Contacts of the helix formed by residues 2202 - 2222 (chain E) in PDB entry 5G1N
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 ALA2202 (chain E).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2062E THR* 4.5 2.2 - - + +
2066E GLU* 3.7 23.3 - - + +
2180E VAL* 4.3 6.1 - - + -
2181E VAL 2.9 16.6 + - - +
2182E MET* 4.6 6.5 - - + -
2200E ARG 3.0 6.1 + - - +
2201E ALA* 1.3 71.0 - - - +
2203E TYR* 1.3 53.7 + - - +
2204E PHE 3.3 3.3 + - - -
2205E ARG* 3.3 27.5 + - - +
2206E GLN* 2.8 35.9 + - - +
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Residues in contact with TYR2203 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2181E VAL* 3.5 32.3 + - + -
2183E HIS* 3.7 31.6 - - + +
2185E MET* 4.4 18.6 - - + +
2187E ARG* 4.2 7.6 - - - -
2191E ILE* 3.5 29.8 - - + +
2195E VAL* 3.6 2.6 - - + +
2196E ASP* 2.6 41.7 + - - -
2201E ALA* 3.4 33.0 - - + +
2202E ALA* 1.3 78.1 - - - +
2204E PHE* 1.3 85.5 + + - +
2206E GLN* 3.5 13.0 - - - +
2207E ALA* 3.4 18.0 + - - +
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Residues in contact with PHE2204 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2185E MET* 5.0 10.1 - - - -
2187E ARG* 4.6 1.3 - - - -
2196E ASP* 4.3 8.7 - - + -
2201E ALA 4.9 1.6 + - - -
2202E ALA 3.3 0.2 - - - -
2203E TYR* 1.3 102.3 - + - +
2205E ARG* 1.3 60.9 + - + +
2206E GLN 3.1 1.6 - - - -
2207E ALA* 2.9 22.1 + - + +
2208E GLU* 3.1 11.5 + - - +
2009F ASP* 3.8 17.7 - - + -
2012F GLN* 3.2 63.5 - - + -
2013F THR* 3.6 21.1 - - - -
2016F CYS* 3.8 17.3 - - - -
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Residues in contact with ARG2205 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2062E THR* 5.3 0.7 - - + -
2066E GLU* 2.7 40.4 + - - +
2198E ASP 5.5 0.2 + - - -
2199E PRO* 3.0 29.7 + - - +
2200E ARG* 4.3 2.4 - - - +
2201E ALA 4.0 7.3 + - - -
2202E ALA* 3.3 30.1 + - - +
2204E PHE* 1.3 77.7 - - + +
2206E GLN* 1.3 59.9 + - - +
2208E GLU* 3.7 6.6 + - - +
2209E ASN* 3.0 37.0 + - - +
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Residues in contact with GLN2206 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2055E GLN* 3.8 9.2 - - - +
2058E LEU* 3.5 17.6 - - + +
2059E ASP* 2.9 26.2 + - - +
2062E THR* 3.7 28.6 - - + +
2143E TYR* 3.7 18.0 - - - -
2182E MET* 3.5 16.6 - - + +
2183E HIS 2.9 36.8 + - - +
2202E ALA 2.8 15.3 + - - +
2203E TYR* 3.5 8.1 - - - +
2205E ARG* 1.3 76.7 - - - +
2207E ALA* 1.3 59.9 + - - +
2209E ASN* 3.3 14.6 - - - +
2210E GLY 3.3 5.4 + - - -
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Residues in contact with ALA2207 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1975E ARG* 4.4 16.4 - - + -
2058E LEU* 5.5 1.8 - - - -
2185E MET* 5.6 2.5 - - + -
2203E TYR 3.4 9.5 + - - +
2204E PHE* 2.9 14.9 + - + +
2206E GLN* 1.3 76.5 - - - +
2208E GLU* 1.3 65.6 + - - +
2210E GLY* 3.1 12.9 + - - -
2013F THR* 4.7 5.2 - - + +
2016F CYS* 4.3 9.9 - - - -
2017F TYR* 3.5 31.2 + - - +
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Residues in contact with GLU2208 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1948E ARG* 3.7 19.8 + - - +
1952E GLN* 5.6 0.9 + - - -
2204E PHE 3.1 10.6 + - - +
2205E ARG* 4.1 8.7 - - - +
2207E ALA* 1.3 73.9 - - - +
2209E ASN* 1.3 64.4 + - - +
2211E MET* 2.9 24.5 + - - +
2212E TYR* 3.7 20.9 + - + -
2015F SER 4.8 0.3 - - - +
2016F CYS* 3.5 46.6 - - + +
2017F TYR* 4.6 1.1 - - - -
2039F ARG* 4.9 8.0 + - - -
2040F ARG* 4.3 16.2 + - - -
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Residues in contact with ASN2209 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1948E ARG* 2.7 29.8 + - - +
2058E LEU* 5.0 2.2 - - + +
2061E PHE* 3.5 29.2 - - + -
2062E THR* 3.1 35.2 + - - +
2065E GLU* 3.8 8.6 + - - +
2066E GLU* 5.8 0.2 + - - -
2205E ARG* 3.0 27.1 + - - +
2206E GLN 3.3 8.5 - - - +
2208E GLU* 1.3 75.7 - - - +
2210E GLY* 1.3 62.9 + - - +
2212E TYR* 3.1 7.8 + - - +
2213E ILE* 3.0 25.8 + - - +
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Residues in contact with GLY2210 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1979E SER* 3.9 6.5 - - - -
2058E LEU* 3.6 31.6 - - - +
2206E GLN 3.3 4.2 + - - -
2207E ALA* 3.1 10.8 + - - -
2209E ASN* 1.3 75.3 - - - +
2211E MET* 1.3 58.4 + - - +
2213E ILE* 3.8 0.6 - - - +
2214E ARG* 2.9 39.5 + - - +
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Residues in contact with MET2211 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1979E SER* 4.0 12.4 + - - +
1982E ALA* 3.7 26.0 - - + -
1983E ALA* 3.7 12.0 - - - +
1986E ARG* 3.4 31.0 - - - +
2207E ALA 3.7 3.6 + - - -
2208E GLU* 2.9 15.4 + - + +
2210E GLY* 1.3 74.7 - - - +
2212E TYR* 1.3 95.1 + - + +
2214E ARG 3.4 1.7 + - - -
2215E MET* 2.9 36.2 + - - +
2016F CYS 3.7 16.6 - - - +
2017F TYR* 3.7 25.1 - - + +
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Residues in contact with TYR2212 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1944E ALA* 3.5 28.1 - - + +
1947E LEU* 4.7 0.9 - - + +
1948E ARG* 3.4 70.0 - - + +
1951E VAL* 3.0 30.6 - - + +
1952E GLN* 4.1 6.1 + - - -
1986E ARG* 5.1 0.7 - - - -
2061E PHE* 6.1 3.6 - - + -
2208E GLU* 3.8 20.7 + - + -
2209E ASN* 3.1 6.7 + - - +
2211E MET* 1.3 101.9 - - + +
2213E ILE* 1.3 64.8 + - - +
2215E MET* 3.4 28.8 + - - +
2216E ALA 3.2 16.3 + - - -
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Residues in contact with ILE2213 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1940E LEU* 4.0 15.4 - - + +
1941E PHE* 3.6 33.0 - - + -
1944E ALA* 3.9 13.2 - - + -
2054E THR 4.5 2.7 - - - +
2057E LEU* 4.4 9.2 - - + +
2058E LEU* 4.1 26.5 - - + +
2061E PHE* 3.7 31.2 - - + -
2209E ASN 3.0 17.8 + - - +
2210E GLY 3.8 3.6 - - - +
2212E TYR* 1.3 77.1 - - + +
2214E ARG* 1.3 66.5 + - + +
2216E ALA* 3.0 7.5 + - - +
2217E LEU* 3.0 30.0 + - + +
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Residues in contact with ARG2214 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1975E ARG* 4.5 5.7 + - - +
1976E THR* 4.3 20.6 + - - +
1979E SER* 2.9 31.7 + - - +
1980E PHE* 3.2 45.8 - - + -
1983E ALA* 3.8 2.9 - - - -
2052E HIS* 4.2 8.7 - - - -
2054E THR* 2.7 44.7 + - - +
2055E GLN* 3.7 12.5 + - - +
2058E LEU* 3.1 24.8 - - - +
2210E GLY* 2.9 16.9 + - - +
2211E MET 3.6 2.9 - - - +
2213E ILE* 1.3 77.5 - - + +
2215E MET* 1.3 62.7 + - - +
2217E LEU* 3.9 15.1 - - + +
2218E LEU* 3.3 29.8 + - - +
2017F TYR* 5.6 0.4 + - - -
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Residues in contact with MET2215 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1947E LEU* 3.6 28.3 - - + -
1951E VAL* 3.6 24.9 - - + -
1957E LEU* 4.5 5.2 - - + -
1983E ALA* 3.4 25.6 - - + +
1986E ARG* 4.1 23.1 - - + -
1987E LEU* 3.7 23.2 - - + +
2211E MET* 2.9 16.9 + - - +
2212E TYR* 3.5 37.7 - - - +
2213E ILE 3.2 0.4 - - - -
2214E ARG* 1.3 76.7 - - - +
2216E ALA* 1.3 59.5 + - - +
2218E LEU 3.3 1.0 + - - -
2219E ALA* 3.0 30.0 + - - +
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Residues in contact with ALA2216 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1940E LEU* 3.5 33.9 - - + +
1943E VAL* 4.0 9.2 - - + -
1944E ALA* 3.7 16.6 - - + +
1947E LEU* 3.6 8.5 - - - +
2212E TYR 3.2 5.9 + - - +
2213E ILE 3.0 10.2 + - - +
2215E MET* 1.3 79.3 - - - +
2217E LEU* 1.3 50.3 + - - +
2219E ALA* 3.8 0.6 - - - +
2220E THR* 2.7 41.6 + - - +
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Residues in contact with LEU2217 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1921E LEU* 4.8 5.8 - - + -
1926E ILE* 4.6 15.5 - - + -
1932E PHE* 5.5 1.1 - - + -
1940E LEU* 3.7 17.2 - - + +
1980E PHE* 4.2 8.5 - - + -
2043E ILE* 4.6 10.8 - - + -
2054E THR* 3.3 37.9 - - + -
2057E LEU* 4.6 15.0 - - + -
2213E ILE* 3.0 14.0 + - + +
2214E ARG* 3.9 21.5 - - + +
2215E MET 3.3 0.2 - - - -
2216E ALA* 1.3 72.2 - - - +
2218E LEU* 1.3 60.3 + - + +
2220E THR* 3.0 3.7 + - - +
2221E VAL* 2.7 53.0 + - + +
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Residues in contact with LEU2218 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1960E LEU* 4.0 15.9 - - + -
1965E MET* 4.4 8.5 - - - -
1980E PHE* 4.0 27.8 - - + +
1983E ALA* 4.0 2.7 - - + -
1984E MET* 3.6 49.6 - - + +
1987E LEU* 4.0 1.6 - - + -
2020E VAL* 4.0 27.8 - - + -
2022E VAL* 5.1 0.7 - - + -
2043E ILE* 4.6 5.2 - - + -
2214E ARG 3.3 18.4 + - - +
2215E MET 3.3 4.9 + - - +
2217E LEU* 1.3 78.7 - - - +
2219E ALA* 1.3 63.6 + - - +
2221E VAL* 4.8 2.2 - - - -
2222E LEU* 3.1 31.5 + - + +
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Residues in contact with ALA2219 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1943E VAL* 5.0 0.4 - - + -
1947E LEU* 4.5 3.8 - - + -
1960E LEU* 4.4 6.0 - - - +
1987E LEU* 4.4 15.3 - - + -
2215E MET 3.0 17.3 + - - +
2216E ALA* 3.8 7.4 - - - +
2218E LEU* 1.3 78.1 - - - +
2220E THR* 1.3 55.7 + - + +
2222E LEU 3.5 0.2 + - - -
2223E GLY 3.3 3.6 + - - -
2224E ARG* 2.7 45.7 + - + +
2225E PHE* 4.0 24.5 - - + -
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Residues in contact with THR2220 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1921E LEU* 4.4 16.4 - - + +
1922E VAL* 3.4 18.5 - - - +
1939E HIS* 4.1 14.8 - - + +
1940E LEU* 3.6 17.7 - - + +
1943E VAL* 4.8 6.3 - - + -
2216E ALA 2.7 24.8 + - - +
2217E LEU* 3.0 9.5 + - - -
2219E ALA* 1.3 71.8 - - - +
2221E VAL* 1.3 67.9 + - - +
2222E LEU 3.0 1.6 - - - -
2223E GLY* 2.9 17.2 + - - +
2225E PHE* 3.8 33.7 - - + -
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Residues in contact with VAL2221 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1921E LEU* 3.3 22.0 - - + +
1923E GLY* 2.8 26.1 + - - -
1924E GLN 3.7 7.2 - - - +
1926E ILE* 4.0 28.5 - - + -
2020E VAL* 4.6 8.5 - - + -
2041E PRO* 3.4 33.4 - - + +
2043E ILE* 4.6 7.4 - - + -
2217E LEU* 2.7 31.7 + - + +
2218E LEU* 4.4 4.0 - - - +
2220E THR* 1.3 73.8 + - - +
2222E LEU* 1.3 62.9 + - + +
2223E GLY 3.4 0.2 - - - -
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Residues in contact with LEU2222 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1922E VAL* 4.4 2.7 - - - -
1960E LEU* 3.8 33.2 - - + -
1963E LYS* 4.4 30.5 + - + +
1984E MET* 4.8 2.7 - - + -
2019E ASP* 3.8 28.5 - - + +
2020E VAL* 4.1 25.1 - - + -
2041E PRO* 4.8 3.4 - - + -
2218E LEU* 3.1 20.8 + - - +
2219E ALA 3.6 0.4 - - - +
2220E THR 3.0 0.8 - - - -
2221E VAL* 1.3 87.5 - - + +
2223E GLY* 1.3 59.1 + - - +
2224E ARG* 3.5 17.8 + - - +
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A short description of the
analytical approach
The contact analysis used in this page
is based upon the approach
developed in:
Sobolev V., Wade R.C., Vriend G.
and Edelman M. PROTEINS (1996)
25, 120-129.
Contact legitimacy depends on the hydrophobic-hydrophilic
properties of the contacting atoms. In order to
define it, for each inter-atomic contact,
eight atom classes have been introduced:
I Hydrophilic - N and O that can donate and accept hydrogen bonds
(e.g., oxygen of hydroxyl group of Ser. or Thr)
II Acceptor - N or O that can only accept a hydrogen bond
III Donor - N that can only donate a hydrogen bond
IV Hydrophobic - Cl, Br, I and all C atoms that are not in
aromatic rings and do not have a covalent bond to
a N or O atom
V Aromatic - C in aromatic rings irrespective of any other
bonds formed by the atom
VI Neutral - C atoms that have a covalent bond to at least one
atom of class I or two or more atoms from class II
or III; atoms; S, F, P, and metal atoms in all cases
VII Neutral-donor - C atoms that have a covalent bond with only one
atom of class III
VIII Neutral-acceptor - C atoms that have a covalent bond with only
one atom of class II
For each pair of contacts the state of legitimacy
is shown below:
Legend:
+, legitimate
-, illegitimate
------------------------------------------------------------
Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
------------------------------------------------------------
Warning!
Atom classes for heterogroups are automatically
assigned based on the atomic coordinates. However, in
three cases (see below) the automatic assignment
is currently ambiguous. In these
cases, the user is advised to manually analyse
the full list of contacts using
LPC software.
1. Carbon atoms belonging to a 4-, 5- or 6-member ring are
considered "aromatic" (Class V) if the ring is approximately
planar, and "hydrophobic" (Class IV) or "neutral" (Classes
VI, VII, VIII) if the ring is non-planar.
2. The oxygen atom of a carbonyl or hydroxy group is considered
"hydroxy" (Class I) if the CO bond is longer than 1.29 Å, and
"carbonyl" (Class II) if shorter.
3. All nitrogen atoms are considered "hydrophilic" (Class I).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il