Contacts of the helix formed by residues 630 - 661 (chain A) in PDB entry 6FF7
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 TRP 630 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
575A ALA* 4.2 7.2 - - - +
578A LEU* 4.4 7.0 - - + +
579A GLN* 3.8 32.1 - - + +
582A PHE* 4.7 4.2 - - - +
628A GLY 3.7 3.8 + - - +
629A PHE* 1.3 72.3 - - - +
631A ALA* 1.3 64.0 + - - +
632A ALA 3.2 3.1 + - - -
633A GLY* 3.8 2.9 + - - -
634A TRP* 3.3 22.3 + - - +
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Residues in contact with ALA 631 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
426A LEU* 5.4 12.6 - - + -
629A PHE 3.6 1.2 - - - -
630A TRP* 1.3 79.4 - - - +
632A ALA* 1.3 57.8 + - - +
634A TRP* 3.4 7.9 - - - +
635A ARG* 2.9 29.8 + - - +
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Residues in contact with ALA 632 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
426A LEU* 6.3 2.0 - - + +
427A VAL* 5.0 17.5 - - + +
608A LEU* 4.9 18.2 - - + +
629A PHE 5.0 3.8 + - - +
630A TRP 3.2 0.8 - - - -
631A ALA* 1.3 77.2 - - - +
633A GLY* 1.3 64.4 + - - +
635A ARG* 3.5 6.9 + - - +
636A VAL* 3.4 19.8 + - - +
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Residues in contact with GLY 633 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
582A PHE* 4.1 27.1 - - - +
583A ALA* 5.9 0.4 - - - -
605A CYS* 5.1 11.9 - - - -
630A TRP 3.8 3.4 + - - -
632A ALA* 1.3 77.4 - - - +
634A TRP* 1.3 59.6 + - - +
636A VAL* 3.4 4.1 + - - +
637A TRP* 3.0 31.7 + - - +
----------------------------------------------------------
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Residues in contact with TRP 634 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
582A PHE* 4.2 7.2 - - + +
630A TRP* 3.3 21.2 + - + +
631A ALA* 3.4 10.3 - - - +
632A ALA 3.2 0.2 - - - -
633A GLY* 1.3 78.6 - - - +
635A ARG* 1.3 56.6 + - - +
637A TRP* 3.5 3.0 + - - +
638A LEU* 2.9 29.3 + - - +
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Residues in contact with ARG 635 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
421A ALA 5.6 1.1 - - - +
422A LEU* 4.5 28.6 - - + +
424A ILE 6.0 1.3 - - - +
631A ALA 2.9 16.2 + - - +
632A ALA* 3.9 6.5 - - - +
633A GLY 3.3 0.4 - - - -
634A TRP* 1.3 76.6 - - - +
636A VAL* 1.3 56.8 + - - +
638A LEU* 3.3 8.0 + - - +
639A PHE* 2.9 25.5 + - - +
----------------------------------------------------------
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Residues in contact with VAL 636 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
285 A 5.6 5.4 - - - +
601A GLN* 5.6 12.8 - - + +
604A MET* 5.6 11.2 - - + -
605A CYS* 6.1 2.7 - - + +
632A ALA 3.4 11.8 + - - +
633A GLY* 3.4 6.0 + - - +
634A TRP 3.3 0.2 - - - -
635A ARG* 1.3 78.9 - - - +
637A TRP* 1.3 58.1 + - - +
639A PHE* 3.2 10.1 + - + +
640A PHE* 2.9 24.1 + - - +
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Residues in contact with TRP 637 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103A LEU* 6.0 1.8 - - - +
582A PHE* 5.7 6.1 - - + +
633A GLY 3.0 17.9 + - - +
634A TRP* 3.8 2.7 - - - +
636A VAL* 1.3 75.0 - - - +
638A LEU* 1.3 61.1 + - - +
640A PHE* 3.9 10.4 - - + +
641A MET* 3.7 17.2 + - - +
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Residues in contact with LEU 638 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100A LEU* 6.0 1.2 - - - +
103A LEU* 5.3 16.8 - - + +
104A GLU* 5.6 5.4 - - + -
422A LEU* 4.8 13.9 - - + -
634A TRP 2.9 18.5 + - - +
635A ARG* 3.5 8.1 - - - +
636A VAL 3.2 0.2 - - - -
637A TRP* 1.3 77.2 - - - +
639A PHE* 1.3 58.1 + - - +
640A PHE 3.2 0.2 - - - -
641A MET* 3.4 4.0 + - - +
642A ARG* 2.9 31.1 + - - +
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Residues in contact with PHE 639 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
275 U 5.5 5.2 - - - -
285 A 2.5 60.8 + - - +
635A ARG 2.9 14.7 + - - +
636A VAL* 3.2 13.9 + - - +
638A LEU* 1.3 72.3 - - - +
640A PHE* 1.3 59.9 + - - +
642A ARG* 3.7 7.6 - - - +
643A GLY 3.6 5.0 + - - -
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Residues in contact with PHE 640 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
285 A 3.7 8.4 + - - -
295 A 5.9 0.7 - - - +
598A LEU* 5.8 7.4 - - + -
601A GLN* 5.9 6.7 - - + -
636A VAL 2.9 15.3 + - - +
637A TRP* 3.9 12.3 - - + +
638A LEU 3.2 0.2 - - - -
639A PHE* 1.3 76.5 - - - +
641A MET* 1.3 58.2 + - - +
643A GLY 3.0 4.2 + - - -
644A ILE* 2.9 30.4 + - + +
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Residues in contact with MET 641 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96A PRO* 5.5 3.4 - - + +
99A VAL* 6.4 0.7 - - + -
100A LEU* 4.4 24.9 - - + +
637A TRP 3.7 11.3 + - - +
638A LEU* 3.4 5.8 + - - +
640A PHE* 1.3 78.1 - - - +
642A ARG* 1.3 58.0 + - - +
644A ILE* 4.2 7.6 - - - +
645A THR* 2.9 37.4 + - - +
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Residues in contact with ARG 642 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
285 A 4.8 4.3 - - - -
555 C 3.0 29.3 + - - +
565 C 4.4 21.7 - - - +
100A LEU* 5.2 4.8 - - - +
638A LEU 2.9 19.8 + - - +
639A PHE* 3.7 11.9 - - - +
641A MET* 1.3 76.4 - - - +
643A GLY* 1.3 57.3 + - - +
645A THR* 4.9 3.3 + - - -
----------------------------------------------------------
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Residues in contact with GLY 643 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
285 A 3.5 34.4 + - - -
295 A 3.9 22.2 + - - +
545 U 5.5 1.7 - - - +
555 C 5.2 1.8 - - - -
639A PHE 3.6 3.2 + - - -
640A PHE 3.0 6.8 + - - -
642A ARG* 1.3 77.8 - - - +
644A ILE* 1.3 62.5 + - - +
645A THR 3.6 0.4 - - - -
646A PRO* 4.5 4.8 - - - +
647A LEU* 4.3 8.1 + - - +
----------------------------------------------------------
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Residues in contact with ILE 644 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
295 A 5.1 6.7 - - - +
96A PRO* 5.5 0.2 - - - -
640A PHE* 2.9 19.3 + - + +
641A MET* 4.4 3.8 - - - -
643A GLY* 1.3 78.7 - - - +
645A THR* 1.3 58.5 + - - +
646A PRO 3.5 0.7 - - - -
647A LEU* 3.0 9.2 + - + +
648A LEU* 2.9 33.3 + - + +
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Residues in contact with THR 645 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
555 C 5.3 2.9 - - - -
565 C 6.2 3.4 - - - -
96A PRO* 3.9 37.6 - - - +
97A HIS* 4.6 5.2 - - - -
100A LEU* 5.0 4.3 - - - -
641A MET* 2.9 19.3 + - - +
642A ARG* 5.0 5.2 - - - -
643A GLY 3.6 0.2 - - - -
644A ILE* 1.3 74.4 - - - +
646A PRO* 1.4 57.8 - - - +
649A GLU* 2.7 31.3 + - - +
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Residues in contact with PRO 646 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
545 U 4.0 16.4 - - - +
555 C 3.8 38.6 - - - +
643A GLY 4.5 5.8 - - - +
644A ILE 3.5 0.4 - - - -
645A THR* 1.4 78.1 - - - +
647A LEU* 1.3 57.4 + - - +
649A GLU* 3.5 5.7 - - + +
650A ARG* 2.9 30.0 + - - +
----------------------------------------------------------
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Residues in contact with LEU 647 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
295 A 4.5 11.0 - - - +
305 A 5.6 5.2 - - - +
643A GLY 4.3 6.6 + - - +
644A ILE* 3.0 19.1 + - + +
646A PRO* 1.3 81.7 - - - +
648A LEU* 1.3 59.3 + - - +
650A ARG* 3.2 5.3 + - - +
651A TRP* 2.9 23.8 + - - +
----------------------------------------------------------
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Residues in contact with LEU 648 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
543A ALA* 5.2 12.1 - - - +
546A LEU* 5.7 7.4 - - + -
547A CYS* 5.9 4.9 - - + +
644A ILE* 2.9 15.0 + - + +
645A THR* 5.9 0.2 - - - -
647A LEU* 1.3 71.9 - - - +
649A GLU* 1.3 59.6 + - - +
651A TRP* 3.6 12.8 - - + -
652A LEU* 2.9 31.2 + - - +
----------------------------------------------------------
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Residues in contact with GLU 649 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93A LYS* 3.7 28.7 - - + +
94A TYR* 5.7 0.4 - - - -
96A PRO* 5.7 3.0 - - + +
645A THR 2.7 25.5 + - - +
646A PRO* 3.5 9.4 - - + +
648A LEU* 1.3 76.5 - - - +
650A ARG* 1.3 56.9 + - - +
652A LEU* 3.4 1.6 + - - +
653A GLY* 2.9 25.6 + - - -
----------------------------------------------------------
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Residues in contact with ARG 650 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
666 C 5.5 0.4 - - - -
646A PRO 2.9 18.0 + - - +
647A LEU* 3.5 5.6 - - - +
649A GLU* 1.3 74.8 - - - +
651A TRP* 1.3 56.3 + - - +
653A GLY* 3.4 2.2 + - - +
654A ASN* 2.9 29.3 + - - +
30R TYR* 4.8 25.7 - - + +
----------------------------------------------------------
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Residues in contact with TRP 651 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
666 C 3.4 41.0 - - + +
543A ALA* 3.7 17.7 - - + -
647A LEU 2.9 15.4 + - - +
648A LEU* 3.7 10.3 - - + -
649A GLU 3.3 0.2 - - - -
650A ARG* 1.3 77.4 - - - +
652A LEU* 1.3 58.0 + - - +
654A ASN* 3.3 1.7 + - - -
655A LEU* 2.9 23.2 + - - +
----------------------------------------------------------
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Residues in contact with LEU 652 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92A LEU* 4.2 26.4 - - + +
93A LYS* 4.3 8.1 - - - +
543A ALA* 4.2 10.5 - - + +
648A LEU 2.9 18.0 + - - +
649A GLU* 4.1 3.4 - - - +
651A TRP* 1.3 74.1 - - - +
653A GLY* 1.3 60.5 + - - +
655A LEU* 3.5 9.8 - - + +
656A LEU* 2.9 28.4 + - - +
----------------------------------------------------------
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Residues in contact with GLY 653 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93A LYS* 4.5 10.9 - - - +
649A GLU 2.9 17.3 + - - -
650A ARG* 3.4 2.7 + - - -
651A TRP 3.3 0.2 - - - -
652A LEU* 1.3 77.0 - - - +
654A ASN* 1.3 56.4 + - - +
656A LEU* 3.3 6.6 + - - +
657A ALA* 2.9 28.2 + - - +
28R LYS* 4.2 10.7 - - - +
30R TYR* 6.3 0.4 - - - -
----------------------------------------------------------
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Residues in contact with ASN 654 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
666 C 3.3 37.0 - - - +
676 G 4.5 3.9 + - - +
650A ARG 2.9 16.3 + - - +
651A TRP 3.6 2.9 - - - +
653A GLY* 1.3 75.5 - - - +
655A LEU* 1.3 58.5 + - - +
657A ALA* 3.4 7.3 + - - +
658A ARG* 2.9 30.1 + - - +
28R LYS 4.5 4.9 + - - -
29R GLN* 5.1 4.5 - - + +
30R TYR* 5.1 13.2 - - - +
----------------------------------------------------------
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Residues in contact with LEU 655 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
666 C 4.2 18.6 - - - +
543A ALA* 4.9 4.9 - - + -
651A TRP 2.9 14.9 + - - +
652A LEU* 3.5 13.5 - - + +
653A GLY 3.2 0.6 - - - -
654A ASN* 1.3 76.6 - - - +
656A LEU* 1.3 57.3 + - - +
658A ARG* 3.3 6.1 + - - +
659A GLN* 2.9 30.8 + - - +
----------------------------------------------------------
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Residues in contact with LEU 656 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89A LEU 5.3 8.7 - - - +
90A GLY* 6.4 0.2 - - - -
92A LEU* 6.1 2.2 - - + -
93A LYS* 6.2 2.5 - - + -
652A LEU 2.9 16.3 + - - +
653A GLY* 3.3 7.2 + - - +
655A LEU* 1.3 75.9 - - - +
657A ALA* 1.3 57.6 + - - +
659A GLN* 4.5 4.5 - - - +
660A PHE* 2.9 34.1 + - - +
209C PRO* 4.2 22.6 - - + +
210C PRO 5.2 0.6 - - - -
----------------------------------------------------------
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Residues in contact with ALA 657 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
653A GLY 2.9 17.4 + - - +
654A ASN* 3.6 6.3 - - - +
655A LEU 3.3 0.2 - - - -
656A LEU* 1.3 77.7 - - - +
658A ARG* 1.3 61.1 + - - +
660A PHE* 5.4 0.2 - - - -
661A GLU* 3.4 21.2 + - + +
662A GLY 3.3 13.6 - - - +
210C PRO* 5.4 5.4 - - + -
28R LYS* 3.8 36.5 - - + +
29R GLN* 4.2 6.3 - - + +
----------------------------------------------------------
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Residues in contact with ARG 658 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
646 U 5.2 5.4 + - - -
656 G 5.6 7.6 - - - +
666 C 5.4 0.4 - - - +
676 G 4.2 15.9 - - - +
654A ASN 2.9 17.7 + - - +
655A LEU* 3.8 6.7 - - - +
657A ALA* 1.3 77.6 - - - +
659A GLN* 1.3 60.4 + - - +
662A GLY* 3.7 23.6 - - - -
663A ARG* 4.1 9.2 + - + +
----------------------------------------------------------
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Residues in contact with GLN 659 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
655A LEU 2.9 17.8 + - - +
656A LEU* 4.1 4.7 - - - +
658A ARG* 1.3 80.4 - - - +
660A PHE* 1.3 62.2 + - + +
661A GLU 3.8 0.2 - - - -
662A GLY* 4.2 3.5 + - - -
----------------------------------------------------------
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Residues in contact with PHE 660 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
656A LEU* 2.9 17.1 + - - +
659A GLN* 1.3 78.9 - - + +
661A GLU* 1.3 60.3 + - - +
662A GLY 3.4 0.4 + - - -
209C PRO* 4.0 15.9 - - + -
210C PRO 3.4 22.1 - - - +
211C ARG 4.6 6.1 - - - +
213C LYS* 4.4 9.0 + - - +
----------------------------------------------------------
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Residues in contact with GLU 661 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
656A LEU 4.3 0.2 + - - -
657A ALA* 3.4 11.2 + - + +
660A PHE* 1.3 75.6 - - - +
662A GLY* 1.3 64.1 + - - +
210C PRO* 4.0 21.5 - - + -
212C PHE 3.3 21.1 - - - +
213C LYS* 3.7 13.4 - - - +
214C ILE* 3.0 35.4 + - + +
215C ASN* 4.2 0.5 + - - +
26R LEU 5.5 2.5 - - - +
27R SER* 6.6 0.2 - - - -
----------------------------------------------------------
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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).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il