Contacts of the helix formed by residues 144 - 177 (chain A) in PDB entry 3CRK
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 ASP 144 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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74A ARG* 5.6 4.2 + - - -
137A TYR* 3.3 9.5 + - - -
141A TYR* 5.5 2.9 - - - +
143A ASP* 1.3 76.2 - - - +
145A PRO* 1.4 75.4 - - + +
146A VAL* 3.1 24.7 + - + +
147A SER* 2.7 32.5 + - - -
148A ASN* 3.1 23.4 + - - +
386A GLN* 5.1 3.4 - - - +
151D ARG* 5.5 4.9 - - - +
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Residues in contact with PRO 145 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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143A ASP* 4.6 3.6 - - - +
144A ASP* 1.4 85.4 - - + +
146A VAL* 1.3 55.8 + - + +
148A ASN* 3.8 6.9 + - + +
149A GLN* 3.1 32.9 + - - +
386A GLN* 3.9 26.0 - - + +
151D ARG* 4.7 18.6 - - - +
153D GLU* 5.7 0.4 - - - +
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Residues in contact with VAL 146 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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144A ASP* 3.4 20.0 - - + +
145A PRO* 1.3 75.6 - - + +
147A SER* 1.3 66.0 + - - +
149A GLN* 3.3 12.7 + - - +
150A ASN* 3.2 28.5 + - - +
384A THR* 4.0 12.9 + - - +
385A ILE* 3.7 13.9 - - - +
386A GLN* 3.4 46.0 - - + +
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Residues in contact with SER 147 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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72A PRO* 3.7 27.0 - - - +
74A ARG* 5.6 2.5 - - - -
137A TYR* 2.7 28.6 + - - -
144A ASP* 2.7 26.9 + - - -
146A VAL* 1.3 77.5 - - - +
148A ASN* 1.3 65.1 + - - +
150A ASN* 3.2 7.4 + - - +
151A ILE* 3.0 33.8 + - - +
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Residues in contact with ASN 148 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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137A TYR* 4.4 0.9 - - - -
143A ASP* 3.1 36.4 + - - +
144A ASP 3.1 14.8 + - - +
145A PRO* 3.9 7.0 - - + +
147A SER* 1.3 86.5 + - - +
149A GLN* 1.3 62.1 + - - +
151A ILE* 3.4 9.0 + - - +
152A GLN* 3.1 25.3 + - - +
307A MET* 3.1 43.5 - - + +
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Residues in contact with GLN 149 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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145A PRO* 3.1 23.3 + - - +
146A VAL* 3.4 12.1 - - - +
147A SER 3.2 0.2 - - - -
148A ASN* 1.3 76.4 - - - +
150A ASN* 1.3 61.1 + - - +
152A GLN* 3.7 5.6 + - - +
153A TYR* 3.2 26.7 + - - +
384A THR* 4.5 23.2 - - + +
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Residues in contact with ASN 150 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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70A LEU 5.3 1.0 + - - -
71A LEU* 6.1 0.7 - - - -
72A PRO* 4.4 20.4 - - + +
146A VAL* 3.2 14.1 + - - +
147A SER* 3.7 7.4 - - - +
149A GLN* 1.3 78.2 - - - +
151A ILE* 1.3 59.2 + - - +
153A TYR* 3.8 6.1 - - - +
154A PHE* 2.9 31.9 + - - +
381A HIS 3.2 22.4 - - - +
382A TYR* 3.7 40.8 + - + +
384A THR* 3.2 16.5 + - - +
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Residues in contact with ILE 151 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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71A LEU* 5.9 3.6 - - + -
72A PRO* 4.8 6.5 - - + -
75A VAL* 3.9 23.6 - - + -
134A VAL* 4.3 19.3 - - + -
137A TYR* 3.6 34.5 - - + -
147A SER* 3.0 28.4 + - - +
148A ASN* 3.4 8.9 + - - +
150A ASN* 1.3 73.0 - - - +
152A GLN* 1.3 61.9 + - - +
154A PHE* 3.4 6.7 + - + +
155A LEU* 2.9 52.6 + - + +
306A TYR* 5.5 0.9 - - + -
307A MET* 4.1 13.5 - - + -
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Residues in contact with GLN 152 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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148A ASN 3.1 17.1 + - - +
149A GLN* 3.7 7.0 - - - +
151A ILE* 1.3 75.5 - - - +
153A TYR* 1.3 66.6 + - - +
155A LEU* 4.0 1.0 - - - +
156A ASP* 3.3 33.6 + - - +
304A PHE 3.1 18.2 - - - +
305A SER* 3.2 14.4 - - - +
306A TYR* 3.0 47.6 - - - +
307A MET* 4.5 5.0 - - + +
334A ARG* 5.4 2.3 + - - -
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Residues in contact with TYR 153 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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149A GLN 3.2 15.4 + - - +
150A ASN* 3.8 5.8 - - - +
152A GLN* 1.3 80.7 - - - +
154A PHE* 1.3 62.3 + - - +
156A ASP* 3.9 3.9 + - - +
157A ARG* 3.2 55.9 + - - +
378A ALA* 3.8 5.5 - - - -
381A HIS* 3.4 48.7 + + + +
382A TYR* 3.8 27.8 - + - -
390B ASP* 2.4 43.3 + - - -
391B TRP* 5.6 2.0 - + - -
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Residues in contact with PHE 154 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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64A ILE* 4.4 3.6 - - + -
67A GLU* 3.9 14.4 - - + -
68A ILE* 3.7 43.3 - - + -
71A LEU* 3.8 26.2 - - + -
130A MET* 4.2 13.5 - - + -
150A ASN 2.9 19.9 + - - +
151A ILE* 3.7 6.5 - - + +
153A TYR* 1.3 77.4 - - - +
155A LEU* 1.3 73.4 + - + +
157A ARG* 3.0 7.0 + - - +
158A PHE* 2.7 63.5 + + + +
382A TYR* 3.6 28.5 - - + +
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Residues in contact with LEU 155 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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130A MET* 3.6 32.1 - - + -
134A VAL* 3.8 16.6 - - + -
151A ILE* 2.9 39.4 + - + +
152A GLN 3.4 0.2 + - - -
154A PHE* 1.3 86.7 - - + +
156A ASP* 1.3 61.9 + - - +
158A PHE* 4.2 3.1 - - + -
159A TYR* 2.8 50.4 + - + +
306A TYR* 3.5 47.3 - - + -
328A TYR* 4.4 2.2 - - + +
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Residues in contact with ASP 156 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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152A GLN* 3.3 22.1 + - - +
153A TYR* 4.1 5.2 - - - +
154A PHE 3.4 0.2 - - - -
155A LEU* 1.3 75.2 - - - +
157A ARG* 1.3 60.5 + - + +
160A LEU* 3.1 32.2 + - - +
304A PHE 5.2 0.9 - - - +
306A TYR* 2.7 38.7 + - - -
331A PRO* 5.2 1.4 - - - +
334A ARG* 4.7 13.2 + - - -
335A LEU* 3.7 21.8 - - + +
338A LYS* 4.8 6.8 + - - -
391B TRP* 4.5 9.2 - - + -
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Residues in contact with ARG 157 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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64A ILE* 3.9 5.6 - - + -
67A GLU* 2.7 43.2 + - - +
153A TYR* 3.2 48.8 + - + +
154A PHE 3.0 5.7 + - - +
156A ASP* 1.3 75.6 - - + +
158A PHE* 1.3 59.5 + - - +
161A SER* 2.8 31.7 + - - -
372A PRO* 3.5 22.4 - - + +
373A VAL 2.8 24.9 + - - -
378A ALA* 3.5 8.7 - - - +
382A TYR* 4.5 0.2 - - - -
390B ASP* 3.1 32.7 + - - -
391B TRP* 3.6 35.4 - - + +
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Residues in contact with PHE 158 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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64A ILE* 3.7 20.8 - - + +
68A ILE* 4.2 11.7 - - + -
84A VAL* 3.8 6.3 - - + -
88A TYR* 3.5 28.6 + + - -
126A VAL* 3.5 34.1 - - + -
130A MET* 3.7 36.3 - - + -
154A PHE* 2.7 50.0 + + + +
155A LEU* 3.4 3.8 + - + +
157A ARG* 1.3 74.5 - - - +
159A TYR* 1.3 75.7 + + - +
161A SER* 3.5 2.6 - - - -
162A ARG* 2.9 27.9 + - + +
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Residues in contact with TYR 159 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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127A VAL* 3.2 55.1 + - + -
130A MET* 3.5 18.1 - - + +
131A ALA 3.7 0.9 + - - -
155A LEU* 2.8 36.8 + - + +
158A PHE* 1.3 93.2 - + - +
160A LEU* 1.3 58.8 + - - +
162A ARG* 3.4 5.7 - - + +
163A ILE* 3.0 35.7 + - + +
306A TYR* 3.7 31.9 - + - -
328A TYR* 3.5 24.9 - + - -
332A ILE* 4.2 11.9 - - + -
335A LEU* 3.4 14.6 - - + -
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Residues in contact with LEU 160 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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156A ASP 3.1 15.6 + - - +
157A ARG 3.9 2.0 - - - +
159A TYR* 1.3 73.2 - - - +
161A SER* 1.3 66.3 + - - +
163A ILE* 3.4 7.5 + - + +
164A SER* 3.0 23.7 + - - -
335A LEU* 3.4 49.1 - - + +
338A LYS* 4.6 11.0 - - + -
339A TYR* 3.5 34.6 - - + -
370A ARG* 3.9 19.6 - - + +
372A PRO* 4.7 2.7 - - + -
391B TRP* 3.6 33.9 - - + -
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Residues in contact with SER 161 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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60A ARG* 4.2 6.1 + - - +
64A ILE* 3.7 30.7 - - - +
88A TYR* 5.2 1.1 + - - -
157A ARG 2.8 22.1 + - - -
158A PHE 3.5 5.4 - - - -
160A LEU* 1.3 71.7 - - - +
162A ARG* 1.3 57.2 + - - +
164A SER* 2.7 24.9 + - - -
165A ILE* 2.9 33.6 + - - +
372A PRO* 4.2 14.2 - - - +
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Residues in contact with ARG 162 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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88A TYR* 4.1 14.5 + - - +
123A HIS* 3.1 30.3 + - - +
124A ASN 3.4 15.8 + - - -
126A VAL* 3.9 25.4 - - + +
127A VAL* 3.9 26.7 - - + +
158A PHE* 2.9 16.9 + - + +
159A TYR* 3.4 13.5 - - - +
160A LEU 3.2 0.2 - - - -
161A SER* 1.3 72.9 - - - +
163A ILE* 1.3 65.8 + - - +
165A ILE* 3.3 6.0 + - - +
166A ARG* 2.9 68.8 + - - +
336A TYR* 4.8 11.9 + - - -
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Residues in contact with ILE 163 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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159A TYR* 3.0 23.2 + - + +
160A LEU* 3.4 7.6 + - + +
162A ARG* 1.3 80.4 - - - +
164A SER* 1.3 57.5 + - - +
166A ARG* 3.9 6.4 - - - +
167A MET* 3.0 27.2 + - - +
244A HIS* 4.0 5.8 + - + +
332A ILE* 4.6 4.0 - - + +
335A LEU* 4.1 24.5 - - + -
336A TYR* 3.9 58.1 - - + +
339A TYR* 3.7 31.6 - - + -
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Residues in contact with SER 164 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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60A ARG* 3.1 23.4 + - - -
160A LEU 3.0 11.5 + - - -
161A SER* 2.7 19.9 + - - -
163A ILE* 1.3 76.5 - - - +
165A ILE* 1.3 58.1 + - - +
167A MET* 3.4 3.1 + - - +
168A LEU* 3.1 31.4 + - - +
339A TYR* 3.4 17.3 + - - -
371A LEU* 3.3 32.5 - - - +
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Residues in contact with ILE 165 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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57A LEU* 4.3 13.9 - - + -
60A ARG* 4.1 26.2 - - + -
61A LEU* 4.1 32.1 - - + +
88A TYR* 4.6 11.7 - - + +
119A ILE* 5.6 3.8 - - + -
123A HIS* 5.7 5.8 - - + +
161A SER* 2.9 36.3 + - - +
162A ARG* 3.3 5.4 + - + +
164A SER* 1.3 75.2 + - - +
166A ARG* 1.3 60.6 + - - +
168A LEU* 3.3 8.4 + - - +
169A ILE* 3.0 46.1 + - + +
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Residues in contact with ARG 166 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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120A ARG* 3.5 34.0 + - - +
123A HIS* 4.9 0.6 - - - +
124A ASN* 2.9 30.3 + - - -
162A ARG* 2.9 56.0 + - - +
163A ILE* 4.0 5.6 - - - +
165A ILE* 1.3 76.8 - - - +
167A MET* 1.3 56.8 + - - +
169A ILE* 3.5 6.4 + - - -
170A ASN* 2.8 61.2 + - - +
244A HIS* 6.3 1.1 - - - +
336A TYR* 6.2 0.4 - - - +
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Residues in contact with MET 167 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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36A PHE* 4.2 16.2 - - + -
163A ILE 3.0 15.8 + - - +
164A SER 3.4 1.3 - - - +
165A ILE 3.2 0.2 - - - -
166A ARG* 1.3 74.5 - - - +
168A LEU* 1.3 60.5 + - - +
170A ASN* 3.3 6.2 + - - +
171A GLN* 2.9 43.1 + - + +
190A SER* 3.7 24.7 - - - +
191A ILE* 3.7 21.3 - - + -
241A VAL* 3.7 25.6 - - + -
244A HIS* 4.3 17.3 - - + -
339A TYR* 3.3 28.9 - - + +
340A PHE* 4.2 11.9 - - + -
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Residues in contact with LEU 168 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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31A LEU* 4.2 11.9 - - + -
36A PHE* 3.9 25.8 - - + -
52A PHE* 4.4 0.7 - - + -
53A LEU* 3.6 28.9 - - + +
56A GLU* 4.0 8.5 - - + -
57A LEU* 3.8 17.5 - - + -
60A ARG* 3.4 37.5 - - - +
164A SER 3.1 14.3 + - - +
165A ILE* 3.6 7.0 - - - +
167A MET* 1.3 77.8 - - - +
169A ILE* 1.3 61.5 + - - +
171A GLN* 3.3 3.4 + - - +
172A HIS* 3.1 24.3 + - - +
369A GLU* 4.4 1.3 - - - +
173C LA2 3.9 19.3 - - - -
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Residues in contact with ILE 169 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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57A LEU* 4.5 11.4 - - + -
116A LEU* 3.7 51.8 - - + +
119A ILE* 3.7 29.6 - - + -
120A ARG* 4.0 25.4 - - + +
165A ILE* 3.0 33.6 + - + +
166A ARG* 3.9 6.5 - - - +
168A LEU* 1.3 74.8 - - - +
170A ASN* 1.3 58.4 + - - +
172A HIS* 3.4 1.2 + - - -
173A THR* 3.0 39.1 + - + +
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Residues in contact with ASN 170 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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120A ARG* 3.1 31.6 + - - +
166A ARG* 2.8 40.5 + - - +
167A MET* 3.3 7.6 + - - +
169A ILE* 1.3 76.8 - - - +
171A GLN* 1.3 62.8 + - - +
173A THR* 3.8 3.4 - - - -
174A LEU* 3.1 44.0 + - + +
190A SER* 4.6 13.6 - - - +
244A HIS* 6.2 0.6 + - - -
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Residues in contact with GLN 171 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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36A PHE* 3.7 35.1 + - + +
167A MET* 2.9 32.3 + - + +
168A LEU 3.7 4.7 - - - +
169A ILE 3.3 0.2 - - - -
170A ASN* 1.3 76.2 - - - +
172A HIS* 1.3 61.9 + - - +
174A LEU* 4.2 0.3 - - - +
175A ILE* 3.2 43.9 + - + +
188A ILE 3.0 24.5 + - - +
189A GLY* 3.9 2.2 - - - -
190A SER* 2.7 39.8 + - - -
191A ILE* 3.9 7.2 + - - +
173C LA2 3.9 14.6 - - - -
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Residues in contact with HIS 172 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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46A GLU* 4.0 17.2 + - - +
49A SER* 2.9 29.0 - - - +
50A PHE* 4.4 4.2 + - - +
53A LEU* 3.6 24.7 - - + -
109A LEU 4.9 0.4 - - - -
112A PHE* 3.8 24.8 - + - -
113A THR* 3.2 29.8 + - - +
116A LEU* 3.8 18.3 - - + +
168A LEU 3.1 9.1 + - - +
169A ILE 3.9 0.2 - - - +
171A GLN* 1.3 77.3 - - - +
173A THR* 1.3 58.2 + - - +
175A ILE* 5.2 0.2 - - - -
176A PHE* 2.9 49.5 + + + +
173C LA2 4.7 1.7 - - - -
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Residues in contact with THR 173 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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113A THR* 4.1 9.9 - - + -
116A LEU* 4.0 21.5 - - + -
117A VAL* 3.8 28.3 - - + -
120A ARG* 2.9 26.9 + - - +
169A ILE* 3.0 24.2 + - + +
170A ASN 3.5 3.3 + - - -
172A HIS* 1.3 75.3 - - - +
174A LEU* 1.3 65.0 + - - +
177A ASP* 3.0 42.3 + - - +
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Residues in contact with LEU 174 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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120A ARG* 5.7 1.6 - - - +
170A ASN* 3.1 31.4 + - + +
173A THR* 1.3 81.1 + - - +
175A ILE* 1.3 62.8 + - - +
177A ASP 3.7 10.7 - - - +
189A GLY* 3.6 37.9 - - - +
190A SER* 3.7 14.1 - - - +
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Residues in contact with ILE 175 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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36A PHE 5.6 0.4 - - - +
39A PHE* 4.3 25.6 - - + -
40A GLY* 5.4 5.6 - - - -
44A ALA* 4.2 16.1 - - + +
171A GLN* 3.2 41.0 + - + +
174A LEU* 1.3 79.4 - - - +
176A PHE* 1.3 88.2 + - + +
177A ASP 3.6 1.3 + - - +
188A ILE* 4.7 10.8 - - + -
189A GLY 4.1 18.8 - - - +
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Residues in contact with PHE 176 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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39A PHE* 3.6 24.7 - + - -
44A ALA* 3.5 22.2 - - + -
45A CYS 3.4 21.5 - - - -
46A GLU* 3.4 53.9 - - + +
49A SER* 3.9 15.0 - - - -
113A THR* 4.4 5.4 + - - +
172A HIS* 2.9 46.8 + + + +
173A THR 4.0 0.4 - - - -
175A ILE* 1.3 98.9 - - + +
177A ASP* 1.3 60.8 + - - +
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Residues in contact with ASP 177 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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113A THR* 3.7 22.5 - - + +
114A ASP* 5.7 0.7 - - - +
117A VAL* 4.9 8.6 - - - +
120A ARG* 5.7 1.2 + - - -
173A THR* 3.0 27.7 + - - +
174A LEU* 3.7 11.6 - - - +
175A ILE 3.6 1.5 - - - +
176A PHE* 1.3 79.7 - - - +
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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
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Atomic class I II III IV V VI VII VIII
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I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
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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