Contacts of the helix formed by residues 810 - 831 (chain B) in PDB entry 4G5P
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 810 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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808B ASN 3.7 3.0 + - - -
809B ILE* 1.3 73.4 - - - +
811B SER* 1.3 64.4 + - - -
812B GLN 3.6 1.8 - - - -
813B TYR* 3.5 28.4 - - - +
814B LEU* 3.2 26.5 + - - +
981B ILE* 4.0 3.8 - - - -
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Residues in contact with SER 811 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
810B GLY* 1.3 69.6 - - - -
812B GLN* 1.3 66.3 + - - +
814B LEU* 2.9 9.3 + - - +
815B LEU* 2.9 29.4 + - - +
975B PRO* 3.1 38.3 - - - +
976B GLN* 3.8 11.3 + - - -
979B LEU* 4.2 12.3 - - - -
981B ILE* 3.7 22.4 - - - +
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Residues in contact with GLN 812 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
810B GLY 3.6 0.2 - - - -
811B SER* 1.3 79.6 + - - +
813B TYR* 1.3 68.2 + - + +
815B LEU* 3.1 2.6 + - - +
816B ASN* 2.8 60.8 + - - +
972B ALA* 2.2 35.1 + - - +
973B ARG* 4.2 3.3 - - - +
975B PRO* 3.1 28.5 - - + +
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Residues in contact with TYR 813 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
808B ASN 5.0 2.5 - - - -
809B ILE* 4.6 2.0 - - + -
810B GLY* 3.5 34.5 - - - +
812B GLN* 1.3 84.5 - - + +
814B LEU* 1.3 63.2 + - - +
816B ASN* 3.3 5.5 + - - +
817B TRP* 3.1 45.9 + + + +
848B PRO* 3.7 24.0 - - + -
849B GLN* 4.0 23.6 + - + +
989B LEU* 3.1 29.0 - - + +
990B PRO* 3.1 31.7 - - + +
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Residues in contact with LEU 814 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
802B VAL* 4.8 3.6 - - + -
809B ILE* 3.6 17.7 - - + +
810B GLY 3.2 17.9 - - - +
811B SER* 2.9 7.2 + - - +
813B TYR* 1.3 81.4 - - - +
815B LEU* 1.3 61.9 + - - +
817B TRP* 3.5 39.6 + - + +
818B CYS* 3.3 18.0 - - - -
907B LEU* 4.1 30.0 - - + +
908B MET* 4.8 6.5 - - - +
910B PHE* 4.7 5.6 - - + -
938B ILE* 4.3 14.8 - - + -
979B LEU* 4.5 12.1 - - + -
981B ILE* 3.7 23.8 - - + -
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Residues in contact with LEU 815 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
811B SER* 2.9 24.7 + - - +
812B GLN* 3.8 3.8 - - - +
814B LEU* 1.3 72.7 - - - +
816B ASN* 1.3 68.8 + - - +
818B CYS* 3.0 19.1 + - - +
819B VAL* 3.2 16.0 + - - +
908B MET* 4.7 3.1 - - + -
943B VAL* 5.5 3.1 - - + -
968B PHE* 4.6 22.2 - - + +
971B MET* 4.1 20.2 - - + +
972B ALA* 4.2 14.6 - - + +
974B ASP 4.7 0.2 - - - +
975B PRO* 3.4 40.6 - - + +
978B TYR* 5.3 4.5 - - + -
979B LEU* 3.6 26.9 - - + +
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Residues in contact with ASN 816 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
812B GLN* 2.8 54.0 + - - +
813B TYR* 3.5 6.4 - - - +
815B LEU* 1.3 74.6 - - - +
817B TRP* 1.3 64.5 + - + +
819B VAL* 3.0 13.1 + - - +
820B GLN* 3.0 34.1 + - - +
849B GLN* 5.3 11.3 + - - +
972B ALA* 3.9 7.0 - - - +
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Residues in contact with TRP 817 (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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798B LEU* 3.9 32.5 - - + -
801B TYR* 5.1 10.5 - + - -
802B VAL* 4.9 5.8 - - + -
809B ILE* 4.0 24.2 - - + -
813B TYR* 3.1 24.4 + + + +
814B LEU* 3.5 39.5 - - + +
815B LEU 3.1 0.6 - - - -
816B ASN* 1.3 79.6 - - + +
818B CYS* 1.3 63.3 + - - +
820B GLN* 3.0 22.6 + - - +
821B ILE* 3.0 28.0 + - + +
845B VAL* 6.1 1.8 - - + -
848B PRO* 3.5 29.9 + - + -
849B GLN* 4.4 5.1 - - - +
851B VAL* 3.9 21.3 - - + +
907B LEU* 3.8 28.5 - - + -
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Residues in contact with CYS 818 (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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814B LEU 3.3 17.7 - - - -
815B LEU* 3.0 9.2 + - - +
817B TRP* 1.3 75.3 - - - +
819B VAL* 1.3 63.2 + - - +
821B ILE* 3.3 8.0 + - - +
822B ALA 3.0 12.5 + - - -
900B TYR* 2.7 22.2 + - + +
904B VAL* 4.7 11.0 - - + -
907B LEU* 5.9 4.0 - - - +
908B MET* 3.6 27.1 - - - -
968B PHE* 3.6 36.6 - - + -
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Residues in contact with VAL 819 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
815B LEU 3.5 13.0 - - - +
816B ASN* 3.0 10.0 + - - +
818B CYS* 1.3 75.1 - - - +
820B GLN* 1.3 60.6 + - + +
822B ALA* 3.0 7.8 + - - +
823B LYS* 2.8 58.6 + - + +
965B ILE* 4.4 7.6 - - + +
968B PHE* 3.7 36.8 - - + +
969B SER* 3.9 17.0 - - - +
972B ALA* 4.1 11.7 - - + -
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Residues in contact with GLN 820 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
773B HIS* 3.2 50.9 - - + +
816B ASN* 3.0 18.7 + - + +
817B TRP* 3.5 19.7 - - - +
819B VAL* 1.3 78.5 - - + +
821B ILE* 1.3 60.8 + - - +
823B LYS* 3.4 12.3 - - + +
824B GLY* 3.2 17.7 + - - -
849B GLN 3.5 22.3 + - - +
850B HIS* 3.4 20.8 - - - +
851B VAL* 3.5 24.1 + - + +
853B ILE* 5.0 0.5 - - - +
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Residues in contact with ILE 821 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
798B LEU* 5.2 2.9 - - + -
817B TRP* 3.0 23.9 + - + +
818B CYS* 3.6 7.9 - - - +
820B GLN* 1.3 72.8 - - - +
822B ALA* 1.3 65.1 + - - +
823B LYS 3.1 1.7 + - - -
824B GLY* 3.4 2.1 + - - -
825B MET* 3.1 24.6 + - + +
838B LEU* 4.2 23.3 - - + -
843B VAL* 3.4 41.7 - - + -
851B VAL* 4.4 9.0 - - + -
853B ILE* 4.1 15.2 - - + +
900B TYR* 3.6 23.8 - - + -
903B THR* 5.5 6.5 - - + -
907B LEU* 6.3 1.3 - - + -
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Residues in contact with ALA 822 (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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818B CYS 3.0 6.2 + - - +
819B VAL* 3.6 7.9 - - - +
821B ILE* 1.3 75.8 - - - +
823B LYS* 1.3 56.9 + - - +
826B ASN* 2.9 29.8 + - - +
900B TYR* 3.4 30.4 - - + +
961B PHE* 3.6 19.8 - - + +
964B LEU* 4.1 8.5 - - + -
965B ILE* 3.5 20.3 - - + +
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Residues in contact with LYS 823 (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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771B ASN* 4.1 3.1 - - - +
773B HIS* 4.1 28.4 + - + +
819B VAL* 2.8 37.6 + - + +
820B GLN* 3.4 14.6 - - + +
821B ILE 3.1 0.2 - - - -
822B ALA* 1.3 74.2 - - - +
824B GLY* 1.3 56.2 + - - +
826B ASN* 2.9 4.9 + - - +
827B TYR* 2.8 33.7 + - - +
965B ILE* 3.8 26.2 - - + -
969B SER* 5.8 0.4 - - - -
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Residues in contact with GLY 824 (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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771B ASN* 3.1 23.4 - - - +
773B HIS 4.4 1.1 - - - -
774B VAL* 4.0 3.2 - - - +
820B GLN 3.2 8.8 + - - -
821B ILE 3.4 0.4 + - - -
823B LYS* 1.3 77.6 - - - +
825B MET* 1.3 56.7 + - - +
827B TYR* 3.1 5.4 - - - +
828B LEU* 3.0 30.1 + - - +
853B ILE* 3.6 22.7 - - - -
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Residues in contact with MET 825 (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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821B ILE* 3.1 18.6 + - + +
822B ALA* 3.8 0.4 - - - +
824B GLY* 1.3 73.5 - - - +
826B ASN* 1.3 60.1 + - - +
828B LEU* 2.9 26.0 + - + +
829B GLU* 2.8 27.7 + - - +
835B HIS* 4.1 24.9 - - + -
838B LEU* 4.0 28.5 - - + -
853B ILE* 3.3 40.1 - - + +
896B ASP* 4.9 7.0 - - - +
961B PHE* 3.3 41.1 - - + -
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Residues in contact with ASN 826 (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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822B ALA 2.9 17.2 + - - +
823B LYS 2.9 8.1 + - - +
825B MET* 1.3 69.5 - - - +
827B TYR* 1.3 68.5 + - - +
829B GLU* 3.9 7.9 - - - +
830B ASP* 3.1 39.5 + - - +
961B PHE* 3.8 11.8 - - + +
962B ARG* 3.2 47.4 + - - +
965B ILE* 3.8 14.6 - - + +
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Residues in contact with TYR 827 (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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768B SER 4.3 0.9 + - - -
769B VAL* 4.3 12.1 - - + -
770B ASP* 2.7 55.3 + - - +
771B ASN* 3.1 29.8 - - + -
774B VAL* 5.2 0.7 - - + -
823B LYS 2.8 11.5 + - - +
824B GLY 3.1 12.8 - - - +
826B ASN* 1.3 78.8 - - - +
828B LEU* 1.3 71.0 + - + +
830B ASP* 3.4 5.6 + - - +
831B ARG* 2.9 73.5 + - - +
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Residues in contact with LEU 828 (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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769B VAL* 4.6 12.8 - - + -
774B VAL* 4.9 13.5 - - + -
824B GLY 3.0 16.9 + - - +
825B MET* 2.9 38.3 + - + +
827B TYR* 1.3 83.0 - - + +
829B GLU* 1.3 63.5 + - - +
831B ARG* 3.1 13.9 + - - +
833B LEU* 3.2 38.9 + - + +
835B HIS* 4.7 8.5 - - + +
853B ILE* 4.7 5.2 - - + -
855B ASP* 5.6 2.0 - - + -
858B LEU* 4.2 36.1 - - + -
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Residues in contact with GLU 829 (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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825B MET 2.8 15.2 + - - +
826B ASN* 3.3 9.1 + - - +
828B LEU* 1.3 77.8 - - - +
830B ASP* 1.3 58.8 + - - +
832B ARG* 2.8 23.2 + - - +
893B HIS* 3.1 52.9 + - + +
894B GLN* 3.5 10.9 - - - +
960B LYS* 4.7 2.1 - - - +
961B PHE* 3.5 24.5 + - + -
962B ARG* 3.4 32.8 + - - +
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Residues in contact with ASP 830 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
826B ASN* 3.1 27.6 + - - +
827B TYR* 3.8 6.1 - - - +
828B LEU 3.3 0.4 - - - -
829B GLU* 1.3 75.1 - - - +
831B ARG* 1.3 65.7 + - - +
832B ARG* 3.4 10.7 + - - +
962B ARG* 3.2 26.5 + - - -
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Residues in contact with ARG 831 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
768B SER 4.3 11.1 + - - -
769B VAL* 5.0 1.2 - - - +
827B TYR* 2.9 75.4 + - - +
828B LEU 3.1 6.9 + - - +
830B ASP* 1.3 83.5 - - - +
832B ARG* 1.3 69.9 + - - +
833B LEU* 2.8 29.3 + - + +
860B LYS* 4.4 8.3 + - - +
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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