Contacts of the helix formed by residues 608 - 635 (chain A) 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 A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
603A VAL* 5.0 0.7 - - + -
604A ARG* 5.1 7.0 - - + -
605A SER* 2.9 26.6 + - - +
607A HIS* 1.3 77.1 - - - +
609A ALA* 1.3 69.8 + - - +
610A LEU 3.1 2.6 + - - -
611A ASN* 3.1 9.7 + - + +
612A THR* 3.0 30.4 + - - +
6T A 5.5 6.1 - - - +
7T G 5.3 7.4 - - - +
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Residues in contact with ALA 609 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
566A ARG* 6.2 0.4 - - - +
569A ILE* 3.8 28.7 - - + +
570A GLN* 5.8 1.3 - - - +
573A LEU* 6.3 1.6 - - + -
593A ILE* 5.7 2.5 - - + +
603A VAL* 4.0 17.9 - - + +
605A SER 3.0 8.2 + - - +
606A PRO* 3.0 22.7 - - + +
607A HIS 3.3 0.4 - - - -
608A ALA* 1.3 79.0 - - - +
610A LEU* 1.3 62.8 + - - +
612A THR* 3.2 3.5 - - - -
613A LEU* 3.0 20.6 + - - +
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Residues in contact with LEU 610 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
484A LEU* 4.9 4.5 - - + -
528A PHE* 5.8 6.1 - - + -
562A ILE* 4.3 17.0 - - + -
565A LEU* 4.1 22.2 - - + -
566A ARG* 4.0 39.1 - - + +
569A ILE* 3.7 25.2 - - + +
606A PRO 4.8 0.2 + - - -
607A HIS 4.6 3.3 + - - +
608A ALA 3.1 2.4 + - - -
609A ALA* 1.3 76.3 - - - +
611A ASN* 1.3 64.6 + - - +
613A LEU* 3.3 12.7 + - + +
614A LEU* 2.9 47.6 + - + +
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Residues in contact with ASN 611 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
528A PHE 5.0 13.0 + - - +
607A HIS 5.2 1.0 + - - +
608A ALA* 3.1 11.3 + - - +
610A LEU* 1.3 73.9 - - - +
612A THR* 1.3 58.9 + - - +
614A LEU* 2.7 13.3 + - - +
615A GLN* 2.5 54.4 + - - +
6T A 3.6 34.6 + - - +
7T G 5.7 0.2 - - - +
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Residues in contact with THR 612 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
427A THR* 4.2 16.2 - - + +
593A ILE* 5.5 1.6 - - + -
601A VAL* 4.0 17.0 - - + -
602A HIS 4.0 12.1 - - - +
603A VAL* 3.9 29.5 - - + +
604A ARG 5.2 0.9 + - - -
608A ALA* 3.0 23.7 + - - +
609A ALA* 3.2 10.2 + - - -
611A ASN* 1.3 78.9 - - - +
613A LEU* 1.3 66.1 - - - +
614A LEU 2.9 0.2 + - - -
615A GLN* 2.9 2.8 + - - +
616A SER* 2.9 23.4 + - - -
7T G 5.8 0.3 + - - -
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Residues in contact with LEU 613 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
487A PHE* 3.5 52.5 - - + -
565A LEU* 5.3 2.9 - - + -
569A ILE* 3.3 32.5 - - + -
593A ILE* 4.6 27.3 - - + +
594A LYS 5.0 5.2 - - - +
609A ALA 3.0 8.9 + - - +
610A LEU* 3.5 19.1 - - + +
612A THR* 1.3 80.3 - - - +
614A LEU* 1.3 63.9 + - + +
616A SER* 3.8 4.5 + - - -
617A ALA* 3.2 22.7 + - - +
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Residues in contact with LEU 614 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
480A GLU* 5.3 3.6 - - - +
483A CYS* 3.6 36.9 - - + +
484A LEU* 3.7 26.0 - - + +
487A PHE* 4.2 12.8 - - + -
565A LEU* 5.3 0.2 - - + -
610A LEU* 2.9 46.2 + - + +
611A ASN* 2.7 22.1 + - - +
613A LEU* 1.3 76.5 - - + +
615A GLN* 1.3 65.8 + - - +
617A ALA* 3.5 4.3 + - - +
618A GLY* 3.3 17.5 + - - -
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Residues in contact with GLN 615 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
427A THR* 2.7 31.0 + - + +
429A ARG* 3.3 36.3 + - + +
611A ASN* 2.5 39.7 + - - +
612A THR* 3.9 2.4 - - - +
614A LEU* 1.3 73.8 - - - +
616A SER* 1.3 63.4 + - - +
618A GLY* 3.4 1.4 + - - -
619A ALA* 2.9 22.5 + - - +
6T A 4.5 7.0 + - - +
7T G 3.4 40.0 + - - +
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Residues in contact with SER 616 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
427A THR* 2.8 33.0 + - - -
593A ILE* 6.3 0.9 - - - -
595A GLY* 4.7 2.9 - - - -
599A ARG* 5.2 0.2 - - - -
601A VAL* 3.7 25.9 - - - +
612A THR 2.9 15.8 + - - -
613A LEU* 3.9 6.3 - - - -
615A GLN* 1.3 76.5 - - - +
617A ALA* 1.3 56.5 + - - +
619A ALA* 2.7 29.4 + - - +
620A LEU* 3.0 23.0 + - - +
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Residues in contact with ALA 617 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
483A CYS* 3.4 21.1 - - + -
487A PHE* 3.5 30.1 - - + -
596A LEU* 3.2 21.4 - - + +
613A LEU 3.2 10.5 + - - +
614A LEU 3.8 1.6 - - - +
615A GLN 3.4 0.2 - - - -
616A SER* 1.3 79.6 - - - +
618A GLY* 1.3 57.4 + - - +
620A LEU* 3.8 2.0 + - - -
621A ILE* 2.8 33.8 + - - +
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Residues in contact with GLY 618 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
479A LEU* 3.3 19.7 - - - +
483A CYS* 3.3 17.2 - - - -
614A LEU 3.3 7.3 + - - -
615A GLN 3.8 2.2 - - - -
616A SER 3.2 0.2 - - - -
617A ALA* 1.3 77.4 - - - +
619A ALA* 1.3 67.9 + - - +
621A ILE* 3.9 0.7 - - - -
622A CYS* 3.2 26.9 + - - -
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Residues in contact with ALA 619 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
427A THR 3.9 9.2 - - - +
428A GLY* 4.0 4.9 - - - -
429A ARG* 3.9 39.0 - - + +
615A GLN 2.9 15.1 + - - +
616A SER 2.7 17.7 + - - +
618A GLY* 1.3 67.6 - - - +
620A LEU* 1.3 56.7 + - - +
622A CYS* 2.8 26.3 + - - +
623A LYS* 2.9 13.9 + - - +
651A TRP* 4.9 3.5 - - - -
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Residues in contact with LEU 620 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
216A ILE* 5.5 2.4 - - + +
427A THR 4.4 8.3 - - - +
428A GLY* 4.5 6.1 - - - -
595A GLY 4.2 1.1 - - - -
596A LEU* 3.7 32.1 - - + +
597A ASP* 4.0 3.4 - - - +
599A ARG* 3.1 50.0 - - - +
616A SER* 3.0 31.4 + - - +
617A ALA* 4.2 2.2 - - - +
619A ALA* 1.3 70.8 - - + +
621A ILE* 1.3 66.5 + - - +
623A LYS* 3.7 11.8 - - + +
624A LEU* 2.8 28.1 + - - +
684A TRP* 3.7 15.4 - - + -
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Residues in contact with ILE 621 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
479A LEU* 3.6 36.1 - - + -
483A CYS* 3.9 11.9 - - - -
596A LEU* 3.4 17.5 - - + -
617A ALA 2.8 26.4 + - - +
618A GLY 3.6 5.6 - - - +
619A ALA 3.1 0.2 - - - -
620A LEU* 1.3 77.8 - - - +
622A CYS* 1.3 59.0 + - - +
625A TRP* 3.0 24.1 + - - +
677A MET* 4.1 20.2 - - + -
680A VAL* 3.8 8.0 - - + +
684A TRP* 3.8 14.1 - - + -
690A LEU* 3.9 24.7 - - + -
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Residues in contact with CYS 622 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
476A ALA* 4.7 2.0 - - - -
479A LEU* 3.2 32.3 - - - -
618A GLY 3.2 5.6 + - - -
619A ALA* 2.8 9.2 + - - +
621A ILE* 1.3 75.0 - - - +
623A LYS* 1.3 67.7 + - - +
624A LEU 3.1 0.9 - - - -
625A TRP* 2.7 30.6 + - + +
626A ILE* 2.8 18.9 + - - +
651A TRP* 4.2 7.2 - - + +
653A HIS 3.5 26.9 - - - +
654A ASP* 3.8 12.6 - - - -
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Residues in contact with LYS 623 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
216A ILE* 4.0 18.8 - - + -
217A GLU* 2.7 30.1 + - - +
220A ALA* 3.8 23.3 - - + -
422A PRO* 2.6 29.7 + - - -
423A ASN* 3.9 3.6 + - - -
428A GLY* 2.8 26.4 + - - -
599A ARG* 4.0 6.1 - - - +
619A ALA 2.9 12.0 + - - +
620A LEU* 3.7 11.9 - - + +
622A CYS* 1.3 76.7 - - - +
624A LEU* 1.3 61.9 + - - +
626A ILE* 3.0 18.6 - - + +
627A ILE* 3.0 20.8 - - - +
651A TRP* 4.2 18.0 - - + -
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Residues in contact with LEU 624 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
212A GLU* 4.9 0.7 - - - +
216A ILE* 3.4 29.7 - - + +
620A LEU 2.8 8.2 + - - +
621A ILE 4.0 1.1 - - - +
623A LYS* 1.3 76.5 - - - +
625A TRP* 1.3 63.3 - - - +
627A ILE* 3.3 17.4 - - + +
628A LYS* 3.1 21.5 + - + +
679A TRP* 3.8 14.8 - - + -
680A VAL* 3.8 11.7 - - + -
683A HIS* 3.6 23.8 - - + -
684A TRP* 3.2 46.2 - - + -
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Residues in contact with TRP 625 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
474A ILE* 3.3 41.1 - - + -
475A ASP* 4.3 5.2 - - - -
476A ALA* 4.7 1.3 - - + -
621A ILE 3.0 20.2 + - - +
622A CYS* 2.7 26.9 + - + +
624A LEU* 1.3 66.9 - - - +
626A ILE* 1.3 64.9 + - + +
627A ILE 3.0 5.0 + - - -
628A LYS* 3.1 2.6 + - - +
629A THR* 2.8 41.8 + - - -
651A TRP* 5.8 0.2 - + - -
653A HIS 5.7 0.2 - - - -
654A ASP 4.3 19.3 - - - -
655A GLU 4.8 0.2 - - - -
656A ILE* 3.8 30.5 - - + -
673A ALA* 2.7 26.3 + - + -
676A ALA* 3.7 0.9 - - + -
677A MET* 3.3 49.1 - - + +
680A VAL* 3.8 10.5 - - + +
692A THR* 3.9 8.5 - - + -
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Residues in contact with ILE 626 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
220A ALA* 6.0 1.1 - - + -
223A LEU* 3.5 12.9 - - + +
224A LEU* 4.6 11.9 - - + -
622A CYS 2.8 14.9 + - - +
623A LYS* 3.0 16.4 - - + +
625A TRP* 1.3 80.3 - - + +
627A ILE* 1.3 62.4 + - + +
629A THR* 3.9 7.4 - - - -
630A GLU 3.3 5.0 + - - -
648A TYR* 3.2 28.9 + - + -
651A TRP* 3.5 49.6 - - + -
656A ILE* 3.0 44.4 - - + -
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Residues in contact with ILE 627 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
216A ILE* 3.4 33.2 - - + +
219A ARG* 3.9 31.0 - - + +
220A ALA* 3.9 22.0 - - + +
223A LEU* 4.5 9.0 - - + -
623A LYS 3.0 26.9 - - - +
624A LEU* 3.3 19.7 - - + +
625A TRP 3.0 0.4 - - - -
626A ILE* 1.3 80.3 - - + +
628A LYS* 1.3 67.2 + - - +
630A GLU* 4.1 4.9 - - - +
631A GLU* 3.1 23.0 + - + +
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Residues in contact with LYS 628 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
624A LEU* 3.1 11.3 + - + +
625A TRP* 3.7 6.3 - - - +
627A ILE* 1.3 78.2 - - - +
629A THR* 1.3 69.1 + - - +
631A GLU* 3.0 10.6 + - + +
632A MET* 2.7 79.6 + - + +
635A GLU* 5.8 3.2 - - - +
676A ALA* 4.0 12.8 - - + +
679A TRP* 4.0 44.4 - - + +
680A VAL* 4.7 1.6 - - + -
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Residues in contact with THR 629 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
625A TRP* 2.8 33.5 + - - -
626A ILE* 3.8 4.3 - - - -
628A LYS* 1.3 78.2 - - - +
630A GLU* 1.3 64.3 + - - +
632A MET* 3.2 4.4 + - - +
633A LEU* 2.9 37.0 + - + +
648A TYR* 3.1 20.6 - - + +
656A ILE* 4.6 8.7 - - + -
669A VAL* 5.0 4.3 - - + -
672A THR* 4.0 1.9 - - - +
673A ALA* 3.6 20.7 - - + +
676A ALA* 3.2 21.1 - - - +
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Residues in contact with GLU 630 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
223A LEU* 3.7 24.0 - - + +
226A LYS* 5.2 2.4 + - - +
626A ILE 3.3 10.5 + - - +
627A ILE* 4.1 4.5 - - - +
629A THR* 1.3 76.8 - - - +
631A GLU* 1.3 76.6 + - - +
633A LEU* 2.8 22.8 + - - +
634A VAL* 3.0 22.4 + - + +
640A HIS* 3.2 32.2 + - - +
646A PHE* 4.1 12.3 - - + -
648A TYR* 3.1 22.1 + - + +
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Residues in contact with GLU 631 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
219A ARG* 6.3 1.1 - - - +
627A ILE* 3.1 15.6 + - + +
628A LYS* 3.0 21.4 + - + +
630A GLU* 1.3 83.7 + - - +
632A MET* 1.3 54.8 + - - +
634A VAL* 2.8 30.0 + - - +
635A GLU* 2.8 15.2 + - - +
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Residues in contact with MET 632 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
628A LYS* 2.7 62.1 + - + +
629A THR 3.5 4.3 - - - +
631A GLU* 1.3 72.3 - - - +
633A LEU* 1.3 59.0 + - - +
634A VAL 2.9 5.0 + - - -
635A GLU* 3.0 18.0 + - - +
636A LYS* 3.1 14.9 + - - +
672A THR* 3.5 16.6 - - + +
675A GLU* 4.1 20.2 - - + -
676A ALA* 3.6 30.1 - - - +
679A TRP* 4.7 10.8 - - + -
----------------------------------------------------------
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Residues in contact with LEU 633 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
629A THR* 2.9 28.8 + - + +
630A GLU* 2.8 15.1 + - - +
632A MET* 1.3 72.3 - - - +
634A VAL* 1.3 57.6 + - - +
636A LYS* 4.0 6.8 - - + +
637A GLY 3.8 2.1 + - - -
638A LEU* 3.2 35.0 + - + +
646A PHE* 3.7 35.4 - - + -
648A TYR* 4.5 3.6 - - + -
668A VAL* 4.9 5.2 - - + -
669A VAL* 3.6 39.9 - - + +
672A THR* 3.1 35.2 - - + +
----------------------------------------------------------
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Residues in contact with VAL 634 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
630A GLU* 3.1 31.6 - - + +
631A GLU* 2.8 12.9 + - - +
633A LEU* 1.3 78.0 - - - +
635A GLU* 1.3 57.1 + - - +
636A LYS 2.8 9.9 + - - -
637A GLY* 3.2 13.5 + - - -
638A LEU 3.6 15.3 - - - +
639A LYS* 6.1 0.4 - - - -
640A HIS* 5.4 4.3 - - + +
646A PHE* 4.4 7.2 - - + -
----------------------------------------------------------
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Residues in contact with GLU 635 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
628A LYS* 5.8 3.1 - - - +
631A GLU 2.8 14.5 + - - +
632A MET* 3.0 11.6 + - - +
634A VAL* 1.3 74.7 - - - +
636A LYS* 1.3 56.1 + - - +
----------------------------------------------------------
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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).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il