Contacts of the helix formed by residues 1801 - 1827 (chain B) in PDB entry 2IUK
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 ASP1801 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1174B THR* 4.3 10.2 + - - +
1657B LEU* 4.2 0.9 - - - +
1658B TYR* 3.0 32.4 + - - +
1799B THR* 3.1 17.4 + - - +
1800B THR* 1.3 76.8 + - - +
1802B LYS* 1.3 56.2 + - - +
1803B LYS* 3.0 39.1 + - - +
1804B ALA* 2.9 6.6 + - + +
1805B LEU* 2.8 35.7 + - - +
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Residues in contact with LYS1802 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1800B THR 3.1 7.6 + - - +
1801B ASP* 1.3 70.9 + - - +
1803B LYS* 1.3 71.7 + - + +
1805B LEU* 3.6 12.1 - - + +
1806B GLU* 2.9 49.9 + - - +
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Residues in contact with LYS1803 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1657B LEU* 3.4 56.4 + - + +
1658B TYR* 4.8 3.6 - - - -
1801B ASP* 3.0 30.4 + - - +
1802B LYS* 1.3 87.6 - - + +
1804B ALA* 1.3 56.6 + - - +
1806B GLU* 4.3 17.1 - - - +
1807B ALA* 3.4 22.7 + - - +
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Residues in contact with ALA1804 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1650B TRP* 4.0 5.2 - - - -
1654B TYR* 4.0 20.2 - - + -
1657B LEU* 3.9 6.3 - - + +
1658B TYR* 3.8 12.1 - - - +
1798B TRP* 4.4 4.0 - - + +
1799B THR* 3.7 13.5 - - + -
1801B ASP* 2.9 25.2 + - + +
1803B LYS* 1.3 76.3 - - - +
1805B LEU* 1.3 66.8 + - - +
1807B ALA* 3.9 1.8 - - - -
1808B PHE* 3.0 24.3 + - - +
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Residues in contact with LEU1805 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1796B PRO 3.6 23.1 - - - +
1797B ASN* 5.1 1.1 - - - -
1798B TRP* 3.9 15.6 - - + -
1799B THR* 3.5 33.9 - - + +
1800B THR* 4.2 5.2 - - - +
1801B ASP 2.8 24.1 + - - +
1802B LYS* 3.6 10.3 - - + +
1804B ALA* 1.3 76.1 - - - +
1806B GLU* 1.3 56.5 + - - +
1808B PHE* 3.1 10.0 + - - +
1809B LYS* 3.1 30.0 + - - +
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Residues in contact with GLU1806 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1802B LYS* 2.9 37.8 + - - +
1803B LYS* 4.3 14.2 - - - +
1805B LEU* 1.3 76.7 - - - +
1807B ALA* 1.3 57.1 + - - +
1809B LYS* 3.2 19.3 + - - +
1810B ARG* 3.0 36.3 + - - +
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Residues in contact with ALA1807 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1650B TRP* 3.7 17.7 - - + +
1653B GLU* 3.9 24.5 - - + +
1654B TYR* 5.9 0.9 - - - -
1657B LEU* 5.8 0.9 - - + -
1803B LYS 3.4 18.5 + - - +
1804B ALA* 3.7 3.3 + - - +
1805B LEU 3.4 0.4 - - - -
1806B GLU* 1.3 76.5 - - - +
1808B PHE* 1.4 64.1 + - - +
1810B ARG* 3.7 34.0 + - - +
1811B PHE* 3.8 6.9 + - - +
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Residues in contact with PHE1808 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1650B TRP* 3.5 31.4 - + + -
1790B LEU 4.5 2.0 - - - -
1791B GLY* 3.0 32.3 - - - -
1792B GLU 3.5 13.2 - - - -
1793B ARG* 3.5 36.6 - - + -
1798B TRP* 3.2 25.8 - + + -
1804B ALA 3.0 14.5 + - - +
1805B LEU 3.1 11.0 - - - +
1807B ALA* 1.4 76.4 - - - +
1809B LYS* 1.3 74.5 + - + +
1811B PHE* 3.1 45.6 + + - +
1812B GLY* 3.3 5.0 + - - -
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Residues in contact with LYS1809 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1791B GLY 4.0 12.7 + - - -
1792B GLU* 5.3 3.4 - - - +
1793B ARG 5.6 0.6 - - - +
1798B TRP* 5.8 1.4 - - - -
1805B LEU 3.1 13.9 + - - +
1806B GLU* 3.2 12.0 + - - +
1808B PHE* 1.3 100.1 - - + +
1810B ARG* 1.3 54.5 + - - +
1811B PHE 3.3 0.2 - - - -
1812B GLY* 3.7 10.9 + - - -
1813B SER* 3.3 23.9 + - - -
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Residues in contact with ARG1810 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1653B GLU* 3.0 34.1 + - - +
1806B GLU* 3.0 46.5 + - - +
1807B ALA* 3.7 26.5 - - - +
1808B PHE 3.2 0.4 - - - -
1809B LYS* 1.3 73.4 - - - +
1811B PHE* 1.3 60.6 + - - +
1812B GLY 3.4 0.2 - - - -
1813B SER* 3.9 7.8 - - - -
1814B LYS* 3.1 28.4 + - - +
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Residues in contact with PHE1811 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1557B HIS* 5.9 1.6 - - - -
1646B ALA* 3.3 47.6 - - + -
1647B ILE* 3.7 11.7 - - + -
1650B TRP* 3.7 35.2 - + + -
1709B VAL* 5.5 0.7 - - + -
1790B LEU* 3.6 44.2 - - + -
1791B GLY* 3.9 7.4 - - - -
1807B ALA 3.8 5.8 + - - +
1808B PHE* 3.1 34.3 + + - +
1810B ARG* 1.3 77.2 - - - +
1812B GLY* 1.3 60.5 + - - +
1814B LYS* 3.9 3.4 - - + +
1815B LEU* 3.0 40.4 + - + +
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Residues in contact with GLY1812 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1791B GLY* 4.3 15.5 - - - -
1808B PHE 3.3 7.8 + - - -
1809B LYS* 3.7 12.7 + - - -
1810B ARG 3.4 0.2 - - - -
1811B PHE* 1.3 80.1 - - - +
1813B SER* 1.3 54.7 + - - +
1815B LEU* 3.4 13.2 + - - +
1816B THR* 3.0 28.6 + - - -
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Residues in contact with SER1813 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1809B LYS* 3.3 18.2 + - - +
1810B ARG* 4.1 7.6 - - - -
1811B PHE 3.3 0.2 - - - -
1812B GLY* 1.3 75.4 - - - +
1814B LYS* 1.4 57.3 + - - +
1816B THR* 3.3 11.3 - - - +
1817B GLY* 3.2 19.9 + - - -
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Residues in contact with LYS1814 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1642B GLU* 4.7 11.7 + - - +
1645B ASP* 5.7 4.0 - - - -
1646B ALA* 4.2 23.8 - - + +
1810B ARG 3.1 20.2 + - - +
1811B PHE* 3.9 7.2 - - + +
1813B SER* 1.4 72.0 - - - +
1815B LEU* 1.3 60.2 + - - +
1816B THR 3.3 0.4 - - - -
1817B GLY* 3.2 3.5 + - - +
1818B ILE* 3.0 48.9 + - + +
1821B LYS* 3.5 23.8 - - - +
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Residues in contact with LEU1815 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1643B ILE* 4.5 2.7 - - + -
1646B ALA* 4.1 21.5 - - + -
1790B LEU* 4.1 16.4 - - + -
1791B GLY* 3.6 36.6 - - - +
1811B PHE* 3.0 33.1 + - + +
1812B GLY* 3.5 5.2 - - - +
1813B SER 3.3 0.2 - - - -
1814B LYS* 1.3 77.1 - - - +
1816B THR* 1.3 58.7 + - - +
1818B ILE* 3.5 10.0 + - + +
1819B GLU* 3.0 34.0 + - - +
1847B ARG* 3.3 35.5 + - + +
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Residues in contact with THR1816 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1812B GLY 3.0 15.3 + - - -
1813B SER* 3.3 15.1 - - - +
1815B LEU* 1.3 77.5 - - - +
1817B GLY* 1.3 59.1 + - - +
1819B GLU* 3.5 19.7 + - - +
1820B GLY* 3.2 16.6 + - - -
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Residues in contact with GLY1817 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1813B SER 3.2 12.0 + - - -
1814B LYS* 3.2 5.5 + - - -
1815B LEU 3.2 0.4 - - - -
1816B THR* 1.3 74.4 - - - +
1818B ILE* 1.4 53.2 + - - +
1820B GLY* 3.0 5.5 + - - -
1821B LYS* 2.9 47.7 + - - -
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Residues in contact with ILE1818 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1639B ASP 4.7 1.8 - - - +
1642B GLU* 3.2 61.5 - - + +
1643B ILE* 4.3 5.8 - - + -
1646B ALA* 3.8 18.8 - - + -
1814B LYS* 3.0 37.2 + - - +
1815B LEU* 3.8 16.6 - - + +
1817B GLY* 1.4 70.8 - - - +
1819B GLU* 1.3 66.2 + - - +
1821B LYS* 3.3 3.1 + - - +
1822B ILE* 3.1 30.1 + - + +
1825B ARG* 4.9 0.2 - - - +
1847B ARG* 3.6 18.4 - - - +
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Residues in contact with GLU1819 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1815B LEU 3.0 21.7 + - - +
1816B THR* 3.6 21.1 + - - +
1818B ILE* 1.3 74.1 - - - +
1820B GLY* 1.3 63.7 + - - +
1822B ILE* 3.2 4.3 + - - +
1823B ASN* 3.1 29.4 + - - +
1846B HIS* 3.7 28.1 + - + +
1847B ARG* 3.1 27.6 - - - +
1848B SER* 2.8 39.3 + - - -
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Residues in contact with GLY1820 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1816B THR 3.2 8.1 + - - -
1817B GLY* 3.0 8.9 + - - -
1819B GLU* 1.3 78.6 - - - +
1821B LYS* 1.3 61.4 + - - +
1823B ASN* 3.1 14.0 + - - +
1824B ALA* 3.0 22.4 + - - +
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Residues in contact with LYS1821 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1642B GLU* 3.4 30.5 + - - +
1814B LYS* 3.5 28.1 - - - +
1817B GLY* 2.9 42.8 + - - -
1818B ILE* 3.3 8.9 + - - +
1820B GLY* 1.3 72.7 - - - +
1822B ILE* 1.3 55.7 + - - +
1824B ALA* 3.4 8.4 + - - +
1825B ARG* 3.0 38.1 + - - +
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Residues in contact with ILE1822 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1639B ASP* 3.5 20.2 - - + +
1818B ILE* 3.1 11.9 + - + +
1819B GLU 3.2 8.7 - - - +
1821B LYS* 1.3 69.9 - - - +
1823B ASN* 1.3 57.1 + - - +
1825B ARG* 3.2 24.1 + - - +
1826B ASN* 2.7 55.3 + - - +
1834B ARG* 3.9 1.4 + - - +
1842B TYR 3.8 11.9 - - - +
1843B THR* 4.9 0.2 - - - -
1845B LEU 3.0 32.8 - - - +
1846B HIS* 4.0 17.9 - - + -
1847B ARG* 3.1 18.4 - - - +
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Residues in contact with ASN1823 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1819B GLU* 3.1 21.8 + - - +
1820B GLY* 3.3 14.6 - - - +
1822B ILE* 1.3 75.8 - - - +
1824B ALA* 1.3 57.7 + - - +
1826B ASN* 3.0 26.9 + - - +
1827B SER* 3.0 20.3 + - - +
1843B THR* 5.4 2.8 - - - +
1846B HIS* 3.9 21.4 + - - -
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Residues in contact with ALA1824 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1820B GLY 3.0 14.9 + - - +
1821B LYS* 3.7 8.5 - - - +
1822B ILE 3.4 0.2 - - - -
1823B ASN* 1.3 75.8 - - - +
1825B ARG* 1.3 60.7 + - + +
1827B SER* 4.1 7.1 + - - -
1828B ASP* 3.8 15.9 + - - +
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Residues in contact with ARG1825 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1638B VAL* 3.5 21.2 - - - +
1639B ASP* 3.2 29.0 + - - +
1642B GLU* 2.7 35.1 + - - -
1821B LYS* 3.0 22.3 + - + +
1822B ILE* 3.4 26.8 - - - +
1824B ALA* 1.3 75.9 - - + +
1826B ASN* 1.3 57.5 + - - +
1827B SER 3.1 4.5 - - - -
1828B ASP* 3.0 25.7 + - - +
1831B LEU* 3.7 24.7 - - + +
1834B ARG* 3.7 28.1 - - - +
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Residues in contact with ASN1826 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1822B ILE* 2.7 32.0 + - - +
1823B ASN* 3.0 10.2 + - - +
1825B ARG* 1.3 70.0 - - - +
1827B SER* 1.3 58.5 + - - +
1828B ASP 5.0 1.4 - - - +
1834B ARG* 3.2 22.2 + - - +
1835B THR* 3.6 21.9 - - - +
1841B PRO* 3.7 20.9 - - + +
1842B TYR 3.0 41.9 + - - +
1843B THR* 3.7 13.7 - - - +
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Residues in contact with SER1827 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1823B ASN* 3.0 17.4 + - - +
1824B ALA* 4.3 8.0 - - - -
1825B ARG 3.1 0.2 - - - -
1826B ASN* 1.3 76.2 - - - +
1828B ASP* 1.3 59.7 + - - +
1829B PRO* 3.2 12.8 - - - +
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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