Contacts of the helix formed by residues 723 - 742 (chain A) in PDB entry 5FBQ
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 723 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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718A MET 4.6 0.7 - - - -
719A GLY* 3.8 16.2 + - - -
720A GLY 2.8 17.5 + - - -
722A ASP* 1.3 82.4 - - - +
724A ASP* 1.3 66.1 + - - -
725A MET 3.4 2.2 - - - -
726A PHE* 3.4 4.1 + - - +
727A ASN* 3.2 23.4 + - - -
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Residues in contact with ASP 724 (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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722A ASP 3.7 3.1 + - - +
723A GLY* 1.3 69.3 - - - -
725A MET* 1.3 64.2 + - + +
727A ASN* 3.3 15.0 + - - +
728A TYR* 3.0 26.9 + - - +
13B LYS* 2.3 42.7 + - - +
63B GLN* 5.6 1.6 - - - +
65B TRP* 3.2 36.0 - - + -
79B ALA 5.2 2.8 - - - +
80B TYR* 5.2 9.1 - - - +
82B ARG 4.9 3.1 - - - +
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Residues in contact with MET 725 (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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647A LEU 5.4 1.1 - - - +
650A GLN* 3.8 22.9 - - - +
651A ARG* 4.1 31.9 - - + +
654A VAL* 3.7 33.0 - - + +
718A MET 3.2 20.4 + - - +
723A GLY 3.4 0.4 - - - -
724A ASP* 1.3 81.7 - - + +
726A PHE* 1.3 55.1 + - - +
728A TYR* 3.4 7.6 - - + +
729A TYR* 3.1 20.1 + - - +
48B PHE* 3.5 35.2 - - + -
63B GLN* 4.5 14.4 - - - +
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Residues in contact with PHE 726 (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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710A LEU* 4.2 16.6 - - + -
715A VAL* 4.5 9.2 - - + -
718A MET* 3.6 33.3 + - + -
720A GLY 3.2 21.8 - - - +
721A LEU* 3.1 36.3 - - + -
723A GLY 3.4 3.7 + - - +
724A ASP 3.2 0.4 - - - -
725A MET* 1.3 76.2 - - - +
727A ASN* 1.3 67.5 + - - +
728A TYR 3.1 1.1 - - - -
729A TYR* 3.0 26.0 + + - +
730A LYS* 3.2 35.8 + - + +
793A VAL* 4.2 4.5 - - + -
797A MET* 3.3 34.3 - - + -
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Residues in contact with ASN 727 (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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721A LEU 4.5 8.1 - - - +
722A ASP 4.4 7.9 + - - -
723A GLY 3.2 14.7 + - - +
724A ASP* 3.5 18.4 + - - +
726A PHE* 1.3 77.6 - - - +
728A TYR* 1.3 57.5 + - - +
730A LYS* 3.2 27.9 + - - +
731A MET* 3.0 26.7 + - - +
65B TRP* 5.8 4.5 - - + -
79B ALA* 4.8 17.0 - - - +
80B TYR* 5.8 1.6 - - - +
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Residues in contact with TYR 728 (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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592A PRO* 3.1 30.0 - - - +
651A ARG* 5.4 2.8 + - + -
654A VAL* 3.9 12.8 - - + -
655A GLN* 3.9 16.1 + - + -
724A ASP 3.0 14.1 + - - +
725A MET* 3.4 11.4 - - + +
726A PHE 3.1 0.2 - - - -
727A ASN* 1.3 73.3 - - - +
729A TYR* 1.3 60.7 + - - +
731A MET* 3.0 11.5 + - + -
732A LEU* 2.8 61.4 + - + +
735A GLN* 5.2 1.3 - - - -
46B VAL* 4.5 18.6 - - + -
47B GLU* 4.8 11.2 - - + +
48B PHE* 3.2 50.5 + + + -
65B TRP* 5.7 1.8 - - + -
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Residues in contact with TYR 729 (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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654A VAL* 3.7 24.9 - - + +
657A CYS* 3.4 11.7 - - + -
658A ALA* 3.3 32.9 - - + +
661A CYS* 3.6 26.3 - - - +
708A PHE* 3.7 11.3 - - - -
710A LEU* 3.9 27.1 - - + +
718A MET* 3.6 25.1 - - + -
725A MET 3.1 8.7 + - - +
726A PHE* 3.0 18.8 + + - +
728A TYR* 1.3 77.5 - - - +
730A LYS* 1.3 68.2 + - + +
732A LEU* 3.5 5.1 + - - +
733A MET* 3.4 40.8 + - - +
793A VAL* 4.5 7.4 - - + +
796A SER* 5.5 0.7 + - - -
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Residues in contact with LYS 730 (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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726A PHE* 3.2 38.2 + - + +
727A ASN* 3.5 21.4 + - - +
728A TYR 3.2 0.4 - - - -
729A TYR* 1.3 82.5 - - + +
731A MET* 1.3 65.2 + - - +
733A MET* 3.4 6.4 + - - +
734A LEU* 3.3 19.2 + - - +
789A VAL* 3.8 17.0 - - + +
790A GLU* 2.8 38.9 + - - -
793A VAL* 4.0 27.5 - - + +
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Residues in contact with MET 731 (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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727A ASN 3.0 13.9 + - - +
728A TYR* 3.0 17.7 + - + +
730A LYS* 1.3 78.3 - - - +
732A LEU* 1.3 60.5 + - - +
734A LEU* 3.6 18.8 - - + -
735A GLN* 3.2 19.9 + - - +
44B ILE* 3.0 40.4 - - + +
45B GLY* 3.8 13.9 - - - -
46B VAL* 3.6 33.4 - - + +
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Residues in contact with LEU 732 (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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591A VAL* 4.1 0.6 - - + +
592A PRO* 3.5 18.4 - - + +
593A LEU* 3.4 25.6 - - + +
654A VAL* 4.4 7.0 - - + +
655A GLN* 3.8 31.0 - - + -
658A ALA* 3.9 2.7 - - + -
728A TYR* 2.8 66.8 + - + +
729A TYR 3.8 4.7 - - - +
730A LYS 3.3 0.2 - - - -
731A MET* 1.3 74.0 - - - +
733A MET* 1.3 55.6 + - - +
735A GLN* 3.3 21.0 + - - +
736A GLY 2.8 31.2 + - - -
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Residues in contact with MET 733 (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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658A ALA* 3.8 24.2 - - + +
661A CYS* 3.4 22.9 - - - -
662A LEU* 3.5 20.6 - - + +
729A TYR* 3.4 45.9 + - - +
730A LYS* 3.6 8.7 - - - +
731A MET 3.3 0.6 - - - -
732A LEU* 1.3 78.9 - - - +
734A LEU* 1.3 58.9 + - - +
736A GLY 3.3 0.7 + - - -
737A LEU* 2.9 29.2 + - - +
789A VAL* 4.4 17.0 - - + -
792A MET* 3.8 33.2 - - + -
793A VAL* 4.5 10.8 - - + -
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Residues in contact with LEU 734 (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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730A LYS 3.3 7.7 + - - +
731A MET* 3.6 28.0 - - + +
732A LEU 3.3 0.4 - - - -
733A MET* 1.3 78.9 - - - +
735A GLN* 1.3 63.0 + - - +
737A LEU* 3.0 6.4 + - + +
738A ILE* 2.9 37.1 + - + +
782A GLU* 4.7 4.3 - - + +
785A LEU* 3.6 43.3 - - + -
786A GLN* 3.7 27.1 - - + +
789A VAL* 3.9 18.5 - - + +
44B ILE* 4.0 9.0 - - + -
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Residues in contact with GLN 735 (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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590A ARG 5.6 0.8 - - - +
591A VAL* 3.8 20.1 - - + +
592A PRO* 4.2 5.0 - - - +
731A MET* 3.2 16.8 + - - +
732A LEU* 3.4 30.3 - - - +
734A LEU* 1.3 78.5 - - - +
736A GLY* 1.3 57.6 + - - +
738A ILE* 3.3 4.0 + - - +
739A ALA* 3.1 27.4 + - - +
44B ILE* 2.6 63.3 + - + +
46B VAL 3.4 19.8 + - - -
47B GLU* 4.5 12.3 + - - +
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Residues in contact with GLY 736 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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586A TRP* 2.9 34.4 + - - -
591A VAL* 3.7 6.0 - - - +
593A LEU* 3.7 13.2 - - - -
662A LEU* 3.6 7.3 - - - +
732A LEU 2.8 19.4 + - - -
733A MET 3.8 1.1 - - - -
735A GLN* 1.3 73.1 - - - +
737A LEU* 1.3 56.5 + - - +
740A ALA* 3.2 18.4 + - - +
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Residues in contact with LEU 737 (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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662A LEU* 4.2 20.9 - - + -
665A TYR* 5.0 9.2 - - + -
666A LEU* 4.7 20.4 - - + -
733A MET 2.9 12.2 + - - +
734A LEU* 3.0 10.7 + - - +
736A GLY* 1.3 75.8 - - - +
738A ILE* 1.3 64.9 + - - +
739A ALA 3.1 0.2 - - - -
740A ALA* 3.2 9.7 + - + +
741A ARG* 3.1 32.6 + - + +
775A ARG 5.3 2.5 - - - +
776A PHE* 5.4 7.6 - - + +
777A HIS* 5.9 1.1 - - + -
785A LEU* 4.5 16.8 - - + -
788A LEU* 3.8 29.4 - - + -
789A VAL* 4.7 15.0 - - + -
792A MET* 5.1 5.8 - - - -
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Residues in contact with ILE 738 (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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734A LEU* 2.9 23.2 + - + +
735A GLN 3.3 6.7 + - - +
737A LEU* 1.3 75.6 - - - +
739A ALA* 1.3 62.4 + - - +
741A ARG* 3.6 14.4 + - - +
742A LYS* 3.4 41.1 + - - +
782A GLU* 4.2 31.4 - - + +
785A LEU* 4.4 17.3 - - + -
44B ILE* 3.3 47.1 - - + -
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Residues in contact with ALA 739 (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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585A ILE* 3.5 3.9 - - + +
586A TRP* 3.8 19.3 - - + -
589A GLU* 3.9 25.6 - - + -
591A VAL* 4.1 8.5 - - + -
735A GLN 3.1 16.4 + - - +
736A GLY 3.8 5.4 - - - +
737A LEU 3.1 0.2 - - - -
738A ILE* 1.3 77.0 - - - +
740A ALA* 1.3 64.9 - - - +
742A LYS* 3.1 15.7 + - - +
743A HIS* 3.3 19.6 + - - -
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Residues in contact with ALA 740 (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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582A LEU* 4.6 16.2 - - + -
585A ILE* 4.1 13.6 - - - +
586A TRP* 4.8 2.0 - - + +
662A LEU* 6.2 0.2 - - + -
666A LEU* 4.9 7.0 - - + -
736A GLY 3.2 14.5 + - - +
737A LEU* 3.2 11.6 + - + +
739A ALA* 1.3 79.6 - - - +
741A ARG* 1.3 58.3 + - - +
743A HIS* 2.9 7.1 + - - +
744A MET* 2.9 27.5 + - - -
747A VAL* 5.7 0.2 - - - +
776A PHE* 4.1 20.7 - - + -
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Residues in contact with ARG 741 (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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737A LEU* 3.1 18.3 + - + +
738A ILE* 3.7 14.0 + - - +
739A ALA 3.3 0.2 - - - -
740A ALA* 1.3 76.0 - - - +
742A LYS* 1.3 58.9 + - + +
743A HIS 3.1 4.5 + - - -
744A MET* 3.4 15.4 + - - +
776A PHE* 3.2 30.5 - - + +
777A HIS 2.8 28.8 + - - -
778A MET* 3.2 46.2 + - + +
780A MET 3.0 26.2 + - - -
781A THR* 5.3 0.2 - - - +
782A GLU* 5.0 11.1 - - - +
785A LEU* 3.8 26.8 - - - +
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Residues in contact with LYS 742 (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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589A GLU* 3.6 30.5 + - - +
738A ILE* 3.4 34.2 + - - +
739A ALA* 3.1 12.1 + - - +
741A ARG* 1.3 76.4 - - + +
743A HIS* 1.3 75.9 + - + +
744A MET 3.7 0.2 - - - -
41B LYS* 6.0 1.4 - - - +
42B SER* 5.7 3.2 + - - +
44B ILE* 5.5 3.6 - - - +
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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