Contacts of the helix formed by residues 32 - 70 (chain G) in PDB entry 1NTZ
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 LYS 32 (chain G).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12E ASP* 4.5 13.1 + - - -
73F GLN* 5.5 5.4 - - - +
28G HIS* 2.9 40.7 + - + +
31G SER* 1.3 77.9 - - - +
33G GLY* 1.3 67.5 + - - +
35G PRO* 3.4 8.1 - - - +
36G ASN* 3.3 30.6 + - - +
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Residues in contact with GLY 33 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28G HIS 3.1 9.3 + - - -
29G TYR* 3.1 17.7 + - - -
31G SER 3.3 1.2 - - - -
32G LYS* 1.3 76.8 - - - +
34G ILE* 1.3 63.8 + - - +
36G ASN* 3.1 19.4 + - - +
37G VAL* 3.2 15.3 - - - +
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Residues in contact with ILE 34 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29G TYR 4.0 2.0 + - - -
30G PHE* 3.0 31.8 + - + +
33G GLY* 1.3 71.3 - - - +
35G PRO* 1.3 70.0 - - + +
37G VAL* 3.0 25.0 + - + +
38G LEU* 3.1 33.0 + - + +
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Residues in contact with PRO 35 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30G PHE 3.8 0.2 - - - +
31G SER 3.0 25.6 - - - +
32G LYS* 3.4 9.2 - - - +
34G ILE* 1.3 96.8 - - + +
36G ASN* 1.3 56.7 + - - +
38G LEU* 3.4 14.3 + - + +
39G ARG* 3.0 29.6 + - - +
42G ARG* 5.2 2.2 + - - +
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Residues in contact with ASN 36 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72F GLN 5.1 1.6 - - - -
73F GLN* 2.5 36.2 + - - +
32G LYS* 3.3 22.0 + - - +
33G GLY* 3.1 12.6 + - - +
35G PRO* 1.3 79.2 - - - +
37G VAL* 1.3 59.9 + - + +
39G ARG* 2.8 35.3 + - - +
40G ARG* 2.9 43.7 + - - +
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Residues in contact with VAL 37 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33G GLY 3.2 18.2 - - - +
34G ILE* 3.0 19.5 + - + +
36G ASN* 1.3 74.0 - - + +
38G LEU* 1.3 60.7 + - + +
40G ARG* 3.2 18.6 + - - +
41G THR* 2.4 40.9 + - - +
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Residues in contact with LEU 38 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34G ILE* 3.1 37.5 + - + +
35G PRO* 3.6 15.0 - - + +
37G VAL* 1.3 79.0 - - + +
39G ARG* 1.3 58.3 + - - +
41G THR* 3.1 9.8 + - - +
42G ARG* 2.8 51.3 + - - +
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Residues in contact with ARG 39 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72F GLN 3.1 24.9 + - - -
73F GLN* 4.0 7.6 + - - +
74F ILE* 3.5 44.4 - - - +
35G PRO 3.0 18.2 + - - +
36G ASN* 2.8 32.5 + - - +
38G LEU* 1.3 74.7 - - - +
40G ARG* 1.3 78.6 + - - +
42G ARG* 3.5 24.6 + - - +
43G ALA* 3.2 28.6 + - - +
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Residues in contact with ARG 40 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71F ARG 4.9 3.8 + - - -
72F GLN* 3.0 51.4 + - - +
36G ASN* 2.9 31.8 + - - +
37G VAL* 3.2 16.2 + - - +
39G ARG* 1.3 92.9 - - - +
41G THR* 1.3 63.9 + - - +
43G ALA* 3.6 7.5 + - - +
44G CYS* 3.3 23.9 + - - +
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Residues in contact with THR 41 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37G VAL* 2.4 32.1 + - - +
38G LEU* 3.1 11.9 + - - +
40G ARG* 1.3 75.2 - - - +
42G ARG* 1.4 53.7 + - - +
44G CYS* 3.0 11.5 + - - -
45G ILE* 2.8 52.6 + - + +
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Residues in contact with ARG 42 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35G PRO* 5.2 2.2 + - - +
38G LEU* 2.8 42.7 + - - +
39G ARG* 3.7 24.0 - - - +
40G ARG 3.4 0.2 - - - -
41G THR* 1.4 70.5 - - - +
43G ALA* 1.3 64.5 + - - +
44G CYS 3.2 1.2 + - - -
45G ILE* 3.5 24.4 + - + +
46G LEU* 4.7 9.9 + - - +
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Residues in contact with ALA 43 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28F LYS* 6.1 2.9 - - - +
39G ARG* 3.2 19.4 + - - +
40G ARG* 3.7 9.4 - - - +
42G ARG* 1.3 79.3 - - - +
44G CYS* 1.3 59.4 + - + +
46G LEU* 5.4 0.7 + - - +
47G ARG* 3.2 27.6 + - - +
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Residues in contact with CYS 44 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
322C GLN* 5.2 4.5 - - - +
40G ARG 3.3 12.0 + - - +
41G THR* 3.0 16.2 + - - -
43G ALA* 1.3 81.1 - - + +
45G ILE* 1.4 68.7 + - - +
46G LEU 3.3 2.7 - - - -
47G ARG* 2.9 19.7 + - - +
48G VAL* 3.0 31.5 + - + +
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Residues in contact with ILE 45 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41G THR* 2.8 33.2 + - + +
42G ARG* 3.5 24.6 + - + +
44G CYS* 1.4 73.6 - - - +
46G LEU* 1.3 62.1 + - + +
47G ARG 2.9 2.4 + - - -
48G VAL* 5.0 0.7 - - - -
49G ALA* 2.8 49.2 + - + +
50G PRO* 3.2 4.6 - - - +
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Residues in contact with LEU 46 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
323C CYS* 4.2 8.8 - - - -
42G ARG 4.7 8.4 + - - +
43G ALA 5.4 0.6 + - - +
44G CYS 3.3 0.8 + - - -
45G ILE* 1.3 83.4 - - + +
47G ARG* 1.3 65.4 + - + +
50G PRO* 3.6 26.0 - - + +
51G PRO* 5.5 0.2 - - - +
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Residues in contact with ARG 47 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
316C MET 5.4 2.6 + - - -
318C ARG 4.9 0.2 - - - -
319C PRO* 3.2 33.8 - - + +
322C GLN* 3.1 49.9 + - + +
323C CYS* 4.0 24.2 - - - -
326C TRP* 3.2 19.5 - - - +
23F ALA* 3.4 31.1 + - - +
28F LYS* 5.7 2.8 - - - +
43G ALA 3.2 26.5 + - - -
44G CYS* 2.9 7.2 + - - +
46G LEU* 1.3 88.1 - - + +
48G VAL* 1.3 62.8 + - - +
50G PRO* 4.4 1.6 - - - -
51G PRO* 4.0 4.9 - - - +
----------------------------------------------------------
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Residues in contact with VAL 48 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
322C GLN* 4.9 2.2 - - - +
326C TRP* 3.5 47.2 - - + +
44G CYS* 3.0 37.5 + - + +
45G ILE* 5.0 0.9 - - - -
47G ARG* 1.3 81.6 - - + +
49G ALA* 1.3 64.9 + - - +
50G PRO 3.7 0.2 - - - -
51G PRO* 3.3 14.0 - - - +
52G PHE* 3.3 30.5 - - + -
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Residues in contact with ALA 49 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45G ILE* 2.8 40.3 + - + +
48G VAL* 1.3 72.6 - - - +
50G PRO* 1.4 66.7 - - + +
52G PHE* 3.0 18.1 + - - +
53G VAL* 3.1 21.1 + - + +
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Residues in contact with PRO 50 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45G ILE 3.2 13.2 - - - +
46G LEU* 3.6 28.7 - - + +
48G VAL 3.7 0.7 - - - -
49G ALA* 1.4 88.3 - - + +
51G PRO* 1.3 74.3 - - + +
53G VAL* 3.1 14.1 + - + +
54G ALA* 3.0 21.6 + - - +
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Residues in contact with PRO 51 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
323C CYS* 3.9 11.9 - - + +
326C TRP* 3.5 33.9 - - + +
327C ALA* 3.7 26.2 - - + +
330C ALA* 3.5 12.0 - - + +
46G LEU 5.5 0.2 - - - +
47G ARG 4.0 6.3 - - - +
48G VAL 3.3 9.9 - - - +
50G PRO* 1.3 97.2 - - + +
52G PHE* 1.3 61.7 + - + +
54G ALA* 3.3 8.8 + - + +
55G PHE 3.2 15.8 + - - -
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Residues in contact with PHE 52 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
326C TRP* 3.6 28.7 - + - -
329C VAL* 3.7 30.7 - - + -
330C ALA* 4.3 11.0 - - + -
333C LEU* 4.3 27.4 - - + -
48G VAL* 3.3 32.1 - - + -
49G ALA* 3.0 9.0 + - - +
51G PRO* 1.3 80.5 - - + +
53G VAL* 1.4 61.4 + - + +
55G PHE* 3.0 11.6 + + - +
56G TYR* 2.8 26.1 + - - +
----------------------------------------------------------
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Residues in contact with VAL 53 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49G ALA* 3.1 19.8 + - + +
50G PRO* 3.1 14.7 + - + +
52G PHE* 1.4 74.5 - - + +
54G ALA* 1.3 69.1 + - + +
56G TYR* 2.9 12.1 + - + +
57G LEU* 2.8 41.0 + - + +
----------------------------------------------------------
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Residues in contact with ALA 54 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50G PRO 3.0 11.8 + - - +
51G PRO* 3.4 12.8 - - + +
52G PHE 3.2 0.2 - - - -
53G VAL* 1.3 79.8 - - + +
55G PHE* 1.3 55.9 + - - +
57G LEU* 3.6 9.5 + - - +
58G VAL* 2.9 36.8 + - + +
----------------------------------------------------------
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Residues in contact with PHE 55 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
330C ALA* 4.2 11.4 - - + +
333C LEU* 3.8 34.8 - - + -
334C THR* 3.3 50.9 - - + +
337C TRP* 4.0 22.2 - + + -
51G PRO 3.2 10.8 + - - +
52G PHE* 3.0 15.0 + + - +
54G ALA* 1.3 73.1 - - - +
56G TYR* 1.3 62.3 + - + +
58G VAL* 2.9 6.8 + - + +
59G TYR* 2.6 56.7 + + + +
----------------------------------------------------------
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Residues in contact with TYR 56 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52G PHE 2.8 16.7 + - - +
53G VAL* 2.9 15.7 + - + +
55G PHE* 1.3 80.9 - - + +
57G LEU* 1.3 81.1 + - + +
59G TYR* 3.5 7.3 + + - +
60G THR* 3.0 44.1 + - + +
----------------------------------------------------------
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Residues in contact with LEU 57 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53G VAL* 2.8 34.3 + - + +
54G ALA* 3.8 7.4 - - - +
56G TYR* 1.3 92.5 - - + +
58G VAL* 1.3 66.2 + - + +
59G TYR 3.1 0.3 + - - -
60G THR* 3.2 7.4 + - - +
61G TRP* 3.0 27.1 + - - +
----------------------------------------------------------
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Residues in contact with VAL 58 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
334C THR* 4.9 6.7 - - + +
337C TRP* 3.5 5.3 - - + -
350C ILE* 3.5 33.0 - - + -
54G ALA* 2.9 25.7 + - + +
55G PHE* 2.9 6.9 + - - +
57G LEU* 1.3 75.6 - - + +
59G TYR* 1.3 56.9 + - - +
61G TRP* 4.1 9.6 - - + +
62G GLY* 2.9 27.2 + - - -
----------------------------------------------------------
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Residues in contact with TYR 59 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
337C TRP* 3.4 52.1 - + + -
55G PHE* 2.6 42.0 + + + +
56G TYR* 3.6 7.9 - + - +
58G VAL* 1.3 72.4 - - - +
60G THR* 1.3 80.9 + - + +
62G GLY 3.5 0.2 + - - -
63G THR* 2.8 46.7 + - + +
----------------------------------------------------------
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Residues in contact with THR 60 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56G TYR* 3.0 37.3 + - + +
57G LEU* 3.2 13.3 + - - +
59G TYR* 1.3 94.7 - - + +
61G TRP* 1.3 63.4 + - - +
63G THR* 3.5 4.7 + - - -
64G GLN* 3.1 32.1 + - - +
----------------------------------------------------------
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Residues in contact with TRP 61 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
345C HIS* 5.6 2.9 - + - -
346C PRO* 4.2 17.7 - - + -
350C ILE* 5.1 8.5 - - + -
57G LEU 3.0 17.6 + - - +
58G VAL* 4.1 9.9 - - + +
60G THR* 1.3 77.9 + - - +
62G GLY* 1.3 84.3 + - - +
64G GLN* 3.0 13.5 + - + +
65G GLU* 2.9 60.0 + - + +
----------------------------------------------------------
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Residues in contact with GLY 62 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
337C TRP* 4.3 7.4 - - - -
346C PRO* 3.2 28.8 - - - +
347C TYR* 3.6 9.0 - - - -
350C ILE* 5.8 1.8 - - - -
58G VAL 2.9 20.4 + - - -
59G TYR 3.8 1.3 - - - -
60G THR 3.3 0.2 - - - -
61G TRP* 1.3 94.2 - - - +
63G THR* 1.3 58.2 + - - +
66G PHE* 3.4 7.4 + - - +
----------------------------------------------------------
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Residues in contact with THR 63 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
337C TRP* 4.2 6.6 + - - -
347C TYR* 3.6 16.9 + - - +
59G TYR* 2.8 36.8 + - + +
60G THR* 3.8 6.5 - - - -
61G TRP 3.2 0.2 - - - -
62G GLY* 1.3 74.4 - - - +
64G GLN* 1.3 66.5 + - - +
66G PHE* 3.3 6.7 + - + +
67G GLU* 3.1 39.7 + - + +
----------------------------------------------------------
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Residues in contact with GLN 64 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60G THR* 3.1 21.4 + - - +
61G TRP* 3.0 14.2 + - + +
63G THR* 1.3 76.9 - - - +
65G GLU* 1.3 63.1 + - - +
67G GLU* 4.1 4.2 - - - +
68G LYS* 3.0 40.3 + - + +
----------------------------------------------------------
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Residues in contact with GLU 65 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
345C HIS* 3.6 35.0 + - + +
346C PRO* 3.7 13.5 - - + -
61G TRP* 2.9 45.3 + - + +
64G GLN* 1.3 76.4 - - - +
66G PHE* 1.3 57.2 + - - +
68G LYS* 3.8 4.8 - - - +
69G SER* 2.9 35.7 + - - -
----------------------------------------------------------
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Residues in contact with PHE 66 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
341C GLN* 5.5 2.9 - - - -
342C PRO* 4.9 14.1 - - + -
344C GLU* 4.2 31.6 - - + -
345C HIS* 5.0 2.2 - - + -
346C PRO* 3.4 19.8 - - + +
347C TYR* 3.6 39.5 - + + +
62G GLY 3.4 17.5 + - - +
63G THR* 3.3 7.4 + - + +
64G GLN 3.3 0.2 - - - -
65G GLU* 1.3 78.0 - - - +
67G GLU* 1.3 75.9 + - + +
69G SER* 3.2 17.3 + - - -
70G LYS* 3.6 30.8 + - + +
----------------------------------------------------------
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Residues in contact with GLU 67 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6D HIS* 5.7 4.2 + - - -
63G THR* 3.1 30.2 + - + +
64G GLN* 4.2 3.6 - - - +
66G PHE* 1.3 89.7 - - + +
68G LYS* 1.3 64.9 + - + +
69G SER 3.2 2.3 + - - -
70G LYS* 3.7 12.5 + - - +
71G ARG* 4.0 14.6 + - - +
----------------------------------------------------------
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Residues in contact with LYS 68 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64G GLN* 3.0 31.4 + - + +
65G GLU* 4.0 5.2 - - - +
67G GLU* 1.3 77.1 - - - +
69G SER* 1.3 60.9 + - - +
70G LYS 3.4 0.4 + - - -
71G ARG* 3.7 35.6 - - - +
----------------------------------------------------------
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Residues in contact with SER 69 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
345C HIS* 4.6 22.0 + - - +
65G GLU* 2.9 22.9 + - - -
66G PHE* 3.4 8.7 - - - -
67G GLU 3.2 0.6 - - - -
68G LYS* 1.3 74.9 - - - +
70G LYS* 1.3 59.1 + - - +
71G ARG 3.1 17.4 + - - +
----------------------------------------------------------
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Residues in contact with LYS 70 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
344C GLU* 3.2 35.6 + - - -
2D ASP* 3.3 35.5 + - + +
3D LEU* 3.2 33.7 - - + +
66G PHE* 3.6 32.9 + - + +
67G GLU* 3.7 9.3 + - - +
68G LYS 3.4 1.0 - - - -
69G SER* 1.3 75.0 - - - +
71G ARG* 1.3 60.9 + - - +
----------------------------------------------------------
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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