Contacts of the strand formed by residues 1656 - 1664 (chain A) in PDB entry 6BTY
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 PHE1656 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1586A THR* 4.3 15.5 - - + -
1587A GLU 5.7 0.7 - - - -
1588A ASP* 3.8 17.9 - - - -
1592A PRO* 4.9 2.5 - - + -
1647A LEU* 3.1 9.0 - - - -
1648A SER* 2.8 46.8 + - - -
1650A GLU* 3.4 33.7 - - + -
1653A ARG* 3.6 21.8 - - - -
1654A GLU 3.9 6.3 - - - +
1655A ASN* 1.3 74.7 - - - +
1657A PHE* 1.3 70.1 + - - +
1658A LEU* 3.6 21.7 + - + -
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Residues in contact with PHE1657 (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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1645A SER* 3.8 26.7 - - - -
1646A VAL 3.8 9.0 - - - -
1647A LEU* 4.2 11.5 - - + +
1656A PHE* 1.3 84.6 - - - +
1658A LEU* 1.3 61.4 + - - +
1659A GLY* 3.2 41.3 - - - -
1660A GLY* 3.4 7.2 - - - -
1681A THR 3.8 8.5 - - - -
1682A ALA* 4.0 18.8 - - + -
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Residues in contact with LEU1658 (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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1584A LEU* 4.1 31.9 - - + +
1585A VAL* 3.9 23.3 + - - +
1586A THR* 3.8 20.2 - - + -
1592A PRO* 4.0 18.6 - - + -
1594A PRO* 4.1 3.4 - - + -
1646A VAL* 2.8 28.1 + - + +
1647A LEU 3.7 22.0 - - - +
1648A SER* 3.8 8.1 - - - +
1656A PHE* 3.6 28.5 - - + -
1657A PHE* 1.3 77.2 - - - +
1659A GLY* 1.3 55.5 + - - +
1682A ALA* 4.6 9.4 - - - +
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Residues in contact with GLY1659 (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 VAL* 2.7 30.0 + - - +
1657A PHE* 3.2 16.8 - - - -
1658A LEU* 1.3 81.3 - - - +
1660A GLY* 1.3 58.5 + - - -
1680A LEU* 4.3 16.2 - - - -
1681A THR 3.3 15.3 - - - -
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Residues in contact with GLY1660 (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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1644A LEU 3.1 14.6 - - - -
1657A PHE* 3.4 9.3 - - - -
1659A GLY* 1.3 75.3 - - - -
1661A VAL* 1.3 62.5 + - - +
1679A GLN 4.2 0.2 - - - +
1680A LEU* 3.5 10.7 - - - +
1681A THR* 2.8 40.1 + - - +
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Residues in contact with VAL1661 (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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1563A VAL* 4.4 6.3 - - + -
1565A LEU* 5.3 0.2 - - + -
1642A LEU 3.6 1.7 - - - +
1643A GLN* 5.7 0.2 - - - -
1644A LEU* 2.9 45.3 + - + +
1660A GLY* 1.3 76.3 - - - +
1662A THR* 1.3 68.2 + - - +
1663A LEU* 3.8 31.1 - - + +
1678A TYR* 4.4 20.0 - - + -
1679A GLN 3.8 18.8 - - - +
1680A LEU* 4.2 11.2 - - + +
1681A THR* 5.1 2.7 - - + -
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Residues in contact with THR1662 (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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1641A GLU* 3.7 42.6 - - + +
1642A LEU 3.4 6.3 - - - +
1643A GLN* 3.9 19.0 + - + +
1661A VAL* 1.3 79.1 + - - +
1663A LEU* 1.3 69.9 + - - +
1664A PRO* 3.6 11.2 - - + +
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Residues in contact with LEU1663 (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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1565A LEU* 3.9 28.5 - - + -
1567A ILE* 4.4 10.1 - - + -
1641A GLU* 4.2 1.6 - - - -
1642A LEU* 2.9 45.9 + - + +
1644A LEU* 6.0 0.9 - - + -
1661A VAL* 3.8 21.1 - - + +
1662A THR* 1.3 80.3 - - - +
1664A PRO* 1.3 68.8 - - + +
1665A LEU* 3.3 5.4 + - - +
1668A PHE* 4.2 15.0 - - + -
1678A TYR* 3.7 42.4 - - + -
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Residues in contact with PRO1664 (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 ARG 3.9 7.9 - - - +
1641A GLU* 4.1 11.0 - - + +
1662A THR* 3.6 13.7 - - + +
1663A LEU* 1.3 85.4 - - + +
1665A LEU* 1.3 62.8 + - - +
1666A LYS* 3.2 18.4 - - + -
1667A ASP* 3.2 36.7 + - - +
1668A PHE* 3.6 6.8 - - - -
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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
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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