Contacts of the helix formed by residues 850 - 873 (chain C) 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 GLU 850 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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848C TYR* 3.7 15.7 - - + +
849C ARG* 1.3 75.7 - - - +
851C ASP* 1.3 63.4 + - - +
852C LYS* 2.7 44.1 + - - +
853C PHE* 3.4 22.9 + - + +
854C THR* 2.8 30.0 + - - -
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Residues in contact with ASP 851 (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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849C ARG 3.7 9.9 - - - +
850C GLU* 1.3 78.7 + - - +
852C LYS* 1.3 63.4 + - - +
854C THR* 3.8 4.6 - - - -
855C ARG* 3.0 49.8 + - - +
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Residues in contact with LYS 852 (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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850C GLU* 2.7 24.8 + - - +
851C ASP* 1.3 75.5 - - - +
853C PHE* 1.3 74.5 + - + +
855C ARG* 3.4 26.7 + - - +
856C LEU* 2.9 26.5 + - + +
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Residues in contact with PHE 853 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
794C PHE* 3.8 30.3 - + + -
844C HIS* 2.8 32.6 + - + -
848C TYR* 4.4 23.3 - + + -
850C GLU* 3.4 22.5 + - + +
852C LYS* 1.3 93.7 - - + +
854C THR* 1.3 61.3 + - - +
856C LEU* 3.1 24.6 + - + +
857C GLY 2.9 16.6 + - - -
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Residues in contact with THR 854 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
844C HIS* 4.0 9.5 + - + -
845C LYS* 6.2 5.4 - - + -
848C TYR* 3.4 22.3 + - - +
849C ARG* 3.4 10.8 - - - +
850C GLU 2.8 24.4 + - - -
851C ASP* 3.8 5.2 - - - -
853C PHE* 1.3 73.8 - - - +
855C ARG* 1.3 68.0 + - + +
857C GLY* 3.1 2.6 + - - -
858C ILE* 3.0 40.4 + - + +
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Residues in contact with ARG 855 (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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851C ASP* 3.0 44.5 + - - +
852C LYS* 3.6 32.2 - - - +
854C THR* 1.3 76.3 - - + +
856C LEU* 1.3 62.9 + - - +
858C ILE* 3.2 16.3 + - + +
859C GLN* 2.9 44.3 + - - +
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Residues in contact with LEU 856 (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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791C LYS* 3.6 44.0 - - + +
794C PHE* 3.9 34.8 - - + -
795C PHE* 4.3 3.1 - - + -
852C LYS* 2.9 16.2 + - + +
853C PHE* 3.2 28.7 - - + +
854C THR 3.1 0.4 - - - -
855C ARG* 1.3 76.7 - - - +
857C GLY* 1.3 56.5 + - - +
859C GLN* 3.2 10.5 + - - +
860C VAL* 3.0 32.7 + - - +
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Residues in contact with GLY 857 (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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795C PHE* 3.5 23.1 - - - -
841C PHE* 4.3 7.7 - - - +
844C HIS* 3.7 17.5 - - - -
845C LYS* 5.6 3.8 - - - -
853C PHE 2.9 10.9 + - - -
854C THR 3.1 0.6 + - - -
856C LEU* 1.3 73.8 - - - +
858C ILE* 1.3 64.7 + - - +
860C VAL* 4.2 0.6 - - - +
861C GLN* 2.9 26.2 + - - +
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Residues in contact with ILE 858 (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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845C LYS* 4.9 15.3 - - + +
854C THR* 3.0 31.1 + - + +
855C ARG* 3.2 16.4 + - + +
857C GLY* 1.3 76.4 - - - +
859C GLN* 1.3 59.3 + - + +
861C GLN* 3.3 11.3 + - - +
862C ASP* 3.0 39.9 + - - +
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Residues in contact with GLN 859 (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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791C LYS* 3.2 35.6 - - + +
855C ARG* 2.9 40.9 + - - +
856C LEU* 3.2 9.3 + - - +
858C ILE* 1.3 80.6 - - + +
860C VAL* 1.3 61.7 + - - +
862C ASP* 3.3 7.6 + - - +
863C ILE* 3.0 30.0 + - + +
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Residues in contact with VAL 860 (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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786C VAL* 4.3 22.2 - - + +
789C ASP* 5.3 3.1 - - + +
791C LYS* 3.6 28.5 - - + -
792C SER* 4.3 6.3 - - - +
795C PHE* 3.5 32.1 - - + -
815C LEU* 5.8 0.9 - - + -
841C PHE* 3.9 16.2 - - + -
856C LEU 3.0 17.9 + - - +
857C GLY 4.2 2.2 - - - +
859C GLN* 1.3 75.5 - - - +
861C GLN* 1.3 63.5 + - - +
863C ILE* 3.1 9.8 + - + +
864C PHE* 3.0 22.3 + - - +
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Residues in contact with GLN 861 (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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838C ARG* 5.9 3.0 - - - +
841C PHE* 3.7 41.0 - - + +
842C HIS* 5.3 9.7 - - - -
845C LYS* 2.5 40.1 + - - +
857C GLY 2.9 19.0 + - - +
858C ILE* 3.5 10.0 - - - +
860C VAL* 1.3 77.4 - - - +
862C ASP* 1.3 67.2 + - - +
864C PHE* 3.1 4.0 + - - +
865C GLU* 2.9 36.4 + - + +
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Residues in contact with ASP 862 (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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858C ILE* 3.0 30.3 + - - +
859C GLN* 3.7 7.2 - - - +
861C GLN* 1.3 80.3 - - - +
863C ILE* 1.3 63.9 + - + +
865C GLU* 3.9 5.0 - - - +
866C LYS* 2.9 54.7 + - - +
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Residues in contact with ILE 863 (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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785C LYS 4.7 13.0 - - - +
786C VAL* 4.8 12.1 - - + -
789C ASP* 4.7 23.3 - - + +
791C LYS* 5.2 5.2 - - - +
859C GLN* 3.0 22.3 + - + +
860C VAL* 3.1 12.1 + - + +
862C ASP* 1.3 79.1 - - + +
864C PHE* 1.3 64.4 + - - +
866C LYS* 3.9 15.4 - - + +
867C ASN* 2.9 44.8 + - - +
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Residues in contact with PHE 864 (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 LEU* 3.5 38.8 - - + +
786C VAL* 4.1 16.1 - - + +
833C PHE* 4.1 2.2 - + - -
834C VAL* 4.0 29.2 - - + -
837C MET* 3.5 46.9 - - + -
838C ARG* 4.2 4.5 - - + -
841C PHE* 3.9 24.9 - + + -
860C VAL 3.0 12.6 + - - +
861C GLN 3.7 5.2 - - - +
863C ILE* 1.3 76.6 - - - +
865C GLU* 1.3 84.0 + - + +
868C PHE* 2.9 34.8 + - + +
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Residues in contact with GLU 865 (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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838C ARG* 2.9 43.2 + - - +
841C PHE* 5.3 0.2 - - - -
861C GLN* 2.9 33.0 + - + +
862C ASP* 4.0 5.4 - - - +
864C PHE* 1.3 95.0 - - + +
866C LYS* 1.3 62.9 + - + +
868C PHE* 3.2 5.8 + - - +
869C ARG* 2.6 64.5 + - - +
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Residues in contact with LYS 866 (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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862C ASP* 2.9 45.1 + - - +
863C ILE* 3.9 16.9 - - + +
865C GLU* 1.3 77.9 - - + +
867C ASN* 1.3 59.5 + - - +
869C ARG* 3.3 5.2 + - - +
870C ASN* 2.9 43.6 + - - +
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Residues in contact with ASN 867 (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 LEU* 3.5 19.7 - - + -
785C LYS* 3.5 38.3 + - + +
786C VAL* 5.9 0.7 - - + -
863C ILE* 2.9 46.0 + - - +
864C PHE* 5.0 0.2 - - - -
866C LYS* 1.3 80.1 - - - +
868C PHE* 1.3 57.0 + - - +
870C ASN* 4.4 8.1 + - - +
871C ILE* 3.0 43.5 + - + +
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Residues in contact with PHE 868 (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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763C GLU* 3.9 11.4 - - + -
766C VAL* 4.2 11.7 - - + -
767C LEU* 4.0 20.4 - - + -
782C LEU* 3.5 23.1 - - + +
830C VAL* 5.0 0.4 - - + -
834C VAL* 3.8 20.9 - - + -
838C ARG* 3.8 19.3 - - - -
864C PHE* 2.9 26.2 + + + +
865C GLU* 3.4 21.1 - - - +
866C LYS 3.1 0.2 - - - -
867C ASN* 1.3 77.4 - - - +
869C ARG* 1.3 68.0 + - - +
872C PHE* 3.3 45.8 + + - +
874C ILE* 3.6 23.3 - - + -
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Residues in contact with ARG 869 (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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763C GLU* 3.1 25.6 + - - -
838C ARG* 4.4 1.6 - - - +
865C GLU* 2.6 54.5 + - - +
866C LYS* 4.2 4.0 - - - +
868C PHE* 1.3 80.9 - - + +
870C ASN* 1.3 61.4 + - - +
873C ALA* 3.1 21.1 + - - -
874C ILE* 3.1 48.1 + - + +
876C GLU* 6.0 5.5 - - - +
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Residues in contact with ASN 870 (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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751C GLN* 5.1 3.6 + - - -
866C LYS* 2.9 34.0 + - - +
867C ASN* 4.0 7.7 + - - +
869C ARG* 1.3 77.3 - - - +
871C ILE* 1.3 68.3 + - + +
873C ALA* 3.5 10.0 + - - +
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Residues in contact with ILE 871 (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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747C ILE* 5.3 4.0 - - + -
751C GLN* 4.6 18.5 + - - +
778C LYS* 3.8 45.6 + - + +
781C PHE* 3.5 35.4 - - + -
782C LEU* 3.9 27.6 - - + +
785C LYS* 4.7 2.2 - - + -
867C ASN* 3.0 30.7 + - + +
868C PHE* 4.4 1.3 - - - +
870C ASN* 1.3 80.6 - - + +
872C PHE* 1.3 66.5 + - + +
873C ALA* 3.5 2.9 + - - +
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Residues in contact with PHE 872 (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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761C HIS* 3.5 14.6 + - - -
766C VAL* 3.6 35.3 - - + +
769C ARG* 4.4 12.1 + - - -
775C GLU* 4.1 22.0 - - + -
778C LYS* 3.6 42.6 + - + +
779C CYS* 3.8 26.9 - - - -
782C LEU* 4.5 10.3 - - + -
830C VAL* 4.0 7.6 - - + -
834C VAL* 5.7 0.4 - - + -
868C PHE* 3.3 40.4 + + - +
869C ARG 4.0 0.2 - - - -
871C ILE* 1.3 80.3 - - + +
873C ALA* 1.3 71.3 + - - +
874C ILE* 3.6 5.8 - - + -
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Residues in contact with ALA 873 (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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760C GLY* 4.1 5.4 - - - +
761C HIS* 3.2 32.9 + - + +
869C ARG 3.1 10.9 + - - -
870C ASN 3.5 6.9 + - - +
871C ILE 3.3 5.4 - - - +
872C PHE* 1.3 81.2 - - - +
874C ILE* 1.3 63.4 + - - +
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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