Contacts of the helix formed by residues 24 - 50 (chain E) in PDB entry 1UMN
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 24 (chain E).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22E LEU 4.5 1.2 - - - +
23E ALA* 1.3 85.3 - - - +
25E SER* 1.3 63.8 + - - +
26E LYS* 3.4 20.3 + - + +
27E ALA* 3.0 31.9 + - - +
28E VAL* 3.1 21.3 + - - +
135E VAL* 3.4 8.6 - - - +
139E GLU* 2.8 19.3 - - - +
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Residues in contact with SER 25 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24E ASP* 1.3 70.3 - - - +
26E LYS* 1.3 61.9 + - - +
28E VAL* 3.2 11.4 - - - +
29E LEU* 2.8 35.5 + - - +
83E LEU* 4.7 5.4 - - - -
135E VAL* 4.1 1.1 - - - -
136E SER* 3.4 24.1 - - - -
139E GLU* 2.5 30.6 + - - -
141E ASP* 3.8 18.7 + - - +
144E THR* 4.2 11.4 - - - -
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Residues in contact with LYS 26 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24E ASP* 3.3 17.3 + - - +
25E SER* 1.3 76.9 - - - +
27E ALA* 1.3 57.9 + - - +
29E LEU* 3.4 2.6 + - - -
30E ASN* 2.9 31.2 + - - +
80E LEU* 3.5 21.8 - - + +
83E LEU* 3.8 37.9 + - + +
84E GLY* 4.2 13.3 + - - -
85E GLY* 4.1 17.7 - - - +
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Residues in contact with ALA 27 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22E LEU* 3.7 19.9 - - + +
23E ALA* 4.1 8.7 - - + +
24E ASP* 3.0 30.1 + - - +
26E LYS* 1.3 76.2 - - - +
28E VAL* 1.3 57.0 + - - +
30E ASN* 3.4 5.6 + - - +
31E GLN* 2.9 26.9 + - - +
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Residues in contact with VAL 28 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22E LEU* 4.2 16.1 - - + +
24E ASP 3.1 14.1 + - - +
25E SER* 3.2 21.3 - - - +
27E ALA* 1.3 73.6 - - - +
29E LEU* 1.3 66.4 + - - +
31E GLN* 3.1 7.0 + - - +
32E ALA* 2.9 22.0 + - - +
128E LEU* 4.2 20.6 - - + +
131E LYS* 4.4 4.0 - - + -
132E GLY* 3.4 40.6 - - - +
135E VAL* 4.4 9.9 - - + -
148E PHE* 3.8 12.3 - - + -
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Residues in contact with LEU 29 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25E SER 2.8 24.2 + - - +
26E LYS* 3.6 5.2 - - - +
28E VAL* 1.3 77.4 - - - +
30E ASN* 1.3 57.1 + - - +
32E ALA* 3.0 7.4 + - - +
33E VAL* 2.9 29.5 + - - +
76E MET* 3.7 37.1 - - + +
79E ARG* 3.9 21.3 - - + -
80E LEU* 3.9 23.3 - - + +
83E LEU* 4.0 13.9 - - + -
144E THR* 3.9 23.3 - - + -
147E ILE* 5.4 2.2 - - + -
148E PHE* 3.7 21.3 - - + -
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Residues in contact with ASN 30 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26E LYS 2.9 18.0 + - - +
27E ALA* 3.9 5.4 - - - +
29E LEU* 1.3 74.3 - - - +
31E GLN* 1.3 65.5 + - - +
33E VAL* 3.1 15.0 + - - +
34E ALA 3.1 9.5 + - - -
80E LEU* 3.3 21.1 - - + +
86E ALA 3.2 19.4 + - - -
87E PRO* 3.3 0.7 - - - +
88E PHE* 2.9 64.6 + - + -
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Residues in contact with GLN 31 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22E LEU* 4.2 20.2 - - + +
27E ALA 2.9 15.6 + - - +
28E VAL* 3.1 13.7 + - - +
30E ASN* 1.3 77.0 - - - +
32E ALA* 1.3 56.0 + - - +
34E ALA* 3.3 2.8 + - - +
35E ASP* 2.8 63.6 + - - +
88E PHE* 4.6 6.7 - - - -
97E ASN* 3.0 33.1 + - - +
98E SER* 3.9 1.0 - - - +
99E GLN* 4.0 9.5 - - - +
124E TYR* 3.8 6.0 + - - +
128E LEU* 3.7 16.8 - - + -
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Residues in contact with ALA 32 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28E VAL 2.9 12.3 + - - +
29E LEU* 3.0 11.4 + - - +
31E GLN* 1.3 73.8 - - - +
33E VAL* 1.3 57.6 + - - +
35E ASP* 4.3 4.7 - - - +
36E LEU* 2.7 44.3 + - + +
76E MET* 3.6 29.8 - - + -
128E LEU* 3.9 21.3 - - + +
129E PHE* 4.7 0.9 - - + -
148E PHE* 4.5 1.3 - - + -
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Residues in contact with VAL 33 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29E LEU 2.9 19.1 + - - +
30E ASN* 3.3 19.5 - - - +
32E ALA* 1.3 79.3 - - - +
34E ALA* 1.3 61.3 + - - +
36E LEU* 4.9 0.4 - - - -
37E SER* 2.9 27.7 + - - -
73E LEU* 3.9 22.4 - - + +
76E MET* 5.2 0.9 - - + +
77E SER* 4.1 32.1 - - - +
80E LEU* 4.5 4.7 - - + -
87E PRO* 4.5 2.2 - - + -
88E PHE* 3.5 28.3 - - + +
94E PHE* 3.7 11.9 - - + -
48G TRP* 4.3 5.2 - - + -
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Residues in contact with ALA 34 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30E ASN 3.1 3.2 + - - +
31E GLN* 3.6 7.4 - - - +
33E VAL* 1.3 81.7 - - - +
35E ASP* 1.3 61.7 + - - +
37E SER* 3.2 4.9 + - - -
38E VAL* 3.1 26.2 + - - +
88E PHE* 3.8 22.4 - - + -
94E PHE* 3.7 30.9 - - - +
97E ASN* 3.8 14.1 - - + -
98E SER* 3.9 5.8 - - - +
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Residues in contact with ASP 35 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31E GLN* 2.8 36.8 + - - +
32E ALA* 4.0 5.6 - - - +
34E ALA* 1.3 74.6 - - - +
36E LEU* 1.3 61.7 + - - +
38E VAL 3.4 0.2 + - - -
39E ALA* 2.9 29.6 + - - +
98E SER* 2.8 28.0 + - - -
99E GLN 3.0 14.7 + - - -
100E LEU* 3.7 6.2 + - + +
124E TYR* 2.7 41.6 + - + -
125E LEU* 4.3 10.5 - - + +
128E LEU* 4.1 4.6 - - + +
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Residues in contact with LEU 36 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32E ALA* 2.7 34.1 + - + +
33E VAL 4.0 2.5 - - - +
35E ASP* 1.3 70.3 - - - +
37E SER* 1.3 60.1 + - - +
39E ALA* 4.3 1.6 - - - -
40E HIS* 2.9 31.7 + - - +
69E ILE* 3.5 31.6 - - + +
72E TYR* 3.8 29.4 - - + -
73E LEU* 3.7 39.7 - - + +
76E MET* 3.9 19.1 - - + -
125E LEU* 4.2 11.7 - - + -
129E PHE* 4.2 11.4 - - + -
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Residues in contact with SER 37 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33E VAL* 2.9 17.9 + - - +
34E ALA 3.4 9.4 - - - -
35E ASP 3.2 0.2 - - - -
36E LEU* 1.3 79.0 - - - +
38E VAL* 1.3 62.1 + - - +
40E HIS* 3.4 6.8 + - - +
41E SER* 3.2 20.1 + - - -
73E LEU* 4.2 15.6 - - - +
94E PHE* 3.5 43.8 - - - -
91G LEU* 4.8 6.3 - - - +
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Residues in contact with VAL 38 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34E ALA 3.1 6.7 + - - +
35E ASP 3.9 1.6 - - - +
37E SER* 1.3 72.8 - - - +
39E ALA* 1.3 67.4 + - - +
41E SER* 3.1 7.8 + - - -
42E ILE* 2.9 23.7 + - + +
94E PHE 3.8 10.1 - - - +
95E SER* 4.3 4.7 - - - +
98E SER* 3.3 33.2 - - - +
100E LEU* 3.7 28.3 - - + +
102E GLU* 3.7 28.7 - - + +
91G LEU* 4.1 18.2 - - + -
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Residues in contact with ALA 39 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35E ASP 2.9 18.9 + - - +
36E LEU* 3.7 5.8 - - - +
38E VAL* 1.3 75.0 - - - +
40E HIS* 1.3 58.7 + - - +
42E ILE* 3.2 4.7 + - - +
43E LEU* 2.8 39.6 + - + +
69E ILE* 4.8 4.7 - - + -
100E LEU* 3.9 9.1 - - + +
121E VAL* 3.6 26.6 - - + +
125E LEU* 4.1 15.5 - - + -
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Residues in contact with HIS 40 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36E LEU 2.9 17.8 + - - +
37E SER* 3.5 8.3 - - - +
39E ALA* 1.3 76.7 - - - +
41E SER* 1.3 58.1 + - - +
43E LEU* 3.2 10.7 + - - +
44E HIS* 2.9 40.3 + + - +
66E MET* 3.4 49.3 + - + +
69E ILE* 4.1 8.6 - - + +
70E ASP* 3.1 34.4 + - - -
73E LEU* 6.6 0.4 - - + -
70G ASP* 6.0 0.6 + - - -
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Residues in contact with SER 41 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37E SER 3.2 10.1 + - - -
38E VAL 3.1 9.8 + - - -
40E HIS* 1.3 81.7 - - - +
42E ILE* 1.3 61.7 + - - +
44E HIS* 3.2 9.4 + - - +
45E GLN* 3.0 21.5 + - - +
102E GLU* 2.8 22.8 + - - -
89G SER* 3.7 10.4 + - - +
90G THR* 3.9 3.5 - - - -
91G LEU* 3.7 24.3 - - - +
94G PHE* 4.0 9.9 - - - -
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Residues in contact with ILE 42 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38E VAL* 2.9 34.5 + - + +
39E ALA* 3.6 6.3 - - - +
41E SER* 1.3 75.2 - - - +
43E LEU* 1.3 64.0 + - + +
45E GLN* 3.1 14.2 + - - +
46E VAL* 3.0 25.3 + - + +
100E LEU* 4.2 14.1 - - + -
101E LYS 4.3 4.3 - - - +
102E GLU* 4.1 16.2 - - + +
117E ARG* 3.7 52.0 - - + +
118E VAL* 6.2 1.3 - - + -
121E VAL* 4.2 22.7 - - + -
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Residues in contact with LEU 43 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39E ALA* 2.8 22.8 + - + +
40E HIS* 3.5 7.0 - - - +
42E ILE* 1.3 78.8 - - + +
44E HIS* 1.3 57.5 + - - +
46E VAL* 3.2 6.5 + - - +
47E HIS* 2.9 28.8 + - - +
62E MET* 4.0 23.2 - - - +
65E TYR* 4.0 31.0 - - + +
66E MET* 3.7 14.1 - - + +
69E ILE* 3.5 33.9 - - + -
118E VAL* 4.1 21.8 - - + -
121E VAL* 5.9 4.3 - - + -
122E PHE* 4.3 9.2 - - + -
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Residues in contact with HIS 44 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40E HIS* 2.9 22.9 + + - +
41E SER* 3.3 13.0 - - - +
42E ILE 3.2 0.2 - - - -
43E LEU* 1.3 77.7 - - - +
45E GLN* 1.3 56.4 + - - +
47E HIS* 3.3 11.3 + + - +
48E TRP* 2.9 80.6 + + + -
66E MET* 3.6 26.2 - - + +
73G LEU* 4.0 19.7 - - + +
74G ASP* 4.5 14.8 + - - -
94G PHE* 6.2 2.2 - + + -
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Residues in contact with GLN 45 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41E SER 3.0 12.0 + - - +
42E ILE* 3.1 15.6 + - - +
44E HIS* 1.3 73.5 - - - +
46E VAL* 1.3 68.8 + - + +
48E TRP* 3.2 3.1 + - - -
49E TYR* 2.9 29.9 + - + +
102E GLU* 5.8 0.4 - - - +
103E VAL* 2.8 40.0 + - - +
104E LEU 4.3 0.2 - - - +
105E GLY* 3.1 22.1 - - - +
106E ASP 5.2 0.2 + - - -
114E GLN* 5.7 1.4 - - - +
117E ARG* 5.1 6.9 + - - -
89G SER* 2.8 47.2 + - - +
90G THR* 3.8 1.0 - - - +
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Residues in contact with VAL 46 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42E ILE* 3.0 21.9 + - + +
43E LEU* 3.2 7.6 + - - +
45E GLN* 1.3 78.9 - - + +
47E HIS* 1.3 64.4 + - - +
50E MET* 3.1 46.4 + - + +
62E MET* 3.8 16.6 - - + -
114E GLN* 3.6 39.9 - - + +
115E LEU* 5.7 0.2 - - + -
117E ARG* 4.5 13.0 - - + -
118E VAL* 4.2 18.4 - - + -
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Residues in contact with HIS 47 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43E LEU 2.9 14.7 + - - +
44E HIS* 3.3 20.2 - + - +
46E VAL* 1.3 78.4 - - - +
48E TRP* 1.3 79.2 + + - +
50E MET* 3.9 7.6 + - - +
55E PHE* 4.6 0.7 - - - -
59E HIS* 2.6 86.7 + + - -
60E PRO* 4.5 1.3 - - + -
62E MET* 3.8 12.8 - - + +
63E ASP* 4.2 19.9 + - + -
66E MET* 3.8 14.7 - - + +
74G ASP* 5.8 2.4 + - - -
78G GLU* 4.8 8.5 + - + +
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Residues in contact with TRP 48 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41E SER 5.8 0.2 - - - -
44E HIS* 2.9 64.1 + + + +
45E GLN 3.8 2.0 - - - +
47E HIS* 1.3 91.1 - + - +
49E TYR* 1.3 68.6 + - + +
50E MET 3.5 3.1 + - - +
55E PHE* 5.5 0.5 - - - -
59E HIS* 5.2 2.5 - + - -
107E TYR* 3.8 8.3 - - - -
33G VAL* 4.3 7.2 - - + -
73G LEU* 4.0 17.9 - - + -
77G SER* 2.8 34.2 + - - -
78G GLU* 5.3 5.2 - - + +
81G ILE* 3.6 39.7 - - + +
87G PRO* 4.0 13.2 - - + -
88G PHE 3.3 22.9 - - - -
89G SER* 3.8 23.1 - - - -
94G PHE* 4.4 9.4 - + - -
160L TRP* 4.8 5.9 + + - -
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Residues in contact with TYR 49 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45E GLN* 2.9 33.3 + - + +
46E VAL 4.0 0.4 - - - -
48E TRP* 1.3 77.0 - - + +
50E MET* 1.3 63.4 + - - +
51E ARG* 3.5 2.4 + - - +
105E GLY* 3.6 20.4 + - - -
106E ASP* 3.5 26.2 - - - +
107E TYR* 3.4 66.6 - + - +
109E VAL 5.2 0.7 - - - +
114E GLN* 4.4 9.9 + - - +
86G ALA* 3.3 12.9 - - + +
87G PRO* 2.5 49.3 + - + -
89G SER* 3.5 21.6 + - - -
----------------------------------------------------------
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Residues in contact with MET 50 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46E VAL* 3.1 41.0 + - + +
47E HIS 4.0 5.6 - - - +
48E TRP 3.3 4.3 - - - +
49E TYR* 1.3 77.5 - - - +
51E ARG* 1.3 69.7 + - - +
55E PHE* 3.3 33.3 - - + -
58E TRP* 3.7 21.8 - - + +
59E HIS* 3.4 26.5 - - - +
62E MET* 3.8 19.5 - - + -
107E TYR* 5.2 0.3 - - - -
111E ILE* 3.4 24.5 - - + -
114E GLN* 4.6 15.7 - - + +
115E LEU* 5.2 2.5 - - + -
160L TRP* 5.4 1.2 + - - -
164L ALA* 3.8 1.9 - - - +
----------------------------------------------------------
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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