Contacts of the helix formed by residues 1735 - 1749 (chain I) in PDB entry 2BT4
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 VAL1735 (chain I).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1620I LEU* 4.4 11.9 - - + -
1628I TYR 4.5 12.5 + - - +
1629I GLY* 6.1 0.4 - - - -
1631I ASP* 3.7 28.9 - - + +
1636I VAL* 3.4 31.6 - - + -
1639I LEU* 3.8 22.9 - - + +
1707I ILE* 4.2 8.2 - - + +
1734I GLY* 1.3 71.7 - - - -
1736I GLN* 1.3 64.0 + - - +
1737I GLY 3.1 0.2 - - - -
1738I TYR* 3.0 29.1 + - + +
1739I VAL 3.9 1.2 + - - -
2144K ARG* 5.6 0.2 - - - +
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Residues in contact with GLN1736 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1639I LEU* 5.4 1.1 - - - -
1733I CYS 3.3 11.0 - - - +
1734I GLY 3.1 0.4 - - - -
1735I VAL* 1.3 79.6 - - - +
1737I GLY* 1.3 64.8 + - - +
1739I VAL* 2.8 34.7 + - + +
1740I PHE* 2.9 43.0 + - + -
2143K GLU* 3.6 19.4 + - - +
2144K ARG* 3.0 33.9 + - - +
2147K ALA* 3.5 15.1 - - - +
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Residues in contact with GLY1737 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1705I VAL* 3.6 18.2 - - - +
1706I HIS 5.8 0.4 - - - -
1730I VAL* 3.8 25.5 - - - +
1733I CYS* 3.4 8.1 + - - +
1734I GLY 2.9 15.1 + - - -
1736I GLN* 1.3 79.4 - - - +
1738I TYR* 1.3 55.0 + - - +
1740I PHE* 3.2 5.5 + - - +
1741I GLY 2.8 24.1 + - - -
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Residues in contact with TYR1738 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1611I ILE* 4.2 15.3 - - + -
1613I ASN* 2.7 29.9 + - - -
1617I LEU* 4.1 4.7 - - - +
1633I LEU* 4.7 2.8 - - + +
1636I VAL* 3.7 28.7 - - + -
1639I LEU* 6.2 1.3 - - + -
1640I CYS* 3.8 22.0 - - - -
1677I VAL* 4.3 11.0 - - + +
1679I ASN* 3.0 33.6 + - + +
1705I VAL* 3.8 17.0 - - + +
1707I ILE* 3.8 28.8 - - + +
1735I VAL* 3.0 27.0 + - - +
1737I GLY* 1.3 76.2 - - - +
1739I VAL* 1.3 62.4 + - + +
1741I GLY* 3.2 1.7 + - - -
1742I VAL* 3.0 29.0 + - - +
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Residues in contact with VAL1739 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1639I LEU* 4.5 28.7 - - + +
1640I CYS* 5.8 0.7 - - - -
1643I ALA* 4.0 28.0 - - + -
1735I VAL 4.6 2.5 - - - +
1736I GLN* 2.8 30.3 + - + +
1738I TYR* 1.3 76.0 - - + +
1740I PHE* 1.3 61.2 + - + +
1742I VAL* 3.2 3.8 + - - +
1743I GLU* 2.9 48.6 + - - +
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Residues in contact with PHE1740 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1730I VAL* 4.1 18.4 - - + -
1733I CYS* 3.9 24.9 - - + -
1736I GLN* 2.9 48.5 + - + -
1737I GLY* 3.4 14.1 - - - +
1739I VAL* 1.3 79.6 - - + +
1741I GLY* 1.3 62.5 + - - +
1743I GLU* 3.3 4.2 + - - -
1744I ARG* 2.9 21.7 + - - +
2130K VAL* 5.0 1.8 - - + -
2140K PHE* 3.3 70.2 - + + -
2143K GLU* 3.4 22.9 - - + -
2144K ARG* 3.9 8.5 - - + -
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Residues in contact with GLY1741 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1677I VAL* 3.6 15.5 - - - -
1703I VAL* 3.9 26.2 - - - +
1730I VAL* 5.2 0.6 - - - +
1737I GLY 2.8 14.6 + - - -
1738I TYR 3.2 4.6 + - - -
1740I PHE* 1.3 77.2 - - - +
1742I VAL* 1.3 55.3 + - - +
1744I ARG* 3.3 2.4 + - - +
1745I ILE* 3.0 32.4 + - - +
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Residues in contact with VAL1742 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1609I ILE* 3.7 23.4 - - + +
1611I ILE* 4.1 26.0 - - + -
1640I CYS* 4.6 13.9 - - + +
1643I ALA* 4.0 11.0 - - + +
1644I ALA* 3.7 27.4 - - - +
1647I HIS* 5.1 2.2 - - + -
1651I VAL* 4.9 0.4 - - + -
1677I VAL* 3.8 7.8 - - + +
1738I TYR 3.0 18.4 + - - +
1739I VAL 3.5 6.7 - - - +
1741I GLY* 1.3 72.2 - - - +
1743I GLU* 1.3 62.3 + - - +
1745I ILE* 3.3 2.7 + - - +
1746I ALA* 2.9 28.8 + - + +
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Residues in contact with GLU1743 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1643I ALA* 5.7 0.9 - - + -
1647I HIS* 3.8 30.9 + - + +
1739I VAL* 2.9 38.5 + - + +
1740I PHE* 3.3 5.9 + - - +
1742I VAL* 1.3 76.5 - - + +
1744I ARG* 1.3 62.3 + - - +
1746I ALA* 3.4 7.7 + - - +
1747I ALA* 3.0 17.7 + - - +
2136K GLN* 3.5 14.4 + - - +
2139K VAL* 5.5 0.2 - - - +
2140K PHE* 3.0 21.5 - - + -
2143K GLU* 2.7 38.8 - - - +
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Residues in contact with ARG1744 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1703I VAL* 3.9 19.3 - - + -
1727I ASP* 6.4 0.7 - - + -
1728I GLY* 5.8 1.1 - - - -
1740I PHE 2.9 17.0 + - - +
1741I GLY* 3.6 4.5 - - - +
1743I GLU* 1.3 72.9 - - - +
1745I ILE* 1.3 68.8 + - - +
1747I ALA* 3.0 7.4 + - - +
1748I LEU* 2.9 63.5 + - + +
2132K GLY 4.3 5.8 + - - +
2133K CYS* 3.0 51.3 + - - +
2134K GLY* 3.7 8.1 - - - +
2136K GLN* 3.0 33.1 + - - +
2140K PHE* 3.8 7.1 - - + -
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Residues in contact with ILE1745 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1604I LEU* 4.4 2.5 - - + -
1609I ILE* 4.1 28.3 - - + -
1674I CYS 4.4 1.3 - - - +
1675I GLY* 4.2 14.6 - - - -
1676I ILE 3.9 7.2 - - - +
1677I VAL* 4.0 17.0 - - + -
1701I PRO* 3.6 38.6 - - + +
1703I VAL* 3.9 17.5 - - + -
1741I GLY 3.0 20.9 + - - +
1742I VAL 3.7 3.8 - - - +
1744I ARG* 1.3 77.4 - - - +
1746I ALA* 1.3 56.6 + - - +
1748I LEU* 3.1 3.7 + - + +
1749I ALA* 2.7 41.0 + - + +
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Residues in contact with ALA1746 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1604I LEU* 3.5 33.0 - - + +
1647I HIS* 3.7 26.9 - - + +
1742I VAL* 2.9 18.2 + - + +
1743I GLU 3.7 5.4 - - - +
1744I ARG 3.2 0.2 - - - -
1745I ILE* 1.3 77.7 - - - +
1747I ALA* 1.3 61.8 + - - +
1748I LEU 3.4 0.2 + - - -
1749I ALA 4.1 1.2 - - - -
1750I GLY* 3.6 15.4 + - - -
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Residues in contact with ALA1747 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1743I GLU 3.0 10.1 + - - +
1744I ARG* 3.0 11.0 + - - +
1746I ALA* 1.3 77.5 - - - +
1748I LEU* 1.3 63.0 + - + +
1750I GLY 3.6 15.4 - - - +
2136K GLN* 3.3 30.7 - - - +
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Residues in contact with LEU1748 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1701I PRO* 3.9 32.0 - - + +
1703I VAL* 5.8 1.1 - - + -
1727I ASP* 5.0 15.3 - - + -
1744I ARG* 2.9 60.9 + - + +
1745I ILE* 3.8 4.5 - - + +
1747I ALA* 1.3 78.1 - - + +
1749I ALA* 1.3 57.0 + - - +
1750I GLY 3.0 15.0 + - - +
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Residues in contact with ALA1749 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1602I ARG 4.0 17.0 - - - +
1603I SER* 3.6 23.0 - - - -
1604I LEU* 3.4 26.0 + - + +
1674I CYS* 4.3 14.6 - - + +
1701I PRO* 4.7 4.5 - - + -
1745I ILE* 2.7 22.2 + - + +
1746I ALA 3.6 2.2 + - - -
1748I LEU* 1.3 72.5 - - - +
1750I GLY* 1.3 54.8 + - - +
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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
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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