Contacts of the helix formed by residues 37 - 65 (chain J) in PDB entry 3IS7
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 LEU 37 (chain J).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32J TRP* 2.9 42.6 + - + +
35J TRP* 4.3 21.3 - - + +
36J GLY* 1.3 77.8 - - - +
38J LYS* 1.3 61.5 + - - +
40J LEU* 3.2 9.8 + - + -
41J GLY* 3.0 18.0 + - - -
83J THR* 4.0 11.7 - - - +
150J LEU* 3.4 45.3 - - + +
153J HIS* 3.1 12.1 - - + +
154J MET* 4.2 4.5 - - + -
140Q LEU* 3.9 19.1 - - + -
143Q LYS* 4.7 10.8 - - + -
144Q VAL* 5.0 0.7 - - + -
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Residues in contact with LYS 38 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33J ASN* 3.8 22.0 + - + +
36J GLY* 4.3 13.5 - - - +
37J LEU* 1.3 74.6 - - - +
39J ARG* 1.3 58.7 + - - +
41J GLY* 3.2 0.5 + - - -
42J ALA* 2.9 30.7 + - - +
153J HIS 3.2 2.4 + - - -
154J MET 3.2 18.6 + - - +
155J HIS* 5.1 11.6 - - - +
156J GLU* 4.0 29.5 - - + +
39Q ARG* 6.1 0.2 - - - +
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Residues in contact with ARG 39 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
155E HIS* 3.4 46.7 + - - +
38J LYS* 1.3 79.9 - - - +
40J LEU* 1.3 61.7 + - - +
42J ALA* 3.6 2.6 + - - +
43J HIS* 3.1 23.6 + - - +
152J SER 3.5 18.8 + - - -
153J HIS* 2.9 29.7 + - + +
154J MET 4.0 1.2 + - - -
155J HIS 3.5 23.2 + - - +
156J GLU* 4.0 26.6 + - + +
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Residues in contact with LEU 40 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32J TRP* 3.7 50.3 - - + +
37J LEU* 3.2 12.1 + - + +
39J ARG* 1.3 77.8 - - - +
41J GLY* 1.3 60.6 + - - +
43J HIS* 3.3 4.0 + - - +
44J GLU* 2.9 32.1 + - - +
83J THR* 4.2 15.9 - - + +
87J LEU* 4.7 5.4 - - + -
133J TYR* 3.7 21.5 + - - +
149J TYR* 3.8 21.3 - - + +
150J LEU* 4.6 4.7 - - + -
153J HIS* 3.7 31.2 + - + -
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Residues in contact with GLY 41 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29J SER* 2.5 38.9 + - - -
30J ARG* 5.3 0.2 - - - -
32J TRP* 3.8 5.6 - - - +
33J ASN* 3.2 26.0 - - - -
37J LEU 3.0 11.4 + - - -
38J LYS 3.2 0.2 + - - -
40J LEU* 1.3 77.7 - - - +
42J ALA* 1.3 54.9 + - - +
45J TYR* 2.9 14.8 + - - +
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Residues in contact with ALA 42 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33J ASN* 4.1 1.4 - - - +
38J LYS 2.9 16.2 + - - +
39J ARG* 4.0 4.9 - - - +
41J GLY* 1.3 73.1 - - - +
43J HIS* 1.3 66.5 + - - +
45J TYR* 3.3 9.0 + - - +
46J HIS* 3.1 38.3 + - + -
156J GLU* 3.8 21.1 - - + +
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Residues in contact with HIS 43 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39J ARG* 3.1 18.6 + - + +
40J LEU* 3.8 4.3 - - - +
42J ALA* 1.3 75.3 - - - +
44J GLU* 1.3 66.6 + - - +
46J HIS* 3.1 11.2 + - + +
47J GLU* 2.9 48.2 + - + +
133J TYR* 3.3 60.0 - + + +
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Residues in contact with GLU 44 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25J TYR* 3.1 32.9 - - - +
28J HIS* 3.4 13.7 + - - +
29J SER* 3.7 15.5 - - - +
32J TRP* 3.6 19.9 - - + -
40J LEU 2.9 17.5 + - - +
43J HIS* 1.3 83.7 - - - +
45J TYR* 1.3 60.1 + - - +
47J GLU* 3.1 15.0 + - - +
48J SER* 3.1 21.1 + - - -
87J LEU* 5.9 0.7 - - - +
90J ASP* 2.3 34.6 - - - +
130J HIS* 4.6 4.2 + - - -
133J TYR* 5.3 3.6 - - - -
134J LEU* 5.6 0.5 - - - +
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Residues in contact with TYR 45 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26J PHE* 3.7 27.4 - + - -
29J SER* 3.5 9.5 + - - +
30J ARG* 3.3 29.2 - - - +
41J GLY 2.9 19.0 + - - +
42J ALA* 3.4 8.1 - - - +
44J GLU* 1.3 76.7 - - - +
46J HIS* 1.3 80.8 + + - +
48J SER* 3.2 7.8 + - - -
49J ILE* 3.0 48.9 + - + +
159J HEM 3.3 35.6 + - + +
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Residues in contact with HIS 46 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42J ALA* 3.1 27.0 + - + -
43J HIS* 3.1 11.9 + - + +
45J TYR* 1.3 94.9 - + - +
47J GLU* 1.3 61.2 + - + +
49J ILE* 3.4 9.2 + - + +
50J ASP* 3.0 38.9 + - - +
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Residues in contact with GLU 47 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25J TYR* 3.8 17.9 - - + -
43J HIS* 2.9 44.1 + - + +
44J GLU* 3.1 12.1 + - - +
46J HIS* 1.3 76.4 - - + +
48J SER* 1.3 62.7 + - - +
50J ASP* 3.3 15.0 + - - +
51J GLU* 3.1 27.4 + - - +
130J HIS* 3.2 48.3 + - + +
133J TYR* 4.5 1.6 - - - +
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Residues in contact with SER 48 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22J ILE* 2.9 22.0 + - - +
25J TYR* 3.8 22.6 - - - +
26J PHE* 3.5 19.6 - - - +
44J GLU 3.1 8.7 + - - -
45J TYR* 3.5 9.0 - - - -
47J GLU* 1.3 73.8 - - - +
49J ILE* 1.3 60.3 + - - +
51J GLU* 3.2 7.4 + - - +
52J MET* 2.9 48.8 + - - +
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Residues in contact with ILE 49 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45J TYR* 3.0 47.1 + - + +
46J HIS* 3.7 13.7 - - + +
48J SER* 1.3 74.7 - - - +
50J ASP* 1.3 64.5 + - - +
52J MET* 3.1 24.0 + - + +
53J LYS* 3.1 37.4 + - - +
159J HEM 3.7 49.8 - - + +
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Residues in contact with ASP 50 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46J HIS* 3.0 26.2 + - - +
47J GLU* 3.6 16.8 - - - +
48J SER 3.2 0.2 - - - -
49J ILE* 1.3 80.5 - - - +
51J GLU* 1.3 61.8 + - + +
53J LYS* 3.3 23.6 + - - +
54J HIS* 3.1 40.2 + - + -
126J SER* 5.2 4.0 + - - +
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Residues in contact with GLU 51 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17J ASN 5.1 0.2 - - - -
18J GLU* 2.3 33.0 - - - +
21J ALA* 3.0 30.5 - - + +
22J ILE* 3.6 21.5 - - + +
25J TYR* 3.8 14.1 - - + -
47J GLU* 3.1 15.1 + - - +
48J SER 3.2 7.4 + - - +
50J ASP* 1.3 73.0 - - - +
52J MET* 1.3 66.2 + - - +
54J HIS* 3.2 12.0 + - - -
55J ALA* 3.0 22.5 + - - +
94J GLU* 4.7 0.4 - - - -
127J GLU* 2.5 35.0 - - - +
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Residues in contact with MET 52 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22J ILE* 3.7 17.2 - - + +
26J PHE* 4.0 6.1 - - + -
48J SER* 2.9 43.0 + - - +
49J ILE* 3.1 17.7 + - + +
51J GLU* 1.3 77.3 - - - +
53J LYS* 1.3 56.1 + - - +
55J ALA* 3.4 2.8 + - - +
56J ASP* 3.0 26.7 + - - +
159J HEM 2.2 111.6 - - + +
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Residues in contact with LYS 53 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49J ILE* 3.1 25.5 + - - +
50J ASP* 3.6 21.6 + - - +
51J GLU 3.2 0.2 - - - -
52J MET* 1.3 75.1 - - - +
54J HIS* 1.3 70.5 + - + +
56J ASP* 3.4 8.5 + - - +
57J LYS* 3.2 27.1 + - + +
159J HEM 3.5 46.7 + - + +
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Residues in contact with HIS 54 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18J GLU* 3.7 16.2 + - - +
50J ASP* 3.1 27.0 + - + +
51J GLU* 3.2 26.4 + - - +
53J LYS* 1.3 80.4 - - + +
55J ALA* 1.3 63.0 + - - +
57J LYS* 3.1 13.4 + - + +
58J LEU* 3.0 26.7 + - - +
122J ASP 5.0 1.0 + - - -
123J ILE* 3.8 33.5 - - + +
126J SER* 3.1 34.8 + - - -
127J GLU* 3.9 6.0 + - - -
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Residues in contact with ALA 55 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15J LEU* 3.7 24.0 - - + +
18J GLU* 4.2 10.3 - - + +
19J LEU* 4.6 2.5 - - + -
22J ILE* 4.3 8.3 - - + -
51J GLU 3.0 15.6 + - - +
52J MET 3.7 4.7 - - - +
54J HIS* 1.3 76.5 - - - +
56J ASP* 1.4 57.0 + - - +
58J LEU* 3.2 7.6 + - - +
59J ILE* 2.8 36.4 + - - +
159J HEM 4.2 14.8 - - + -
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Residues in contact with ASP 56 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26I PHE* 3.5 28.1 - - + -
30I ARG* 2.7 42.3 + - - +
52J MET 3.0 13.6 + - - +
53J LYS* 3.4 13.2 - - - +
55J ALA* 1.4 75.8 - - - +
57J LYS* 1.3 64.0 + - + +
59J ILE* 3.3 1.9 + - - +
60J GLU* 3.0 37.3 + - - +
159J HEM 4.1 10.8 - - + +
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Residues in contact with LYS 57 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53J LYS* 3.2 13.0 + - + +
54J HIS* 3.1 17.6 + - + +
56J ASP* 1.3 77.6 - - + +
58J LEU* 1.3 64.6 + - - +
60J GLU* 3.3 15.2 + - - +
61J ARG* 3.0 24.3 + - - +
119J LEU* 4.1 22.1 - - + +
123J ILE* 5.6 2.5 - - + -
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Residues in contact with LEU 58 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11J LEU* 3.8 30.2 - - + +
14J ILE* 3.7 24.2 - - + -
15J LEU* 3.8 29.2 - - + +
18J GLU* 3.9 13.0 - - + -
54J HIS 3.0 18.6 + - - +
55J ALA* 3.2 7.4 + - - +
57J LYS* 1.3 73.6 - - - +
59J ILE* 1.3 66.8 + - - +
61J ARG* 3.2 5.0 + - - +
62J ILE* 2.9 32.0 + - + +
119J LEU* 3.7 25.6 - - + -
120J LEU* 4.2 5.2 - - + -
123J ILE* 4.0 10.8 - - + -
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Residues in contact with ILE 59 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26I PHE* 4.0 25.8 - - + -
27I LEU* 4.5 6.5 - - + -
30I ARG* 3.9 17.7 - - + -
15J LEU* 3.9 22.4 - - + -
55J ALA 2.8 27.0 + - - +
56J ASP* 3.6 5.4 - - - +
58J LEU* 1.3 71.8 - - - +
60J GLU* 1.4 58.3 + - - +
62J ILE* 3.2 4.7 + - - +
63J LEU* 3.0 47.7 + - + +
69J PRO* 4.0 13.5 - - + +
71J LEU* 3.8 27.8 - - + -
159J HEM 4.6 5.4 - - + -
----------------------------------------------------------
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Residues in contact with GLU 60 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30I ARG* 3.6 27.2 + - + +
33I ASN* 5.1 5.3 - - + +
56J ASP* 3.0 41.1 + - - +
57J LYS* 3.6 16.4 - - - +
59J ILE* 1.4 76.5 - - - +
61J ARG* 1.3 63.2 + - - +
63J LEU* 3.5 7.0 + - - +
64J PHE* 3.0 21.4 + - - +
----------------------------------------------------------
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Residues in contact with ARG 61 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128G GLU* 2.9 30.7 + - - +
11J LEU* 4.4 8.3 - - + -
57J LYS 3.0 16.3 + - - +
58J LEU* 3.8 3.8 - - - +
60J GLU* 1.3 78.8 - - - +
62J ILE* 1.3 56.5 + - - +
64J PHE* 3.2 29.7 + - - +
65J LEU* 2.8 49.4 + - + +
113J ASP* 2.8 31.1 + - - -
115J VAL* 3.6 19.1 - - - +
116J SER* 3.0 26.5 + - - +
119J LEU* 3.8 24.5 - - + -
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Residues in contact with ILE 62 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8J ILE* 4.3 8.3 - - + +
11J LEU* 3.7 38.1 - - + +
12J ASN* 3.8 30.1 - - - +
15J LEU* 4.2 12.8 - - + -
58J LEU* 2.9 25.5 + - + +
59J ILE* 3.6 4.5 - - - +
61J ARG* 1.3 75.8 - - - +
63J LEU* 1.3 61.5 + - - +
65J LEU* 3.2 6.9 + - - +
66J GLU 3.1 5.4 + - - -
67J GLY* 2.9 49.7 + - - -
68J LEU 3.8 3.8 - - - +
69J PRO* 3.8 17.0 - - + -
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Residues in contact with LEU 63 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27I LEU* 4.5 3.4 - - + -
30I ARG* 3.9 26.5 - - + +
31I MET* 4.2 15.3 - - + +
34I ASP* 4.1 35.0 - - + +
59J ILE* 3.0 40.7 + - + +
60J GLU* 3.7 7.0 - - - +
62J ILE* 1.3 75.8 - - - +
64J PHE* 1.3 66.8 + - - +
66J GLU* 3.0 15.1 + - - +
67J GLY 3.8 8.1 - - - +
68J LEU* 5.9 1.1 - - + -
69J PRO* 3.4 28.9 - - + -
----------------------------------------------------------
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Residues in contact with PHE 64 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128G GLU* 3.6 31.4 - - + -
131G ILE* 4.3 14.8 - - + -
132G ASP* 3.6 48.7 - - + +
135G GLU* 4.4 11.3 - - - +
34I ASP* 4.6 7.2 + - - -
60J GLU 3.0 15.3 + - - +
61J ARG* 3.2 41.3 + - - +
63J LEU* 1.3 77.2 - - - +
65J LEU* 1.3 75.4 + - + +
66J GLU* 3.0 14.6 + - - +
----------------------------------------------------------
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Residues in contact with LEU 65 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128G GLU* 6.2 0.2 - - - -
3J GLY* 3.6 38.0 + - - +
4J ASP 5.7 0.2 - - - +
7J VAL* 4.4 6.3 - - + -
8J ILE* 3.8 16.7 - - + +
11J LEU* 4.1 17.7 - - + -
61J ARG* 2.8 38.3 + - - +
62J ILE 3.2 4.2 + - - +
64J PHE* 1.3 90.5 - - + +
66J GLU* 1.3 70.5 + - - +
67J GLY 3.4 1.2 + - - -
113J ASP* 4.0 10.3 - - - +
116J SER* 3.8 21.8 - - - +
----------------------------------------------------------
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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