Contacts of the helix formed by residues 743 - 751 (chain A) in PDB entry 2WSC
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 ILE 743 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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401A TRP* 3.6 34.0 - - + +
405A PHE* 4.1 23.1 - - + -
606A TYR* 3.6 23.3 - - + -
739A LEU* 2.7 44.8 + - + +
740A LEU* 4.8 1.6 - - - -
741A GLY 2.4 12.3 + - - -
742A GLY* 1.3 65.5 - - - +
744A ALA* 1.4 52.2 + - - +
745A THR 3.0 4.7 - - - -
746A THR* 2.7 30.1 + - - -
747A TRP 3.3 6.1 + - - -
1783A CLA 3.7 25.0 - - + +
1807A BCR 4.3 15.9 - - + -
1811A CLA 5.4 0.7 - - - -
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Residues in contact with ALA 744 (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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678A PHE* 5.3 4.2 - - + +
679A PHE* 6.2 0.2 - - - -
682A ALA* 4.5 11.2 - - + -
740A LEU 3.9 7.9 + - - +
741A GLY 3.2 3.6 + - - -
743A ILE* 1.4 72.8 - - - +
745A THR* 1.3 57.8 + - - +
746A THR 3.2 0.2 - - - -
747A TRP* 3.3 16.5 - - + +
748A ALA* 2.8 36.0 + - - +
1807A BCR 2.5 49.5 - - + +
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Residues in contact with THR 745 (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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679A PHE* 3.3 18.6 - - + +
682A ALA* 3.5 10.5 + - - +
683A HIS* 3.4 55.9 - - + +
741A GLY 2.7 4.2 + - - -
742A GLY* 2.6 34.5 + - - -
744A ALA* 1.3 72.6 - - - +
746A THR* 1.3 54.8 + - - -
748A ALA* 3.4 2.5 - - - +
749A PHE* 2.8 21.1 + - - +
1811A CLA 3.2 22.2 - - + -
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Residues in contact with THR 746 (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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401A TRP* 6.6 0.2 - - - -
613A ILE* 4.8 5.6 - - + -
614A PHE* 4.0 10.1 - - + -
743A ILE 2.7 13.9 + - - -
745A THR* 1.3 69.4 - - - +
747A TRP* 1.3 53.8 + - - +
748A ALA 2.8 4.9 - - - -
749A PHE* 2.7 23.8 + - + -
750A PHE* 2.4 63.6 + - + +
1783A CLA 5.4 2.7 - - + -
1811A CLA 2.2 50.7 + - - -
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Residues in contact with TRP 747 (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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675A TYR* 4.0 29.4 - + - -
678A PHE* 3.9 37.2 - + - -
743A ILE 3.3 4.8 + - - -
744A ALA* 3.3 25.6 - - + +
746A THR* 1.3 74.4 - - - +
748A ALA* 1.3 58.8 + - + +
750A PHE* 4.7 4.5 - - - -
751A LEU* 3.3 42.0 + - + +
1764A CLA 4.6 9.0 - + + -
1783A CLA 2.7 111.8 + + + +
1807A BCR 2.7 28.7 - - + -
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Residues in contact with ALA 748 (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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664A VAL* 4.9 0.9 - - - -
675A TYR* 3.6 42.6 - - + +
678A PHE* 4.6 4.5 - - + -
679A PHE* 3.9 16.4 - - + +
744A ALA 2.8 15.1 + - - +
745A THR 3.4 4.7 - - - +
746A THR 2.8 1.1 - - - -
747A TRP* 1.3 75.2 - - + +
749A PHE* 1.3 70.8 + - - +
750A PHE 3.0 11.3 + - - +
751A LEU 3.3 9.0 + - - +
752A ALA* 3.6 5.6 - - - +
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Residues in contact with PHE 749 (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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614A PHE* 4.1 2.0 - + - -
656A PHE* 3.4 39.0 - + - -
657A LEU 4.6 0.4 - - - -
660A GLN* 3.5 37.7 - - + -
661A ALA 3.5 8.7 - - - -
664A VAL* 3.5 19.2 - - + +
679A PHE* 3.4 21.1 - - + -
745A THR 2.8 7.9 + - - -
746A THR* 2.7 34.1 + - + +
748A ALA* 1.3 69.9 - - - +
750A PHE* 1.4 68.5 + + - +
752A ALA* 3.8 2.3 - - - +
753A ARG* 4.1 8.7 + - + +
1811A CLA 3.2 41.5 - + + -
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Residues in contact with PHE 750 (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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393A LEU* 2.6 37.5 - - + -
397A THR* 4.2 14.1 - - + -
613A ILE* 3.6 28.3 - - + -
614A PHE* 6.0 0.7 - + - -
616A PHE* 5.2 1.8 - + - -
617A SER* 3.3 34.8 - - - -
621A GLN* 5.3 4.5 - - - -
656A PHE* 5.8 1.8 - + - -
746A THR* 2.4 47.2 + - + +
747A TRP* 4.3 4.0 - - - +
749A PHE* 1.4 79.8 - + - +
751A LEU* 1.3 62.4 + - + +
752A ALA 2.4 21.3 + - - -
753A ARG* 2.7 15.9 + - + +
754A ILE* 4.2 13.5 - - + -
1783A CLA 5.0 8.5 - - + -
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Residues in contact with LEU 751 (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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146A THR* 3.6 38.4 - - + +
394A SER* 4.5 11.9 - - - +
675A TYR* 2.8 71.4 - - + +
747A TRP* 3.3 33.1 + - + +
748A ALA 3.3 3.6 + - - +
750A PHE* 1.3 73.0 - - + +
752A ALA* 1.3 60.8 - - - +
754A ILE* 3.8 17.5 - - + -
755A ILE* 3.6 17.8 - - + +
1764A CLA 4.5 3.8 - - + -
1783A CLA 5.4 4.7 - - + -
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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