Contacts of the helix formed by residues 717 - 744 (chain B) in PDB entry 1JQI
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 PHE 717 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
642B GLN 5.1 0.9 - - - -
645B ASP* 3.5 36.1 - - + -
646B MET* 4.0 15.0 - - + -
649B ILE* 4.0 18.4 - - + -
707B ALA* 4.0 5.6 - - - +
710B LEU* 3.9 19.3 - - + -
711B LYS* 3.5 38.8 - - + -
714B LYS* 6.5 0.2 - - - -
715B LYS 3.3 15.5 - - - -
716B PRO* 1.3 74.2 - - + +
718B THR* 1.3 58.5 + - - +
719B LYS 3.4 2.2 - - - -
720B GLU* 3.4 12.3 - - + -
721B SER* 2.7 39.7 + - - -
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Residues in contact with THR 718 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
645B ASP* 2.6 41.6 + - - +
648B ARG* 5.5 1.5 + - - +
716B PRO* 3.9 1.2 - - - +
717B PHE* 1.3 78.5 + - - +
719B LYS* 1.3 64.4 + - - +
720B GLU* 4.2 0.2 + - - -
721B SER* 3.3 2.6 + - - -
722B ALA* 3.0 22.2 + - - +
777B VAL* 3.7 14.8 - - + -
781B HIS* 3.5 34.6 + - + -
800B CAA 3.5 15.1 + - - +
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Residues in contact with LYS 719 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
706B ARG* 5.4 4.2 - - - +
717B PHE 3.4 0.2 - - - -
718B THR* 1.3 79.7 - - - +
720B GLU* 1.3 89.9 + - - +
722B ALA* 3.1 7.8 + - - +
723B MET* 3.0 54.7 + - + +
777B VAL* 5.0 2.5 - - - -
778B ILE* 4.3 12.3 - - + +
781B HIS* 3.8 35.2 - - + -
782B LEU* 4.3 23.6 - - - +
785B SER* 5.6 5.1 + - - +
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Residues in contact with GLU 720 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
703B LEU* 4.3 2.8 - - - +
706B ARG* 3.7 39.4 + - - +
707B ALA* 3.8 13.2 - - + +
710B LEU* 3.4 32.6 - - + +
716B PRO* 3.7 4.8 - - - +
717B PHE* 3.4 20.7 + - - +
718B THR 4.2 0.2 + - - -
719B LYS* 1.3 100.9 + - - +
721B SER* 1.3 61.6 + - - +
723B MET* 3.5 3.2 + - - +
724B ALA* 3.2 23.2 + - - +
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Residues in contact with SER 721 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
645B ASP* 2.7 31.8 + - - -
648B ARG* 3.4 16.7 - - - +
649B ILE* 3.6 8.8 - - - +
707B ALA* 3.9 9.6 - - - +
717B PHE* 2.7 31.7 + - - -
718B THR* 3.6 6.3 - - - -
720B GLU* 1.3 72.2 - - - +
722B ALA* 1.3 64.7 + - - +
724B ALA* 3.5 3.6 + - - +
725B LYS* 3.2 23.6 + - - +
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Residues in contact with ALA 722 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
648B ARG* 5.0 4.9 - - - +
718B THR 3.0 13.6 + - - +
719B LYS 3.1 7.8 + - - +
721B SER* 1.3 76.2 - - - +
723B MET* 1.3 64.1 + - - +
725B LYS* 3.5 0.6 + - - +
726B LEU* 3.0 26.2 + - - +
774B GLN* 3.4 32.1 - - - +
777B VAL* 4.1 13.7 - - + -
778B ILE* 3.7 19.3 - - + -
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Residues in contact with MET 723 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
703B LEU* 4.5 16.6 - - + -
706B ARG* 3.5 24.0 - - - -
719B LYS* 3.0 47.5 + - - +
720B GLU* 3.8 5.4 - - - +
722B ALA* 1.3 78.0 - - - +
724B ALA* 1.3 56.3 + - - +
726B LEU* 3.4 2.3 + - - +
727B ALA* 2.9 35.0 + - - +
778B ILE* 3.7 35.7 - - + -
782B LEU* 6.1 2.0 - - + -
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Residues in contact with ALA 724 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
649B ILE* 5.6 1.6 - - - -
652B ALA* 3.7 8.5 - - + -
700B ALA 5.0 1.0 - - - +
703B LEU* 3.9 13.6 - - - +
704B THR* 3.6 37.1 + - + +
707B ALA* 4.7 2.7 - - + -
720B GLU 3.2 14.7 + - - +
721B SER* 3.7 7.2 - - - +
722B ALA 3.3 0.2 - - - -
723B MET* 1.3 76.2 - - - +
725B LYS* 1.3 66.5 + - - +
727B ALA* 4.2 0.6 - - - +
728B ALA* 2.9 29.8 + - - +
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Residues in contact with LYS 725 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
648B ARG* 3.6 32.3 - - + +
651B ILE* 4.0 19.0 - - + +
652B ALA* 3.7 11.4 - - - +
721B SER 3.2 14.7 + - - +
722B ALA 3.9 3.1 - - - +
724B ALA* 1.3 77.9 - - - +
726B LEU* 1.3 59.3 + - - +
728B ALA* 4.2 0.2 - - - +
729B SER* 2.9 35.5 + - - +
764B THR 2.8 27.3 + - - +
765B GLU* 4.0 9.5 + - - +
767B TYR 3.1 21.8 + - - -
768B GLU* 4.2 4.0 - - - -
769B GLY 2.7 26.2 + - - -
770B THR* 4.5 1.4 - - - +
771B SER* 4.8 0.8 + - - +
774B GLN* 3.9 17.0 - - + +
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Residues in contact with LEU 726 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
722B ALA 3.0 17.9 + - - +
723B MET 3.7 2.9 - - - +
725B LYS* 1.3 80.8 - - - +
727B ALA* 1.3 64.0 + - - +
729B SER* 2.9 18.6 + - - -
730B GLU* 3.1 23.8 + - - +
771B SER* 3.6 38.1 - - - +
774B GLN* 4.1 7.2 - - + -
775B ARG* 3.6 42.8 - - + +
778B ILE* 3.9 18.8 - - + -
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Residues in contact with ALA 727 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
700B ALA* 4.1 8.6 - - + +
703B LEU* 3.6 24.2 - - + -
723B MET 2.9 20.9 + - - +
724B ALA 4.2 1.3 - - - +
726B LEU* 1.3 76.0 - - + +
728B ALA* 1.3 58.0 + - - +
730B GLU* 3.7 5.0 + - - +
731B ALA* 3.1 29.3 + - - +
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Residues in contact with ALA 728 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
652B ALA* 3.5 31.0 - - + +
655B ALA* 3.5 13.5 - - + +
656B LEU* 4.3 9.0 - - + -
700B ALA* 3.8 18.1 - - + +
704B THR* 4.6 1.1 - - - +
724B ALA 2.9 18.9 + - - +
727B ALA* 1.3 73.8 - - - +
729B SER* 1.3 62.3 + - - +
731B ALA* 3.2 3.5 + - - +
732B ALA* 2.9 26.0 + - - +
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Residues in contact with SER 729 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
651B ILE* 5.7 0.7 - - - -
655B ALA* 3.9 4.9 - - - +
725B LYS* 2.9 25.1 + - - +
726B LEU* 2.9 16.5 + - - -
728B ALA* 1.3 77.0 - - - +
730B GLU* 1.3 62.7 + - - +
732B ALA* 3.4 1.4 + - - +
733B THR* 3.4 17.2 + - - -
764B THR* 3.2 52.2 + - - -
765B GLU* 3.7 16.7 - - - +
771B SER* 4.3 2.9 + - - -
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Residues in contact with GLU 730 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
726B LEU* 3.1 26.8 + - + +
727B ALA* 4.2 4.6 - - - +
729B SER* 1.3 82.5 + - - +
731B ALA* 1.3 64.4 + - - +
733B THR* 3.6 2.4 + - - -
734B ALA* 3.2 23.6 + - - +
765B GLU* 3.8 22.2 - - - +
771B SER* 3.9 7.7 + - - +
775B ARG* 3.1 41.5 + - - -
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Residues in contact with ALA 731 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
659B ALA* 5.3 2.0 - - + -
696B ALA* 4.2 27.6 - - + +
697B LEU* 5.1 1.6 - - + -
700B ALA* 4.7 1.6 - - + -
727B ALA 3.1 19.6 + - - +
728B ALA* 3.2 7.6 + - - +
730B GLU* 1.3 77.3 - - - +
732B ALA* 1.3 55.8 + - - +
734B ALA* 3.2 4.9 + - - -
735B ILE* 2.8 53.4 + - + +
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Residues in contact with ALA 732 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
655B ALA* 3.6 28.5 - - + +
658B ILE* 4.6 2.0 - - + +
659B ALA* 4.0 16.4 - - + +
728B ALA 2.9 16.3 + - - +
729B SER 3.6 6.5 - - - +
730B GLU 3.3 0.2 - - - -
731B ALA* 1.3 77.8 - - - +
733B THR* 1.3 50.3 + - - +
735B ILE* 4.3 0.2 - - - +
736B SER* 2.7 39.2 + - - -
761B ALA* 3.5 18.1 - - + +
764B THR* 4.4 2.7 - - - +
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Residues in contact with THR 733 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
337A HIS* 4.1 11.2 - - + +
358A TYR* 3.7 22.7 - - - +
729B SER 3.4 2.7 + - - -
730B GLU 4.1 4.5 - - - -
731B ALA 3.2 0.2 - - - -
732B ALA* 1.3 75.6 - - - +
734B ALA* 1.3 61.8 + - - +
736B SER* 3.3 6.5 + - - -
737B HIS* 3.0 32.5 + - + +
758B TYR* 4.1 5.2 + - + -
761B ALA* 3.7 19.4 + - - -
762B ARG* 3.9 3.3 + - - -
765B GLU* 2.8 34.5 + - - +
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Residues in contact with ALA 734 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
693B MET* 5.9 0.2 - - - -
696B ALA* 6.3 1.3 - - + -
730B GLU 3.2 18.4 + - - +
731B ALA* 3.8 5.8 - - - +
733B THR* 1.3 79.5 - - - +
735B ILE* 1.3 63.2 + - + +
737B HIS* 3.4 6.2 + - - +
738B GLN* 3.1 28.5 + - + +
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Residues in contact with ILE 735 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
659B ALA* 3.6 39.9 - - + +
662B SER* 3.9 6.7 - - - -
663B LEU* 4.2 3.8 - - + +
693B MET* 3.4 60.2 - - + +
696B ALA* 4.5 5.2 - - + -
697B LEU* 3.9 17.9 - - + +
731B ALA* 2.8 33.4 + - + +
732B ALA 4.3 0.9 - - - +
734B ALA* 1.3 72.2 - - + +
736B SER* 1.3 60.6 + - - +
738B GLN* 3.2 3.8 + - - +
739B ALA* 2.9 25.8 + - - +
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Residues in contact with SER 736 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
658B ILE* 5.0 0.7 - - - -
662B SER* 3.4 24.9 + - - -
732B ALA 2.7 24.6 + - - -
733B THR* 3.3 8.1 + - - -
735B ILE* 1.3 77.3 - - - +
737B HIS* 1.3 64.8 + - - +
739B ALA* 3.4 2.5 + - - +
740B ILE* 3.3 26.2 + - - +
754B ALA 4.7 1.6 - - - +
757B TYR* 4.0 6.1 - - - -
758B TYR* 3.5 35.9 - - - -
761B ALA* 3.7 2.5 - - - +
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Residues in contact with HIS 737 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
333A THR* 3.9 10.5 - - + +
362A ARG* 2.8 57.6 + - - +
365A GLU* 2.9 38.1 + - - -
733B THR* 3.0 22.2 + - + +
734B ALA* 3.5 7.2 + - - +
735B ILE 3.1 0.2 - - - -
736B SER* 1.3 78.3 + - - +
738B GLN* 1.3 78.1 + - - +
740B ILE* 3.3 4.1 + - - +
741B GLN* 3.2 6.8 + - - -
758B TYR* 3.3 29.8 - + + -
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Residues in contact with GLN 738 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
689B LYS* 2.9 51.7 + - + +
693B MET* 3.9 24.9 - - + -
734B ALA* 3.1 19.5 + - + +
735B ILE 3.7 4.3 - - - +
737B HIS* 1.3 95.1 + - - +
739B ALA* 1.3 60.9 + - - +
741B GLN* 3.2 10.3 + - - +
742B ILE* 2.9 35.2 + - + +
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Residues in contact with ALA 739 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
662B SER* 3.7 32.5 - - - +
665B CYS* 5.4 1.6 - - + -
666B ALA* 4.2 17.5 - - + +
693B MET* 4.4 0.8 - - + +
735B ILE 2.9 15.9 + - - +
736B SER* 3.7 6.7 - - - +
737B HIS 3.3 0.2 - - - -
738B GLN* 1.3 76.2 - - - +
740B ILE* 1.3 62.7 + - - +
742B ILE* 3.3 1.4 + - - +
743B LEU* 3.1 31.6 + - + +
754B ALA* 4.7 11.7 - - + -
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Residues in contact with ILE 740 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
207A LEU* 4.7 4.5 - - + -
362A ARG* 3.5 29.6 - - + +
366A ILE* 3.9 16.6 - - + +
736B SER 3.3 8.2 + - - +
737B HIS 3.3 8.2 + - - +
738B GLN 3.2 0.4 - - - -
739B ALA* 1.3 78.3 - - - +
741B GLN* 1.3 64.0 + - - +
743B LEU* 3.1 4.0 + - - +
744B GLY 3.0 22.0 + - - +
747B GLY* 3.6 32.9 - - - +
748B TYR* 5.1 1.3 - - - -
754B ALA* 3.9 15.7 - - + +
755B GLU* 4.1 7.6 - - - -
758B TYR* 3.7 41.3 - - + -
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Residues in contact with GLN 741 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
362A ARG* 2.9 36.4 + - - +
365A GLU* 3.1 29.2 + - - +
366A ILE* 3.9 5.8 - - - +
370A THR* 3.7 7.9 - - - +
371A SER* 3.7 9.8 + - - +
372A GLU* 3.0 39.5 + - - +
399A FAD 2.6 23.3 + - - +
689B LYS* 4.4 4.0 - - - +
737B HIS* 3.2 5.8 + - - +
738B GLN* 3.2 24.2 + - - +
740B ILE* 1.3 79.5 - - - +
742B ILE* 1.3 53.8 + - - +
744B GLY* 3.0 16.8 + - - +
----------------------------------------------------------
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Residues in contact with ILE 742 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
399A FAD 3.3 23.7 - - - +
666B ALA* 4.0 35.0 - - + +
669B TYR* 4.0 1.1 - - + -
670B ALA* 4.2 15.0 - - + +
680B LEU* 3.6 14.0 - - + +
686B ILE* 4.4 13.9 - - + -
689B LYS* 4.2 26.9 - - + -
690B LEU* 4.1 12.6 - - + -
693B MET* 4.0 24.5 - - - -
738B GLN 2.9 21.4 + - - +
739B ALA 3.8 4.0 - - - +
741B GLN* 1.3 76.5 - - - +
743B LEU* 1.3 61.6 + - + +
----------------------------------------------------------
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Residues in contact with LEU 743 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
399A FAD 4.4 7.1 + - - +
665B CYS* 4.1 16.8 - - - +
666B ALA* 4.3 9.0 - - - -
669B TYR* 3.6 47.4 + - + -
739B ALA* 3.1 26.4 + - - +
740B ILE 3.1 4.9 + - - +
742B ILE* 1.3 78.6 - - + +
744B GLY* 1.3 63.6 + - - +
745B GLY 3.4 0.7 + - - -
746B MET* 3.4 15.4 + - + +
747B GLY* 3.6 14.6 - - - +
752B MET* 3.9 42.8 - - + -
754B ALA* 4.0 17.9 - - + -
----------------------------------------------------------
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Residues in contact with GLY 744 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
366A ILE* 3.9 23.3 - - - +
370A THR* 5.2 0.9 - - - -
399A FAD 4.0 17.7 - - - -
740B ILE 3.0 11.7 + - - +
741B GLN* 3.0 14.8 + - - -
742B ILE 3.2 0.4 - - - -
743B LEU* 1.3 75.7 - - - +
745B GLY* 1.3 67.2 + - - +
747B GLY* 2.9 12.0 + - - -
748B TYR 3.9 2.1 + - - -
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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).
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