Contacts of the helix formed by residues 791 - 812 (chain B) in PDB entry 3BBT
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 791 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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789B ASN 4.3 0.4 - - - -
790B ILE* 1.3 74.4 - - - +
792B SER* 1.3 64.8 - - - -
793B GLN* 3.3 4.6 + - - -
794B LEU* 3.6 9.4 + - - +
795B LEU* 3.4 24.9 + - - +
962B ILE* 3.6 9.9 - - - -
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Residues in contact with SER 792 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
791B GLY* 1.3 70.5 - - - -
793B GLN* 1.3 65.0 + - - +
796B LEU* 3.1 30.3 + - - +
956B PRO* 3.4 33.8 - - - +
957B GLN* 3.5 17.4 + - - +
960B LEU* 3.6 33.0 - - - +
962B ILE* 3.5 9.3 - - - +
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Residues in contact with GLN 793 (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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791B GLY* 3.3 1.0 - - - -
792B SER* 1.3 77.7 + - - +
794B LEU* 1.3 62.1 + - + +
796B LEU* 3.3 2.6 + - - -
797B ASN* 2.8 68.0 + - - +
953B ALA* 3.1 32.3 + - - +
954B ARG 5.0 0.7 - - - +
956B PRO* 3.6 22.3 - - + +
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Residues in contact with LEU 794 (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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782B TYR* 5.8 1.6 - - + +
789B ASN 4.7 4.5 - - - +
790B ILE* 4.3 26.9 - - + -
791B GLY 3.6 10.6 + - - +
793B GLN* 1.3 80.5 - - + +
795B LEU* 1.3 57.2 + - - +
797B ASN* 3.1 5.9 + - - +
798B TRP* 2.8 55.8 + - + +
829B PRO* 3.4 39.0 - - + +
830B ASN* 4.0 17.7 - - + +
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Residues in contact with LEU 795 (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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783B VAL* 5.2 0.7 - - + -
790B ILE* 3.7 11.2 - - + -
791B GLY 3.4 18.6 + - - +
793B GLN 3.3 0.8 - - - -
794B LEU* 1.3 78.1 - - - +
796B LEU* 1.3 61.7 + - - +
798B TRP* 3.5 28.3 + - + +
799B CYS* 3.2 27.0 + - - -
888B LEU* 3.3 36.2 - - + +
889B MET* 4.5 6.4 - - - +
891B PHE* 4.1 12.1 - - + -
919B ILE* 3.8 28.0 - - + -
960B LEU* 3.8 15.3 - - + -
962B ILE* 3.9 12.3 - - + -
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Residues in contact with LEU 796 (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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792B SER 3.1 21.7 + - - +
793B GLN* 3.9 2.7 - - - +
795B LEU* 1.3 73.4 - - - +
797B ASN* 1.3 67.9 + - - +
799B CYS* 3.4 6.7 + - - +
800B VAL* 3.2 26.2 + - - +
889B MET* 4.7 3.8 - - + -
924B VAL* 4.3 12.8 - - + -
949B PHE* 3.7 30.2 - - + +
952B MET* 3.4 37.0 - - + +
953B ALA* 4.4 12.3 - - + -
956B PRO* 3.6 25.4 - - + +
959B TYR* 4.5 2.5 - - + -
960B LEU* 3.7 19.3 - - + -
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Residues in contact with ASN 797 (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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793B GLN* 2.8 51.4 + - - +
794B LEU* 3.4 7.2 - - - +
796B LEU* 1.3 73.6 - - - +
798B TRP* 1.3 66.2 + - + +
800B VAL* 3.2 8.5 + - - +
801B GLN* 3.0 34.4 + - - +
830B ASN* 3.0 33.0 + - - +
953B ALA* 3.6 11.3 - - - +
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Residues in contact with TRP 798 (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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779B LEU* 4.0 22.0 - - + -
782B TYR* 4.2 14.6 - + - -
783B VAL* 3.5 25.4 - - + -
790B ILE* 3.7 35.0 - - + -
794B LEU* 2.8 32.5 + - + +
795B LEU* 3.7 34.1 - - + +
796B LEU 3.4 0.2 - - - -
797B ASN* 1.3 74.6 - - + +
799B CYS* 1.3 58.0 + - - +
801B GLN* 3.2 6.9 + - - +
802B ILE* 2.9 36.9 + - - +
826B VAL* 5.9 0.7 - - + -
829B PRO 2.8 28.6 + - - -
830B ASN* 4.6 1.1 - - - +
831B HIS 4.9 2.0 - - - -
832B VAL* 3.6 34.5 - - + +
888B LEU* 4.1 17.3 - - + -
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Residues in contact with CYS 799 (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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795B LEU 3.2 17.7 + - - -
796B LEU* 3.4 8.3 - - - +
797B ASN 3.3 0.2 - - - -
798B TRP* 1.3 79.5 - - - +
800B VAL* 1.3 61.6 + - - +
802B ILE* 4.7 1.6 - - - -
803B ALA* 3.1 14.9 + - - +
881B TYR* 2.6 28.8 + - - +
885B ILE* 3.7 24.2 - - - -
888B LEU* 4.6 5.8 - - - +
889B MET* 3.7 26.2 - - - -
949B PHE* 3.7 22.7 - - + -
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Residues in contact with VAL 800 (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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796B LEU 3.2 17.5 - - - +
797B ASN* 3.2 10.7 + - - +
799B CYS* 1.3 75.4 - - - +
801B GLN* 1.3 59.7 + - + +
803B ALA* 3.4 6.2 + - - +
804B LYS* 2.9 50.8 + - + +
946B ALA* 4.2 8.9 - - + +
949B PHE* 3.5 34.5 - - + +
950B SER* 3.3 23.3 - - - +
953B ALA* 4.6 4.3 - - + -
804D LYS* 5.5 0.7 - - - +
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Residues in contact with GLN 801 (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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754B HIS* 3.5 46.2 + - + +
797B ASN* 3.0 25.9 + - - +
798B TRP* 3.7 5.5 - - - +
800B VAL* 1.3 76.6 - - + +
802B ILE* 1.3 59.3 + - - +
804B LYS* 3.2 5.5 + - + +
805B GLY 2.9 25.3 + - - -
830B ASN* 3.1 35.1 + - - -
831B HIS* 3.4 2.7 - - - -
832B VAL* 2.8 38.4 + - + +
753D PRO* 4.2 7.9 - - - +
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Residues in contact with ILE 802 (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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779B LEU* 4.2 14.8 - - + -
798B TRP* 2.9 23.6 + - + +
799B CYS* 4.6 1.6 - - - +
801B GLN* 1.3 74.8 - - - +
803B ALA* 1.3 57.5 + - - +
806B MET* 3.0 25.5 + - - +
819B LEU* 4.1 16.8 - - + -
824B VAL* 4.1 24.5 - - + -
832B VAL* 4.2 5.4 - - + -
834B ILE* 3.1 29.7 - - + +
881B TYR* 3.7 24.9 - - + -
884B THR* 4.4 10.1 - - + -
885B ILE* 5.2 2.5 - - + -
888B LEU* 4.0 26.0 - - + -
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Residues in contact with ALA 803 (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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799B CYS 3.1 19.1 + - - +
800B VAL 3.6 4.5 - - - +
802B ILE* 1.3 76.8 - - - +
804B LYS* 1.3 58.9 + - - +
806B MET* 3.2 7.4 + - - +
807B MET* 2.9 32.2 + - - +
881B TYR* 3.7 17.2 - - + +
942B PHE* 3.9 10.3 - - + +
945B LEU* 4.4 3.4 - - + -
946B ALA* 3.8 28.9 - - + +
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Residues in contact with LYS 804 (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 HIS* 3.5 23.5 + - + -
754B HIS* 4.2 13.9 - - + +
800B VAL* 2.9 39.0 + - + +
801B GLN* 3.4 6.5 - - + +
803B ALA* 1.3 74.5 - - - +
805B GLY* 1.3 64.3 + - - +
807B MET* 3.2 14.7 + - - +
808B TYR 3.2 16.6 + - - -
946B ALA* 4.5 12.6 - - + -
950B SER* 4.5 4.4 + - - -
800D VAL* 6.2 0.4 - - - -
804D LYS* 2.9 42.1 - - + +
950D SER* 5.9 2.9 - - - -
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Residues in contact with GLY 805 (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 HIS* 3.8 16.3 - - - -
754B HIS 4.1 8.7 - - - -
755B LEU* 3.7 6.8 - - - +
801B GLN 2.9 14.4 + - - -
802B ILE 3.7 3.6 - - - -
804B LYS* 1.3 76.0 - - - +
806B MET* 1.3 60.3 + - - +
808B TYR* 3.3 6.8 + - - +
809B LEU* 3.2 23.2 + - - +
834B ILE* 3.9 13.9 - - - -
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Residues in contact with MET 806 (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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802B ILE* 3.0 21.6 + - + +
803B ALA 3.5 0.9 - - - +
804B LYS 3.2 0.2 - - - -
805B GLY* 1.3 73.4 - - - +
807B MET* 1.3 60.9 + - - +
809B LEU* 3.3 29.1 + - + +
810B GLU* 2.8 29.6 + - - +
814B LEU 5.5 0.7 - - - +
816B HIS* 4.2 5.8 - - + -
819B LEU* 3.8 26.5 - - + -
834B ILE* 3.8 11.9 - - + -
874B HIS* 6.1 1.8 - - - +
877B ASP* 3.4 29.6 - - + +
942B PHE* 3.5 52.4 - - + -
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Residues in contact with MET 807 (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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803B ALA 2.9 15.1 + - - +
804B LYS* 3.2 17.7 + - - +
806B MET* 1.3 72.9 - - - +
808B TYR* 1.3 59.8 + - - +
810B GLU* 3.2 5.5 + - - +
811B GLU* 2.8 32.4 + - - +
942B PHE* 3.5 35.4 - - + +
943B LYS* 3.8 28.0 - - + +
946B ALA* 4.1 15.0 - - - -
954D ARG* 5.8 8.5 - - + -
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Residues in contact with TYR 808 (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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749B SER 3.7 1.7 + - - -
750B MET* 3.6 10.5 - - + -
751B ASP* 3.2 46.7 + - - +
752B HIS* 3.3 33.7 - + + +
755B LEU* 3.4 19.1 - - + -
804B LYS 3.2 3.4 + - - -
805B GLY 3.5 8.3 - - - +
807B MET* 1.3 78.8 - - - +
809B LEU* 1.3 61.2 + - - +
811B GLU* 3.2 8.0 + - + +
812B ARG* 3.0 65.7 + - + +
830D ASN* 3.5 12.1 + - - +
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Residues in contact with LEU 809 (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 MET* 3.4 26.5 - - + -
755B LEU* 3.8 22.0 - - + -
805B GLY 3.2 8.9 + - - +
806B MET* 3.5 39.5 - - + +
807B MET 3.3 0.2 - - - -
808B TYR* 1.3 79.1 - - - +
810B GLU* 1.3 56.0 - - - +
812B ARG* 3.3 1.9 + - - -
813B ARG 3.0 7.4 + - - -
814B LEU* 2.8 60.9 + - + +
816B HIS* 4.4 9.2 - - + -
834B ILE* 4.6 0.7 - - + -
837B PHE* 3.8 25.1 - - + -
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Residues in contact with GLU 810 (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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806B MET* 2.8 19.1 + - + +
807B MET* 3.6 6.4 - - - +
809B LEU* 1.3 70.1 - - - +
811B GLU* 1.3 60.7 + - - +
813B ARG* 2.9 23.4 + - - +
874B HIS* 3.5 44.5 + - + +
875B GLN* 4.9 2.2 - - - +
941B LYS* 4.1 25.9 + - - +
942B PHE* 3.6 33.7 + - + +
943B LYS* 5.2 11.3 + - - +
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Residues in contact with GLU 811 (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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807B MET 2.8 20.8 + - - +
808B TYR* 3.6 9.0 - - + +
810B GLU* 1.3 72.4 - - - +
812B ARG* 1.3 62.7 + - + +
813B ARG* 3.3 8.5 + - - +
793D GLN* 5.4 6.6 - - - +
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Residues in contact with ARG 812 (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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746B ILE* 5.8 4.2 - - - +
749B SER* 2.8 54.5 + - - -
750B MET* 3.7 19.8 - - + +
808B TYR* 3.0 49.6 + - + +
809B LEU 4.0 3.1 - - - +
810B GLU 3.1 0.2 - - - -
811B GLU* 1.3 82.6 - - + +
813B ARG* 1.3 70.6 + - - +
814B LEU* 3.3 3.5 + - + +
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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
------------------------------------------------------------
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