Contacts of the helix formed by residues 736 - 761 (chain A) in PDB entry 5CGD
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 THR 736 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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715A GLU* 3.2 38.6 + - + +
734A ASN 3.6 11.7 - - - +
735A THR* 1.3 78.6 - - - +
737A ASN* 1.3 66.5 + - - +
738A LEU* 3.6 7.9 + - - +
739A GLY 3.4 5.4 + - - +
740A VAL* 3.4 16.6 + - - +
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Residues in contact with ASN 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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736A THR* 1.3 76.0 - - - +
738A LEU* 1.3 53.0 + - - +
740A VAL* 2.9 6.0 + - - +
741A VAL* 2.7 42.3 + - + +
793A PHE* 3.7 19.1 - - + -
798A LYS* 4.3 11.1 + - - -
4001A OLA 3.2 28.0 + - + +
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Residues in contact with LEU 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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711A LEU* 3.7 12.2 - - + +
714A MET* 4.3 21.5 - - + -
715A GLU* 3.9 21.8 - - - +
736A THR* 3.4 2.7 + - - +
737A ASN* 1.3 79.7 - - - +
739A GLY* 1.3 61.6 + - - +
740A VAL 3.2 0.5 + - - -
741A VAL* 4.3 9.0 - - + +
742A ALA* 3.3 39.1 + - + +
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Residues in contact with GLY 739 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
648A ARG* 4.7 13.5 + - - +
711A LEU* 3.9 15.0 - - - +
715A GLU* 3.9 10.2 + - - -
735A THR* 4.1 14.0 - - - +
736A THR* 3.4 12.5 + - - -
737A ASN 3.1 1.4 - - - -
738A LEU* 1.3 78.2 - - - +
740A VAL* 1.3 61.0 + - - +
743A PRO* 3.4 18.9 - - - +
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Residues in contact with VAL 740 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
735A THR* 3.7 17.0 - - + +
736A THR 3.4 15.7 - - - +
737A ASN* 2.9 7.2 + - - +
739A GLY* 1.3 79.3 - - - +
741A VAL* 1.3 64.7 + - - +
742A ALA 3.4 0.4 - - - -
743A PRO* 3.3 5.9 - - - +
744A LEU* 3.1 25.9 + - + +
788A PHE* 5.2 0.2 - - + -
792A TYR* 4.3 27.8 - - + +
793A PHE* 4.2 20.9 - - + -
802A MET* 4.8 4.7 - - + -
4005A 51E 3.9 23.2 + - - +
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Residues in contact with VAL 741 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
737A ASN* 2.7 29.6 + - + +
738A LEU* 4.4 9.6 - - + +
740A VAL* 1.3 73.4 - - - +
742A ALA* 1.3 54.9 + - - +
744A LEU* 3.1 8.9 + - + +
745A GLY* 2.7 32.8 + - - -
793A PHE* 3.7 15.3 - - + -
4001A OLA 3.7 50.0 - - + -
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Residues in contact with ALA 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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707A ILE* 4.0 16.7 - - + +
711A LEU* 3.8 14.4 - - + -
738A LEU* 3.3 25.7 + - + +
741A VAL* 1.3 82.0 - - - +
743A PRO* 1.3 69.2 - - + +
745A GLY* 3.5 1.5 + - - -
746A TYR* 3.3 21.1 + - - +
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Residues in contact with PRO 743 (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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648A ARG 5.9 1.1 - - - +
652A GLY* 4.4 15.7 - - - -
704A GLN* 3.0 44.3 + - - +
707A ILE* 4.5 2.0 - - + -
708A ILE* 4.7 10.5 - - + -
711A LEU* 4.1 7.9 - - + -
738A LEU 4.1 0.2 - - - +
739A GLY 3.4 25.4 - - - +
740A VAL* 3.3 12.6 - - - +
742A ALA* 1.3 94.0 - - + +
744A LEU* 1.3 61.5 + - - +
747A ASN* 3.0 16.0 + - - -
4005A 51E 6.3 0.2 - - - +
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Residues in contact with LEU 744 (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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740A VAL* 3.1 21.4 + - + +
741A VAL* 3.1 8.9 + - - +
743A PRO* 1.3 76.6 - - - +
745A GLY* 1.3 58.5 + - - +
747A ASN* 3.4 6.7 + - - +
748A GLY* 2.9 24.9 + - - -
785A TRP* 3.5 33.8 - - + +
788A PHE* 4.1 17.5 - - + -
789A VAL* 4.2 16.6 - - + -
793A PHE* 4.4 15.9 - - + -
4001A OLA 3.7 29.5 - - + +
4005A 51E 3.7 24.5 - - - +
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Residues in contact with GLY 745 (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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741A VAL* 2.7 18.9 + - - -
742A ALA 4.1 1.6 - - - -
744A LEU* 1.3 74.7 - - - +
746A TYR* 1.3 55.9 + - - +
748A GLY* 3.0 2.9 + - - -
749A LEU* 3.0 31.9 + - - +
4001A OLA 4.3 19.7 - - - +
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Residues in contact with TYR 746 (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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700A LEU* 2.6 50.6 + - + +
703A ILE* 3.5 30.0 - - + +
704A GLN* 3.5 37.0 - - + +
707A ILE* 3.9 15.9 - - + -
742A ALA 3.3 15.8 + - - +
743A PRO 4.1 0.2 - - - +
744A LEU 3.3 0.4 - - - -
745A GLY* 1.3 76.0 - - - +
747A ASN* 1.3 62.2 + - - +
749A LEU* 3.2 29.4 + - + +
750A LEU* 3.2 39.1 + - + +
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Residues in contact with ASN 747 (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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651A ILE 4.2 3.6 + - - -
652A GLY* 3.3 14.5 + - - -
655A PRO* 3.6 22.9 - - + +
656A ALA* 3.5 22.0 + - - +
659A TYR* 4.6 1.3 - - + -
704A GLN* 2.8 22.7 + - - +
743A PRO 3.0 18.9 + - - +
744A LEU* 3.7 0.8 - - - +
746A TYR* 1.3 75.7 - - - +
748A GLY* 1.3 57.8 - - - +
750A LEU* 3.3 10.0 + - - +
751A ILE* 3.0 36.6 + - + +
785A TRP* 3.6 25.0 - - + -
4005A 51E 5.8 0.4 - - - -
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Residues in contact with GLY 748 (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 LEU 2.9 14.8 + - - -
745A GLY 3.0 6.2 + - - -
747A ASN* 1.3 77.6 - - - +
749A LEU* 1.3 56.9 + - - +
751A ILE* 3.5 0.6 + - - -
752A LEU* 2.9 31.9 + - - +
785A TRP* 4.7 0.8 - - - -
4001A OLA 3.6 37.8 - - - +
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Residues in contact with LEU 749 (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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745A GLY 3.0 18.1 + - - +
746A TYR* 3.2 25.1 + - + +
748A GLY* 1.3 75.2 - - - +
750A LEU* 1.3 62.8 + - + +
752A LEU* 3.2 16.0 + - + +
753A ALA* 2.9 30.7 + - - +
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Residues in contact with LEU 750 (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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656A ALA* 3.9 26.2 - - + -
659A TYR* 4.0 13.9 - - + +
660A SER* 3.9 26.2 - - - +
663A VAL* 4.6 5.0 - - + +
700A LEU* 4.5 14.4 - - + -
746A TYR* 3.2 48.4 + - + +
747A ASN* 3.3 14.3 + - - +
749A LEU* 1.3 78.9 - - + +
751A ILE* 1.3 56.1 + - - +
753A ALA* 3.4 6.6 + - + +
754A CYS* 2.9 35.9 + - - -
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Residues in contact with ILE 751 (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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659A TYR* 3.5 33.7 - - + -
747A ASN 3.0 20.8 + - - +
748A GLY 3.8 4.3 - - - +
750A LEU* 1.3 75.7 - - - +
752A LEU* 1.3 57.3 + - - +
754A CYS* 3.4 2.9 + - - +
755A THR* 2.9 34.3 + - - -
778A MET* 3.6 20.4 - - + -
781A THR* 4.0 9.6 - - + -
782A CYS* 3.7 22.7 - - - +
785A TRP* 3.4 42.4 - - + -
4001A OLA 3.7 12.8 - - + -
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Residues in contact with LEU 752 (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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748A GLY 2.9 22.4 + - - +
749A LEU* 3.2 18.6 + - + +
751A ILE* 1.3 79.1 - - - +
753A ALA* 1.3 60.3 + - - +
755A THR* 3.6 5.9 + - - -
756A PHE* 3.1 23.0 + - - +
782A CYS* 5.4 2.5 - - - -
4001A OLA 4.3 18.8 - - + -
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Residues in contact with ALA 753 (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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663A VAL* 3.8 17.0 - - + -
749A LEU 2.9 16.3 + - - +
750A LEU* 3.8 6.3 - - + +
752A LEU* 1.3 73.6 - - - +
754A CYS* 1.3 65.9 + - - +
756A PHE* 3.4 5.9 + - - +
757A TYR* 3.1 39.9 + - + -
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Residues in contact with CYS 754 (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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659A TYR* 3.1 34.5 - - - -
662A LEU* 4.1 10.8 - - + -
663A VAL* 3.5 17.9 - - - +
666A THR* 4.0 12.8 + - + +
750A LEU 2.9 26.2 + - - +
751A ILE 3.5 0.4 - - - +
753A ALA* 1.3 79.3 - - - +
755A THR* 1.3 57.1 + - - +
757A TYR* 3.4 0.9 + - - -
758A ALA* 2.8 31.9 + - - +
778A MET* 3.5 27.4 - - + -
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Residues in contact with THR 755 (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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751A ILE 2.9 18.5 + - - -
752A LEU* 4.0 6.7 - - - -
754A CYS* 1.3 76.0 - - - +
756A PHE* 1.3 57.4 + - - +
758A ALA* 3.8 2.2 - - + +
759A PHE* 2.9 31.3 + - + +
778A MET* 3.3 25.6 - - + +
779A TYR* 4.3 23.1 - - + -
782A CYS* 3.1 28.9 - - - -
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Residues in contact with PHE 756 (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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752A LEU 3.1 18.4 + - - +
753A ALA* 3.5 7.0 - - - +
754A CYS 3.2 0.4 - - - -
755A THR* 1.3 78.8 - - - +
757A TYR* 1.3 96.4 + + - +
759A PHE* 3.9 5.3 - - - +
760A LYS* 3.3 34.8 + - + +
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Residues in contact with TYR 757 (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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663A VAL* 4.3 10.8 - - + -
666A THR* 3.6 31.8 - - - +
667A TYR* 3.5 43.7 - + + -
670A ALA* 3.5 21.1 - - + -
671A ARG* 6.5 0.2 - - - -
753A ALA* 3.1 29.7 + - + -
756A PHE* 1.3 103.5 - + - +
758A ALA* 1.3 63.3 + - - +
760A LYS* 3.4 15.1 + - + +
761A THR* 3.0 29.8 + - - +
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Residues in contact with ALA 758 (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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666A THR* 4.2 12.5 - - + -
754A CYS 2.8 20.2 + - - +
755A THR* 3.8 7.9 - - + +
757A TYR* 1.3 75.8 - - - +
759A PHE* 1.3 64.1 + - - +
761A THR* 3.2 8.8 + - - -
762A ARG* 3.0 23.7 + - - +
771A ALA 4.7 2.1 - - - +
774A ILE* 4.5 4.0 - - + +
775A ALA* 4.0 28.5 - - - +
778A MET* 4.4 9.2 - - + -
779A TYR* 6.4 0.7 - - + -
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Residues in contact with PHE 759 (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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755A THR* 2.9 19.5 + - + +
756A PHE* 3.9 5.4 - - - +
758A ALA* 1.3 76.8 - - - +
760A LYS* 1.3 63.1 + - - +
762A ARG* 2.8 71.0 + - - +
775A ALA* 4.8 0.4 - - - +
779A TYR* 3.2 37.2 - + + +
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Residues in contact with LYS 760 (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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670A ALA* 4.1 33.3 + - + +
671A ARG* 6.3 0.6 - - - +
673A LEU* 3.4 20.7 - - + +
674A ALA* 4.9 11.0 - - - +
677A LYS* 5.9 0.6 + - - +
756A PHE* 3.3 25.0 + - + +
757A TYR* 3.5 22.5 - - + +
758A ALA 3.2 0.2 - - - -
759A PHE* 1.3 84.8 - - + +
761A THR* 1.3 61.6 + - + +
762A ARG* 3.5 4.0 + - - +
763A ASN 5.4 0.2 + - - -
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Residues in contact with THR 761 (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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666A THR* 4.6 2.7 + - - +
669A ALA* 3.4 44.6 - - - +
670A ALA* 3.6 10.8 - - + +
673A LEU* 4.0 8.7 - - + -
757A TYR 3.0 17.8 + - - +
758A ALA* 3.4 9.2 + - - -
759A PHE 3.2 0.6 - - - -
760A LYS* 1.3 82.3 - - + +
762A ARG* 1.3 61.6 + - - +
763A ASN 3.2 3.4 - - - -
764A VAL* 3.2 22.5 + - + +
771A ALA* 3.1 23.6 - - - +
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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
------------------------------------------------------------
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) + - + + + + + -
------------------------------------------------------------
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