Contacts of the helix formed by residues 588 - 616 (chain E) in PDB entry 4P6X
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 HIS 588 (chain E).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
587E LEU* 1.3 72.9 - - - +
589E LEU* 1.3 75.2 + - + +
590E ASP* 2.7 44.4 + - + -
591E ASP* 2.8 38.0 + - - +
592E GLN* 2.9 12.5 + - - +
681E LYS* 3.5 28.8 + - + +
682E SER* 3.2 19.1 + - - +
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Residues in contact with LEU 589 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
587E LEU 3.4 0.2 + - - -
588E HIS* 1.3 99.6 + - + +
590E ASP* 1.3 84.3 + - - +
591E ASP 3.0 0.2 + - - -
592E GLN* 3.2 19.8 + - - +
593E MET* 2.8 33.9 + - - +
746F ARG* 3.1 43.6 + - - +
749F LEU* 4.8 2.4 - - + +
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Residues in contact with ASP 590 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
588E HIS* 2.7 30.3 + - + -
589E LEU* 1.3 88.7 - - - +
591E ASP* 1.3 58.3 + - - +
593E MET* 4.0 14.8 - - + +
594E THR* 2.5 37.0 + - - +
681E LYS* 3.4 22.2 + - + +
746F ARG* 5.0 2.4 + - - -
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Residues in contact with ASP 591 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
587E LEU* 4.1 8.1 - - + -
588E HIS* 2.8 34.3 + - - +
590E ASP* 1.3 77.4 - - - +
592E GLN* 1.3 56.0 + - - +
593E MET 3.0 1.3 - - - -
594E THR* 2.8 7.1 + - - -
595E LEU* 2.7 39.5 + - - +
676E PRO* 5.6 0.5 - - - +
680E LEU* 3.0 55.2 - - + +
681E LYS* 3.2 10.7 + - - +
682E SER* 3.1 12.6 + - - -
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Residues in contact with GLN 592 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
579E LYS* 4.9 5.0 - - - +
584E PHE* 3.3 44.1 - - + +
585E ARG* 3.1 35.9 + - - +
587E LEU* 2.5 37.5 + - + +
588E HIS 2.9 8.2 + - - +
589E LEU* 3.3 23.6 - - - +
591E ASP* 1.3 71.9 - - - +
593E MET* 1.3 60.4 + - - +
595E LEU* 4.7 0.9 - - - -
596E LEU* 3.7 13.0 + - - +
749F LEU* 3.7 20.9 - - + +
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Residues in contact with MET 593 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
589E LEU 2.8 17.0 + - - +
590E ASP* 4.0 14.4 - - + +
592E GLN* 1.3 78.2 - - - +
594E THR* 1.3 69.1 + - - +
596E LEU 3.7 0.5 + - - -
597E GLN* 3.0 66.2 + - - +
759E ASN* 5.2 2.0 - - - +
763E LYS* 5.8 1.6 - - - +
740F LYS* 4.3 8.7 - - + +
742F ASN* 3.4 42.2 - - + +
745F LEU* 4.0 10.7 - - + +
746F ARG* 4.0 16.4 - - + +
749F LEU* 3.5 17.0 - - + +
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Residues in contact with THR 594 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
590E ASP* 2.5 22.8 + - - +
591E ASP* 2.8 7.7 + - - -
593E MET* 1.3 81.3 - - - +
595E LEU* 1.3 60.9 + - + +
597E GLN* 3.6 8.6 + - - +
598E TYR* 2.9 57.8 + - + -
675E ILE* 5.1 0.9 - - - -
676E PRO* 3.6 25.3 - - + +
680E LEU* 5.7 0.4 - - + -
763E LYS* 4.6 11.6 + - - +
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Residues in contact with LEU 595 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
584E PHE* 3.6 23.6 - - + -
587E LEU* 3.8 21.8 - - + -
591E ASP 2.7 22.1 + - - +
592E GLN 4.1 4.0 - - - +
593E MET 3.3 0.2 - - - -
594E THR* 1.3 71.9 - - + +
596E LEU* 1.3 67.0 + - - +
598E TYR* 3.2 2.9 + - - +
599E SER* 2.9 29.8 + - - -
671E LEU* 3.9 19.2 - - + +
672E LEU* 3.9 19.3 - - + -
674E THR 3.7 20.8 - - - +
675E ILE* 3.8 17.9 - - + -
680E LEU* 4.1 10.5 - - + -
686E PHE* 4.1 8.3 - - + -
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Residues in contact with LEU 596 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
571E VAL* 6.2 2.7 - - + -
574E ALA* 3.8 18.2 - - + +
575E VAL* 3.8 25.6 - - + -
578E ALA* 3.7 30.1 - - + -
584E PHE* 4.3 2.0 - - + -
592E GLN 3.7 12.2 + - - +
593E MET 4.3 2.7 - - - +
595E LEU* 1.3 78.5 - - - +
597E GLN* 1.3 57.6 + - - +
599E SER* 4.1 3.6 - - - -
600E TRP* 3.0 36.4 + - + +
603E LEU* 4.2 13.5 - - + -
671E LEU* 4.0 11.0 - - + -
756E ILE* 5.5 2.1 - - + +
745F LEU* 4.5 11.4 - - + -
749F LEU* 3.7 30.7 - - + -
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Residues in contact with GLN 597 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
593E MET* 3.0 62.0 + - - +
594E THR* 3.6 7.9 - - - +
595E LEU 3.1 0.4 - - - -
596E LEU* 1.3 75.1 - - - +
598E TYR* 1.3 64.6 + - + +
600E TRP* 3.1 19.2 + - - -
756E ILE* 3.9 22.1 - - + +
759E ASN* 3.5 13.3 - - - +
760E GLN* 3.3 37.7 + - - +
763E LYS* 3.9 7.1 + - - -
764E TYR* 5.2 0.3 + - - -
740F LYS* 4.5 9.4 - - - +
742F ASN* 4.6 2.2 - - - +
745F LEU* 3.6 16.2 - - + +
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Residues in contact with TYR 598 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
594E THR* 2.9 48.1 + - + +
595E LEU 3.8 2.7 - - - +
597E GLN* 1.3 78.0 - - + +
599E SER* 1.3 59.2 + - - +
600E TRP* 3.7 2.0 + - - -
601E MET* 5.0 1.6 + - - +
674E THR* 3.7 44.0 + - + +
675E ILE* 3.9 0.7 - - - -
676E PRO* 3.7 20.1 - - + +
729E VAL* 5.1 9.5 - - - +
733E LEU* 5.2 2.4 - - - +
760E GLN* 3.7 13.5 - - - -
763E LYS* 3.8 18.0 + - + +
764E TYR* 3.6 30.2 + + - -
768E ASN* 2.6 36.5 + - - -
769E ILE* 3.5 23.6 - - + -
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Residues in contact with SER 599 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
595E LEU 2.9 20.2 + - - -
596E LEU* 4.1 0.7 - - - -
598E TYR* 1.3 79.9 - - - +
600E TRP* 1.3 65.1 + - - +
601E MET 3.2 3.1 - - - -
602E ALA* 3.0 12.0 + - - +
603E LEU* 2.9 25.6 + - - +
670E LEU 3.4 24.7 - - - -
671E LEU* 3.4 27.5 - - - +
673E SER* 4.9 2.0 - - - -
674E THR* 5.2 5.6 - - - -
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Residues in contact with TRP 600 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
571E VAL* 3.8 34.5 - - + -
596E LEU* 3.0 18.0 + - + +
597E GLN 3.1 25.6 + - - -
598E TYR 4.9 1.3 - - - -
599E SER* 1.3 76.1 - - - +
601E MET* 1.3 93.9 + - + +
603E LEU* 3.3 11.7 + - - +
604E MET* 3.0 39.2 + - + +
733E LEU* 4.2 12.6 - - + +
736E CYS* 4.1 19.7 - - - -
737E PHE* 5.9 0.2 - + - -
753E LEU* 4.1 25.6 - - + -
756E ILE* 3.6 28.5 - - + +
757E ILE* 4.2 13.6 - - + +
760E GLN* 5.0 4.2 - - - +
900E HCY 4.1 25.6 - - + -
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Residues in contact with MET 601 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
598E TYR 5.0 1.7 + - - +
599E SER 3.2 0.6 - - - -
600E TRP* 1.3 109.9 - - + +
602E ALA* 1.3 67.2 + - - +
604E MET* 4.6 0.9 - - - -
605E ALA* 3.0 24.9 + - - +
729E VAL* 4.2 11.2 - - + -
732E LEU* 3.6 44.9 - - + +
733E LEU* 3.9 27.1 - - + -
736E CYS* 3.8 14.8 - - + -
900E HCY 3.8 37.9 - - + -
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Residues in contact with ALA 602 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
599E SER* 3.0 18.6 + - - +
601E MET* 1.3 79.4 - - - +
603E LEU* 1.3 61.7 + - - +
606E PHE* 3.0 28.3 + - - +
670E LEU* 4.0 26.6 - - + +
673E SER* 5.2 3.1 - - - +
725E MET* 3.8 9.3 - - + +
729E VAL* 3.5 26.8 - - + +
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Residues in contact with LEU 603 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
574E ALA* 4.6 9.0 - - + -
577E TRP* 3.7 31.9 - - + -
596E LEU* 4.2 20.4 - - + -
599E SER* 2.9 29.6 + - - +
600E TRP* 3.6 11.2 - - - +
602E ALA* 1.3 76.8 - - - +
604E MET* 1.3 65.1 + - + +
606E PHE* 3.8 3.6 - - - +
607E ALA* 2.8 33.9 + - - +
667E LYS* 3.3 38.5 - - + +
670E LEU* 4.3 2.9 - - + -
671E LEU* 4.0 13.5 - - + +
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Residues in contact with MET 604 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
567E GLY 4.8 0.2 - - - +
570E GLN* 3.3 34.0 - - - +
571E VAL* 3.7 25.4 - - + -
574E ALA* 3.6 30.3 - - + -
600E TRP* 3.0 36.0 + - + +
601E MET* 4.1 2.2 - - - +
603E LEU* 1.3 82.2 - - + +
605E ALA* 1.3 51.5 + - - +
607E ALA* 3.7 5.5 - - - +
608E LEU* 2.8 36.0 + - - +
611E ARG* 4.8 0.3 + - - -
900E HCY 3.8 42.1 - - + +
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Residues in contact with ALA 605 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
601E MET 3.0 18.4 + - - +
602E ALA* 4.0 3.4 - - - +
604E MET* 1.3 76.3 - - - +
606E PHE* 1.3 63.4 + - - +
608E LEU* 3.0 13.2 - - - +
609E GLY* 3.0 19.8 + - - -
646E MET* 5.2 4.4 - - + +
649E VAL* 4.2 11.3 - - + +
725E MET* 4.2 12.1 - - + -
728E VAL* 4.8 2.7 - - + -
732E LEU* 3.7 27.4 - - + -
900E HCY 4.0 7.7 - - + +
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Residues in contact with PHE 606 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
602E ALA 3.0 20.0 + - - +
603E LEU* 3.8 3.1 - - - +
605E ALA* 1.3 76.4 - - - +
607E ALA* 1.3 63.2 + - - +
609E GLY* 3.2 10.4 + - - -
610E TRP 3.2 10.0 + - - -
649E VAL* 3.8 18.6 - - + -
653E LEU* 4.0 27.6 - - + +
663E TYR* 3.3 51.9 - + - -
666E MET* 3.7 32.8 - - + -
667E LYS* 3.9 11.9 - - + -
670E LEU* 3.4 25.4 - - + -
721E LEU* 4.2 15.5 - - + -
722E LEU* 5.1 0.7 - - + -
725E MET* 3.9 12.1 - - + +
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Residues in contact with ALA 607 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
540E GLU* 5.9 0.2 - - - +
570E GLN* 5.9 0.4 - - - +
603E LEU 2.8 23.7 + - - +
604E MET* 3.7 7.4 - - - +
606E PHE* 1.3 72.2 - - - +
608E LEU* 1.3 64.6 + - - +
610E TRP* 3.4 4.2 + - - +
611E ARG* 3.1 38.5 + - - +
663E TYR* 3.0 21.8 + - - +
667E LYS* 4.3 7.8 - - + +
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Residues in contact with LEU 608 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
604E MET 2.8 14.5 + - - +
605E ALA* 3.0 12.1 - - - +
607E ALA* 1.3 75.3 - - - +
609E GLY* 1.3 65.5 + - - +
611E ARG* 3.0 31.1 + - - +
612E SER* 2.9 30.8 + - - +
621E LEU* 4.5 6.7 - - + -
622E TYR 3.5 20.6 - - - +
623E PHE* 3.7 33.0 - - + +
646E MET* 3.4 42.6 - - + +
900E HCY 4.2 5.8 - - + +
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Residues in contact with GLY 609 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
605E ALA 3.0 10.1 + - - -
606E PHE 3.2 4.6 + - - -
608E LEU* 1.3 78.3 - - - +
610E TRP* 1.3 54.0 + - - +
612E SER* 2.8 4.8 + - - -
613E TYR* 2.7 33.3 + - - +
646E MET 4.8 1.7 + - - -
649E VAL* 4.5 2.5 - - - -
650E SER* 3.4 30.8 + - - -
653E LEU* 3.4 9.6 - - - -
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Residues in contact with TRP 610 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
540E GLU* 5.6 0.7 - - - -
606E PHE 3.2 2.8 + - - -
607E ALA 3.7 4.0 - - - +
608E LEU 3.3 0.2 - - - -
609E GLY* 1.3 72.4 - - - +
611E ARG* 1.3 62.7 + - + +
613E TYR* 3.2 29.4 - + - -
614E ARG* 2.9 67.1 + - + +
653E LEU* 3.1 19.0 - - + +
658E VAL* 3.0 35.4 - - + -
659E SER* 3.5 0.7 - - - -
660E TYR* 3.1 60.0 - + + -
663E TYR* 3.3 58.1 - + + -
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Residues in contact with ARG 611 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
543E VAL* 3.9 36.3 - - + +
570E GLN* 3.9 10.3 + - - +
604E MET 4.8 0.2 + - - -
607E ALA* 3.1 32.3 + - - +
608E LEU* 3.0 24.8 + - - +
610E TRP* 1.3 80.9 - - + +
612E SER* 1.3 58.1 + - - +
614E ARG* 4.8 2.5 - - - -
615E GLN* 3.0 45.7 + - - +
622E TYR* 2.7 38.8 + - + +
623E PHE 3.5 13.3 + - - -
900E HCY 3.0 27.1 + - - -
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Residues in contact with SER 612 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
608E LEU* 2.9 13.0 + - - +
609E GLY 2.8 5.5 + - - -
611E ARG* 1.3 76.8 - - - +
613E TYR* 1.3 50.2 + - - -
616E SER* 2.6 44.7 + - - +
618E ALA 5.5 0.3 - - - +
620E LEU 4.2 6.3 - - - -
621E LEU* 3.4 19.6 - - - +
622E TYR* 3.0 29.6 + - - +
650E SER* 3.2 21.3 - - - -
----------------------------------------------------------
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Residues in contact with TYR 613 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
609E GLY 2.7 17.0 + - - +
610E TRP* 3.2 37.3 - + - -
612E SER* 1.3 72.6 - - - +
614E ARG* 1.3 89.1 + - + +
616E SER 2.7 16.2 - - - +
617E SER* 4.7 4.4 - - - +
650E SER* 3.2 20.3 + - - +
653E LEU* 3.5 12.8 + - + -
654E HIS* 3.3 53.1 - + + -
657E GLN* 3.8 19.5 + - - -
658E VAL 3.5 11.5 + - - -
----------------------------------------------------------
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Residues in contact with ARG 614 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
610E TRP* 2.9 59.9 + - + +
611E ARG* 4.4 2.0 - - - +
613E TYR* 1.3 102.6 + - + +
615E GLN* 1.3 64.2 + - + +
616E SER 4.1 0.2 - - - -
660E TYR* 4.9 16.1 - - - +
----------------------------------------------------------
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Residues in contact with GLN 615 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
543E VAL* 5.2 11.2 - - - +
611E ARG* 3.0 27.7 + - - +
614E ARG* 1.3 82.3 - - + +
616E SER* 1.3 61.9 + - - +
622E TYR* 3.0 46.3 - - + +
625E PRO* 6.3 0.6 - - - +
----------------------------------------------------------
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Residues in contact with SER 616 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
611E ARG 3.9 0.4 + - - -
612E SER* 2.6 32.8 + - - +
613E TYR 2.7 17.5 - - - +
614E ARG 4.1 0.2 - - - -
615E GLN* 1.3 76.1 - - - +
617E SER* 1.3 64.3 + - - +
618E ALA* 4.1 4.2 + - - +
620E LEU* 3.1 42.5 - - - +
621E LEU 5.4 0.4 - - - -
622E TYR* 4.6 15.2 - - - -
----------------------------------------------------------
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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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