Contacts of the strand formed by residues 774 - 784 (chain C) in PDB entry 2X36
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 GLY 774 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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770C TRP* 3.7 1.7 - - - -
771C THR* 2.8 36.5 + - - +
772C ALA 3.6 0.8 - - - -
773C MET* 1.3 81.4 - - - +
775C GLY* 1.3 59.1 + - - -
897C GLU* 3.8 25.6 - - - +
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Residues in contact with GLY 775 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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769C ALA 3.7 7.0 - - - -
771C THR* 4.2 4.0 + - - -
774C GLY* 1.3 76.0 - - - -
776C SER* 1.3 57.3 + - - -
897C GLU* 3.5 29.4 + - - +
901C ALA* 3.3 7.0 - - - -
904C ARG* 2.6 28.2 + - - +
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Residues in contact with SER 776 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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768C LEU* 3.4 2.9 - - - +
769C ALA* 2.7 39.8 + - - +
771C THR* 3.6 19.2 - - - +
775C GLY* 1.3 75.7 - - - -
777C THR* 1.3 66.5 + - - +
778C LEU* 3.2 23.1 + - - +
901C ALA* 3.4 9.0 - - - +
904C ARG* 3.7 5.4 + - - +
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Residues in contact with THR 777 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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755C ARG* 6.2 0.2 - - - -
766C MET* 3.8 33.9 - - + -
767C GLY 3.4 12.3 - - - +
768C LEU* 3.8 11.1 - - + +
776C SER* 1.3 75.7 + - - +
778C LEU* 1.3 64.8 + - - +
779C PHE* 4.3 13.0 - - + -
901C ALA* 3.0 30.7 + - - +
902C ALA 3.7 2.1 + - - -
904C ARG* 4.7 1.9 + - - +
905C ALA* 3.8 16.3 - - + +
907C VAL* 4.7 3.1 - - + -
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Residues in contact with LEU 778 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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766C MET* 3.2 5.2 - - - +
767C GLY* 2.8 38.0 + - - +
769C ALA* 3.6 25.8 - - + -
776C SER* 3.2 34.0 + - - +
777C THR* 1.3 76.2 - - - +
779C PHE* 1.3 63.3 + - - +
780C VAL* 5.1 2.4 - - + +
845C PRO* 3.8 32.8 - - + +
846C GLU 3.4 27.4 - - - +
847C GLY* 4.1 5.2 - - - -
848C ALA* 4.6 2.0 - - + +
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Residues in contact with PHE 779 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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755C ARG* 3.3 38.4 - - + -
756C MET* 3.7 41.3 - - + -
757C TYR* 3.7 28.9 - + + -
760C THR* 4.3 10.5 - - + -
764C VAL* 3.9 23.3 - - + -
765C VAL 3.7 2.0 - - - -
766C MET* 3.7 26.5 - - + -
777C THR* 4.3 13.9 - - + -
778C LEU* 1.3 76.0 - - - +
780C VAL* 1.3 60.6 + - - +
781C GLU* 3.6 7.4 + - - +
843C HIS* 5.2 0.2 + - - -
845C PRO* 2.7 31.5 - - + +
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Residues in contact with VAL 780 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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764C VAL* 3.2 8.3 - - - +
765C VAL 2.9 37.0 + - - +
767C GLY* 5.1 3.4 - - - +
778C LEU* 3.8 2.9 + - + +
779C PHE* 1.3 75.3 - - - +
781C GLU* 1.3 62.2 + - - +
842C LEU* 3.7 20.6 - - + -
843C HIS 3.6 7.4 - - - +
844C VAL* 5.1 4.7 - - + -
845C PRO* 4.0 9.4 - - + -
856C ALA* 5.2 5.4 - - + +
859C THR* 3.5 32.3 - - + +
860C ILE* 4.6 10.8 - - + -
863C ALA* 3.7 25.8 - - + -
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Residues in contact with GLU 781 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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756C MET* 3.4 24.9 - - + +
763C GLY 3.4 7.4 - - - -
764C VAL* 3.9 15.7 - - + -
779C PHE 3.6 8.0 + - - +
780C VAL* 1.3 82.3 - - - +
782C THR* 1.3 63.7 + - - +
842C LEU* 3.5 1.7 - - - +
843C HIS* 2.7 49.2 + - + +
845C PRO* 5.6 0.5 - - - +
884D SER* 2.8 19.9 + - - -
885D LEU* 3.7 21.2 + - + +
886D THR* 2.5 34.8 + - + -
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Residues in contact with THR 782 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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762C PRO 5.0 0.7 - - - +
763C GLY* 2.9 32.2 + - - +
781C GLU* 1.3 69.5 - - - +
783C SER* 1.3 65.1 + - - +
840C ILE* 4.4 2.0 - - + -
841C HIS 3.1 12.3 - - - +
842C LEU* 3.4 30.7 - - + -
863C ALA* 3.5 16.0 + - + -
864C LEU* 3.8 23.8 - - + -
867C LEU* 3.7 17.1 - - - +
885D LEU* 3.6 3.1 - - - -
886D THR* 4.0 13.3 - - - +
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Residues in contact with SER 783 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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782C THR* 1.3 77.2 - - - +
784C LEU* 1.3 88.7 + - - +
840C ILE* 3.3 4.9 - - - +
841C HIS* 2.8 34.4 + - - -
867C LEU* 3.9 13.5 - - - -
819D THR* 4.1 9.9 - - - +
823D ALA* 3.4 17.8 - - - +
885D LEU* 4.0 21.1 - - - -
886D THR* 5.4 2.9 - - - -
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Residues in contact with LEU 784 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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783C SER* 1.3 96.9 + - - +
785C ARG* 1.3 56.7 + - - +
786C ARG 3.0 26.5 - - - +
787C PRO* 4.8 10.3 - - + +
834C TYR* 3.5 27.1 + - + +
838C SER* 3.7 25.1 - - - -
839C HIS 3.1 23.1 - - - +
840C ILE* 4.6 1.6 - - + +
867C LEU* 4.1 6.9 - - - +
819D THR* 3.8 1.6 - - - +
823D ALA* 3.7 11.9 - - + +
826D MET* 4.0 20.0 - - + -
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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