Contacts of the helix formed by residues 1804 - 1826 (chain H) in PDB entry 6X34
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 PRO1804 (chain H).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1691H GLN* 4.3 14.6 - - - +
1695H LEU* 6.3 1.1 - - + -
1803H ILE* 1.3 93.6 - - + +
1805H LEU* 1.3 63.8 + - - +
1806H GLU* 3.4 1.8 - - + +
1807H ALA* 4.4 19.1 - - + +
1808H LEU* 3.4 26.9 + - + +
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Residues in contact with LEU1805 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1720H LEU* 6.3 3.8 - - + -
1776H HIS* 5.0 1.3 - - + -
1778H PHE* 4.4 25.8 - - + -
1803H ILE* 3.1 29.1 + - + +
1804H PRO* 1.3 69.8 - - - +
1806H GLU* 1.3 60.4 + - - +
1808H LEU* 3.4 6.0 + - + +
1809H ARG* 2.9 30.3 + - - +
1849H LEU* 5.4 7.4 - - + +
1854H ILE* 3.7 49.8 - - + +
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Residues in contact with GLU1806 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1804H PRO* 3.4 1.3 - - + +
1805H LEU* 1.3 79.2 - - - +
1807H ALA* 1.3 56.5 + - - +
1809H ARG* 3.3 31.9 + - - +
1810H ASP* 2.9 30.0 + - - +
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Residues in contact with ALA1807 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1695H LEU* 4.9 13.1 - - + +
1804H PRO* 3.8 23.2 + - + +
1805H LEU 3.4 0.2 - - - -
1806H GLU* 1.3 78.9 - - - +
1808H LEU* 1.3 61.3 + - + +
1810H ASP* 3.3 6.6 + - - +
1811H LYS* 2.9 30.2 + - - +
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Residues in contact with LEU1808 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1695H LEU* 3.8 34.1 - - + -
1698H LEU* 4.9 7.6 - - + -
1715H LEU* 4.2 28.3 - - + -
1719H HIS* 5.8 0.7 - - + -
1803H ILE* 3.7 26.7 - - + -
1804H PRO* 3.4 21.6 + - + +
1805H LEU* 3.8 7.2 - - + +
1806H GLU 3.3 0.4 - - - -
1807H ALA* 1.3 81.1 - - + +
1809H ARG* 1.3 57.5 + - - +
1811H LYS* 3.3 6.7 + - + +
1812H ALA* 2.9 31.0 + - - +
1849H LEU* 4.1 17.3 - - + +
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Residues in contact with ARG1809 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1805H LEU 2.9 16.5 + - - +
1806H GLU* 3.5 31.6 + - - +
1808H LEU* 1.3 76.6 - - - +
1810H ASP* 1.3 59.7 + - - +
1812H ALA* 3.3 2.7 + - - +
1813H LEU* 2.9 44.0 + - + +
1849H LEU* 4.3 5.7 - - + +
1854H ILE* 4.6 11.9 + - + +
1855H PHE* 3.5 45.4 - - + +
1856H GLY 4.6 3.1 - - - +
1859H ASP* 4.1 14.4 - - - +
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Residues in contact with ASP1810 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1806H GLU 2.9 17.4 + - - +
1807H ALA* 3.7 7.0 - - - +
1809H ARG* 1.3 81.8 - - - +
1811H LYS* 1.3 58.3 + - - +
1813H LEU* 3.3 8.6 + - - +
1814H ARG* 2.9 30.8 + - - +
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Residues in contact with LYS1811 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1695H LEU* 5.2 13.9 - - + -
1698H LEU* 5.6 12.3 - - + -
1807H ALA 2.9 18.3 + - - +
1808H LEU* 3.7 10.3 - - + +
1809H ARG 3.3 0.2 - - - -
1810H ASP* 1.3 76.8 - - - +
1812H ALA* 1.3 56.2 + - - +
1814H ARG* 3.4 20.8 + - - +
1815H MET* 2.9 30.5 + - - +
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Residues in contact with ALA1812 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1698H LEU* 6.5 0.7 - - - -
1808H LEU 2.9 17.2 + - - +
1809H ARG* 3.7 4.0 - - - +
1811H LYS* 1.3 76.5 - - - +
1813H LEU* 1.3 58.8 + - - +
1815H MET* 3.3 6.4 + - - +
1816H LEU* 2.9 30.4 + - - +
1842H VAL* 4.5 2.0 - - + +
1845H LEU* 5.4 6.7 - - + -
1846H VAL* 4.4 24.2 - - + +
1849H LEU* 4.4 16.2 - - + -
1855H PHE* 4.8 5.2 - - + -
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Residues in contact with LEU1813 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1809H ARG* 2.9 40.1 + - + +
1810H ASP* 3.7 7.9 - - - +
1812H ALA* 1.3 77.5 - - - +
1814H ARG* 1.3 57.1 + - - +
1816H LEU* 3.3 7.8 + - + +
1817H GLY* 2.9 24.9 + - - -
1846H VAL* 6.1 2.7 - - + -
1855H PHE* 5.1 8.7 - - + -
1859H ASP* 4.7 20.6 - - + +
1862H GLN* 5.1 12.1 - - + -
1863H ILE* 4.6 22.7 - - + -
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Residues in contact with ARG1814 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1699H GLU* 3.9 31.1 + - - +
1810H ASP 2.9 16.9 + - - +
1811H LYS* 3.8 19.0 + - - +
1812H ALA 3.3 0.2 - - - -
1813H LEU* 1.3 76.5 - - - +
1815H MET* 1.3 58.1 + - - +
1817H GLY* 3.3 2.5 + - - +
1818H GLU* 2.9 29.8 + - + +
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Residues in contact with MET1815 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1698H LEU* 5.5 4.3 - - + +
1708H ARG* 4.6 8.1 - - - +
1712H TYR* 4.5 12.3 - - - +
1811H LYS 2.9 17.9 + - - +
1812H ALA* 3.7 6.5 - - - +
1814H ARG* 1.3 77.4 - - - +
1816H LEU* 1.3 57.7 + - - +
1818H GLU* 3.3 6.5 + - - +
1819H ALA* 2.9 30.0 + - - +
1842H VAL* 3.9 16.5 - - + +
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Residues in contact with LEU1816 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1812H ALA 2.9 17.4 + - - +
1813H LEU* 3.7 9.4 - - + +
1815H MET* 1.3 75.6 - - - +
1817H GLY* 1.3 57.0 + - - +
1819H ALA* 3.3 5.3 + - - +
1820H VAL* 2.9 31.7 + - - +
1842H VAL* 3.9 14.3 - - + +
1843H LEU* 6.3 2.0 - - + -
1846H VAL* 4.6 11.0 - - + -
1866H MET* 3.7 27.7 - - + +
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Residues in contact with GLY1817 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1813H LEU 2.9 14.9 + - - -
1814H ARG* 3.7 3.4 - - - -
1816H LEU* 1.3 77.9 - - - +
1818H GLU* 1.3 56.1 + - - +
1820H VAL* 3.1 11.7 - - - +
1821H ARG* 2.9 30.9 + - - +
1866H MET* 4.8 2.4 - - - -
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Residues in contact with GLU1818 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1814H ARG* 2.9 18.5 + - + +
1815H MET* 3.7 7.0 - - - +
1817H GLY* 1.3 75.3 - - - +
1819H ALA* 1.3 57.4 + - - +
1821H ARG* 3.4 6.7 + - - +
1822H ASP* 2.9 30.5 + - - +
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Residues in contact with ALA1819 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1815H MET 2.9 17.9 + - - +
1816H LEU* 3.6 8.1 - - - +
1817H GLY 3.2 0.2 - - - -
1818H GLU* 1.3 77.2 - - - +
1820H VAL* 1.3 58.5 + - - +
1822H ASP* 3.3 6.0 + - - +
1823H GLY 2.9 23.0 + - - -
1838H GLN 4.8 2.9 - - - +
1839H PHE* 3.4 33.4 - - + -
1842H VAL* 4.6 15.7 - - + -
1866H MET* 5.9 1.3 - - + -
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Residues in contact with VAL1820 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1816H LEU 2.9 18.0 + - - +
1817H GLY* 3.1 21.8 - - - +
1819H ALA* 1.3 75.9 - - - +
1821H ARG* 1.3 57.5 + - - +
1823H GLY* 3.3 2.0 + - - +
1824H GLY* 2.9 25.8 + - - -
1839H PHE* 5.0 4.3 - - - -
1866H MET* 4.1 30.9 - - + +
1925H GLU* 4.0 29.5 - - + +
1926H GLY 5.8 0.2 - - - -
1927H LEU* 5.3 16.6 - - + +
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Residues in contact with ARG1821 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1817H GLY 2.9 19.8 + - - +
1818H GLU* 3.7 6.5 - - - +
1820H VAL* 1.3 79.1 - - + +
1822H ASP* 1.3 55.9 + - - +
1824H GLY* 3.3 2.0 + - - -
1825H GLN* 2.9 30.0 + - - +
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Residues in contact with ASP1822 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1232H ARG* 5.7 7.4 - - - +
1818H GLU 2.9 17.6 + - - +
1819H ALA* 3.8 5.8 - - - +
1821H ARG* 1.3 76.1 - - - +
1823H GLY* 1.3 62.7 + - - +
1825H GLN* 3.4 7.0 + - - +
1826H HIS* 3.2 17.2 + - - -
1827H ALA* 4.0 12.6 + - + +
1830H PRO* 6.5 0.9 - - + -
1831H VAL* 6.0 4.9 - - + -
1839H PHE* 5.7 3.1 - - + -
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Residues in contact with GLY1823 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1819H ALA 2.9 16.2 + - - -
1820H VAL* 3.8 2.2 - - - -
1821H ARG 3.3 0.2 - - - -
1822H ASP* 1.3 77.5 - - - +
1824H GLY* 1.3 60.1 + - - +
1826H HIS* 3.4 15.9 + - - +
1835H VAL* 6.5 0.4 - - - -
1839H PHE* 4.5 10.9 - - - -
1930H MET* 4.3 31.9 - - - +
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Residues in contact with GLY1824 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1820H VAL 2.9 16.4 + - - -
1821H ARG* 3.8 1.6 - - - -
1823H GLY* 1.3 76.1 - - - +
1825H GLN* 1.3 61.8 + - - +
1826H HIS* 3.4 3.5 + - - +
1925H GLU* 4.4 17.2 - - - +
1930H MET* 5.4 1.1 - - - -
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Residues in contact with GLN1825 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1231H GLN* 5.1 13.0 - - + +
1821H ARG 2.9 17.4 + - - +
1822H ASP* 3.8 8.1 - - - +
1823H GLY 3.3 0.4 - - - -
1824H GLY* 1.3 74.5 - - - +
1826H HIS* 1.3 71.3 + - - +
1827H ALA* 3.6 8.3 + - + +
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Residues in contact with HIS1826 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1229H ASN* 5.0 4.0 - - - +
1822H ASP 3.2 8.1 + - - -
1823H GLY 3.4 12.7 + - - +
1824H GLY 3.2 5.1 - - - +
1825H GLN* 1.3 81.5 - - - +
1827H ALA* 1.3 67.2 + - - +
1930H MET* 6.3 2.0 - - + -
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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
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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