Contacts of the helix formed by residues 73 - 108 (chain C) in PDB entry 4CKG
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 GLU 73 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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71C PRO 3.7 1.4 + - - -
72C PRO* 1.4 71.8 - - - +
74C PRO* 1.4 78.7 - - - +
75C MET* 4.4 9.7 + - + +
76C MET* 3.0 16.1 + - + +
77C ALA* 3.2 9.8 + - - +
223C GLN* 4.6 10.0 + - + -
227C LEU* 3.7 31.0 - - + +
185D LYS* 2.7 38.8 + - + +
189D MET* 3.9 30.5 - - + -
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Residues in contact with PRO 74 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72C PRO* 4.2 5.6 - - + +
73C GLU* 1.4 95.6 - - - +
75C MET* 1.3 62.8 + - - +
77C ALA* 3.1 19.2 + - + +
78C GLU* 3.2 12.5 + - - +
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Residues in contact with MET 75 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73C GLU* 3.1 6.1 + - + +
74C PRO* 1.3 77.5 - - - +
76C MET* 1.3 57.0 + - - +
78C GLU* 3.7 4.7 + - - +
79C CYS* 3.0 46.8 + - - -
216C TYR* 6.1 0.9 - - - -
219C GLU* 3.9 47.3 - - - +
220C LEU* 4.1 7.9 - - + -
223C GLN* 4.0 33.4 - - + +
189D MET* 6.4 0.4 - - + -
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Residues in contact with MET 76 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67C ALA* 4.3 18.8 - - + -
73C GLU* 3.0 13.1 + - + +
75C MET* 1.3 78.8 - - - +
77C ALA* 1.4 56.7 + - - +
79C CYS* 5.0 0.2 - - - -
80C LEU* 2.7 70.1 + - + +
83C PHE* 5.2 1.3 - - - -
220C LEU* 3.7 28.0 - - + -
188D ILE* 5.3 0.2 - - + -
189D MET* 3.9 52.0 - - + +
192D VAL* 4.3 15.3 - - + -
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Residues in contact with ALA 77 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73C GLU 3.2 10.0 + - - +
74C PRO* 3.1 14.9 + - + +
76C MET* 1.4 76.9 - - - +
78C GLU* 1.4 58.6 + - - +
80C LEU* 4.5 4.0 - - - +
81C GLU* 3.3 25.5 + - - +
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Residues in contact with GLU 78 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74C PRO 3.2 12.3 + - - +
75C MET* 4.3 4.9 - - - +
77C ALA* 1.4 76.0 - - - +
79C CYS* 1.4 66.3 + - - +
80C LEU 3.3 0.3 + - - -
81C GLU* 3.4 9.0 + - + +
82C LYS* 3.1 44.6 + - + +
216C TYR* 4.4 12.3 + - + -
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Residues in contact with CYS 79 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75C MET* 3.0 41.6 + - - +
76C MET 4.0 0.4 - - - +
78C GLU* 1.4 76.5 - - - +
80C LEU* 1.4 51.6 + - - +
82C LYS* 3.1 10.7 + - - +
83C PHE* 2.8 47.2 + - + -
216C TYR* 3.7 45.1 - - + -
219C GLU* 5.0 0.4 - - - -
220C LEU* 3.9 22.4 - - + -
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Residues in contact with LEU 80 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63C ILE 5.1 1.1 - - - +
64C CYS* 3.6 55.4 - - + +
67C ALA* 4.0 13.0 - - + -
68C ARG* 4.1 20.4 - - + +
76C MET* 2.7 48.5 + - + +
77C ALA* 4.5 4.7 - - - +
79C CYS* 1.4 71.5 - - - +
81C GLU* 1.3 53.2 + - + +
83C PHE* 3.7 9.2 - - + +
84C THR* 2.7 42.2 + - - +
192D VAL* 4.5 15.0 - - + -
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Residues in contact with GLU 81 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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68C ARG* 2.8 32.1 + - - -
77C ALA 3.3 17.5 + - - +
78C GLU* 3.4 11.9 - - + +
80C LEU* 1.3 79.2 - - + +
82C LYS* 1.4 64.0 + - + +
84C THR* 3.9 5.8 - - - +
85C VAL* 3.2 24.9 + - - +
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Residues in contact with LYS 82 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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78C GLU* 3.1 40.2 + - - +
79C CYS* 3.1 9.5 + - - +
81C GLU* 1.4 78.0 - - - +
83C PHE* 1.4 66.5 + - + +
85C VAL* 3.4 8.7 - - - +
86C SER* 3.3 22.4 + - - -
212C ARG* 4.8 13.9 + - + +
213C LEU* 4.7 2.4 - - + +
216C TYR* 3.7 53.2 + - + -
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Residues in contact with PHE 83 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76C MET* 5.2 2.0 - - - -
79C CYS* 2.8 27.0 + - + -
80C LEU* 3.7 15.5 - - + +
82C LYS* 1.4 72.7 - - + +
84C THR* 1.4 53.9 + - - +
86C SER* 3.4 1.6 + - - -
87C LEU* 2.8 50.9 + - + +
213C LEU* 3.8 27.4 - - + -
216C TYR* 3.9 31.4 - - + -
217C ARG* 4.5 6.3 - - - -
220C LEU* 3.9 29.8 - - + -
192D VAL* 3.6 30.5 - - + -
193D LEU* 4.7 7.4 - - + -
196D VAL* 3.8 26.2 - - + -
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Residues in contact with THR 84 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60C VAL* 5.0 3.4 - - + +
61C VAL* 6.4 0.9 - - - -
64C CYS* 3.2 25.6 - - + +
68C ARG* 4.1 15.1 + - - +
80C LEU 2.7 28.0 + - - -
81C GLU* 3.9 8.5 - - - +
82C LYS 3.3 0.2 - - - -
83C PHE* 1.4 69.4 - - - +
85C VAL* 1.3 68.0 + - - +
87C LEU* 3.9 8.2 - - - +
88C ASN* 3.1 44.8 + - - +
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Residues in contact with VAL 85 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81C GLU 3.2 12.6 + - - +
82C LYS* 3.4 15.3 - - + +
84C THR* 1.3 80.2 - - - +
86C SER* 1.4 59.2 + - - +
88C ASN* 3.6 5.0 + - - +
89C HIS* 3.0 30.6 + - + +
212C ARG* 3.6 23.8 - - - +
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Residues in contact with SER 86 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82C LYS 3.4 14.6 - - - -
83C PHE 3.5 2.9 - - - -
85C VAL* 1.4 75.8 - - - +
87C LEU* 1.4 62.9 + - - +
89C HIS* 3.2 9.0 + - - +
90C LYS* 3.1 41.7 + - - +
209C GLU* 2.7 35.0 + - - +
212C ARG* 4.3 1.1 - - - +
213C LEU* 3.7 20.3 - - - +
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Residues in contact with LEU 87 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60C VAL* 4.0 34.2 - - + +
63C ILE* 4.2 22.9 - - + -
64C CYS* 5.0 2.0 - - - -
83C PHE* 2.8 43.3 + - + +
84C THR* 3.9 5.6 - - - +
86C SER* 1.4 71.5 - - - +
88C ASN* 1.3 62.5 + - - +
90C LYS* 3.3 15.5 + - - +
91C LEU* 3.5 17.6 + - - +
213C LEU* 6.3 0.7 - - + -
196D VAL* 4.7 16.4 - - + -
199D GLN* 3.5 35.7 - - - +
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Residues in contact with ASN 88 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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57C ARG* 3.0 39.5 + - - +
60C VAL* 3.7 17.5 - - - +
84C THR* 3.1 39.8 + - - +
85C VAL* 3.7 5.6 - - - +
87C LEU* 1.3 76.0 - - - +
89C HIS* 1.3 58.4 + - - +
91C LEU* 2.8 27.4 + - - +
92C ASP* 3.0 20.2 + - - +
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Residues in contact with HIS 89 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
85C VAL* 3.0 21.6 + - + +
86C SER* 3.3 10.1 - - - +
87C LEU 3.1 0.6 - - - -
88C ASN* 1.3 76.0 - - - +
90C LYS* 1.3 61.8 + - - +
92C ASP* 4.1 5.7 - - + +
93C SER* 3.2 27.5 + - - -
205C GLN* 5.1 23.0 + - + +
208C GLU* 6.0 1.6 - - - -
209C GLU* 2.8 23.7 + - - -
212C ARG* 5.1 2.4 + - - +
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Residues in contact with LYS 90 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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86C SER* 3.1 34.9 + - - +
87C LEU* 3.6 8.7 - - - +
88C ASN 3.3 0.4 - - - -
89C HIS* 1.3 77.0 - - + +
91C LEU* 1.4 59.5 + - + +
93C SER* 3.6 4.7 + - - -
94C HIS* 2.9 30.7 + - - +
202C HIS* 3.5 12.1 - - + -
206C GLY* 4.2 26.2 + - - -
209C GLU* 4.8 6.6 + - - +
210C LEU* 6.1 0.9 - - - -
213C LEU* 4.5 12.4 - - - +
199D GLN* 3.7 28.7 + - - +
200D ALA* 6.0 1.3 - - - +
203D PHE* 3.8 38.4 - - + -
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Residues in contact with LEU 91 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53C LEU* 3.7 25.5 - - + +
56C SER* 3.6 26.2 - - - +
57C ARG* 3.4 59.5 - - + +
60C VAL* 4.7 8.3 - - + -
87C LEU 3.5 14.8 - - - +
88C ASN* 2.8 18.9 + - - +
90C LYS* 1.4 74.9 - - + +
92C ASP* 1.4 51.1 + - - +
94C HIS* 3.1 5.0 + - - -
95C ALA* 2.8 34.8 + - - +
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Residues in contact with ASP 92 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57C ARG* 2.6 41.3 + - - +
88C ASN* 3.0 12.9 + - - +
89C HIS* 4.3 6.2 - - + +
91C LEU* 1.4 72.2 - - - +
93C SER* 1.3 65.6 + - - +
95C ALA* 4.0 7.4 - - - +
96C GLU* 3.2 21.3 + - - +
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Residues in contact with SER 93 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89C HIS* 3.2 21.5 + - - -
90C LYS* 3.6 6.5 - - - -
92C ASP* 1.3 78.0 - - - +
94C HIS* 1.4 55.6 + - - +
95C ALA 3.3 0.2 + - - -
96C GLU* 3.3 13.9 + - - +
97C LEU* 3.0 24.4 + - - +
202C HIS* 2.9 30.1 + - - +
205C GLN* 3.0 31.1 + - - +
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Residues in contact with HIS 94 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52C TYR* 5.6 1.1 - + - -
53C LEU* 3.7 28.3 - - + -
90C LYS 2.9 20.7 + - - +
91C LEU* 3.1 4.4 + - + +
93C SER* 1.4 72.0 - - - +
95C ALA* 1.4 56.8 + - - +
97C LEU* 3.1 37.4 + - + +
98C LEU* 3.2 11.4 + - + +
202C HIS* 3.1 35.9 + + + +
203C PHE* 5.9 2.2 - + - -
52D TYR* 2.8 41.3 + + - -
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Residues in contact with ALA 95 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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50C ARG* 5.6 1.3 + - + -
53C LEU* 3.8 15.0 - - + -
57C ARG* 5.4 2.7 - - - +
91C LEU 2.8 17.6 + - - +
92C ASP* 4.0 12.1 - - - +
93C SER 3.2 0.2 - - - -
94C HIS* 1.4 75.5 - - - +
96C GLU* 1.4 55.9 - - - +
98C LEU* 3.2 10.8 + - - +
99C ASP* 3.2 29.1 + - - +
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Residues in contact with GLU 96 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92C ASP 3.2 13.2 + - - +
93C SER* 3.3 17.9 + - - +
95C ALA* 1.4 70.8 - - - +
97C LEU* 1.4 58.2 + - - +
99C ASP* 3.2 8.8 + - + +
100C ALA* 2.8 34.4 + - + +
205C GLN* 4.8 12.0 + - - +
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Residues in contact with LEU 97 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93C SER 3.0 12.7 + - - +
94C HIS* 3.1 27.8 + - + +
96C GLU* 1.4 75.1 - - - +
98C LEU* 1.3 55.9 + - + +
100C ALA* 3.4 7.7 - - - +
101C THR* 2.7 44.0 + - - +
198C ALA* 3.9 28.0 - - + +
199C GLN* 4.3 9.2 - - + +
202C HIS* 3.8 32.5 - - + -
52D TYR* 4.4 17.0 - - - +
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Residues in contact with LEU 98 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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45C LEU* 4.0 21.3 - - + +
46C LEU* 3.1 30.0 - - + +
49C GLY* 3.5 32.5 - - - +
50C ARG* 3.6 25.4 - - + +
53C LEU* 4.3 15.0 - - + -
94C HIS* 3.2 7.7 + - + +
95C ALA* 3.2 10.5 + - - +
97C LEU* 1.3 76.1 - - + +
99C ASP* 1.3 62.1 + - - +
101C THR* 3.0 8.8 + - - +
102C GLN* 2.8 26.5 + - - +
52D TYR* 4.0 21.1 - - + +
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Residues in contact with ASP 99 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50C ARG* 2.7 35.8 + - - +
95C ALA 3.2 13.1 + - - +
96C GLU* 3.8 11.6 - - + +
98C LEU* 1.3 77.9 - - - +
100C ALA* 1.3 58.1 + - - +
102C GLN* 3.4 6.6 + - - +
103C HIS* 2.9 29.7 + - - +
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Residues in contact with ALA 100 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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96C GLU* 2.8 20.1 + - + +
97C LEU* 3.4 10.3 - - - +
99C ASP* 1.3 73.2 - - - +
101C THR* 1.3 62.9 + - - +
103C HIS* 3.4 7.4 + - - +
104C THR* 3.0 26.2 + - - +
198C ALA* 4.6 15.0 - - + -
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Residues in contact with THR 101 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42C GLY* 5.6 2.7 - - - +
45C LEU* 5.0 9.8 - - + +
46C LEU* 3.9 14.4 - - + -
97C LEU* 2.7 31.9 + - - +
98C LEU* 3.0 11.2 + - + +
100C ALA* 1.3 73.1 - - - +
102C GLN* 1.3 62.7 + - - +
104C THR* 3.2 7.6 - - + +
105C LEU* 3.2 25.0 + - + +
191C PHE* 5.0 1.3 - - + -
195C LEU* 4.1 25.5 - - + +
198C ALA* 5.7 2.0 - - - +
59D PHE* 4.6 14.1 - - + -
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Residues in contact with GLN 102 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43C THR* 5.9 2.0 - - - +
46C LEU* 3.7 26.7 - - + +
50C ARG* 2.6 42.9 + - - +
98C LEU 2.8 16.3 + - - +
99C ASP* 3.6 8.3 - - - +
101C THR* 1.3 72.1 - - - +
103C HIS* 1.3 61.9 + - - +
105C LEU* 3.5 7.1 - - + +
106C GLN* 3.2 20.7 + - - +
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Residues in contact with HIS 103 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148A ARG* 6.1 1.1 - - - -
151A GLU* 4.6 18.2 + - + +
154A GLU* 5.1 6.3 - - - -
99C ASP 2.9 17.2 + - - +
100C ALA* 3.6 8.0 + - - +
101C THR 3.3 0.2 - - - -
102C GLN* 1.3 74.5 - - - +
104C THR* 1.4 63.6 + - - +
106C GLN* 3.2 9.8 + - + +
107C GLN* 2.9 57.4 + - + +
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Residues in contact with THR 104 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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100C ALA 3.0 14.8 + - - +
101C THR* 3.2 23.6 - - + +
103C HIS* 1.4 75.8 + - - +
105C LEU* 1.4 56.6 + - - +
107C GLN* 4.4 2.0 - - - -
108C GLN* 2.8 56.5 + - - +
191C PHE* 3.3 23.1 - - + -
194C ARG* 3.3 35.9 - - + +
195C LEU* 4.7 6.7 - - + +
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Residues in contact with LEU 105 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38C LEU 4.3 15.5 - - - +
39C LEU* 3.8 39.9 - - + +
42C GLY* 4.3 18.8 - - - -
43C THR* 4.6 8.3 - - + +
46C LEU* 4.9 7.9 - - + -
101C THR* 3.2 19.1 + - + +
102C GLN* 3.5 7.4 - - + +
104C THR* 1.4 76.4 - - - +
106C GLN* 1.4 56.9 + - - +
109C ILE* 3.3 12.7 + - + +
110C GLN* 3.0 26.9 + - - +
191C PHE* 3.5 25.8 - - + -
59D PHE* 4.9 3.1 - - + -
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Residues in contact with GLN 106 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140A HIS* 6.5 0.4 - - + -
102C GLN* 3.2 12.7 + - + +
103C HIS* 3.2 13.7 + - + +
105C LEU* 1.4 74.2 - - - +
107C GLN* 1.4 63.6 + - - +
108C GLN 3.3 0.7 + - - -
110C GLN* 3.8 27.8 - - - +
111C THR* 3.0 25.3 + - - -
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Residues in contact with GLN 107 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154A GLU* 2.7 40.3 + - - +
103C HIS* 2.9 39.7 + - + +
104C THR* 4.4 1.4 - - - -
106C GLN* 1.4 71.0 - - - +
108C GLN* 1.4 85.9 + - - +
111C THR* 2.8 23.8 + - - +
190C GLU* 4.8 3.3 - - - +
194C ARG* 5.2 8.8 + - - -
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Residues in contact with GLN 108 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104C THR* 2.8 36.7 + - - +
107C GLN* 1.4 109.5 + - - +
109C ILE* 1.4 66.3 + - + +
110C GLN 3.5 1.8 - - - -
111C THR* 3.4 3.9 + - - -
112C LEU* 3.0 29.5 + - - +
187C ASP* 4.2 28.3 + - + +
190C GLU* 3.4 29.5 + - + -
191C PHE* 3.8 26.0 - - + +
194C ARG* 4.1 5.7 - - - +
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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