Contacts of the helix formed by residues 1642 - 1660 (chain A) in PDB entry 3AU5
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 SER1642 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1604A ASP* 2.7 32.3 + - - -
1641A PRO* 1.3 76.2 - - - +
1643A ARG* 1.3 58.9 + - - +
1644A GLY* 3.9 3.0 + - - -
1645A ILE* 3.0 17.2 + - - +
1646A LEU* 2.8 26.0 + - - +
2016B GLU* 6.3 3.4 - - - -
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Residues in contact with ARG1643 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1642A SER* 1.3 74.2 - - - +
1644A GLY* 1.3 63.0 + - - +
1646A LEU* 3.7 12.8 - - + +
1647A LYS* 3.0 26.7 + - - +
2000B LEU* 3.6 28.3 - - + +
2013B VAL* 3.6 20.6 - - - +
2015B ASP* 2.6 44.8 + - - +
2016B GLU* 3.5 21.4 + - + +
2017B ARG 3.8 4.4 + - - -
2018B GLU* 2.7 30.7 + - - +
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Residues in contact with GLY1644 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1510A ILE* 5.6 3.2 - - - +
1642A SER* 3.3 3.8 + - - -
1643A ARG* 1.3 77.3 - - - +
1645A ILE* 1.3 66.9 + - - +
1647A LYS* 3.2 13.4 + - - +
1648A TYR* 3.1 19.8 + - - +
2014B VAL 5.7 3.5 + - - -
2015B ASP* 5.8 1.8 - - - +
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Residues in contact with ILE1645 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1510A ILE* 5.6 4.0 - - + -
1545A LEU* 4.3 7.6 - - + -
1604A ASP* 3.3 20.6 - - + +
1607A TYR* 3.9 20.4 - - + -
1608A CYS* 4.1 28.3 - - - +
1611A ILE* 5.1 5.2 - - + -
1641A PRO* 3.9 22.4 - - + -
1642A SER* 3.0 21.7 + - - +
1644A GLY* 1.3 74.8 - - - +
1646A LEU* 1.3 55.5 + - - +
1647A LYS 3.1 2.0 - - - -
1648A TYR* 3.2 7.2 + - + +
1649A LEU* 2.7 33.5 + - + +
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Residues in contact with LEU1646 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1640A LEU* 5.1 14.4 - - + -
1641A PRO* 3.6 26.4 - - + +
1642A SER 2.8 18.4 + - - +
1643A ARG* 3.7 13.9 - - + +
1645A ILE* 1.3 77.1 - - - +
1647A LYS* 1.3 56.2 + - - +
1649A LEU* 3.6 2.5 + - + +
1650A LYS* 3.1 52.5 + - + +
1676A LEU* 3.6 39.7 - - + +
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Residues in contact with LYS1647 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1514A LYS* 4.7 22.8 - - - +
1643A ARG 3.0 9.9 + - - +
1644A GLY* 3.2 13.6 + - - +
1645A ILE 3.1 0.2 - - - -
1646A LEU* 1.3 75.8 - - - +
1648A TYR* 1.3 68.9 + - - +
1650A LYS* 3.4 8.6 + - + +
1651A PHE* 3.0 26.1 + - - +
1997B GLU 4.4 6.7 - - - -
1998B HIS* 4.2 30.8 - - - +
2000B LEU* 3.1 37.9 - - + -
2014B VAL 5.3 2.9 - - - +
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Residues in contact with TYR1648 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1506A THR* 5.9 0.4 - - + -
1510A ILE* 3.8 49.1 - - + -
1513A ILE* 3.8 19.1 - - + +
1527A TYR* 2.7 41.3 + - - -
1533A LEU* 4.4 9.7 + - + +
1608A CYS* 4.9 9.2 - - + -
1611A ILE* 3.6 42.8 - - + +
1644A GLY 3.1 8.9 + - - +
1645A ILE* 3.5 11.4 - - + +
1647A LYS* 1.3 81.2 - - - +
1649A LEU* 1.3 56.3 + - - +
1651A PHE* 3.1 21.6 - + - +
1652A HIS* 2.9 26.4 + - + +
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Residues in contact with LEU1649 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1607A TYR* 3.7 30.3 - - + -
1611A ILE* 3.6 32.3 - - + +
1632A LEU* 4.2 17.5 - - + -
1641A PRO* 4.7 2.2 - - + -
1645A ILE* 2.7 21.4 + - + +
1646A LEU* 3.7 10.5 - - + +
1648A TYR* 1.3 74.2 - - - +
1650A LYS* 1.3 57.7 + - - +
1652A HIS* 3.0 4.5 + - + +
1653A LEU* 2.8 57.1 + - + +
1672A THR* 4.9 2.9 - - + -
1676A LEU* 3.4 29.2 - - + -
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Residues in contact with LYS1650 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1646A LEU* 3.1 47.8 + - + +
1647A LYS* 3.8 7.0 - - + +
1649A LEU* 1.3 78.6 - - - +
1651A PHE* 1.3 63.1 + - - +
1653A LEU* 3.9 7.9 - - - +
1654A LYS* 3.1 26.0 + - - +
1673A TYR* 3.9 37.6 + - + +
1676A LEU* 4.5 18.2 - - + -
1677A LYS* 5.5 9.8 - - - +
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Residues in contact with PHE1651 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1513A ILE* 3.6 29.2 - - + -
1517A CYS* 3.9 32.1 - - + -
1523A VAL* 4.2 15.0 - - + -
1527A TYR* 3.9 11.9 - - - -
1647A LYS* 3.0 17.0 + - - +
1648A TYR* 3.1 28.7 - + + +
1650A LYS* 1.3 78.0 - - - +
1652A HIS* 1.3 62.5 + - - +
1654A LYS* 3.7 4.4 + - - +
1655A ARG* 3.2 59.0 + - + +
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Residues in contact with HIS1652 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1527A TYR* 4.6 9.4 + - - +
1611A ILE* 3.6 31.2 + - + +
1614A THR* 2.9 26.0 + - - -
1615A ASN* 3.7 33.6 + - + -
1629A TRP* 4.4 7.9 - + - -
1632A LEU* 5.4 1.3 - - + -
1648A TYR* 2.9 12.7 + - + +
1649A LEU* 3.2 12.1 - - + +
1651A PHE* 1.3 80.2 - - + +
1653A LEU* 1.3 69.3 + - + +
1655A ARG* 3.2 10.3 + - - +
1656A ILE* 2.9 54.0 + - + +
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Residues in contact with LEU1653 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1629A TRP* 3.7 31.6 - - + -
1632A LEU* 4.5 1.6 - - + -
1649A LEU* 2.8 50.8 + - + +
1650A LYS* 3.9 4.5 - - - +
1652A HIS* 1.3 74.2 - - + +
1654A LYS* 1.3 64.5 + - - +
1656A ILE* 3.1 6.2 + - - +
1657A ARG* 3.0 29.9 + - + +
1669A ALA* 3.9 25.3 - - + +
1672A THR* 4.0 21.5 - - + -
1673A TYR* 4.1 24.7 - - + -
1676A LEU* 4.2 5.8 - - + -
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Residues in contact with LYS1654 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1650A LYS 3.1 17.9 + - - +
1651A PHE* 3.9 5.4 - - - +
1653A LEU* 1.3 78.2 - - - +
1655A ARG* 1.3 62.2 + - + +
1657A ARG* 3.3 9.7 + - - +
1658A GLU* 3.1 53.2 + - + +
1673A TYR* 6.0 2.2 - - + -
2045B TYR* 5.7 5.1 + - - -
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Residues in contact with ARG1655 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1520A SER* 5.4 7.3 + - - +
1523A VAL* 3.7 19.5 - - - +
1524A GLU* 2.7 31.1 + - - -
1527A TYR* 3.5 25.0 + - - -
1615A ASN* 5.1 1.4 + - - -
1616A LYS* 3.8 10.1 - - - +
1651A PHE* 3.2 52.1 + - + +
1652A HIS* 3.6 12.5 + - - +
1653A LEU 3.2 0.4 - - - -
1654A LYS* 1.3 75.5 - - + +
1656A ILE* 1.3 64.9 + - + +
1658A GLU* 3.5 14.1 + - - +
1659A GLN* 3.1 44.9 + - - +
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Residues in contact with ILE1656 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1614A THR 3.8 22.2 - - - +
1615A ASN* 5.4 1.6 - - - +
1616A LYS 6.0 0.4 - - - +
1629A TRP* 3.6 36.6 - - + -
1652A HIS* 2.9 37.5 + - + +
1653A LEU* 3.1 5.3 + - - +
1655A ARG* 1.3 74.9 - - + +
1657A ARG* 1.3 61.9 + - - +
1659A GLN* 6.0 0.9 - - - +
1660A PHE* 2.8 54.4 + - + +
1665A MET* 4.3 17.7 - - + +
1666A GLU* 4.5 0.8 - - - +
1669A ALA* 4.3 8.7 - - + -
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Residues in contact with ARG1657 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1653A LEU* 3.0 17.0 + - - +
1654A LYS* 3.3 10.7 + - - +
1656A ILE* 1.3 78.7 - - - +
1658A GLU* 1.3 63.4 + - + +
1661A PRO* 3.6 23.0 - - - +
1666A GLU* 2.7 47.0 + - + +
1669A ALA* 3.9 13.5 - - + -
1670A LEU* 3.4 46.7 - - - +
1673A TYR* 6.0 2.4 - - - -
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Residues in contact with GLU1658 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1654A LYS* 3.1 46.4 + - + +
1655A ARG* 3.9 16.1 - - - +
1656A ILE 3.2 0.2 - - - -
1657A ARG* 1.3 80.1 - - + +
1659A GLN* 1.3 63.2 + - + +
1661A PRO* 3.4 13.0 - - - +
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Residues in contact with GLN1659 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1524A GLU* 3.8 19.3 + - - -
1616A LYS* 3.6 18.7 + - - -
1655A ARG* 3.1 39.9 + - - +
1656A ILE* 6.0 1.1 - - - +
1658A GLU* 1.3 75.8 + - + +
1660A PHE* 1.3 88.1 + - + +
1661A PRO* 3.2 10.6 - - - +
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Residues in contact with PHE1660 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1614A THR 6.0 0.2 - - - -
1616A LYS* 6.1 5.8 - - - -
1617A VAL* 5.9 3.6 - - + -
1620A PRO* 3.9 28.9 - - + -
1656A ILE* 2.8 52.9 + - + +
1657A ARG 4.0 0.9 - - - -
1659A GLN* 1.3 101.2 - - + +
1661A PRO* 1.3 62.9 - - - +
1663A THR* 2.7 34.4 + - + +
1665A MET* 4.1 19.3 - - + -
1666A GLU* 3.2 8.5 - - - +
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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