Contacts of the helix formed by residues 668 - 697 (chain C) in PDB entry 6PUO
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 ASP 668 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
666C GLU* 3.3 10.5 - - + +
667C GLU* 1.3 79.3 - - - +
669C THR* 1.3 67.4 + - - +
670C ASP* 3.9 4.2 + - - +
671C SER* 2.5 36.4 + - - +
672C SER* 3.2 24.4 + - - -
695D ARG 5.3 2.9 - - - +
696D LYS* 5.4 4.7 - - - +
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Residues in contact with THR 669 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
668C ASP* 1.3 76.7 + - - +
670C ASP* 1.3 61.5 + - - +
672C SER* 3.2 5.5 + - - -
673C GLU* 3.0 46.6 + - + +
694D TYR 5.5 0.2 + - - -
695D ARG* 3.6 46.8 + - - +
698D GLU* 5.3 4.2 + - - -
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Residues in contact with ASP 670 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
668C ASP* 3.6 5.2 + - - +
669C THR* 1.3 79.0 - - - +
671C SER* 1.3 58.0 + - - +
673C GLU* 3.3 6.4 + - - +
674C GLU* 3.0 27.9 + - - +
695D ARG* 4.0 21.7 + - + +
696D LYS* 6.1 3.1 - - - +
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Residues in contact with SER 671 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
633C ASN* 4.4 7.1 + - - +
666C GLU* 2.8 32.4 + - - -
668C ASP* 2.5 26.5 + - - +
670C ASP* 1.3 75.0 - - - +
672C SER* 1.3 59.4 + - - +
674C GLU* 3.4 7.6 + - - +
675C MET* 2.9 35.1 + - - +
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Residues in contact with SER 672 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
663C SER* 3.2 31.5 + - - -
666C GLU* 3.2 15.0 + - - -
667C GLU 5.9 0.4 - - - -
668C ASP 3.2 17.6 + - - -
669C THR* 3.2 7.0 + - - -
671C SER* 1.3 82.0 + - - +
673C GLU* 1.3 69.6 + - - +
675C MET* 3.3 1.8 + - - +
676C LEU* 3.0 26.2 + - - +
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Residues in contact with GLU 673 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
669C THR* 3.0 35.4 + - + +
670C ASP* 3.8 6.1 - - - +
672C SER* 1.3 96.7 + - - +
674C GLU* 1.3 66.3 + - - +
676C LEU* 3.4 15.7 + - - +
677C ALA* 3.0 25.5 + - - +
695D ARG* 5.3 10.1 - - - +
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Residues in contact with GLU 674 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
633C ASN* 3.8 18.7 - - - +
670C ASP 3.0 17.2 + - - +
671C SER* 3.7 7.9 - - - +
673C GLU* 1.3 76.1 - - - +
675C MET* 1.3 56.7 + - - +
677C ALA* 3.4 5.4 + - - +
678C LEU* 3.0 29.5 + - - +
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Residues in contact with MET 675 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
530C CYS* 6.2 2.5 - - + -
531C LEU* 6.0 4.9 - - + +
631C VAL 4.6 8.1 - - - +
632C GLN 5.4 0.7 - - - -
633C ASN* 4.1 31.6 - - + +
659C LEU* 4.0 20.7 - - + +
662C LEU* 4.0 33.7 - - + +
663C SER* 4.1 21.5 - - - -
666C GLU* 3.6 33.0 - - - +
671C SER* 2.9 15.6 + - - +
672C SER 3.7 4.3 - - - +
674C GLU* 1.3 77.1 - - - +
676C LEU* 1.3 61.0 + - - +
678C LEU* 3.3 7.1 + - - +
679C ALA* 3.0 22.9 + - - +
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Residues in contact with LEU 676 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
660C LYS* 4.5 30.5 - - + -
663C SER* 4.2 16.5 + - - +
672C SER* 3.0 16.9 + - - +
673C GLU* 3.9 17.0 - - - +
674C GLU 3.3 0.2 - - - -
675C MET* 1.3 76.5 - - - +
677C ALA* 1.3 63.5 + - - +
679C ALA* 3.3 4.4 + - + +
680C GLU* 3.1 22.8 + - + +
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Residues in contact with ALA 677 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
673C GLU 3.0 17.4 + - - +
674C GLU* 3.8 6.3 - - - +
676C LEU* 1.3 76.2 - - - +
678C LEU* 1.3 58.0 + - - +
680C GLU* 3.3 7.6 + - - +
681C GLU* 3.0 28.6 + - - +
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Residues in contact with LEU 678 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
630C ILE* 4.5 13.0 - - + -
633C ASN* 3.6 25.1 - - - +
634C ARG 5.3 0.9 - - - -
635C ARG* 3.7 42.8 - - + +
638C ALA* 5.7 0.2 - - + -
659C LEU* 3.7 22.4 - - + -
674C GLU 3.0 17.6 + - - +
675C MET* 3.6 5.2 - - - +
677C ALA* 1.3 77.9 - - - +
679C ALA* 1.3 61.5 + - - +
681C GLU* 3.2 14.8 + - - +
682C TYR* 3.0 43.8 + - + -
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Residues in contact with ALA 679 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
656C SER* 3.8 24.7 - - - +
659C LEU* 3.7 25.0 - - + +
660C LYS* 4.2 20.5 + - - +
675C MET 3.0 14.6 + - - +
676C LEU* 3.3 10.3 + - - +
678C LEU* 1.3 76.8 - - - +
680C GLU* 1.3 62.1 + - - +
682C TYR* 3.2 3.1 + - - -
683C GLU* 3.1 21.3 + - - +
----------------------------------------------------------
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Residues in contact with GLU 680 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
660C LYS* 5.4 5.8 - - - +
676C LEU* 3.1 14.4 + - + +
677C ALA* 3.7 10.2 - - - +
679C ALA* 1.3 77.8 - - - +
681C GLU* 1.3 64.0 + - - +
683C GLU* 3.3 16.4 + - - +
684C HIS* 3.0 40.2 + - - -
728C LYS* 2.8 34.1 + - - +
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Residues in contact with GLU 681 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
635C ARG* 3.1 32.1 + - - +
677C ALA 3.0 13.3 + - - +
678C LEU* 3.2 21.7 + - - +
680C GLU* 1.3 81.6 + - - +
682C TYR* 1.3 60.0 + - + +
684C HIS* 3.2 9.6 + - + +
685C ARG* 3.0 55.2 + - - +
1136C ARG* 5.0 13.1 + - - +
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Residues in contact with TYR 682 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
626C LEU* 4.9 1.3 - - + +
630C ILE* 4.6 10.5 - - + -
635C ARG 5.9 0.4 - - - -
638C ALA* 3.2 40.8 + - + +
639C GLY* 3.6 5.7 + - - -
642C TRP* 4.2 22.1 - + + +
652C ALA* 3.7 39.9 - - + +
655C CYS* 4.3 16.6 - - + -
656C SER 4.7 6.5 - - - +
659C LEU* 5.2 1.6 - - + -
678C LEU* 3.0 50.1 + - + +
679C ALA* 3.2 4.9 + - - +
681C GLU* 1.3 76.1 - - + +
683C GLU* 1.3 65.3 + - - +
685C ARG* 3.2 34.2 + - - +
686C ALA* 3.0 18.2 + - - +
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Residues in contact with GLU 683 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
653C LEU* 5.2 4.0 - - + -
656C SER* 4.5 5.4 - - - -
660C LYS* 5.0 2.6 + - - -
679C ALA 3.1 12.5 + - - +
680C GLU* 3.5 24.6 - - - +
681C GLU 3.3 0.2 - - - -
682C TYR* 1.3 76.8 - - - +
684C HIS* 1.3 61.9 + - - +
686C ALA* 3.2 7.7 + - - +
687C ILE* 3.1 29.7 + - + +
726C ASP* 3.1 45.3 - - + +
727C MET 3.6 0.5 + - - -
728C LYS* 3.3 43.5 + - - +
729C PHE* 3.6 7.3 + - + -
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Residues in contact with HIS 684 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
680C GLU* 3.0 51.6 + - - -
681C GLU* 3.2 12.1 + - + +
683C GLU* 1.3 77.9 - - - +
685C ARG* 1.3 56.6 + - + +
687C ILE* 3.4 14.9 + - + +
688C GLY* 3.0 25.3 + - - -
728C LYS* 3.7 20.7 + - + +
1132C TYR* 4.7 2.4 + - - -
1136C ARG* 6.2 2.5 - - - +
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Residues in contact with ARG 685 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
635C ARG* 5.8 0.8 + - - +
639C GLY* 4.1 26.0 + - - -
642C TRP* 3.6 46.3 - - + -
652C ALA* 4.8 1.6 - - + -
681C GLU* 3.0 40.7 + - - +
682C TYR* 3.2 38.8 + - - +
684C HIS* 1.3 76.8 - - - +
686C ALA* 1.3 62.6 + - - +
688C GLY* 3.3 1.0 + - - -
689C VAL* 3.0 29.4 + - - +
1132C TYR* 4.2 11.0 + - - +
1133C LEU* 5.4 3.0 - - - +
1136C ARG* 3.3 35.7 - - - +
----------------------------------------------------------
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Residues in contact with ALA 686 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
642C TRP* 5.8 0.7 - - - -
649C ILE* 4.4 14.3 - - + +
652C ALA* 3.8 22.6 - - + +
653C LEU* 3.9 26.9 - - + -
682C TYR 3.0 8.4 + - - +
683C GLU 3.2 7.4 + - - +
685C ARG* 1.3 77.8 - - - +
687C ILE* 1.3 61.8 + - - +
689C VAL* 3.4 5.6 + - - +
690C PHE* 3.0 24.4 + - - +
729C PHE* 4.2 6.5 - - + -
----------------------------------------------------------
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Residues in contact with ILE 687 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
683C GLU* 3.1 23.1 + - + +
684C HIS* 3.8 16.8 - - + +
686C ALA* 1.3 74.2 - - - +
688C GLY* 1.3 60.8 + - - +
690C PHE* 3.2 3.0 + - - +
691C THR* 3.0 33.1 + - + +
728C LYS* 3.5 43.5 - - + +
729C PHE* 3.6 28.5 - - + +
732C HIS* 4.5 18.6 - - + +
----------------------------------------------------------
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Residues in contact with GLY 688 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
684C HIS 3.0 15.8 + - - -
685C ARG 3.3 2.9 + - - -
686C ALA 3.3 0.2 - - - -
687C ILE* 1.3 78.6 - - - +
689C VAL* 1.3 60.6 + - - +
691C THR* 3.6 17.7 - - - +
692C GLU* 3.7 7.6 + - - +
1132C TYR* 3.5 33.3 - - - -
----------------------------------------------------------
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Residues in contact with VAL 689 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
642C TRP* 3.9 20.9 - - + -
648C CYS* 3.8 24.2 - - - -
649C ILE* 3.8 17.0 - - + -
685C ARG 3.0 17.6 + - - +
686C ALA* 4.0 3.6 - - - +
687C ILE 3.3 0.2 - - - -
688C GLY* 1.3 74.4 - - - +
690C PHE* 1.3 67.1 + - - +
692C GLU* 3.3 7.0 + - - +
693C CYS* 3.0 21.2 + - + +
1125C GLU* 5.2 4.7 - - + +
1128C LEU* 5.5 4.0 - - + +
1129C LYS* 4.7 15.9 - - + +
1132C TYR* 3.7 27.4 - - + -
----------------------------------------------------------
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Residues in contact with PHE 690 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
649C ILE* 4.3 20.4 - - + +
686C ALA 3.0 18.1 + - - +
687C ILE* 3.9 2.7 - - - +
689C VAL* 1.3 78.4 - - - +
691C THR* 1.3 58.2 + - - +
693C CYS* 3.2 8.2 + - + +
694C TYR* 2.9 43.8 + + + +
701C ALA* 3.7 24.0 - - + -
702C GLN* 5.8 1.6 - - - -
704C LEU* 5.2 4.0 - - + -
705C LEU* 3.7 26.7 - - + -
729C PHE* 4.2 16.8 - + + -
732C HIS* 3.6 35.2 - + - -
734C GLY 5.2 1.1 - - - -
735C ILE* 3.6 27.8 - - + -
----------------------------------------------------------
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Residues in contact with THR 691 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
687C ILE* 3.0 20.2 + - + +
688C GLY* 3.6 14.6 - - - +
690C PHE* 1.3 77.9 - - - +
692C GLU* 1.3 60.8 + - - +
694C TYR* 3.2 8.8 + - - +
695C ARG* 3.0 39.3 + - - +
732C HIS* 3.6 28.0 + - - -
----------------------------------------------------------
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Residues in contact with GLU 692 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
688C GLY 3.8 10.3 - - - +
689C VAL 3.3 9.6 + - - +
690C PHE 3.2 0.4 - - - -
691C THR* 1.3 84.2 - - - +
693C CYS* 1.3 61.4 + - - +
695C ARG* 3.6 15.6 + - - +
696C LYS* 3.9 30.7 + - - +
1128C LEU* 4.1 29.2 - - + +
1131C ASN* 3.2 26.5 + - - +
1132C TYR* 4.4 15.2 - - + +
1135C ASN* 4.3 11.3 + - - +
----------------------------------------------------------
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Residues in contact with CYS 693 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
649C ILE* 5.4 1.6 - - + -
689C VAL* 3.0 14.7 + - + +
690C PHE* 3.2 15.2 + - + +
692C GLU* 1.3 76.9 - - - +
694C TYR* 1.3 60.9 + - - +
695C ARG 3.6 0.3 + - - -
696C LYS* 3.7 6.2 + - - +
697C ASP 3.5 13.0 + - - +
701C ALA* 3.7 11.5 - - + +
704C LEU* 4.0 23.3 - - + -
1124C TRP* 3.5 35.8 - - - -
1125C GLU* 5.4 4.7 - - - -
1128C LEU* 3.7 20.3 - - + +
----------------------------------------------------------
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Residues in contact with TYR 694 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
669B THR* 5.5 0.3 + - - -
690C PHE* 2.9 39.6 + + + +
691C THR* 3.2 10.0 + - - +
693C CYS* 1.3 75.6 - - - +
695C ARG* 1.3 69.8 + - + +
697C ASP 3.2 14.5 - - - +
698C GLU* 2.7 49.4 + - - +
701C ALA* 4.1 11.6 - - + +
702C GLN* 4.1 15.9 + - - -
732C HIS* 4.6 9.6 - - - +
733C GLY 5.0 0.6 + - - -
734C GLY* 3.8 26.9 - - - -
737C ALA* 4.3 11.8 - - - +
----------------------------------------------------------
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Residues in contact with ARG 695 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
668B ASP* 5.3 2.6 - - - +
669B THR* 3.6 46.1 + - - +
670B ASP* 4.0 29.4 - - + +
673B GLU* 5.3 9.5 - - - +
691C THR* 3.0 29.1 + - - +
692C GLU* 4.0 12.1 - - - +
693C CYS 3.3 0.4 - - - -
694C TYR* 1.3 83.3 - - + +
696C LYS* 1.3 71.5 + - - +
----------------------------------------------------------
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Residues in contact with LYS 696 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
668B ASP* 5.4 5.6 - - - +
670B ASP* 6.1 3.4 - - - +
692C GLU* 3.9 27.3 + - - +
693C CYS 3.7 6.8 + - - +
694C TYR 3.3 0.8 - - - -
695C ARG* 1.3 86.8 - - - +
697C ASP* 1.3 60.6 + - + +
1124C TRP* 4.2 15.3 - - + +
1127C TYR* 6.5 0.7 - - - -
1128C LEU* 4.3 21.4 - - + +
1131C ASN* 5.7 1.2 - - - +
----------------------------------------------------------
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Residues in contact with ASP 697 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
693C CYS 3.5 10.7 + - - +
694C TYR 3.2 15.0 - - - +
696C LYS* 1.3 79.1 - - - +
698C GLU* 1.3 73.0 + - - +
699C GLU* 2.8 6.2 + - - +
700C ARG* 2.6 50.2 + - + +
701C ALA* 3.6 8.0 - - - +
1124C TRP* 4.1 13.5 - - + -
----------------------------------------------------------
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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