN 2.9 19.2 + - - -
99E ASP* 3.4 7.4 - - - -
101E LEU* 1.3 77.6 - - - +
103E LEU* 1.3 59.4 + - - +
105E ASP* 4.7 2.2 - - - -
106E ASN* 2.7 54.2 + - - +
----------------------------------------------------------
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Residues in contact with LEU 103 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28E LYS* 3.7 47.1 - - + +
31E THR* 4.2 22.7 - - + +
32E GLU* 5.6 3.4 - - + +
45E LEU* 4.3 18.4 - - + -
49E TYR* 4.2 15.3 - - + +
99E ASP* 3.1 18.0 + - - +
100E VAL* 3.1 10.4 + - - +
102E SER* 1.3 76.0 - - - +
104E LEU* 1.3 57.5 + - - +
106E ASN* 5.0 0.4 - - - -
107E TYR* 3.0 34.3 + - + +
108E LEU* 3.1 15.3 + - + +
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Residues in contact with LEU 104 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100E VAL* 2.9 36.9 + - + +
101E LEU* 3.7 12.1 - - + +
102E SER 3.3 0.2 - - - -
103E LEU* 1.3 76.8 - - - +
105E ASP* 1.3 62.0 + - - +
108E LEU* 3.5 13.8 + - + -
109E ILE* 2.9 43.8 + - + +
123E TYR* 3.6 44.4 - - + +
126E MET* 3.9 15.0 - - + -
127E LYS* 3.6 34.5 - - + +
----------------------------------------------------------
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Residues in contact with ASP 105 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101E LEU* 2.9 19.5 + - - +
102E SER* 4.0 3.6 - - - +
104E LEU* 1.3 78.8 - - - +
106E ASN* 1.3 67.2 + - - +
107E TYR 3.5 0.2 - - - -
109E ILE* 4.6 5.5 - - - +
110E LYS* 3.8 15.1 + - - +
127E LYS* 3.1 37.5 + - - +
131E TYR* 5.7 1.3 + - - -
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Residues in contact with ASN 106 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34E ASN* 4.6 3.3 - - - +
102E SER* 2.7 45.0 + - - +
105E ASP* 1.3 82.0 - - - +
107E TYR* 1.3 68.4 + - + +
110E LYS* 4.1 9.8 - - - +
111E ASN* 5.1 0.3 + - - -
----------------------------------------------------------
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Residues in contact with TYR 107 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31E THR* 3.7 33.4 - - + +
32E GLU* 4.9 5.8 - - - -
34E ASN* 4.0 15.7 - - - +
103E LEU* 3.0 16.1 + - + +
105E ASP 3.5 0.6 - - - -
106E ASN* 1.3 91.7 - - + +
108E LEU* 1.3 62.6 + - + +
109E ILE 3.7 0.7 - - - -
110E LYS* 4.1 3.1 - - - -
111E ASN* 2.8 42.1 + - - +
----------------------------------------------------------
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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