Contacts of the helix formed by residues 110 - 140 (chain G) in PDB entry 2UX1
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 110 (chain G).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51G ARG 4.9 1.6 - - - -
108G ASN 5.7 0.9 - - - +
109G VAL* 1.3 76.1 - - - +
111G ILE* 1.3 64.4 + - - +
112G GLU* 3.7 16.8 + - - +
113G GLU* 2.7 44.0 + - - +
114G GLN* 2.9 20.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 111 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53D ARG* 3.7 27.1 - - - +
50G MET* 3.4 40.8 - - + -
51G ARG 3.6 19.5 + - - +
52G GLY* 4.2 5.2 - - - -
53G ARG 3.5 21.3 - - - +
54G GLY 4.7 1.1 - - - -
55G PHE 4.3 9.4 - - - +
58G TRP* 4.3 8.3 - - + -
109G VAL 3.9 0.4 + - - -
110G THR* 1.3 72.4 - - - +
112G GLU* 1.3 66.7 + - - +
114G GLN* 3.1 7.6 + - + +
115G LEU* 2.8 45.2 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 112 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53D ARG* 2.9 41.5 + - - +
110G THR* 3.2 16.7 - - - +
111G ILE* 1.3 79.7 + - - +
113G GLU* 1.3 57.7 + - + +
115G LEU 3.5 0.2 + - - -
116G ALA* 3.0 29.3 + - - +
166G LEU* 3.7 28.8 - - + +
173I EPE 5.1 2.3 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 113 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108G ASN 4.3 2.9 - - - +
109G VAL* 3.2 25.9 - - + -
110G THR* 2.7 50.2 + - - +
112G GLU* 1.3 72.4 - - + +
114G GLN* 1.3 65.1 + - - +
116G ALA* 3.4 8.1 + - - +
117G ARG* 3.0 22.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 114 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46G VAL* 3.8 36.9 + - + +
49G TYR* 4.1 9.5 + - - +
50G MET* 3.8 29.5 - - + +
106G ASP 4.3 4.8 + - - -
109G VAL* 3.7 30.4 + - + +
110G THR 2.9 21.6 + - - +
111G ILE* 3.3 15.7 - - + +
113G GLU* 1.3 76.5 - - - +
115G LEU* 1.3 67.7 + - + +
117G ARG* 3.1 18.9 + - - +
118G VAL* 3.1 16.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 115 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53D ARG* 5.2 0.4 - - - +
46G VAL* 5.7 0.2 - - + -
50G MET* 5.2 2.0 - - + -
58G TRP* 3.6 57.2 - - + +
62G MET* 4.3 12.1 - - + -
111G ILE* 2.8 33.3 + - + +
112G GLU 4.1 2.2 - - - +
114G GLN* 1.3 76.4 - - + +
116G ALA* 1.3 59.4 + - - +
118G VAL* 3.2 6.6 + - + +
119G VAL* 2.9 33.3 + - - +
162G LEU* 4.1 14.9 - - + +
165G GLU* 3.7 22.2 - - + -
166G LEU* 4.2 20.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 116 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112G GLU 3.0 19.0 + - - +
113G GLU* 3.6 7.9 - - - +
114G GLN 3.2 0.2 - - - -
115G LEU* 1.3 75.7 - - - +
117G ARG* 1.3 62.8 + - - +
119G VAL* 3.5 6.4 + - - +
120G GLU* 3.1 30.1 + - - +
166G LEU* 4.0 13.6 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 117 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42G ILE* 3.8 32.0 - - + +
46G VAL* 5.2 6.5 - - + -
100G LEU* 5.4 4.6 - - - +
101G LYS* 2.9 36.8 + - - +
103G VAL* 5.7 7.7 - - - +
113G GLU 3.0 13.9 + - - +
114G GLN* 3.1 13.4 + - - +
116G ALA* 1.3 77.6 - - - +
118G VAL* 1.3 62.9 + - + +
120G GLU* 2.8 49.1 + - - +
121G VAL* 3.1 26.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 118 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42G ILE* 6.1 2.0 - - + -
43G LEU* 3.9 17.0 - - + -
46G VAL* 4.3 14.1 - - + -
62G MET* 4.1 24.5 - - + -
65G TYR* 4.4 6.7 - - + -
114G GLN 3.1 15.8 + - - +
115G LEU* 3.2 9.4 + - - +
117G ARG* 1.3 75.0 - - + +
119G VAL* 1.3 63.3 + - - +
121G VAL* 3.3 7.5 + - - +
122G PHE* 2.9 49.7 + - + +
162G LEU* 3.9 16.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 119 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115G LEU 2.9 20.5 + - - +
116G ALA* 3.6 9.2 - - - +
118G VAL* 1.3 75.9 - - - +
120G GLU* 1.3 55.0 + - + +
122G PHE* 3.1 7.1 + - - +
123G ARG* 2.8 63.9 + - + +
159G ILE* 4.4 8.7 - - + +
162G LEU* 3.6 29.8 - - + -
163G GLN* 3.7 27.6 - - + +
166G LEU* 4.4 5.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 120 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100G LEU* 5.6 0.2 - - - -
116G ALA* 3.1 22.0 + - + +
117G ARG* 2.8 41.7 + - - +
119G VAL* 1.3 78.4 - - + +
121G VAL* 1.3 61.9 + - - +
123G ARG* 3.4 10.4 + - - +
124G TYR* 3.1 22.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 121 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39G ALA* 3.7 34.1 - - + +
42G ILE* 3.8 36.3 - - + -
43G LEU* 6.0 2.5 - - + -
100G LEU* 4.1 22.0 - - + -
117G ARG* 3.1 22.9 + - - +
118G VAL* 3.3 8.5 + - - +
120G GLU* 1.3 74.9 - - - +
122G PHE* 1.3 65.8 + - + +
124G TYR* 3.3 4.0 + - - +
125G LEU* 2.9 33.0 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 122 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43G LEU* 4.3 16.6 - - + -
65G TYR* 3.9 28.0 - + + -
69G ILE* 4.8 5.4 - - + -
118G VAL* 2.9 37.0 + - + +
119G VAL 3.6 4.0 - - - +
121G VAL* 1.3 81.1 - - + +
123G ARG* 1.3 65.2 + - - +
125G LEU* 3.1 17.0 + - + +
126G ALA* 2.9 21.7 + - - +
155G ILE* 3.4 30.4 - - + +
158G HIS* 3.7 33.4 - + + -
159G ILE* 3.7 17.5 - - + -
162G LEU* 3.8 20.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 123 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119G VAL* 2.8 38.2 + - + +
120G GLU* 3.7 9.6 - - - +
122G PHE* 1.3 72.0 - - - +
124G TYR* 1.3 62.8 + - - +
126G ALA* 3.8 2.8 - - - +
127G ALA* 3.1 24.0 + - - +
159G ILE* 3.7 20.3 - - + +
163G GLN* 3.2 30.5 + - - +
170G PRO 3.0 21.6 + - - -
171G LYS* 2.7 33.5 + - - +
172G LEU* 4.1 7.4 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 124 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31G GLN* 3.9 3.5 + - - +
35G ASP* 2.6 41.4 + - + -
99G GLN* 3.3 39.2 - - + +
100G LEU* 3.7 29.2 - - + -
120G GLU 3.1 13.2 + - - +
121G VAL 3.4 7.2 - - - +
122G PHE 3.2 0.2 - - - -
123G ARG* 1.3 76.2 - - - +
125G LEU* 1.3 68.6 + - + +
127G ALA* 3.2 9.3 + - + +
128G LEU* 2.9 35.7 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 125 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35G ASP* 4.2 22.2 - - + +
36G LEU* 3.9 31.4 - - + -
39G ALA* 4.1 16.6 - - + -
69G ILE* 4.1 13.5 - - + -
100G LEU* 4.8 1.1 - - + -
121G VAL* 2.9 27.7 + - + +
122G PHE* 3.6 17.3 - - + +
124G TYR* 1.3 85.2 - - + +
126G ALA* 1.3 59.1 + - - +
128G LEU* 3.2 9.0 + - + +
129G PHE* 2.8 50.9 + - + -
155G ILE* 4.6 6.7 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 126 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122G PHE 2.9 19.7 + - - +
123G ARG* 3.8 4.0 - - - +
125G LEU* 1.3 72.5 - - - +
127G ALA* 1.3 58.3 + - - +
129G PHE* 3.4 8.7 + - - +
130G GLN* 2.9 28.6 + - - +
152G LYS* 4.0 10.7 - - + +
155G ILE* 4.1 14.0 - - + +
156G GLU* 4.2 26.9 - - + +
159G ILE* 4.5 6.7 - - + -
172G LEU* 5.9 1.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 127 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123G ARG 3.1 13.4 + - - +
124G TYR* 3.5 12.8 - - + +
126G ALA* 1.3 75.1 - - - +
128G LEU* 1.3 59.5 + - - +
130G GLN* 3.2 9.1 + - - +
131G LYS* 3.0 39.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 128 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28G VAL* 3.9 20.4 - - + +
31G GLN* 3.9 20.2 - - + -
32G ALA* 3.7 27.4 - - + +
35G ASP* 3.3 30.5 - - + +
124G TYR* 2.9 25.3 + - + +
125G LEU* 3.5 14.6 - - + +
127G ALA* 1.3 75.4 - - - +
129G PHE* 1.3 64.5 + - + +
131G LYS* 3.1 21.6 + - + +
132G GLY* 2.8 24.3 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 129 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32G ALA* 4.2 11.9 - - + -
36G LEU* 4.0 24.2 - - + -
72G TYR* 4.7 4.0 - + - -
76G MET* 3.7 24.9 - - + -
125G LEU* 2.8 35.9 + - + +
126G ALA* 3.9 4.0 - - - +
128G LEU* 1.3 84.1 - - + +
130G GLN* 1.3 57.5 + - - +
132G GLY 3.4 0.3 + - - -
133G PHE* 2.9 28.6 + - - +
148G PHE* 3.5 39.9 - + + +
151G ALA* 3.5 27.6 - - + -
152G LYS* 3.8 17.9 - - + +
155G ILE* 4.1 17.5 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 130 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140B GLY 5.3 4.2 + - - -
142B SER* 4.8 4.7 + - - -
126G ALA 2.9 14.3 + - - +
127G ALA* 3.4 12.8 - - - +
128G LEU 3.2 0.2 - - - -
129G PHE* 1.3 77.0 - - - +
131G LYS* 1.3 56.5 + - + +
133G PHE* 3.2 13.6 + - - +
134G ASP* 3.0 67.3 + - - +
152G LYS* 3.0 36.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 131 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22G LEU* 5.4 11.7 - - + -
28G VAL* 4.5 6.1 - - + -
127G ALA* 3.0 25.1 + - - +
128G LEU* 3.2 24.0 - - + +
130G GLN* 1.3 72.6 - - + +
132G GLY* 1.3 64.1 + - - +
134G ASP* 3.3 7.7 + - - +
135G VAL* 3.0 33.3 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 132 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25G SER* 5.1 0.7 + - - -
28G VAL* 3.5 27.3 - - - +
128G LEU 2.8 15.2 + - - -
129G PHE 3.4 2.2 + - - -
131G LYS* 1.3 73.2 - - - +
133G PHE* 1.3 50.6 + - - +
135G VAL* 4.2 0.7 - - - +
136G SER* 2.8 38.3 + - - -
148G PHE* 3.4 21.6 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 133 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140B GLY 5.9 0.4 - - - -
142B SER* 3.3 33.9 - - - -
129G PHE 2.9 14.7 + - - +
130G GLN* 3.4 19.3 - - - +
131G LYS 3.2 0.2 - - - -
132G GLY* 1.3 77.2 - - - +
134G ASP* 1.3 72.5 + - - +
136G SER* 2.8 18.4 + - - -
137G ASP* 3.1 20.3 + - + +
145G ASN* 2.9 55.4 + - - +
148G PHE* 3.9 6.7 - - + +
149G ASN* 3.6 26.5 - - + +
152G LYS* 5.7 3.8 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 134 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130G GLN* 3.0 47.3 + - - +
131G LYS* 3.8 6.4 - - - +
133G PHE* 1.3 81.7 - - - +
135G VAL* 1.3 66.0 + - + +
137G ASP* 3.4 5.3 + - - +
138G GLU* 3.2 23.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 135 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22G LEU* 3.8 19.1 - - + +
23G ALA 3.5 14.1 - - - +
24G ASP* 3.5 34.5 - - - +
25G SER* 3.5 5.4 - - - +
28G VAL* 4.3 8.7 - - + -
131G LYS* 3.0 19.7 + - + +
132G GLY 4.2 2.7 - - - +
134G ASP* 1.3 76.1 - - + +
136G SER* 1.3 65.1 + - - +
137G ASP 3.2 0.5 + - - -
138G GLU* 3.3 6.6 + - - +
139G GLU* 3.1 24.4 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 136 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25G SER* 3.2 20.8 + - - -
132G GLY 2.8 24.0 + - - -
133G PHE 2.8 13.2 + - - -
135G VAL* 1.3 76.4 - - - +
137G ASP* 1.3 55.4 + - - +
139G GLU* 3.5 1.0 + - - +
140G GLY 3.0 6.8 + - - -
141G ASP* 2.7 47.4 + - - +
144G THR* 4.2 7.9 - - - -
145G ASN* 3.1 25.1 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 137 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133G PHE* 3.1 28.7 + - + +
134G ASP* 3.7 7.0 - - - +
135G VAL 3.1 0.2 - - - -
136G SER* 1.3 76.2 + - - +
138G GLU* 1.3 65.7 + - - +
140G GLY* 3.0 14.5 + - - -
141G ASP 5.8 0.4 - - - -
145G ASN* 3.8 17.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 138 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134G ASP 3.2 15.3 + - - +
135G VAL* 3.3 6.0 + - - +
137G ASP* 1.3 76.1 - - - +
139G GLU* 1.3 60.9 + - - +
140G GLY* 3.5 0.3 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 139 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23G ALA 5.6 0.7 - - - +
24G ASP* 3.0 18.2 - - + +
25G SER* 2.4 48.1 + - - +
26G LYS 5.4 0.2 + - - -
83G LEU* 6.0 0.9 - - - +
135G VAL* 3.1 18.1 + - + +
136G SER 3.6 5.4 - - - +
138G GLU* 1.3 76.5 - - + +
140G GLY* 1.3 60.1 + - - +
141G ASP* 4.1 9.0 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 140 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136G SER 3.0 3.6 + - - -
137G ASP* 3.0 14.6 + - - -
138G GLU 3.2 0.4 - - - -
139G GLU* 1.3 79.2 - - - +
141G ASP* 1.3 61.5 + - - +
142G SER* 3.3 9.7 + - - -
130L GLN* 4.9 11.8 + - - +
133L PHE* 5.9 1.1 - - - -
----------------------------------------------------------
Back to top of page
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