Contacts of the helix formed by residues 47 - 77 (chain E) in PDB entry 2Q7M
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 47 (chain E).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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33E GLU* 4.7 1.3 - - - +
36E THR* 5.4 1.3 - - - +
37E GLN* 2.6 42.1 + - - +
46E GLY* 1.3 76.6 - - - +
48E LEU* 1.3 62.9 + - - +
49E ALA* 3.1 17.4 + - + +
50E PHE* 3.3 19.0 + - + +
51E GLU* 2.7 32.7 + - - +
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Residues in contact with LEU 48 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46E GLY 5.7 0.2 - - - +
47E THR* 1.3 77.6 + - - +
49E ALA* 1.3 49.5 + - - -
51E GLU* 4.0 24.9 - - + +
52E ARG* 2.8 52.5 - - - +
104E GLU* 3.0 29.9 - - - +
106E THR 4.2 9.0 - - - +
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Residues in contact with ALA 49 (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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33E GLU* 3.5 19.0 - - + +
47E THR* 3.1 12.6 + - + +
48E LEU* 1.3 78.0 - - - +
50E PHE* 1.3 60.5 - - - +
52E ARG* 3.7 4.1 - - - +
53E VAL* 3.0 34.5 + - - +
102E LEU* 4.5 4.4 - - + +
104E GLU* 5.0 2.7 - - - -
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Residues in contact with PHE 50 (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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30E VAL* 4.3 12.1 - - + -
33E GLU* 3.4 40.6 - - + +
34E SER* 3.1 32.8 - - - -
37E GLN* 3.8 16.8 - - + -
42E PHE* 4.9 2.9 - + + -
43E GLN* 3.7 24.9 - - - -
45E THR 3.3 26.7 - - - -
46E GLY* 4.2 1.3 - - - -
47E THR* 3.3 15.7 + - + +
49E ALA* 1.3 77.4 - - - +
51E GLU* 1.3 58.9 + - - +
52E ARG 3.2 1.1 - - - -
53E VAL* 4.4 0.7 - - + +
54E TYR* 3.0 43.6 + + + +
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Residues in contact with GLU 51 (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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45E THR* 4.6 4.0 - - - -
46E GLY 4.0 20.7 + - - +
47E THR 2.7 21.1 + - - +
48E LEU* 4.0 19.9 - - + +
50E PHE* 1.3 75.3 - - - +
52E ARG* 1.3 56.0 + - - +
53E VAL 3.4 0.2 - - - -
54E TYR* 5.0 0.9 - - - -
55E THR* 2.3 35.7 + - - -
40F ARG* 4.6 5.9 - - - +
41F SER* 5.4 2.5 - - - -
42F PHE* 3.4 34.0 + - + +
43F GLN* 2.8 30.6 + - - +
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Residues in contact with ARG 52 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48E LEU* 2.8 47.1 + - - +
49E ALA* 3.7 6.5 - - - +
50E PHE 3.2 0.4 - - - -
51E GLU* 1.3 82.4 - - - +
53E VAL* 1.3 58.2 + - + +
55E THR* 3.8 4.1 - - - -
56E ALA* 3.3 16.8 + - - +
100E GLY 5.0 1.2 + - - -
101E TYR* 3.3 61.5 - - - +
102E LEU* 4.7 4.7 - - - +
104E GLU* 3.3 27.3 + - + +
105E ARG 4.2 11.5 - - - +
106E THR 4.0 6.2 + - - -
107E GLN* 4.3 1.4 - - - -
108E SER* 2.5 45.9 + - - +
40F ARG* 5.4 4.6 - - - +
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Residues in contact with VAL 53 (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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29E LYS* 3.2 28.7 - - + +
30E VAL* 3.0 26.9 - - + -
33E GLU* 4.0 13.0 - - + -
49E ALA 3.0 22.4 + - - +
50E PHE* 3.5 2.9 + - - +
52E ARG* 1.3 74.9 - - - +
54E TYR* 1.3 57.0 + - - +
55E THR 2.9 5.1 + - - -
56E ALA* 3.3 4.4 + - - +
57E ASN* 2.9 29.3 + - - +
98E PHE* 4.3 8.6 - - + -
101E TYR 5.0 0.4 - - - -
102E LEU* 3.1 34.5 - - + -
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Residues in contact with TYR 54 (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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58D GLN* 4.2 16.8 + - - +
59D ASN* 4.7 4.8 + - - -
112D TYR* 3.8 39.0 - + - -
30E VAL* 3.7 15.5 - - + +
43E GLN 6.2 0.4 - - - -
44E ARG* 4.0 26.4 - - + +
50E PHE* 3.0 36.7 + + + +
51E GLU* 4.9 1.8 - - - +
53E VAL* 1.3 76.4 - - - +
55E THR* 1.3 58.1 + - - +
58E GLN* 3.0 47.8 + - + +
42F PHE* 3.4 39.3 - + + -
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Residues in contact with THR 55 (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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51E GLU* 2.3 29.1 + - - -
52E ARG* 3.8 5.4 - - - -
53E VAL 2.9 0.6 - - - -
54E TYR* 1.3 77.0 - - - +
56E ALA* 1.3 68.9 + - - +
57E ASN 3.0 1.9 + - - -
58E GLN* 3.1 11.9 + - - -
59E ASN* 3.1 23.5 + - - +
101E TYR* 3.7 7.2 - - + -
40F ARG* 3.1 43.1 - - + +
42F PHE* 3.3 26.2 - - + -
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Residues in contact with ALA 56 (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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52E ARG 3.3 11.2 + - - +
53E VAL* 3.3 3.2 + - - +
55E THR* 1.3 79.0 - - - +
57E ASN* 1.3 58.8 + - - +
59E ASN* 3.1 12.1 - - - +
60E CYS* 3.0 24.9 - - - -
97E TYR* 4.7 2.1 - - + +
98E PHE* 3.8 23.3 - - + -
101E TYR* 3.3 43.5 - - + +
102E LEU* 5.7 0.4 - - + -
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Residues in contact with ASN 57 (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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112D TYR* 3.3 20.7 + - - -
26E PHE* 2.9 45.8 + - - +
27E ALA* 3.2 11.3 - - - +
30E VAL* 3.7 13.2 - - + +
53E VAL 2.9 18.6 + - - +
54E TYR* 4.0 2.0 - - - +
56E ALA* 1.3 72.7 - - - +
58E GLN* 1.3 55.4 + - - +
59E ASN 2.6 16.2 + - - -
60E CYS* 2.7 17.9 + - - +
61E VAL* 3.0 24.2 + - - +
98E PHE* 4.0 10.9 - - + -
505E 2CS 4.2 3.0 - - - -
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Residues in contact with GLN 58 (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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58D GLN* 2.8 29.1 + - + +
62D ASP* 2.9 31.7 + - - +
112D TYR* 3.7 6.9 + - - -
54E TYR* 3.0 43.9 + - + +
55E THR* 3.4 6.3 - - - +
57E ASN* 1.3 73.9 + - - +
59E ASN* 1.3 53.5 + - - +
61E VAL* 4.1 12.9 - - - +
62E ASP* 2.4 37.8 - - - +
54F TYR* 3.5 10.8 + - + +
58F GLN* 2.9 16.4 - - + +
61F VAL* 5.5 0.3 - - - +
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Residues in contact with ASN 59 (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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55E THR* 3.1 25.0 + - - +
56E ALA* 3.1 13.0 - - - +
57E ASN 2.6 2.8 + - - -
58E GLN* 1.3 79.6 - - - +
60E CYS* 1.3 62.0 + - - +
61E VAL 3.4 1.1 - - - -
62E ASP* 3.5 10.2 + - - +
63E ALA* 3.9 8.5 + - - +
97E TYR* 2.9 28.6 + - + +
101E TYR* 3.7 19.2 - - - -
111E GLY* 3.9 1.6 - - - -
112E TYR* 3.1 35.7 - - + +
114E PHE* 3.4 15.7 - - - -
506E 2CS 4.7 3.1 - - - -
40F ARG* 4.2 3.9 - - - +
54F TYR* 3.9 5.7 + - - -
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Residues in contact with CYS 60 (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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23E ASN* 5.1 1.1 + - - +
26E PHE* 3.7 36.8 - - + -
56E ALA 3.0 23.8 - - - -
57E ASN 2.7 5.0 + - - +
59E ASN* 1.3 78.2 - - - +
61E VAL* 1.3 57.1 + - + +
62E ASP 3.1 4.9 - - - -
63E ALA* 3.2 1.1 + - - -
64E TYR* 3.0 24.3 + - - +
94E ARG* 3.3 16.4 + - - +
97E TYR* 4.2 4.7 - - - -
98E PHE* 3.9 12.3 - - - -
114E PHE* 3.4 31.9 - - + -
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Residues in contact with VAL 61 (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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61D VAL 4.5 3.8 - - - +
62D ASP* 3.5 36.1 - - + +
65D PRO* 5.0 6.7 - - + +
23E ASN* 4.4 12.3 - - - +
26E PHE* 6.0 2.0 - - + -
57E ASN* 3.0 25.7 + - - +
58E GLN* 4.1 13.5 - - - +
59E ASN 3.4 0.2 - - - -
60E CYS* 1.3 80.9 - - + +
62E ASP* 1.3 62.8 + - - +
64E TYR* 4.2 6.0 - - + +
65E PRO* 3.6 14.4 - - - +
505E 2CS 3.5 29.4 - - + -
61F VAL* 4.8 3.6 - - + +
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Residues in contact with ASP 62 (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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58E GLN* 2.4 46.9 - - - +
59E ASN* 3.9 6.1 - - - +
60E CYS 3.1 0.2 - - - -
61E VAL* 1.3 81.4 - - - +
63E ALA* 1.3 57.6 + - - +
65E PRO* 3.5 15.5 - - - +
66E THR* 3.6 8.7 + - - -
112E TYR* 3.0 28.9 + - + +
506E 2CS 3.6 25.8 - - + -
54F TYR* 3.6 0.2 + - - -
58F GLN* 3.4 15.5 + - - +
61F VAL* 4.0 18.6 - - + +
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Residues in contact with ALA 63 (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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60E CYS 3.2 6.3 + - - +
62E ASP* 1.3 79.3 - - - +
64E TYR* 1.3 65.3 + - - +
65E PRO* 3.3 3.3 - - - -
66E THR* 3.5 3.1 + - - -
67E PHE* 3.0 25.1 + - - +
90E TYR* 2.8 23.1 - - - +
114E PHE* 3.6 19.1 - - + -
506E 2CS 3.4 31.7 - - + -
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Residues in contact with TYR 64 (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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65D PRO* 4.0 22.2 - - + -
66D THR* 3.7 26.5 - - + -
69D ALA* 4.4 4.0 - - + +
16E THR* 3.8 5.0 + - - +
19E SER* 2.7 27.1 + - - -
20E VAL* 3.7 18.0 + - - +
23E ASN* 3.4 29.4 - - - +
60E CYS 3.0 13.9 + - - +
61E VAL* 4.3 6.3 - - + +
63E ALA* 1.3 76.5 - - - +
65E PRO* 1.3 65.3 - - + +
67E PHE* 3.4 4.1 - + - +
68E LEU* 2.8 69.4 + - + +
94E ARG* 3.9 13.0 - - - +
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Residues in contact with PRO 65 (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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65D PRO* 5.3 11.4 - - + -
61E VAL 3.6 11.9 - - - +
62E ASP* 3.5 16.4 - - - +
63E ALA 3.3 1.8 - - - -
64E TYR* 1.3 92.9 - - + +
66E THR* 1.3 62.4 + - - +
67E PHE 2.9 9.8 + - - -
68E LEU* 3.1 8.3 + - + +
69E ALA* 2.9 23.7 + - - +
61F VAL* 4.8 10.1 - - + +
64F TYR* 3.9 26.4 - - + -
65F PRO* 5.4 9.4 - - + -
68F LEU* 6.1 0.8 - - + +
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Residues in contact with THR 66 (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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62E ASP 3.6 16.8 + - - -
63E ALA 3.5 3.3 + - - -
65E PRO* 1.3 77.5 - - - +
67E PHE* 1.3 58.0 + - - +
69E ALA* 3.8 5.4 - - - +
70E VAL* 3.9 8.0 - - - +
119E ILE* 4.9 5.4 - - - +
506E 2CS 4.0 25.1 - - + +
20F VAL* 3.0 49.9 - - + +
23F ASN* 3.4 38.0 + - + -
24F GLY 5.0 0.2 - - - +
64F TYR* 3.9 6.4 - - + -
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Residues in contact with PHE 67 (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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15E VAL* 5.1 1.8 - - + -
19E SER* 4.9 3.6 - - - -
63E ALA 3.0 17.0 + - - +
64E TYR* 3.4 7.6 - + - +
65E PRO 2.9 0.6 - - - -
66E THR* 1.3 77.9 - - - +
68E LEU* 1.3 91.7 + - + +
69E ALA 2.9 2.0 + - - -
70E VAL* 3.0 9.8 - - + +
71E LEU* 2.9 32.4 + - + -
87E GLY* 3.5 34.1 - - - -
90E TYR* 3.4 60.3 - + + -
91E LEU* 3.7 13.2 - - + -
94E ARG* 5.1 0.2 - - - -
119E ILE* 4.3 9.2 - - + -
122E LEU* 3.9 11.2 - - + -
506E 2CS 6.4 0.4 - - - -
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Residues in contact with LEU 68 (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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65D PRO* 5.6 4.9 - - + +
69D ALA* 5.5 5.2 - - + -
16E THR* 4.7 11.0 - - + +
19E SER* 4.5 2.7 - - - +
64E TYR* 2.8 64.5 + - + +
65E PRO* 3.7 5.4 - - + +
67E PHE* 1.3 98.7 - - + +
69E ALA* 1.3 67.6 + - - +
71E LEU* 3.3 11.5 + - + -
72E TRP* 3.0 36.5 - - + +
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Residues in contact with ALA 69 (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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65E PRO 2.9 16.5 + - - +
66E THR* 3.8 2.5 - - - +
67E PHE 2.9 0.6 - - - -
68E LEU* 1.3 81.3 - - - +
70E VAL* 1.3 63.8 + - + +
71E LEU 3.0 0.2 + - - -
72E TRP* 3.0 1.7 + - - +
73E SER* 3.0 24.0 + - - -
16F THR* 4.5 19.5 - - + -
17F LEU* 5.5 0.7 - - + -
20F VAL* 3.8 25.4 - - + -
64F TYR* 4.7 5.2 - - + +
68F LEU* 5.8 2.2 - - + -
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Residues in contact with VAL 70 (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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66E THR 3.9 4.9 - - - +
67E PHE* 3.0 20.4 - - + +
69E ALA* 1.3 78.1 - - - +
71E LEU* 1.3 56.8 + - - +
72E TRP 3.2 0.4 - - - -
73E SER* 2.9 11.4 - - - +
74E ALA* 2.8 35.3 + - - +
119E ILE* 4.0 16.8 - - + +
122E LEU* 3.5 29.3 - - + +
123E PHE* 3.9 27.4 - - + +
506E 2CS 5.5 0.9 - - + -
17F LEU* 4.5 2.9 - - + -
20F VAL* 4.0 28.5 - - + -
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Residues in contact with LEU 71 (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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12E LEU* 3.6 16.6 - - + +
15E VAL* 3.8 19.5 - - + -
16E THR* 3.5 14.6 - - - +
67E PHE* 2.9 34.7 + - + +
68E LEU* 3.4 16.6 - - + +
69E ALA 3.0 0.4 + - - -
70E VAL* 1.3 77.9 - - - +
72E TRP* 1.3 84.0 + - + +
75E GLY* 3.4 12.3 + - - -
83E ALA* 3.2 31.9 - - - +
84E ALA* 4.4 3.4 - - - -
87E GLY* 4.1 9.4 - - - -
122E LEU* 4.0 6.7 - - + -
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Residues in contact with TRP 72 (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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9E VAL* 3.6 19.3 - - + -
12E LEU* 3.3 59.2 - - + -
13E ALA* 3.8 8.3 - - + -
16E THR* 3.4 23.9 + - + +
68E LEU* 3.0 32.3 - - + +
69E ALA 3.0 4.4 + - - +
71E LEU* 1.3 86.2 - - + +
73E SER* 1.3 58.1 + - - +
74E ALA 2.9 1.6 - - - -
75E GLY* 2.4 21.9 + - - +
76E LEU* 2.7 37.3 + - + +
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Residues in contact with SER 73 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69E ALA 3.0 8.7 + - - -
70E VAL* 2.9 26.5 - - - -
72E TRP* 1.3 75.2 - - - +
74E ALA* 1.3 56.3 + - - +
76E LEU* 4.5 3.4 - - - -
77E LEU* 2.8 49.9 + - - +
126E SER* 3.2 20.0 + - - -
13F ALA* 5.4 2.5 - - - -
16F THR* 6.0 3.1 - - - -
17F LEU* 3.6 17.0 - - - +
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Residues in contact with ALA 74 (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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70E VAL 2.8 18.3 + - - +
72E TRP 2.9 0.6 - - - -
73E SER* 1.3 79.6 + - - +
75E GLY* 1.3 51.6 + - - +
78E CYS* 2.3 27.5 - - - +
79E SER 3.5 0.2 - - - +
83E ALA* 3.0 12.2 - - + +
122E LEU* 2.8 31.6 - - + +
125E MET* 3.4 24.8 - - + +
126E SER 3.7 9.0 - - - +
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Residues in contact with GLY 75 (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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8E ASN 5.2 0.2 - - - +
12E LEU* 3.8 11.0 - - - -
71E LEU 3.4 6.6 + - - -
72E TRP 2.4 23.5 + - - -
74E ALA* 1.3 69.6 - - - +
76E LEU* 1.3 67.6 + - - +
78E CYS 3.4 9.6 - - - +
79E SER 4.1 0.6 + - - -
80E GLN* 3.6 20.1 + - - +
83E ALA* 3.4 16.4 - - - -
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Residues in contact with LEU 76 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8E ASN 4.9 7.6 - - - +
9E VAL* 5.3 2.9 - - + -
12E LEU* 3.7 18.6 - - + -
72E TRP* 2.7 54.7 + - + +
73E SER* 4.2 2.7 - - - +
75E GLY* 1.3 80.3 - - - +
77E LEU* 1.3 58.6 - - + +
78E CYS* 2.7 17.1 + - - -
1F MET* 3.4 54.1 + - + +
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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 SER* 2.8 34.0 + - - +
76E LEU* 1.3 80.0 - - + +
78E CYS* 1.3 62.9 + - - +
126E SER* 4.0 13.7 - - - +
129E GLY* 2.9 24.1 - - - -
130E ILE* 3.9 21.3 - - + +
1F MET* 3.8 24.2 - - + -
6F VAL* 3.9 20.2 - - + -
9F VAL* 5.6 5.6 - - + -
10F VAL* 6.0 1.6 - - + -
13F ALA* 3.7 29.8 - - + -
17F LEU* 4.7 0.7 - - + -
----------------------------------------------------------
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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