Contacts of the helix formed by residues 719 - 749 (chain A) in PDB entry 5OY0
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 SER 719 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46A THR* 5.7 10.2 + - - +
50A ASN* 5.6 1.6 + - - -
573A PRO* 6.4 0.4 - - - -
690A ARG* 3.9 8.7 - - - +
717A ALA 3.6 1.2 + - - -
718A LEU* 1.3 77.9 - - - +
720A ILE* 1.3 55.3 + - - +
721A ILE* 3.9 6.3 + - - +
722A GLN* 3.1 29.2 + - - +
723A GLY* 2.7 33.6 + - - -
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Residues in contact with ILE 720 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
573A PRO* 3.5 32.9 - - + +
574A CYS* 5.2 7.9 - - - -
690A ARG* 3.9 26.4 - - + +
718A LEU 3.9 0.4 + - - -
719A SER* 1.3 74.9 - - - +
721A ILE* 1.3 61.1 + - - +
723A GLY* 3.4 1.7 + - - -
724A ARG* 3.2 53.6 + - - +
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Residues in contact with ILE 721 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
571A ARG* 3.6 32.3 - - + +
572A PHE* 3.5 35.2 - - - +
573A PRO* 3.7 24.8 - - + +
586A SER* 4.8 0.2 - - - +
588A TRP* 3.3 38.5 - - + -
589A ASP* 3.8 7.9 - - - +
719A SER* 3.3 6.8 + - - +
720A ILE* 1.3 75.3 - - - +
722A GLN* 1.3 59.9 + - - +
724A ARG* 3.2 4.0 + - - +
725A ALA* 2.9 23.4 + - + +
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Residues in contact with GLN 722 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46A THR* 6.0 1.0 - - - +
49A TRP* 3.1 65.0 - - - +
50A ASN* 5.5 0.5 - - - +
718A LEU* 3.7 17.2 - - + +
719A SER* 3.1 27.5 + - - +
721A ILE* 1.3 76.8 - - - +
723A GLY* 1.3 61.6 + - - +
725A ALA* 3.7 7.6 - - + -
726A VAL* 2.8 45.6 + - + +
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Residues in contact with GLY 723 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
685A PHE* 3.7 23.3 - - - +
718A LEU* 4.4 11.8 - - - +
719A SER 2.7 20.4 + - - -
720A ILE* 3.8 2.5 - - - -
722A GLN* 1.3 72.8 - - - +
724A ARG* 1.3 55.9 + - - +
726A VAL* 3.9 3.3 - - - +
727A GLY* 2.9 25.6 + - - -
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Residues in contact with ARG 724 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
573A PRO* 3.1 31.1 + - - +
583A CYS* 4.1 11.1 - - - +
584A GLN* 3.4 31.9 - - - +
588A TRP* 3.8 6.1 - - + -
589A ASP* 2.9 33.7 + - - -
592A PHE* 3.2 40.2 - - + -
685A PHE 5.6 0.7 - - - +
686A LEU* 4.7 4.3 - - + -
720A ILE* 3.2 35.1 + - - +
721A ILE* 3.2 8.4 + - - +
722A GLN 3.2 0.4 - - - -
723A GLY* 1.3 77.1 - - - +
725A ALA* 1.3 63.0 + - - +
727A GLY* 3.4 0.5 + - - -
728A VAL* 3.0 20.3 + - - +
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Residues in contact with ALA 725 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
588A TRP* 3.6 19.9 - - + -
721A ILE* 2.9 16.7 + - + +
722A GLN* 3.2 9.8 + - + +
724A ARG* 1.3 76.2 - - - +
726A VAL* 1.3 58.5 + - + +
728A VAL* 3.2 10.4 - - - +
729A ALA* 2.9 31.6 + - - +
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Residues in contact with VAL 726 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
685A PHE* 3.8 31.0 - - + -
718A LEU* 4.3 10.1 - - + -
722A GLN* 2.8 40.8 + - + +
723A GLY 3.9 2.7 - - - +
725A ALA* 1.3 69.5 - - + +
727A GLY* 1.3 67.0 + - - +
729A ALA* 3.4 2.9 + - - -
730A HIS* 2.9 56.8 + - + +
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Residues in contact with GLY 727 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
682A SER* 3.2 14.2 - - - -
685A PHE* 3.8 12.5 - - - +
686A LEU* 3.6 27.5 - - - +
723A GLY 2.9 14.6 + - - -
726A VAL* 1.3 77.1 - - - +
728A VAL* 1.3 56.3 + - - +
731A TYR* 2.9 26.5 + - - +
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Residues in contact with VAL 728 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
588A TRP* 5.5 1.6 - - + -
592A PHE* 3.8 11.9 - - + +
595A LEU* 3.7 42.0 - - + -
596A PHE* 3.6 38.1 - - + -
686A LEU* 3.9 1.2 - - - +
724A ARG 3.0 21.4 + - - +
725A ALA* 3.2 13.0 - - - +
727A GLY* 1.3 71.6 - - - +
729A ALA* 1.3 69.1 + - - +
731A TYR* 3.6 1.1 - - - +
732A LEU* 2.9 31.8 + - + +
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Residues in contact with ALA 729 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
725A ALA 2.9 19.3 + - - +
726A VAL* 3.7 4.9 - - - +
728A VAL* 1.3 79.3 - - + +
730A HIS* 1.3 65.5 + - + +
732A LEU* 3.5 4.5 + - - +
733A LEU* 2.9 29.9 + - - +
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Residues in contact with HIS 730 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
678A VAL* 3.2 25.9 - - + +
681A PHE* 3.2 38.4 - + - -
682A SER* 3.5 20.2 - - - -
685A PHE* 4.7 1.4 - + - -
726A VAL* 2.9 49.3 + - + +
729A ALA* 1.3 81.2 - - + +
731A TYR* 1.3 60.2 + - - +
733A LEU* 4.3 5.6 - - + -
734A GLY* 2.9 26.7 + - - -
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Residues in contact with TYR 731 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
596A PHE* 3.6 35.7 - + + -
599A TYR* 3.6 34.3 - + - -
679A PHE* 3.3 39.4 - + - +
682A SER* 3.3 21.9 - - - +
683A LEU* 4.2 10.5 - - + -
686A LEU* 3.8 8.5 - - + -
727A GLY 2.9 18.5 + - - +
728A VAL 3.6 4.7 - - - +
730A HIS* 1.3 76.2 - - - +
732A LEU* 1.3 66.0 + - + +
734A GLY* 4.0 0.3 - - - -
735A GLY* 3.0 21.3 + - - -
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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
----------------------------------------------------------
399A PHE* 3.6 34.1 - - + -
595A LEU* 4.1 33.4 - - + +
596A PHE* 4.8 2.5 - - + -
598A MET* 4.7 3.1 - - + -
599A TYR* 3.6 37.0 - - + -
728A VAL* 2.9 27.3 + - + +
729A ALA* 4.0 3.8 - - - +
731A TYR* 1.3 79.1 - - + +
733A LEU* 1.3 66.4 + - - +
736A ILE* 2.9 41.6 + - + +
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Residues in contact with LEU 733 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
678A VAL* 4.3 18.8 - - + -
729A ALA 2.9 19.4 + - - +
730A HIS* 3.9 8.5 - - + +
732A LEU* 1.3 76.0 - - - +
734A GLY* 1.3 58.3 + - - +
736A ILE* 4.1 2.6 - - + +
737A VAL* 2.9 52.1 + - + +
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Residues in contact with GLY 734 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
675A GLY* 3.2 27.3 - - - -
678A VAL* 3.7 13.6 - - - +
679A PHE* 3.9 4.3 - - - -
730A HIS 2.9 20.3 + - - -
733A LEU* 1.3 74.5 - - - +
735A GLY* 1.3 59.8 + - - +
737A VAL* 4.7 0.2 - - - -
738A THR* 2.8 28.9 + - - -
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Residues in contact with GLY 735 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
599A TYR* 3.1 27.7 + - - -
679A PHE* 4.4 11.0 - - - +
731A TYR 3.0 14.5 + - - -
734A GLY* 1.3 75.2 - - - +
736A ILE* 1.3 57.2 + - - +
738A THR* 3.3 7.9 + - - -
739A THR* 3.0 30.5 + - - -
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Residues in contact with ILE 736 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
395A TRP* 4.0 41.3 - - + +
399A PHE* 4.0 32.1 - - + -
599A TYR* 3.8 17.9 - - + -
732A LEU* 2.9 29.6 + - + +
733A LEU* 4.1 2.9 - - - +
735A GLY* 1.3 76.2 - - - +
737A VAL* 1.3 60.8 + - + +
739A THR* 3.3 6.3 + - - -
740A TRP* 2.8 31.3 + - + +
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Residues in contact with VAL 737 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
671A MET* 3.3 45.3 - - + +
674A ALA 4.9 0.2 - - - -
675A GLY* 3.9 10.5 - - - +
733A LEU* 2.9 42.0 + - + +
734A GLY 3.9 2.2 - - - +
736A ILE* 1.3 77.3 - - + +
738A THR* 1.3 62.9 + - - +
740A TRP* 3.2 13.5 + - + +
741A ALA* 2.9 23.7 + - - +
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Residues in contact with THR 738 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
672A PHE* 3.5 20.8 - - + +
675A GLY* 3.1 21.7 - - - -
676A HIS* 3.1 35.1 + - + +
679A PHE* 5.5 0.7 - - - +
734A GLY 2.8 19.1 + - - -
735A GLY* 3.4 11.8 - - - -
737A VAL* 1.3 78.9 - - - +
739A THR* 1.3 63.7 + - - +
741A ALA 3.4 0.3 + - - -
742A PHE* 3.0 22.4 + - + +
----------------------------------------------------------
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Residues in contact with THR 739 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
395A TRP* 5.4 4.9 - - - +
599A TYR* 5.1 3.8 + - - -
603A SER* 5.3 4.7 + - - -
606A ILE* 3.6 31.4 - - + +
607A PHE* 3.8 29.0 - - + -
735A GLY 3.0 16.2 + - - -
736A ILE* 3.8 6.1 - - - -
738A THR* 1.3 76.9 - - - +
740A TRP* 1.3 57.4 + - - +
742A PHE* 3.4 7.5 + - - +
743A PHE* 2.8 40.3 + - + +
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Residues in contact with TRP 740 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
668A TYR* 3.5 26.9 - + - -
671A MET* 4.0 27.8 - - + -
736A ILE* 2.8 21.7 + - + +
737A VAL* 3.5 18.4 - - + +
738A THR 3.2 0.2 - - - -
739A THR* 1.3 74.5 - - - +
741A ALA* 1.3 80.3 + - + +
743A PHE* 3.3 4.6 + - - -
744A LEU* 2.9 63.8 + - + +
----------------------------------------------------------
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Residues in contact with ALA 741 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
657A VAL* 4.3 2.5 - - - -
668A TYR* 3.1 38.4 - - - +
671A MET* 4.0 2.9 - - + -
672A PHE* 3.5 21.5 - - + +
737A VAL 2.9 14.2 + - - +
738A THR 3.8 0.7 - - - +
740A TRP* 1.3 87.3 - - + +
742A PHE* 1.3 63.0 + - - +
744A LEU* 4.0 0.5 - - - +
745A ALA* 3.0 27.2 + - - +
----------------------------------------------------------
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Residues in contact with PHE 742 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
607A PHE* 4.2 10.5 - + - -
649A PHE* 3.8 28.3 - + - -
650A LEU* 4.3 13.9 - - + -
653A GLN* 3.7 44.9 - - + -
654A ALA* 3.8 8.7 - - + -
657A VAL* 3.5 24.6 - - + +
672A PHE* 3.8 15.0 - + + -
738A THR* 3.0 18.5 + - + +
739A THR* 3.6 6.5 - - - +
741A ALA* 1.3 77.7 - - - +
743A PHE* 1.3 95.5 + + - +
746A ARG* 3.0 23.5 + - + +
----------------------------------------------------------
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Residues in contact with PHE 743 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
387A LEU* 3.7 26.0 - - + +
388A SER* 6.2 0.4 - - - -
391A THR* 3.4 37.5 - - + -
606A ILE* 3.6 25.1 - - + -
607A PHE* 3.6 29.2 - + - -
610A SER* 3.9 15.3 - - - -
649A PHE* 4.3 0.7 - + - -
739A THR* 2.8 24.6 + - + +
740A TRP* 3.8 5.2 - - - +
742A PHE* 1.3 103.4 - + - +
744A LEU* 1.3 60.7 + - + +
746A ARG* 3.7 4.0 - - + +
747A SER* 2.5 40.7 + - - -
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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
----------------------------------------------------------
140A THR* 4.4 19.7 - - + +
387A LEU* 6.2 0.2 - - + -
388A SER* 3.6 25.8 - - - +
668A TYR* 3.2 45.3 - - + +
740A TRP* 2.9 54.6 + - + +
741A ALA 4.1 0.4 - - - +
743A PHE* 1.3 82.0 - - + +
745A ALA* 1.3 65.6 + - - +
747A SER* 3.7 4.0 - - - +
748A LEU* 2.9 34.7 + - + +
----------------------------------------------------------
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Residues in contact with ALA 745 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
656A ASN* 4.1 6.5 - - + +
657A VAL* 3.7 35.9 - - + +
660A SER* 5.5 0.4 - - - -
665A LEU* 4.7 14.4 - - + -
668A TYR* 4.4 15.3 - - + -
741A ALA 3.0 17.4 + - - +
744A LEU* 1.3 75.7 - - - +
746A ARG* 1.3 62.7 + - - +
748A LEU* 3.8 1.1 - - - +
749A SER* 3.0 29.3 + - - -
----------------------------------------------------------
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Residues in contact with ARG 746 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
387A LEU* 5.8 1.3 - - + -
610A SER* 5.3 0.9 - - - +
614A GLN* 2.6 25.4 + - - +
630A VAL* 4.3 5.7 + - - +
631A THR* 3.3 32.1 - - - +
652A ALA 4.9 3.2 + - - -
653A GLN* 3.3 48.7 + - + +
656A ASN* 3.1 30.0 + - - +
657A VAL* 4.9 0.4 - - - +
742A PHE* 3.0 23.5 + - + +
743A PHE* 3.7 6.3 - - + +
745A ALA* 1.3 76.3 - - - +
747A SER* 1.3 59.6 + - - +
749A SER 2.9 18.5 + - - -
750A ILE* 3.1 34.2 - - - +
----------------------------------------------------------
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Residues in contact with SER 747 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
383A TYR* 4.2 4.4 - - - +
384A ALA* 3.5 41.8 + - - +
387A LEU* 3.8 19.6 - - - +
388A SER* 5.0 1.4 + - - -
618A TRP* 5.5 1.1 - - - -
743A PHE 2.5 28.4 + - - -
744A LEU* 3.5 6.1 + - - +
746A ARG* 1.3 73.4 - - - +
748A LEU* 1.3 60.1 + - - +
750A ILE* 3.4 25.4 + - - +
751A GLY 4.7 5.2 - - - +
----------------------------------------------------------
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Residues in contact with LEU 748 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138A GLN* 3.5 52.6 - - + +
140A THR* 4.4 9.0 - - + -
384A ALA* 3.7 22.0 - - + -
665A LEU* 4.1 19.7 - - + -
668A TYR* 3.9 29.4 - - + +
744A LEU* 2.9 28.5 + - + +
745A ALA 4.1 1.8 - - - +
747A SER* 1.3 78.6 - - - +
749A SER* 1.3 57.5 + - - +
750A ILE 3.4 5.1 + - - -
751A GLY 4.7 3.1 + - - -
----------------------------------------------------------
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Residues in contact with SER 749 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
656A ASN* 3.6 30.3 + - - +
665A LEU* 3.3 23.4 - - - +
745A ALA 3.0 16.4 + - - -
746A ARG* 2.9 3.6 + - - -
748A LEU* 1.3 76.5 + - - +
750A ILE* 1.3 63.6 + - - +
751A GLY 3.7 1.8 - - - -
----------------------------------------------------------
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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