Contacts of the helix formed by residues 608 - 635 (chain C) in PDB entry 1SL0
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 ALA 608 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
603C VAL* 5.3 0.7 - - + -
604C ARG* 5.3 5.8 - - + +
605C SER* 2.8 26.1 + - - +
607C HIS* 1.3 77.6 - - - +
609C ALA* 1.3 69.3 + - - +
610C LEU 3.3 1.3 - - - -
611C ASN* 3.0 11.7 + - + +
612C THR* 2.8 31.8 + - - +
6U A 5.4 8.1 - - - +
7U G 5.4 6.5 - - - +
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Residues in contact with ALA 609 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
569C ILE* 3.6 29.6 - - + -
570C GLN* 4.0 4.7 - - - +
573C LEU* 6.3 1.1 - - + -
593C ILE* 5.4 5.0 - - + +
603C VAL* 4.3 14.7 - - + +
605C SER 3.0 8.2 + - - +
606C PRO* 3.0 21.1 - - + +
607C HIS 3.2 0.2 - - - -
608C ALA* 1.3 78.1 - - - +
610C LEU* 1.3 65.2 + - - +
612C THR* 3.2 7.2 - - - -
613C LEU* 3.0 21.0 + - - +
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Residues in contact with LEU 610 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
484C LEU* 4.4 5.4 - - + -
528C PHE* 5.7 7.0 - - + +
562C ILE* 4.5 15.5 - - + -
565C LEU* 3.2 37.0 - - + -
566C ARG* 4.9 16.6 - - + -
569C ILE* 3.9 21.7 - - + +
607C HIS 4.5 4.8 + - - +
608C ALA 3.1 1.0 + - - -
609C ALA* 1.3 79.1 - - - +
611C ASN* 1.3 62.5 + - - +
613C LEU* 3.3 5.7 + - + +
614C LEU* 2.9 40.1 + - + +
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Residues in contact with ASN 611 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
528C PHE 5.1 13.7 + - - +
607C HIS 5.2 1.3 + - - +
608C ALA* 3.0 14.3 + - + +
610C LEU* 1.3 73.5 - - - +
612C THR* 1.3 59.4 + - - +
614C LEU* 2.8 13.4 + - - +
615C GLN* 2.5 50.0 + - - +
6U A 3.7 36.8 + - - +
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Residues in contact with THR 612 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
427C THR* 4.5 15.0 - - + +
593C ILE* 5.2 0.7 - - + -
601C VAL* 3.7 24.5 - - + -
602C HIS 3.9 5.2 - - - +
603C VAL* 3.6 29.7 - - + +
604C ARG 5.3 0.7 + - - -
608C ALA* 2.8 29.5 + - - +
609C ALA 3.2 7.0 - - - -
611C ASN* 1.3 79.5 - - - +
613C LEU* 1.3 67.0 + - - +
614C LEU 2.9 0.2 + - - -
615C GLN* 3.0 5.0 + - - +
616C SER* 2.9 23.3 + - - -
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Residues in contact with LEU 613 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
487C PHE* 3.6 41.7 - - + -
565C LEU* 5.1 4.0 - - + -
569C ILE* 3.8 26.7 - - + -
593C ILE* 3.7 32.9 - - + +
594C LYS 4.4 8.1 - - - +
595C GLY* 6.0 0.9 - - - -
601C VAL* 6.0 0.7 - - - -
609C ALA 3.0 9.1 + - - +
610C LEU* 3.4 15.7 - - + +
612C THR* 1.3 80.1 - - - +
614C LEU* 1.3 60.7 + - - +
616C SER* 4.0 4.6 - - - -
617C ALA* 3.2 22.5 + - - +
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Residues in contact with LEU 614 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
480C GLU* 4.7 10.1 - - + +
483C CYS* 3.6 19.8 - - + +
484C LEU* 3.4 52.0 - - + +
487C PHE* 4.2 8.3 - - + -
528C PHE* 6.6 0.4 - - + -
610C LEU* 2.9 46.4 + - + +
611C ASN* 2.8 21.5 + - - +
613C LEU* 1.3 72.2 - - - +
615C GLN* 1.3 66.0 + - - +
617C ALA* 3.4 4.9 + - - +
618C GLY* 3.3 16.3 + - - -
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Residues in contact with GLN 615 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
425C ALA* 5.3 0.2 - - - +
427C THR* 2.4 37.8 + - + +
429C ARG* 3.5 38.2 - - - +
480C GLU* 5.4 8.4 - - - +
611C ASN* 2.5 30.1 + - - +
612C THR* 3.9 2.2 - - - +
614C LEU* 1.3 74.4 - - - +
616C SER* 1.3 63.0 + - - +
618C GLY* 3.3 1.2 + - - -
619C ALA* 2.9 23.0 + - - +
6U A 4.8 15.2 + - - +
7U G 3.2 32.9 + - - +
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Residues in contact with SER 616 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
427C THR* 2.9 30.4 + - - -
595C GLY* 4.6 3.2 - - - -
601C VAL* 3.6 29.7 - - - +
612C THR 2.9 16.7 + - - -
613C LEU* 4.0 5.6 - - - -
615C GLN* 1.3 76.8 - - - +
617C ALA* 1.3 55.9 + - - +
619C ALA* 2.6 23.0 + - - +
620C LEU* 2.9 27.9 + - - +
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Residues in contact with ALA 617 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
483C CYS* 3.8 11.7 - - + -
487C PHE* 3.5 24.9 - - + -
596C LEU* 2.9 25.1 - - + +
613C LEU 3.2 17.1 + - - +
614C LEU 3.7 4.5 - - - +
615C GLN 3.4 0.2 - - - -
616C SER* 1.3 77.1 + - - +
618C GLY* 1.3 54.2 + - - +
620C LEU* 5.0 0.9 - - - -
621C ILE* 2.7 39.6 + - + +
686C PHE* 5.0 1.1 - - + -
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Residues in contact with GLY 618 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
479C LEU* 3.4 15.9 - - - +
480C GLU* 5.2 5.8 - - - -
483C CYS* 3.3 17.8 - - - -
614C LEU 3.3 8.6 + - - -
615C GLN 3.8 2.7 - - - -
616C SER 3.2 0.8 - - - -
617C ALA* 1.3 76.6 - - - +
619C ALA* 1.3 64.7 + - - +
621C ILE* 3.8 2.0 - - - -
622C CYS* 3.0 30.1 + - - -
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Residues in contact with ALA 619 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
427C THR 3.9 8.7 - - - +
428C GLY* 4.0 4.7 - - - -
429C ARG* 3.8 37.5 - - + +
615C GLN 2.9 14.3 + - - +
616C SER 2.6 16.6 + - - +
618C GLY* 1.3 68.5 - - - +
620C LEU* 1.3 58.7 + - - +
622C CYS* 2.8 27.5 + - - +
623C LYS* 2.9 13.3 + - - +
651C TRP* 5.0 3.4 - - - -
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Residues in contact with LEU 620 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
217C GLU* 5.1 0.9 - - - +
427C THR 4.0 11.9 - - - +
428C GLY* 4.2 8.1 - - - +
595C GLY 4.0 0.4 - - - -
596C LEU* 3.6 31.4 - - + +
597C ASP* 3.5 17.7 - - + +
599C ARG* 3.5 38.4 - - - +
616C SER* 2.9 25.7 + - - +
617C ALA 4.3 1.8 - - - +
619C ALA* 1.3 73.3 - - - +
621C ILE* 1.3 64.0 + - - +
623C LYS* 3.8 10.4 - - + +
624C LEU* 2.8 28.6 + - - +
684C TRP* 3.9 16.1 - - + -
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Residues in contact with ILE 621 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
479C LEU* 3.6 27.8 - - + -
483C CYS* 4.1 4.5 - - - -
596C LEU* 3.2 21.5 - - + -
617C ALA 2.7 32.2 + - - +
618C GLY* 3.6 7.2 - - - +
620C LEU* 1.3 77.5 - - - +
622C CYS* 1.3 56.7 + - - +
625C TRP* 3.1 24.1 + - - +
677C MET* 4.2 11.4 - - - -
680C VAL* 3.9 9.9 - - + +
684C TRP* 3.9 15.3 - - + -
686C PHE* 3.3 33.0 - - + -
690C LEU* 4.0 15.3 - - + -
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Residues in contact with CYS 622 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
476C ALA* 5.0 2.7 - - - -
479C LEU* 3.3 22.2 - - - -
618C GLY 3.0 20.0 - - - -
619C ALA* 2.8 9.8 + - - +
621C ILE* 1.3 74.4 - - - +
623C LYS* 1.3 60.4 + - - +
624C LEU 3.1 1.1 - - - -
625C TRP* 2.6 34.3 + - + +
626C ILE* 2.8 18.6 + - - +
651C TRP* 4.1 8.1 - - + +
653C HIS 3.3 28.3 - - - +
654C ASP* 3.9 12.3 - - - -
677C MET* 5.5 0.2 - - - -
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Residues in contact with LYS 623 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
216C ILE* 5.5 4.0 - - + +
217C GLU* 5.8 3.6 - - - +
220C ALA* 5.2 12.8 - - + -
422C PRO 6.2 0.2 - - - +
428C GLY 5.5 4.9 - - - +
619C ALA 2.9 11.6 + - - +
620C LEU* 3.8 13.7 - - + +
622C CYS* 1.3 76.1 - - - +
624C LEU* 1.3 62.9 + - - +
626C ILE* 3.6 7.7 + - - +
627C ILE* 3.1 28.9 + - + +
651C TRP* 4.3 21.6 - - + -
----------------------------------------------------------
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Residues in contact with LEU 624 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
212C GLU* 5.4 3.6 - - - +
216C ILE* 4.3 22.4 - - + +
219C ARG* 6.0 1.8 - - - -
620C LEU 2.8 17.6 + - - +
623C LYS* 1.3 77.0 - - - +
625C TRP* 1.3 57.6 - - - +
627C ILE* 3.3 16.4 + - + +
628C LYS* 3.1 22.7 + - + +
679C TRP* 3.5 25.4 - - + -
680C VAL* 3.3 28.3 - - + -
683C HIS* 4.9 3.6 - - + +
684C TRP* 3.5 33.4 - - + -
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Residues in contact with TRP 625 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
474C ILE* 4.0 16.6 - - + -
475C ASP* 4.2 2.0 - - - -
476C ALA* 4.5 1.8 - - + -
621C ILE 3.1 18.2 + - - +
622C CYS* 2.6 26.4 + - + +
624C LEU* 1.3 67.3 - - - +
626C ILE* 1.3 74.4 + - + +
627C ILE 3.0 1.9 + - - -
628C LYS* 3.1 3.3 + - - +
629C THR* 2.8 39.7 + - - -
651C TRP* 6.0 0.4 - + - -
654C ASP 4.3 17.3 - - - -
655C GLU* 4.7 3.1 - - - -
656C ILE* 4.0 29.4 - - + -
673C ALA* 2.6 38.6 + - + -
676C ALA 3.8 1.1 - - - -
677C MET* 3.2 49.6 - - + +
680C VAL* 3.9 8.5 - - + -
692C THR* 3.3 23.1 - - + -
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Residues in contact with ILE 626 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
220C ALA* 5.9 2.5 - - + -
223C LEU* 3.3 27.4 - - + +
224C LEU* 3.9 24.2 - - + -
622C CYS 2.8 13.4 + - - +
623C LYS* 3.6 11.4 - - - +
625C TRP* 1.3 83.8 - - + +
627C ILE* 1.3 66.9 + - + +
629C THR* 3.9 5.2 - - - -
630C GLU* 3.3 6.8 + - - +
648C TYR* 2.6 39.4 + - + +
651C TRP* 4.0 27.1 - - + +
656C ILE* 3.7 25.1 - - + -
----------------------------------------------------------
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Residues in contact with ILE 627 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
216C ILE* 3.2 32.5 - - + +
219C ARG* 3.6 34.5 - - + +
220C ALA* 3.4 28.0 - - + +
223C LEU* 4.4 7.4 - - + -
623C LYS 3.1 18.3 + - - +
624C LEU* 3.4 17.5 - - + +
625C TRP 3.0 0.8 - - - -
626C ILE* 1.3 85.4 - - + +
628C LYS* 1.3 67.8 + - + +
630C GLU* 4.1 4.5 - - - +
631C GLU* 3.1 24.0 + - + +
----------------------------------------------------------
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Residues in contact with LYS 628 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
624C LEU* 3.1 13.5 + - + +
625C TRP 3.7 3.1 - - - +
627C ILE* 1.3 78.3 - - + +
629C THR* 1.3 57.9 + - - +
631C GLU* 3.1 10.3 + - + +
632C MET* 2.7 80.1 + - - +
676C ALA* 4.0 12.6 - - + +
679C TRP* 3.8 54.0 - - + +
680C VAL* 4.6 0.4 - - + -
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Residues in contact with THR 629 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
625C TRP* 2.8 37.9 + - - -
626C ILE* 3.9 2.4 - - - -
628C LYS* 1.3 77.6 - - - +
630C GLU* 1.3 66.3 + - - +
632C MET* 3.2 2.6 + - - +
633C LEU* 2.9 37.9 + - + +
648C TYR* 3.8 14.6 - - + +
656C ILE* 4.8 8.2 - - + +
669C VAL* 4.9 4.7 - - + -
672C THR* 3.6 4.3 - - + +
673C ALA* 3.8 26.6 - - + +
676C ALA* 3.3 19.8 - - - +
----------------------------------------------------------
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Residues in contact with GLU 630 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
223C LEU* 4.0 21.7 - - + +
226C LYS* 5.3 3.1 + - - +
626C ILE 3.3 9.3 + - - +
627C ILE* 4.1 3.8 - - - +
629C THR* 1.3 78.4 - - - +
631C GLU* 1.3 72.1 + - - +
633C LEU* 2.7 25.9 + - - +
634C VAL* 3.0 16.2 + - + +
640C HIS* 3.1 34.7 + - - +
646C PHE* 4.0 9.6 - - + -
648C TYR* 3.5 19.9 + - + +
----------------------------------------------------------
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Residues in contact with GLU 631 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
219C ARG* 6.1 3.1 - - - +
627C ILE* 3.1 16.0 + - + +
628C LYS* 3.1 21.7 + - + +
630C GLU* 1.3 81.6 + - - +
632C MET* 1.3 57.6 + - + +
634C VAL* 2.8 24.5 + - - +
635C GLU* 2.8 15.2 + - - +
----------------------------------------------------------
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Residues in contact with MET 632 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
628C LYS* 2.7 63.6 + - + +
629C THR 3.6 4.0 - - - +
631C GLU* 1.3 72.5 - - - +
633C LEU* 1.3 61.2 + - - +
634C VAL 3.0 1.6 + - - -
635C GLU* 3.0 19.3 + - - +
636C LYS* 3.1 14.7 + - - +
672C THR* 3.7 13.9 - - + +
675C GLU* 4.4 14.6 - - + -
676C ALA* 3.7 25.8 - - - +
679C TRP* 4.8 10.8 - - + -
----------------------------------------------------------
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Residues in contact with LEU 633 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
629C THR* 2.9 22.2 + - + +
630C GLU* 2.7 17.3 + - - +
632C MET* 1.3 70.9 - - - +
634C VAL* 1.3 58.1 + - - +
636C LYS* 3.9 3.8 - - + +
637C GLY 3.7 1.6 + - - -
638C LEU* 3.2 49.8 + - + +
646C PHE* 3.6 37.5 - - + -
648C TYR* 5.1 3.4 - - + -
668C VAL* 4.2 0.7 - - + -
669C VAL* 3.3 37.9 - - + +
672C THR* 3.2 34.1 - - + +
----------------------------------------------------------
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Residues in contact with VAL 634 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
630C GLU* 3.0 20.9 + - + +
631C GLU* 2.8 13.1 + - - +
633C LEU* 1.3 77.8 - - - +
635C GLU* 1.3 57.1 + - - +
636C LYS 2.8 11.3 + - - -
637C GLY* 3.1 13.2 + - - -
638C LEU 3.5 19.1 - - - +
639C LYS* 5.2 0.2 - - - -
640C HIS* 4.9 6.1 - - + +
646C PHE* 4.3 12.1 - - + -
----------------------------------------------------------
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Residues in contact with GLU 635 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
631C GLU 2.8 12.3 + - - +
632C MET* 3.0 13.2 + - - +
634C VAL* 1.3 75.7 - - - +
636C LYS* 1.3 56.4 + - - +
----------------------------------------------------------
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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