Contacts of the helix formed by residues 1710 - 1731 (chain C) in PDB entry 5JCZ
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 SER1710 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1707C ASP 5.3 2.2 + - - -
1708C MET 3.5 3.1 + - - -
1709C CYS* 1.3 76.0 - - - +
1711C TRP* 1.3 61.9 + - - +
1712C SER* 3.2 19.2 + - - -
1713C LYS* 3.3 14.6 + - - +
1714C GLY 3.0 22.3 + - - -
1752C LEU* 3.5 8.7 - - - +
1784C TYR* 3.6 14.6 - - - -
1785C THR 3.6 15.5 - - - -
1786C PRO* 4.9 0.7 - - - -
1787C VAL* 3.5 22.1 - - - +
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Residues in contact with TRP1711 (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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1710C SER* 1.3 77.3 - - - +
1712C SER* 1.3 89.5 + - - +
1714C GLY* 3.3 1.6 + - - -
1715C MET* 3.1 56.8 + - - +
1752C LEU 3.3 21.5 - - - +
1753C GLN* 3.8 12.8 - - + +
1784C TYR* 3.5 18.4 + - - +
1786C PRO* 6.0 0.2 - - + -
1787C VAL* 5.7 1.5 - - + +
1788C ASN* 3.7 18.3 + - - -
1791C GLU* 3.0 34.1 + - - -
73D TYR* 4.8 5.8 - + - -
75D ALA* 3.6 35.4 - - + -
76D ILE* 3.6 35.1 - - + +
79D ALA* 4.1 13.0 - - + -
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Residues in contact with SER1712 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1633C ILE* 5.0 1.6 - - - +
1710C SER* 3.2 12.6 + - - -
1711C TRP* 1.3 105.5 - - - +
1713C LYS* 1.3 63.3 + - - +
1715C MET* 3.3 7.0 + - - +
1716C GLN* 3.0 25.5 + - - +
1787C VAL* 4.3 11.4 - - - +
1788C ASN* 5.9 0.7 - - - -
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Residues in contact with LYS1713 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1628C LEU* 2.4 38.4 + - + +
1629C GLU* 4.1 5.1 + - - +
1631C GLU* 4.0 29.6 + - - +
1707C ASP 4.4 6.1 - - - +
1708C MET* 3.2 52.3 - - - +
1710C SER* 3.3 17.1 + - - +
1712C SER* 1.3 82.1 + - - +
1714C GLY* 1.3 60.3 + - - +
1716C GLN* 3.2 12.8 + - + +
1717C ILE* 2.8 39.9 + - + +
1752C LEU* 4.7 0.4 - - + -
1787C VAL* 6.2 0.2 - - + -
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Residues in contact with GLY1714 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1710C SER 3.0 11.4 + - - -
1711C TRP 3.3 4.0 + - - -
1712C SER 3.3 0.4 - - - -
1713C LYS* 1.3 78.2 - - - +
1715C MET* 1.3 55.5 + - - +
1717C ILE* 4.5 0.7 - - - -
1718C ARG* 3.0 28.4 + - - +
1749C ALA* 3.5 28.0 - - - +
1752C LEU* 3.9 15.2 - - - +
1753C GLN* 3.6 8.1 + - - -
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Residues in contact with MET1715 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1633C ILE* 3.5 10.6 - - + +
1711C TRP* 3.1 45.9 + - - +
1712C SER* 3.6 7.4 - - - +
1713C LYS 3.2 0.2 - - - -
1714C GLY* 1.3 74.4 - - - +
1716C GLN* 1.3 64.9 + - - +
1718C ARG* 3.3 3.4 + - - -
1719C TYR 3.0 18.7 + - - -
1753C GLN* 3.3 24.5 - - + +
46D VAL* 3.8 26.2 - - + -
48D PHE* 3.4 13.5 - - + -
65D TRP* 3.6 33.0 - - + -
76D ILE* 4.4 7.4 - - + -
79D ALA* 4.6 13.5 - - + -
80D TYR 5.1 1.3 - - - +
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Residues in contact with GLN1716 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1627C MET 4.7 4.0 - - - +
1628C LEU 4.8 8.3 - - - +
1630C HIS 4.0 12.9 + - - +
1631C GLU* 3.6 7.0 - - + +
1632C THR* 2.9 44.9 + - - +
1633C ILE* 3.3 23.7 + - + +
1634C GLN* 4.5 1.6 + - - +
1712C SER 3.0 13.8 + - - +
1713C LYS* 3.2 18.1 + - + +
1715C MET* 1.3 76.8 - - - +
1717C ILE* 1.3 56.9 + - + +
1719C TYR* 3.4 6.5 + - - +
1720C ASN* 3.0 65.0 + - - +
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Residues in contact with ILE1717 (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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1627C MET* 4.3 6.5 - - + +
1628C LEU* 3.6 32.8 - - + -
1698C THR* 4.7 4.3 - - + -
1702C LEU* 3.8 32.3 - - + -
1713C LYS* 2.8 26.2 + - + +
1714C GLY* 3.8 4.7 - - - +
1716C GLN* 1.3 76.6 - - + +
1718C ARG* 1.3 57.8 + - - +
1720C ASN* 3.2 9.1 + - - +
1721C VAL* 2.9 31.1 + - + +
1745C LEU* 4.0 29.4 - - + -
1749C ALA* 3.8 15.3 - - + -
1752C LEU* 4.5 4.3 - - + -
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Residues in contact with ARG1718 (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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1714C GLY 3.0 19.1 + - - +
1715C MET 3.7 4.7 - - - +
1717C ILE* 1.3 77.8 - - - +
1719C TYR* 1.3 58.5 + - - +
1721C VAL* 3.4 16.8 + - - +
1722C SER* 2.9 30.9 + - - +
1725C GLU* 3.0 32.5 + - - -
1746C ILE* 3.9 39.6 - - - +
1749C ALA* 4.3 3.8 - - + +
1750C GLN* 5.0 8.2 - - - +
1753C GLN* 4.3 7.9 - - - +
46D VAL 3.7 20.6 - - - +
47D GLU* 4.5 24.9 + - + +
48D PHE* 4.1 10.1 - - + -
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Residues in contact with TYR1719 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1632C THR* 3.9 16.8 - - - -
1633C ILE* 3.7 23.8 - - + -
1659C LEU* 4.4 5.2 - - + -
1715C MET 3.0 17.3 + - - +
1716C GLN* 3.7 3.6 - - - +
1718C ARG* 1.3 75.5 - - - +
1720C ASN* 1.3 77.3 + - - +
1722C SER* 2.4 24.4 + - - -
1723C GLN* 3.0 46.0 + - + +
48D PHE* 3.5 37.8 - + + -
50D THR* 4.7 5.9 - - + +
61D LYS* 5.0 5.4 + - - -
63D GLN* 3.6 35.2 + - + -
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Residues in contact with ASN1720 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1626C GLY 3.8 6.9 + - - -
1627C MET* 2.8 55.8 + - + +
1630C HIS 5.0 0.8 + - - -
1632C THR* 4.3 1.6 + - - +
1659C LEU* 3.4 27.9 - - + +
1716C GLN* 3.0 46.4 + - - +
1717C ILE* 3.2 5.6 + - - +
1719C TYR* 1.3 80.7 - - - +
1721C VAL* 1.3 61.1 + - - +
1723C GLN* 3.3 6.4 + - - +
1724C LEU* 3.2 24.4 + - - +
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Residues in contact with VAL1721 (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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1627C MET* 4.2 6.7 - - + -
1717C ILE* 2.9 24.2 + - + +
1718C ARG* 3.6 20.0 - - - +
1720C ASN* 1.3 73.6 - - - +
1722C SER* 1.3 61.0 + - - +
1724C LEU* 3.0 9.6 + - - +
1725C GLU* 2.8 32.3 + - + +
1742C LEU* 3.9 21.5 - - + -
1745C LEU* 3.8 30.7 - - + -
1746C ILE* 3.7 26.9 - - + +
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Residues in contact with SER1722 (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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1718C ARG* 2.9 22.0 + - - +
1719C TYR* 2.4 30.4 + - - -
1721C VAL* 1.3 76.0 - - - +
1723C GLN* 1.3 58.0 + - - +
1725C GLU* 3.4 16.1 + - - +
1726C GLU* 3.1 36.1 + - - +
48D PHE* 3.7 34.2 - - - +
49D ALA* 5.4 0.2 - - - -
50D THR* 6.1 0.3 - - - +
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Residues in contact with GLN1723 (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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1659C LEU* 3.7 19.5 - - + +
1660C ASP* 5.1 4.4 + - - -
1663C LEU* 4.0 26.2 - - + +
1719C TYR* 3.0 45.0 + - + +
1720C ASN 3.4 8.5 - - - +
1721C VAL 3.1 0.2 - - - -
1722C SER* 1.3 82.4 + - - +
1724C LEU* 1.3 61.2 + - - +
1726C GLU* 3.4 15.0 + - - +
1727C TRP* 3.1 21.0 + - - +
50D THR* 3.6 23.2 + - - +
61D LYS* 4.3 14.6 + - - +
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Residues in contact with LEU1724 (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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1627C MET* 4.1 15.0 - - + -
1659C LEU* 4.6 9.6 - - + -
1662C ILE* 4.7 2.9 - - + -
1663C LEU* 3.8 22.0 - - + -
1666C LEU* 3.9 20.4 - - + -
1691C PHE* 3.5 18.2 - - + -
1694C ILE* 3.9 32.8 - - + -
1720C ASN 3.2 14.3 + - - +
1721C VAL* 3.0 10.2 + - - +
1723C GLN* 1.3 75.2 - - - +
1725C GLU* 1.3 65.2 + - - +
1727C TRP* 3.3 6.1 + - - +
1728C LEU* 3.2 25.8 + - - +
1742C LEU* 4.0 18.4 - - + -
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Residues in contact with GLU1725 (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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1718C ARG* 3.0 39.4 + - - -
1721C VAL* 2.8 19.9 + - + +
1722C SER* 3.4 15.5 - - - +
1723C GLN 3.3 0.2 - - - -
1724C LEU* 1.3 77.5 - - + +
1726C GLU* 1.3 59.0 + - + +
1728C LEU* 3.2 13.5 + - + +
1729C ARG* 3.1 25.7 + - - +
1734C MET* 5.5 1.6 - - - +
1739C LYS* 3.3 32.9 - - + +
1742C LEU* 5.4 2.0 - - + -
1746C ILE* 4.6 3.4 - - - +
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Residues in contact with GLU1726 (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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1722C SER* 3.1 19.1 + - - +
1723C GLN* 3.7 18.2 - - - +
1724C LEU 3.3 0.2 - - - -
1725C GLU* 1.3 75.2 - - + +
1727C TRP* 1.3 59.8 + - - +
1729C ARG* 3.4 11.6 + - - +
1730C ASP* 2.9 41.3 + - - +
32D THR* 5.6 0.2 - - - -
48D PHE 4.5 1.6 - - - +
49D ALA* 3.2 13.7 - - - +
50D THR* 2.6 56.0 + - - +
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Residues in contact with TRP1727 (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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1663C LEU* 4.1 24.8 + - + -
1666C LEU* 3.5 37.2 - - + -
1667C ASN* 2.5 35.1 + - - +
1670C HIS* 3.9 21.8 - - + -
1687C VAL* 4.0 9.9 - - + -
1690C MET* 4.6 2.9 - - + -
1691C PHE* 3.8 31.0 - + + -
1723C GLN 3.1 13.6 + - - +
1724C LEU* 3.4 9.6 - - - +
1726C GLU* 1.3 74.5 - - - +
1728C LEU* 1.3 72.4 + - + +
1730C ASP* 3.3 7.5 + - + +
1731C LYS* 3.0 43.7 + - + +
1733C LEU* 3.9 24.9 - - + -
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Residues in contact with LEU1728 (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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1687C VAL* 3.8 23.6 - - + -
1691C PHE* 3.5 34.1 - - + -
1724C LEU 3.2 11.8 + - - +
1725C GLU* 3.4 13.7 - - - +
1727C TRP* 1.3 86.9 - - + +
1729C ARG* 1.3 61.2 + - - +
1731C LYS* 3.3 2.0 + - - -
1732C ASN 3.1 4.2 + - - -
1733C LEU* 2.8 49.3 + - + +
1734C MET* 4.3 8.1 - - + -
1738C ALA* 3.8 6.5 - - + -
1739C LYS* 3.7 37.9 - - + +
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Residues in contact with ARG1729 (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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1725C GLU 3.1 13.1 + - - +
1726C GLU* 3.7 15.1 - - - +
1727C TRP 3.2 0.2 - - - -
1728C LEU* 1.3 77.9 - - - +
1730C ASP* 1.3 66.1 + - - +
1732C ASN* 3.1 18.0 + - - +
1734C MET* 3.3 48.4 - - - +
32D THR 5.1 2.5 - - - -
33D ARG* 3.3 49.0 + - - +
35D GLU* 2.9 32.1 + - - -
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Residues in contact with ASP1730 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1726C GLU* 2.9 27.5 + - - +
1727C TRP* 3.3 7.6 + - + +
1729C ARG* 1.3 82.0 - - - +
1731C LYS* 1.3 69.5 + - + +
1732C ASN* 3.3 9.8 + - - -
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Residues in contact with LYS1731 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1667C ASN* 3.3 31.4 + - - +
1670C HIS* 3.9 30.7 + - + +
1727C TRP* 3.0 40.6 + - + +
1728C LEU 4.0 0.9 - - - +
1729C ARG 3.2 0.2 - - - -
1730C ASP* 1.3 84.1 - - - +
1732C ASN* 1.3 75.6 + - - +
1733C LEU* 3.3 26.0 + - + +
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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