Contacts of the helix formed by residues 772 - 788 (chain A) in PDB entry 5FB0
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 GLN 772 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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770A GLN* 2.6 44.9 + - + +
771A MET* 1.3 75.2 + - - +
773A PRO* 1.3 83.0 - - + +
774A GLU* 2.9 4.4 + - + +
775A GLU* 2.9 14.3 + - - +
776A GLN* 2.7 18.8 + - - -
737C LYS* 5.6 7.1 - - - +
738C ASN 3.7 18.2 + - - +
739C PRO* 5.5 1.4 - - - +
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Residues in contact with PRO 773 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
750A ILE* 5.2 0.6 - - - +
771A MET 4.6 0.7 - - - +
772A GLN* 1.3 96.6 - - + +
774A GLU* 1.3 57.4 + - + +
776A GLN* 3.6 8.7 - - + +
777A LEU* 2.9 31.4 + - - +
737C LYS* 6.2 5.2 - - - -
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Residues in contact with GLU 774 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
750A ILE* 3.6 46.3 - - + +
753A ARG 5.0 1.7 - - - +
754A SER* 4.0 18.3 + - - -
772A GLN* 2.9 4.8 + - + +
773A PRO* 1.3 76.4 - - + +
775A GLU* 1.3 71.1 + - - +
777A LEU* 2.9 4.9 + - - +
778A LYS* 2.9 41.8 + - - +
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Residues in contact with GLU 775 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
769A ARG* 2.9 41.3 + - - -
770A GLN 3.8 15.7 - - - +
771A MET* 4.1 4.5 - - - -
772A GLN* 2.9 21.8 + - - +
774A GLU* 1.3 85.6 - - - +
776A GLN* 1.3 63.2 + - - +
778A LYS* 3.3 12.6 + - - +
779A CYS* 2.9 29.3 + - - -
830A VAL* 3.9 27.1 - - + -
872A PHE* 4.0 11.4 - - + -
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Residues in contact with GLN 776 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
771A MET* 3.7 27.9 - - - +
772A GLN 2.7 20.9 + - - +
773A PRO* 3.6 11.0 - - + +
775A GLU* 1.3 72.0 - - - +
777A LEU* 1.3 58.4 + - + +
779A CYS* 3.5 1.9 + - - +
780A GLU* 3.0 54.9 + - - +
822A LEU* 2.9 48.4 + - - +
823A ASN 5.2 0.4 + - - -
825A GLN* 3.8 25.8 - - + +
827A TYR 4.9 1.9 - - - +
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Residues in contact with LEU 777 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
731A PRO* 4.2 4.3 - - + -
743A ILE* 3.5 18.4 - - + +
746A ARG* 3.2 63.0 - - + +
747A ILE* 4.3 4.7 - - + -
750A ILE* 3.6 28.3 - - + -
773A PRO 2.9 17.8 + - - +
774A GLU 3.6 2.9 - - - +
776A GLN* 1.3 74.5 - - - +
778A LYS* 1.3 61.0 + - - +
780A GLU* 3.2 18.3 + - - +
781A PHE* 2.9 29.1 + - - +
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Residues in contact with LYS 778 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
747A ILE* 4.2 17.5 - - + -
750A ILE* 4.8 12.3 - - + -
751A GLN* 6.2 1.1 - - - +
754A SER* 5.0 6.9 + - - -
761A HIS* 6.0 2.2 - - - -
769A ARG* 4.5 9.1 - - - +
774A GLU* 2.9 35.1 + - - +
775A GLU* 3.3 13.0 + - - +
777A LEU* 1.3 75.1 - - - +
779A CYS* 1.3 59.5 + - - +
781A PHE* 3.1 4.3 + - - +
782A LEU* 2.8 28.8 + - - +
871A ILE* 3.8 40.5 + - + +
872A PHE* 3.8 36.9 + - + +
873A ALA* 6.0 1.0 - - - +
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Residues in contact with CYS 779 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
771A MET* 3.5 29.4 - - + -
775A GLU 2.9 20.9 + - - +
776A GLN 3.9 3.4 - - - +
778A LYS* 1.3 75.8 - - - +
780A GLU* 1.3 62.8 + - - +
782A LEU* 3.1 5.6 + - - +
783A LEU* 2.9 20.6 + - - +
822A LEU* 4.0 6.5 - - + -
830A VAL* 3.7 14.1 - - - -
833A PHE* 3.6 32.3 - - + -
872A PHE* 3.5 21.3 - - - -
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Residues in contact with GLU 780 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
730A ILE* 3.7 32.2 - - + +
731A PRO* 3.2 26.3 - - + +
743A ILE* 4.9 0.7 - - + -
776A GLN* 3.0 44.0 + - - +
777A LEU* 3.2 31.9 - - - +
779A CYS* 1.3 74.4 - - - +
781A PHE* 1.3 56.9 + - - +
783A LEU* 3.5 2.6 + - - +
784A LEU* 3.0 28.1 + - - +
822A LEU* 3.6 27.2 - - + +
823A ASN* 5.3 2.9 - - - -
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Residues in contact with PHE 781 (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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743A ILE* 3.5 30.2 - - + +
744A PHE* 3.5 44.6 - + - -
747A ILE* 3.7 31.6 - - + -
777A LEU 2.9 17.5 + - - +
778A LYS 3.1 3.8 + - - +
780A GLU* 1.3 73.9 - - - +
782A LEU* 1.3 59.9 + - - +
784A LEU* 3.3 5.9 + - + +
785A LYS* 2.9 54.4 + - + +
871A ILE* 3.5 32.1 - - + -
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Residues in contact with LEU 782 (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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778A LYS 2.8 12.5 + - - +
779A CYS 3.1 6.0 + - - +
781A PHE* 1.3 77.5 - - - +
783A LEU* 1.3 61.9 + - - +
785A LYS* 3.2 5.8 + - - +
786A VAL* 3.0 25.6 + - + +
833A PHE* 3.5 23.6 - - + -
864A PHE* 3.6 40.4 - - + +
867A ASN* 3.5 27.6 - - + +
868A PHE* 3.6 31.0 - - + +
871A ILE* 3.7 15.0 - - + +
872A PHE* 4.4 10.8 - - + -
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Residues in contact with LEU 783 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
730A ILE* 4.1 8.3 - - + -
779A CYS 2.9 15.8 + - - +
780A GLU* 3.9 4.5 - - - +
782A LEU* 1.3 76.6 - - - +
784A LEU* 1.3 58.0 + - - +
786A VAL* 3.2 8.4 + - + +
787A TYR* 2.9 47.3 + - + -
815A LEU* 3.6 32.8 - - + +
818A VAL* 4.1 10.5 - - + +
819A LYS* 3.8 35.7 - - + +
822A LEU* 4.5 8.3 - - + -
833A PHE* 3.8 12.8 - - + -
837A MET* 3.8 17.5 - - + -
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Residues in contact with LEU 784 (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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707A VAL* 4.1 12.8 - - + -
724A PHE* 4.9 2.2 - - + -
728A CYS 4.0 11.4 - - - +
729A HIS* 4.1 6.3 - - + -
730A ILE* 3.5 39.6 - - + +
743A ILE* 3.8 21.1 - - + -
744A PHE* 3.9 25.4 - - + -
780A GLU 3.0 19.1 + - - +
781A PHE* 3.6 10.5 - - + +
782A LEU 3.3 0.2 - - - -
783A LEU* 1.3 76.2 - - - +
785A LYS* 1.3 58.7 + - - +
787A TYR* 3.0 6.1 + - + +
788A CYS* 2.9 46.1 + - - -
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Residues in contact with LYS 785 (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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744A PHE* 4.5 16.6 - - + -
781A PHE* 2.9 52.0 + - + +
782A LEU* 3.2 10.9 + - - +
784A LEU* 1.3 77.8 - - + +
786A VAL* 1.3 60.9 + - - +
788A CYS* 3.3 22.9 + - - +
789A ASP* 4.1 5.0 + - - +
863A ILE* 4.9 5.9 - - - +
867A ASN* 3.6 32.3 + - - +
871A ILE* 4.7 1.6 - - + -
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Residues in contact with VAL 786 (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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782A LEU* 3.0 16.2 + - + +
783A LEU* 3.4 8.7 - - + +
784A LEU 3.1 0.4 - - - -
785A LYS* 1.3 75.4 - - + +
787A TYR* 1.3 65.8 + - - +
788A CYS 3.1 1.2 + - - -
789A ASP* 3.1 11.8 + - - +
792A SER* 3.1 29.2 + - - -
815A LEU* 4.2 20.2 - - + -
837A MET* 4.1 9.0 - - + -
841A PHE* 6.0 0.4 - - + -
860A VAL* 4.3 17.0 - - + -
863A ILE* 5.0 9.6 - - + -
864A PHE* 4.1 40.4 - - + +
867A ASN* 5.8 0.9 - - - +
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Residues in contact with TYR 787 (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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707A VAL* 3.5 29.0 - - + +
708A CYS* 5.7 0.2 - - - -
728A CYS 5.4 1.3 - - - +
730A ILE* 3.7 13.0 - - + -
783A LEU* 2.9 51.7 + - + -
784A LEU* 3.0 9.6 + - - +
786A VAL* 1.3 76.0 - - - +
788A CYS* 1.3 56.8 + - - +
789A ASP 3.0 13.4 + - - +
792A SER* 3.5 8.2 + - - -
796A ALA* 4.7 8.3 - - + -
815A LEU* 3.1 39.6 + - + -
816A ASN* 2.9 28.6 + - - -
819A LYS* 3.8 29.0 - - - +
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Residues in contact with CYS 788 (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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706A GLU* 3.9 21.0 - - - +
707A VAL* 3.9 24.4 - - - +
709A ASN* 5.6 2.3 + - - -
744A PHE* 4.9 8.1 - - - -
784A LEU* 2.9 37.5 + - - -
785A LYS* 3.6 22.2 - - + +
786A VAL 3.1 1.8 - - - -
787A TYR* 1.3 74.2 - - - +
789A ASP* 1.3 56.5 + - - +
790A SER 4.3 0.3 + - - -
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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
------------------------------------------------------------
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