Contacts of the helix formed by residues 1565 - 1591 (chain C) in PDB entry 5EK0
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 ASP1565 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1561C SER 3.7 7.2 + - - +
1562C PHE 3.2 7.0 + - - +
1563C PHE 3.6 0.2 - - - -
1564C LYS* 1.4 77.5 - - + +
1566C PRO* 1.4 67.8 - - - +
1567C TRP* 3.2 41.1 + - - +
1568C SER* 3.3 16.3 + - - +
1569C LEU* 3.0 23.7 + - - +
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Residues in contact with PRO1566 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1564C LYS 3.3 9.6 - - - +
1565C ASP* 1.4 89.7 - - - +
1567C TRP* 1.4 61.1 + - + +
1569C LEU* 3.5 20.0 - - + +
1570C PHE* 2.7 34.3 + - - +
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Residues in contact with TRP1567 (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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1554C ARG* 4.8 0.7 - - - -
1565C ASP* 3.2 31.5 + - - +
1566C PRO* 1.4 80.7 - - + +
1568C SER* 1.4 64.5 + - - +
1570C PHE* 3.1 12.9 + - + +
1571C ASP* 3.0 25.0 + - - +
1614C THR* 3.6 31.0 - - + -
1620C ARG* 3.7 44.9 - - + +
1624C SER* 5.0 12.1 - - - -
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Residues in contact with SER1568 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1554C ARG* 2.8 37.6 + - - +
1558C HIS* 4.3 5.7 + - - -
1562C PHE* 3.1 52.7 - - - -
1565C ASP* 3.3 17.0 + - - +
1567C TRP* 1.4 76.4 - - - +
1569C LEU* 1.3 60.9 + - - +
1571C ASP* 3.4 2.9 + - - +
1572C PHE 3.2 12.1 + - - -
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Residues in contact with LEU1569 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1562C PHE* 3.8 6.0 + - + +
1563C PHE* 3.6 51.8 - - + +
1564C LYS 5.4 0.7 - - - +
1565C ASP 3.0 16.6 + - - +
1566C PRO* 3.5 17.3 - - + +
1568C SER* 1.3 75.1 - - - +
1570C PHE* 1.4 61.6 + - - +
1572C PHE* 3.4 18.3 + - + +
1573C VAL* 3.2 37.2 + - + +
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Residues in contact with PHE1570 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1566C PRO 2.7 20.6 + - - +
1567C TRP* 3.1 6.9 + - + +
1569C LEU* 1.4 68.5 - - - +
1571C ASP* 1.4 62.2 + - - +
1573C VAL* 3.0 12.5 + - + +
1574C VAL* 2.9 51.1 + - + +
1610C LEU* 3.9 28.0 - - + -
1611C ARG* 3.6 22.2 - - + -
1614C THR* 3.4 38.4 - - + -
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Residues in contact with ASP1571 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1510C ILE* 5.5 1.0 - - - +
1550C GLU* 3.7 8.8 - - - +
1551C ILE* 4.1 11.2 - - + -
1554C ARG* 3.7 18.2 + - - +
1567C TRP* 3.0 18.8 + - - +
1568C SER 3.4 9.4 + - - +
1570C PHE* 1.4 83.7 - - - +
1572C PHE* 1.4 57.1 + - - +
1574C VAL* 3.7 2.1 - - - +
1575C VAL* 3.1 33.6 + - - +
1611C ARG* 3.2 40.4 + - - +
1614C THR* 4.3 5.7 - - - +
1615C ALA* 4.8 9.3 - - - +
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Residues in contact with PHE1572 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1551C ILE* 4.4 21.7 - - + +
1555C ILE* 5.1 10.8 - - + -
1562C PHE* 3.8 26.2 - + + -
1568C SER 3.2 4.4 + - - -
1569C LEU* 3.5 20.9 - - + +
1570C PHE 3.1 0.6 - - - -
1571C ASP* 1.4 74.5 - - - +
1573C VAL* 1.4 68.6 + - + +
1574C VAL 3.3 0.2 - - - -
1575C VAL* 3.2 6.2 + - + +
1576C ILE* 2.9 59.8 + - + +
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Residues in contact with VAL1573 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1569C LEU* 3.2 25.5 + - + +
1570C PHE* 3.0 11.3 + - + +
1572C PHE* 1.4 80.2 - - + +
1574C VAL* 1.3 63.3 + - + +
1576C ILE* 3.2 19.8 - - + +
1577C ILE* 3.1 30.2 + - + +
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Residues in contact with VAL1574 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1570C PHE* 2.9 46.3 + - + +
1571C ASP 3.7 4.0 - - - +
1573C VAL* 1.3 75.4 - - - +
1575C VAL* 1.4 54.9 + - - +
1577C ILE* 3.3 9.6 + - - +
1578C SER* 2.7 38.4 + - - +
1604C ALA 5.3 0.2 - - - +
1607C GLY* 3.4 43.0 - - - +
1608C ARG* 3.8 7.9 - - + +
1610C LEU* 5.4 0.2 - - + -
1611C ARG* 3.8 24.9 - - - +
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Residues in contact with VAL1575 (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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1547C PHE* 3.4 27.4 - - + +
1548C THR* 3.4 23.8 - - + +
1551C ILE* 3.7 32.1 - - + -
1571C ASP 3.1 21.2 + - - +
1572C PHE* 3.2 5.6 + - + +
1574C VAL* 1.4 72.2 - - + +
1576C ILE* 1.4 67.2 + - + +
1578C SER* 3.5 7.1 + - - +
1579C ILE* 3.2 31.4 + - + +
1611C ARG* 3.8 13.7 - - - +
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Residues in contact with ILE1576 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1572C PHE* 2.9 56.1 + - + +
1573C VAL* 3.2 27.8 - - + +
1575C VAL* 1.4 73.1 - - + +
1577C ILE* 1.4 67.4 + - + +
1579C ILE* 3.4 7.5 + - + +
1580C VAL* 2.8 49.9 + - + +
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Residues in contact with ILE1577 (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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1573C VAL* 3.1 28.3 + - + +
1574C VAL* 3.6 7.6 - - - +
1576C ILE* 1.4 82.8 - - + +
1578C SER* 1.3 59.7 + - - +
1580C VAL* 3.6 18.1 - - + +
1581C GLY* 2.9 27.9 + - - -
1604C ALA* 3.6 34.6 - - + +
1607C GLY* 5.8 2.7 - - - -
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Residues in contact with SER1578 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1544C ILE* 4.3 10.1 - - - -
1574C VAL* 2.7 23.9 + - - +
1575C VAL* 3.7 8.4 - - - -
1577C ILE* 1.3 74.8 - - - +
1579C ILE* 1.4 53.8 + - - +
1581C GLY 3.8 0.3 - - - -
1582C MET* 2.8 38.7 + - - +
1604C ALA 4.6 4.2 + - - -
1608C ARG* 3.1 49.5 + - - +
1805C 5P2 3.9 6.8 + - - -
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Residues in contact with ILE1579 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1544C ILE* 3.7 19.5 - - + -
1548C THR* 3.3 32.8 - - + +
1575C VAL* 3.2 25.2 + - + +
1576C ILE* 3.8 6.3 - - + +
1578C SER* 1.4 72.4 - - - +
1580C VAL* 1.4 70.1 + - + +
1581C GLY 3.2 1.0 + - - -
1582C MET* 3.3 17.0 + - + +
1583C PHE* 3.2 43.2 + - + -
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Residues in contact with VAL1580 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1576C ILE* 2.8 38.3 + - + +
1577C ILE* 3.6 28.5 - - + +
1579C ILE* 1.4 74.9 - - + +
1581C GLY* 1.3 59.1 + - - +
1583C PHE* 4.0 4.8 + - - +
1584C LEU* 3.2 38.3 + - + +
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Residues in contact with GLY1581 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1577C ILE 2.9 18.2 + - - -
1580C VAL* 1.3 77.0 - - - +
1582C MET* 1.4 58.3 + - - +
1583C PHE 3.3 1.8 - - - -
1584C LEU* 3.5 8.3 - - - +
1585C ALA* 2.8 31.7 + - - +
1601C ILE* 4.4 5.7 - - - +
1604C ALA* 4.4 7.2 - - - -
1805C 5P2 3.5 13.0 + - - -
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Residues in contact with MET1582 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1541C VAL* 3.8 21.3 - - + -
1544C ILE* 3.6 39.5 - - + -
1545C ILE* 5.7 3.6 - - + -
1578C SER 2.8 24.0 + - - +
1579C ILE* 3.5 8.5 - - + +
1581C GLY* 1.4 72.9 - - - +
1583C PHE* 1.3 86.6 + - + +
1585C ALA* 3.6 1.9 + - - +
1586C ASP 3.1 20.6 + - - -
1805C 5P2 3.3 69.2 + - + +
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Residues in contact with PHE1583 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1579C ILE* 3.2 43.1 + - + +
1580C VAL* 4.3 4.5 - - - +
1581C GLY 3.3 0.4 - - - -
1582C MET* 1.3 93.9 - - + +
1584C LEU* 1.4 57.6 + - - +
1586C ASP* 3.5 5.8 + - + +
1587C LEU* 3.0 32.9 + - + +
1805C 5P2 3.2 43.1 - + - -
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Residues in contact with LEU1584 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1580C VAL* 3.2 31.4 + - + +
1581C GLY* 3.3 9.4 + - - +
1583C PHE* 1.4 76.8 - - - +
1585C ALA* 1.4 56.3 + - - +
1587C LEU* 3.4 8.4 - - + +
1588C ILE* 3.0 60.0 + - + +
1601C ILE* 3.8 21.1 - - + -
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Residues in contact with ALA1585 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1581C GLY 2.8 17.6 + - - +
1582C MET 3.8 2.0 - - - +
1584C LEU* 1.4 73.9 - - - +
1586C ASP* 1.4 64.2 + - - +
1588C ILE* 3.6 3.0 + - - +
1589C GLU* 3.2 21.1 + - - +
1598C PHE* 3.6 15.0 - - + -
1601C ILE* 4.3 11.6 - - + +
1602C ARG* 4.6 5.2 - - + +
1805C 5P2 3.2 41.9 + - + +
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Residues in contact with ASP1586 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1582C MET 3.1 18.5 + - - +
1583C PHE* 3.7 6.7 - - + +
1585C ALA* 1.4 75.0 - - - +
1587C LEU* 1.4 56.6 + - - +
1589C GLU* 3.6 0.4 + - - -
1590C THR* 2.7 36.4 + - - -
1804C PX4 3.8 16.3 + - - +
1805C 5P2 3.2 83.5 + - + -
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Residues in contact with LEU1587 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1583C PHE 3.0 19.7 + - - +
1584C LEU* 3.4 9.4 - - + +
1586C ASP* 1.4 76.2 + - - +
1588C ILE* 1.4 68.4 + - + +
1590C THR* 3.4 7.7 + - - -
1591C TYR* 3.1 42.7 - - + -
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Residues in contact with ILE1588 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1584C LEU* 3.0 46.3 + - + +
1585C ALA* 3.6 4.9 + - - +
1587C LEU* 1.4 79.2 - - + +
1589C GLU* 1.4 60.7 + - - +
1591C TYR* 2.9 30.0 + - - +
1595C PRO* 4.1 19.3 - - + -
1597C LEU* 4.4 12.6 - - + +
1598C PHE* 4.0 28.5 - - + +
1601C ILE* 3.8 26.2 - - + -
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Residues in contact with GLU1589 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1533C THR* 5.1 5.0 - - - +
1537C TYR* 4.3 9.0 + - - -
1585C ALA 3.2 16.9 + - - +
1586C ASP 3.9 4.0 - - - +
1587C LEU 3.4 0.2 - - - -
1588C ILE* 1.4 77.1 - - - +
1590C THR* 1.3 60.4 + - - +
1591C TYR* 3.4 2.8 + - - -
1598C PHE* 3.2 44.1 - - + -
1805C 5P2 3.3 39.9 - - - +
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Residues in contact with THR1590 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1586C ASP* 2.7 22.7 + - - -
1587C LEU* 3.5 11.1 - - - -
1588C ILE 3.3 0.8 - - - -
1589C GLU* 1.3 76.9 - - - +
1591C TYR* 1.4 87.2 + - + +
1804C PX4 5.4 0.9 + - - -
1805C 5P2 3.3 24.6 - - + +
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Residues in contact with TYR1591 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1587C LEU* 3.1 44.0 - - + -
1588C ILE* 2.9 23.0 + - - +
1589C GLU 4.5 2.9 - - - -
1590C THR* 1.4 103.6 - - + +
1595C PRO* 5.8 3.3 - - - +
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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