Contacts of the helix formed by residues 1589 - 1603 (chain A) in PDB entry 2FR1
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 HIS1589 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1533A ALA* 3.6 29.0 + - + -
1536A GLU* 3.0 36.4 + - - +
1546A LEU* 3.4 20.0 - - + +
1548A SER* 4.1 2.2 - - - -
1572A THR* 4.7 4.4 - - + +
1573A GLU* 4.5 9.4 + - + -
1575A ALA* 3.7 20.6 - - + -
1585A ARG* 3.7 24.7 + - - -
1586A ASN* 3.1 34.7 + - + +
1588A ALA* 1.3 77.9 - - - +
1590A GLY* 1.3 61.7 + - - +
1592A LEU* 3.1 24.6 + - + +
1593A TRP* 3.7 8.0 - - - -
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Residues in contact with GLY1590 (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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1575A ALA* 4.7 10.7 + - - +
1576A VAL* 6.1 0.9 - - - -
1584A VAL* 6.1 0.4 - - - +
1586A ASN 4.1 1.2 + - - -
1587A ALA 3.2 11.5 + - - -
1588A ALA 3.0 2.4 - - - -
1589A HIS* 1.3 79.2 - - - +
1591A ALA* 1.3 61.4 + - - +
1593A TRP* 3.0 15.5 + - - +
1594A GLY 3.0 17.7 + - - -
1818A ALA* 3.3 20.2 - - - +
1822A GLY* 6.5 0.2 - - - -
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Residues in contact with ALA1591 (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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1544A LEU* 3.9 24.0 - - + -
1549A LEU* 4.5 12.3 - - + -
1587A ALA 4.3 1.2 + - - -
1588A ALA 2.8 16.7 + - - +
1590A GLY* 1.3 76.7 - - - +
1592A LEU* 1.3 57.1 + - + +
1594A GLY* 3.6 0.2 - - - -
1595A VAL* 2.8 34.7 + - - +
1815A PRO* 4.0 21.4 + - + +
1818A ALA* 3.9 11.5 - - - +
1819A TYR 4.9 1.1 - - - +
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Residues in contact with LEU1592 (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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1533A ALA* 3.5 32.5 - - + -
1546A LEU* 4.6 2.9 - - + -
1548A SER* 3.7 20.6 - - - +
1549A LEU* 4.1 21.3 - - + -
1552A THR* 4.4 17.5 - - + +
1570A THR* 4.2 11.9 - - + -
1572A THR* 3.9 13.2 - - + -
1588A ALA 4.3 8.7 - - - +
1589A HIS* 3.1 16.3 + - + +
1591A ALA* 1.3 77.9 - - + +
1593A TRP* 1.3 56.8 + - + +
1595A VAL* 3.5 9.1 - - - +
1596A GLY* 2.7 32.4 + - - -
1607A TRP* 4.8 2.0 - - + -
1610A LEU* 4.1 8.9 - - + +
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Residues in contact with TRP1593 (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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1459A TRP* 3.8 25.8 - + - -
1572A THR* 2.9 37.2 + - + +
1575A ALA* 4.0 9.2 - - + +
1576A VAL* 4.1 16.6 - - + -
1589A HIS 3.7 16.2 - - - -
1590A GLY* 3.0 11.3 + - - +
1592A LEU* 1.3 74.6 - - - +
1594A GLY* 1.3 64.0 + - - +
1597A ARG* 3.1 53.9 + - - +
1610A LEU* 3.7 46.8 - - + +
1611A VAL 4.1 0.7 - - - -
1612A ASP* 3.7 20.4 - - + -
1637A GLN* 3.9 18.6 - - + -
1638A LEU 3.5 21.3 - - - -
1648A ARG* 4.8 1.3 - - - -
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Residues in contact with GLY1594 (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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1590A GLY 3.0 12.8 + - - -
1591A ALA 3.2 3.1 + - - -
1593A TRP* 1.3 79.5 - - - +
1595A VAL* 1.3 61.9 + - - +
1597A ARG* 3.4 25.0 + - - +
1598A VAL* 3.7 8.3 + - - +
1802A ALA 4.6 1.4 - - - +
1803A SER* 5.0 2.9 - - - -
1814A ALA* 3.6 25.7 - - - +
1818A ALA* 4.4 8.5 - - - -
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Residues in contact with VAL1595 (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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1549A LEU* 4.2 13.9 - - + -
1552A THR* 5.2 8.1 - - + -
1553A LEU* 4.0 25.4 - - + -
1591A ALA 2.8 21.4 + - - +
1592A LEU* 3.5 11.7 - - - +
1594A GLY* 1.3 72.0 - - - -
1596A GLY* 1.3 69.2 + - - +
1598A VAL* 3.1 5.3 + - - +
1599A ILE* 3.0 34.1 + - + +
1761A VAL* 5.4 0.7 - - + -
1764A LEU* 5.1 2.7 - - + -
1769A ILE* 4.9 4.0 - - + -
1811A GLY* 3.6 30.5 - - - +
1814A ALA* 4.3 2.5 - - - +
1815A PRO* 4.2 9.6 - - + +
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Residues in contact with GLY1596 (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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1592A LEU 2.7 21.1 + - - -
1593A TRP 3.8 1.6 - - - -
1594A GLY 3.2 0.4 - - - -
1595A VAL* 1.3 78.6 - - - +
1597A ARG* 1.3 59.9 + - - +
1599A ILE* 3.3 3.1 + - - +
1600A ALA* 3.1 18.9 + - - +
1607A TRP* 3.4 41.5 + - - -
1610A LEU* 4.4 3.4 - - - -
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Residues in contact with ARG1597 (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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1590A GLY 5.1 0.8 + - - -
1593A TRP* 3.1 44.7 + - - +
1594A GLY* 3.7 17.8 + - - +
1595A VAL 3.2 0.2 - - - -
1596A GLY* 1.3 75.8 - - - +
1598A VAL* 1.3 63.7 + - - +
1600A ALA* 3.5 12.7 + - - +
1601A LEU* 3.5 21.0 - - - +
1610A LEU* 4.7 2.7 - - + +
1637A GLN* 3.1 41.9 + - + +
1648A ARG* 3.5 29.8 - - - +
1803A SER* 2.8 33.9 + - - +
1805A PHE* 3.8 28.5 - - - +
1806A GLY* 4.7 1.5 - - - -
1818A ALA* 5.2 2.8 - - - +
1821A ASP* 5.8 0.6 + - - -
1898A TYR* 4.7 5.0 + - - +
1906A LEU* 4.8 0.2 - - - -
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Residues in contact with VAL1598 (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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1594A GLY 3.7 12.1 + - - +
1595A VAL 3.1 7.7 + - - +
1597A ARG* 1.3 73.4 - - - +
1599A ILE* 1.3 68.0 + - - +
1600A ALA 3.1 1.6 - - - -
1601A LEU* 3.1 9.4 + - - +
1602A GLU* 3.0 45.0 + - - +
1761A VAL* 4.2 3.6 - - + -
1802A ALA 4.7 0.2 - - - +
1806A GLY* 4.1 6.5 - - - -
1807A ALA 3.5 38.1 - - - +
1808A PRO* 4.2 0.2 - - + -
1810A LEU 4.3 2.9 - - - -
1811A GLY* 3.6 30.5 - - - +
1814A ALA* 4.4 5.6 - - + -
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Residues in contact with ILE1599 (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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1552A THR* 4.9 3.1 - - + -
1553A LEU* 4.2 8.5 - - + -
1556A VAL* 4.0 26.7 - - + -
1595A VAL* 3.0 37.0 + - + +
1596A GLY* 3.3 5.8 + - - +
1598A VAL* 1.3 76.6 - - - +
1600A ALA* 1.3 57.4 + - - +
1602A GLU* 4.5 1.3 - - - +
1603A ASN* 2.9 36.8 + - + +
1606A VAL* 4.7 1.8 - - + -
1607A TRP* 3.5 41.1 - - + -
1761A VAL* 3.6 34.3 - - + -
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Residues in contact with ALA1600 (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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1596A GLY 3.1 8.7 + - - +
1597A ARG* 3.5 13.9 - - - +
1598A VAL 3.1 0.2 - - - -
1599A ILE* 1.3 78.5 - - - +
1601A LEU* 1.3 57.5 + - + +
1604A PRO* 3.0 27.9 - - - +
1607A TRP* 3.5 34.1 - - + +
1636A ASP* 4.8 3.4 - - - +
1902A ARG* 3.3 27.3 - - - +
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Residues in contact with LEU1601 (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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1597A ARG 3.5 15.9 + - - +
1598A VAL* 3.1 6.3 + - - +
1600A ALA* 1.3 81.4 - - + +
1602A GLU* 1.3 62.3 + - - +
1603A ASN 3.5 0.2 - - - -
1604A PRO* 3.8 6.1 - - - +
1805A PHE 4.6 0.2 - - - +
1806A GLY 3.6 25.6 - - - +
1807A ALA* 3.9 14.1 - - - +
1808A PRO* 4.1 16.6 - - + +
1898A TYR* 3.4 52.9 - - + +
1901A GLN* 3.1 29.1 - - - +
1902A ARG* 5.1 11.7 - - + +
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Residues in contact with GLU1602 (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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1598A VAL* 3.0 25.3 + - - +
1599A ILE* 4.2 1.6 - - - +
1601A LEU* 1.3 79.6 - - - +
1603A ASN* 1.3 62.9 + - + +
1604A PRO* 3.7 3.1 - - - +
1760A THR* 3.9 11.5 - - - +
1761A VAL* 3.3 41.1 + - + +
1762A ASP* 5.1 0.9 + - - +
1808A PRO* 3.9 18.6 - - + -
1809A GLY* 2.9 28.5 + - - -
1811A GLY 4.9 0.2 + - - -
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Residues in contact with ASN1603 (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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1556A VAL* 5.8 0.9 - - + -
1560A VAL* 3.5 33.3 - - + +
1599A ILE* 2.9 19.5 + - + +
1602A GLU* 1.3 81.9 + - + +
1604A PRO* 1.3 64.8 - - - +
1605A ALA* 3.8 9.7 + - - +
1606A VAL* 3.1 41.0 + - + +
1607A TRP* 3.5 4.2 + - - +
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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