Contacts of the strand formed by residues 766 - 775 (chain B) in PDB entry 2WAC
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 TRP 766 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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731B MET* 3.4 23.6 - - - +
734B LEU* 3.7 23.5 - - + +
735B HIS* 5.6 6.8 + - - +
738B PHE* 3.4 57.1 + + + +
739B GLN* 5.7 4.3 + - - -
743B PRO* 4.0 10.7 - - + +
757B ALA* 3.5 26.9 - - + -
758B ALA 3.7 9.2 - - - -
759B GLN* 3.9 28.1 - - + +
764B ASN 4.8 2.5 - - - -
765B GLN* 1.3 76.7 - - - +
767B TYR* 1.3 61.2 + - - +
795B ASN 5.5 2.0 - - - -
796B ARG* 3.4 30.3 - - - -
797B LEU 5.0 0.2 - - - -
798B ALA* 3.8 12.6 - - + -
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Residues in contact with TYR 767 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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731B MET* 3.8 16.6 - - + +
734B LEU* 4.8 4.3 - - - -
757B ALA* 3.4 5.9 - - - -
758B ALA* 2.8 31.2 + - - -
760B PHE* 3.5 23.6 - + + -
763B ASP* 2.5 40.3 + - - -
765B GLN* 3.4 21.8 - - + +
766B TRP* 1.3 74.8 - - - +
768B ARG* 1.3 64.0 + - - +
783B TYR* 3.4 30.1 - + + -
786B TYR* 3.3 48.7 - + - -
788B ASN* 6.1 0.4 - - - -
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Residues in contact with ARG 768 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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730B LEU* 3.8 27.2 - - + +
731B MET* 5.2 2.0 - - - -
734B LEU* 4.9 2.6 - - + +
755B LEU* 4.8 7.9 - - + +
756B VAL 3.6 6.3 - - - +
767B TYR* 1.3 72.3 - - - +
769B ALA* 1.3 60.1 - - - +
783B TYR* 3.7 8.1 - - - -
784B ILE* 3.4 38.1 + - + +
785B ASP* 2.8 44.9 + - - +
800B LEU* 3.8 23.8 - - + -
804B PHE* 2.8 36.4 + - - -
805B SER* 4.6 3.4 - - - +
807B GLU* 2.8 25.0 + - - +
808B LYS 3.3 21.6 + - - -
809B PRO* 3.7 4.0 - - - +
810B TYR* 3.5 11.5 - - - -
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Residues in contact with ALA 769 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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755B LEU* 3.4 12.0 - - - +
756B VAL* 2.9 39.4 + - + +
758B ALA* 3.7 28.9 - - + -
767B TYR 3.6 0.2 + - - -
768B ARG* 1.3 76.0 - - - +
770B LYS* 1.3 60.0 + - - +
781B VAL* 4.0 15.9 - - + -
782B LEU 3.2 12.3 - - - +
783B TYR* 4.4 5.2 - - + -
784B ILE* 4.3 1.7 - - - +
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Residues in contact with LYS 770 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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753B GLY* 3.3 32.1 + - - +
754B ASP 3.6 8.5 - - - +
755B LEU* 4.8 3.4 - - + +
769B ALA* 1.3 72.7 - - - +
771B VAL* 1.3 75.3 + - - +
772B GLU* 3.3 20.0 + - + +
781B VAL* 3.1 7.8 - - - -
782B LEU* 2.9 43.1 + - + +
784B ILE* 4.0 16.7 - - + +
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Residues in contact with VAL 771 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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748B TYR* 4.2 7.2 - - - +
751B LYS 3.6 19.5 - - - +
753B GLY* 3.0 21.3 + - - -
754B ASP 3.2 16.1 + - - +
756B VAL* 3.7 20.6 - - + -
770B LYS* 1.3 78.6 - - - +
772B GLU* 1.3 65.9 + - - +
774B VAL* 3.4 32.8 - - + -
779B ALA* 3.9 18.6 - - + -
780B THR 3.8 2.7 - - - -
781B VAL* 4.1 3.1 - - + -
797B LEU* 3.8 15.7 - - + -
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Residues in contact with GLU 772 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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752B ARG* 3.2 21.2 - - - +
770B LYS* 3.3 19.6 + - + +
771B VAL* 1.3 82.6 - - - +
773B ARG* 1.3 67.0 + - + +
774B VAL 3.4 0.7 + - - -
780B THR* 2.8 27.7 + - - +
782B LEU* 3.9 22.7 - - - +
789B LYS* 3.7 37.0 + - - +
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Residues in contact with ARG 773 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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752B ARG* 4.9 4.5 - - - +
772B GLU* 1.3 79.0 - - + +
774B VAL* 1.3 62.2 + - - +
775B GLN* 3.7 18.4 + - + +
779B ALA* 3.5 2.1 - - - -
780B THR* 3.2 37.7 + - - +
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Residues in contact with VAL 774 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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750B PRO* 4.4 22.7 - - + +
751B LYS* 4.3 4.5 - - - +
752B ARG* 4.0 19.6 - - + +
771B VAL* 3.4 28.5 - - + -
772B GLU 3.4 0.4 + - - -
773B ARG* 1.3 73.7 - - - +
775B GLN* 1.3 64.5 + - - +
776B GLY 3.9 18.5 + - - +
778B ASN 3.7 11.0 - - - +
779B ALA* 4.2 4.9 - - + -
794B THR* 4.7 2.2 - - + -
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Residues in contact with GLN 775 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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773B ARG* 3.7 18.7 + - + +
774B VAL* 1.3 74.9 - - - +
776B GLY* 1.3 61.9 + - - +
777B SER 3.2 0.9 + - - -
778B ASN* 2.7 37.0 + - + +
779B ALA* 5.7 0.2 - - - -
791B THR* 6.4 1.1 - - + -
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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