Contacts of the helix formed by residues 573 - 596 (chain F) in PDB entry 6S7T
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 573 (chain F).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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571F THR* 2.7 18.0 + - - +
572F PHE* 1.3 76.3 - - - +
574F PRO* 1.3 75.3 - - + +
575F SER* 3.3 9.8 + - - +
576F THR* 3.3 33.9 + - + -
577F ILE* 3.5 10.6 + - - +
623F GLN* 4.4 15.7 - - - +
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Residues in contact with PRO 574 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
572F PHE 4.2 3.4 - - - +
573F ALA* 1.3 87.6 - - + +
575F SER* 1.3 56.9 + - - +
577F ILE* 3.6 4.6 + - + +
578F ILE* 3.0 39.6 + - + +
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Residues in contact with SER 575 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
573F ALA* 4.1 9.7 - - - +
574F PRO* 1.3 80.5 - - - +
576F THR* 1.3 61.4 + - - +
578F ILE* 3.8 4.7 - - - -
579F PHE* 2.8 32.1 + - - +
616F ALA* 3.8 23.6 - - - +
619F ARG* 4.2 20.4 - - - +
620F MET* 4.0 14.8 - - - +
623F GLN* 4.4 6.4 + - - -
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Residues in contact with THR 576 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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570F PHE* 5.0 5.3 - - - -
571F THR* 3.6 17.8 + - - +
573F ALA* 3.3 27.0 + - + -
574F PRO 3.4 0.4 - - - -
575F SER* 1.3 78.0 - - - +
577F ILE* 1.3 66.4 + - - +
579F PHE* 3.3 1.0 + - - +
580F HIS* 3.0 38.5 + - - -
620F MET* 3.7 33.9 - - + -
623F GLN* 5.2 3.4 - - - +
624F GLN* 5.0 4.7 - - - +
448G HIS* 4.5 18.5 - - + -
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Residues in contact with ILE 577 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
570F PHE* 4.7 11.2 - - + -
572F PHE* 3.4 39.7 - - + +
573F ALA 3.5 16.9 + - - +
574F PRO* 4.1 3.8 - - + +
575F SER 3.4 0.4 - - - -
576F THR* 1.3 85.9 + - - +
578F ILE* 1.3 67.2 + - + +
580F HIS* 3.4 4.7 + - - +
581F LEU* 2.9 38.0 + - + +
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Residues in contact with ILE 578 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
574F PRO* 3.0 30.8 + - + +
575F SER* 3.8 5.4 - - - +
577F ILE* 1.3 79.9 - - + +
579F PHE* 1.3 57.5 + - - +
581F LEU* 3.5 14.6 + - + +
582F GLY* 2.9 25.6 + - - -
612F VAL* 4.3 20.3 - - + +
613F THR* 5.3 0.7 + - - -
616F ALA* 3.7 18.2 - - + -
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Residues in contact with PHE 579 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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94D PHE* 4.8 1.6 - + - -
98D LEU* 3.5 31.4 - - + -
575F SER 2.8 18.8 + - - +
576F THR* 3.6 4.0 - - - +
578F ILE* 1.3 77.2 - - - +
580F HIS* 1.3 75.6 + + - +
582F GLY* 3.2 1.6 + - - -
583F HIS* 2.9 38.3 + + + +
613F THR* 3.7 29.6 - - + +
616F ALA* 3.7 14.1 - - + +
617F GLY* 3.6 25.6 - - - -
620F MET* 3.9 28.5 - - + -
621F LEU* 6.4 0.2 - - + -
443G SER* 4.5 5.6 - - - -
447G LEU* 4.1 12.3 - - + -
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Residues in contact with HIS 580 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
570F PHE* 4.7 13.5 - + + -
576F THR* 3.0 31.7 + - - +
577F ILE* 4.2 3.8 - - - +
579F PHE* 1.3 88.7 - + - +
581F LEU* 1.3 57.6 + - - +
583F HIS* 3.7 5.5 - - - +
584F ALA* 3.0 30.7 + - - +
620F MET* 4.7 1.2 - - - -
440G PHE* 3.8 15.8 - - + -
443G SER* 3.9 21.9 + - - -
444G ILE* 4.2 29.5 - - + +
447G LEU* 4.2 13.1 - - + +
448G HIS* 3.1 31.5 + + - -
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Residues in contact with LEU 581 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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577F ILE* 2.9 28.0 + - + +
578F ILE* 3.8 15.5 - - + +
580F HIS* 1.3 78.0 - - - +
582F GLY* 1.3 55.4 + - - +
584F ALA* 3.5 7.1 + - + +
585F ALA* 2.9 30.8 + - + +
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Residues in contact with GLY 582 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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578F ILE 2.9 17.0 + - - -
579F PHE 3.2 0.6 + - - -
581F LEU* 1.3 75.9 - - - +
583F HIS* 1.3 56.4 + - - +
585F ALA* 3.3 8.2 + - - +
586F MET* 2.9 29.5 + - - +
609F LEU* 4.8 6.1 - - - +
612F VAL* 5.7 5.8 - - - -
613F THR* 3.4 22.6 + - - -
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Residues in contact with HIS 583 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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98D LEU* 3.7 33.5 - - + +
102D THR* 4.9 10.3 + - - -
579F PHE* 2.9 28.8 + + + +
580F HIS* 3.7 8.7 - - - +
582F GLY* 1.3 73.3 - - - +
584F ALA* 1.3 65.3 + - - +
586F MET* 3.2 12.1 + - - +
587F LEU* 3.1 41.9 + - + +
613F THR* 3.9 12.8 + - + +
439G LEU* 4.2 20.6 - - + +
440G PHE* 3.8 28.2 - + + -
443G SER* 4.8 11.7 - - - -
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Residues in contact with ALA 584 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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580F HIS 3.0 17.2 + - - +
581F LEU* 3.9 8.5 - - + +
583F HIS* 1.3 76.9 - - - +
585F ALA* 1.3 57.5 + - - +
587F LEU* 3.3 6.0 + - - +
588F GLY* 2.9 26.7 + - - -
440G PHE* 3.8 29.4 - - + -
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Residues in contact with ALA 585 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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581F LEU* 2.9 20.3 + - + +
582F GLY* 3.4 9.6 - - - +
584F ALA* 1.3 76.8 - - - +
586F MET* 1.3 57.3 + - - +
588F GLY* 3.4 1.2 + - - +
589F LEU* 2.9 30.3 + - - +
609F LEU* 3.8 21.4 - - + +
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Residues in contact with MET 586 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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102D THR* 3.9 32.5 - - + -
582F GLY 2.9 8.8 + - - +
583F HIS* 3.2 14.8 + - - +
585F ALA* 1.3 75.2 - - - +
587F LEU* 1.3 64.2 + - + +
589F LEU* 3.2 6.9 + - + +
590F MET* 3.0 32.2 + - + +
606F LEU* 4.5 21.5 - - + -
609F LEU* 3.7 31.8 - - + +
610F GLY* 3.7 15.7 - - - +
613F THR* 3.7 31.0 - - + +
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Residues in contact with LEU 587 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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102D THR* 5.5 7.4 - - + +
105D HIS* 5.2 10.5 - - + +
583F HIS* 3.1 43.5 + - + +
584F ALA* 3.9 4.9 - - - +
586F MET* 1.3 82.3 - - + +
588F GLY* 1.3 65.9 + - - +
590F MET* 3.0 24.5 + - + +
591F TYR* 3.1 11.1 + - - +
436G MET* 4.0 35.6 - - + +
439G LEU* 4.8 7.2 - - + -
440G PHE* 4.0 29.2 - - + +
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Residues in contact with GLY 588 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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584F ALA 2.9 16.4 + - - -
585F ALA* 3.7 1.8 - - - -
587F LEU* 1.3 76.0 - - - +
589F LEU* 1.3 56.5 + - - +
591F TYR* 3.2 10.1 + - - +
592F VAL* 2.9 33.5 + - - +
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Residues in contact with LEU 589 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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585F ALA 2.9 14.2 + - - +
586F MET* 3.3 11.7 - - + +
587F LEU 3.2 0.2 - - - -
588F GLY* 1.3 75.0 - - - +
590F MET* 1.3 68.6 + - + +
592F VAL* 3.2 9.5 + - + +
593F TYR* 2.8 26.7 + - + +
597F LEU* 5.4 5.6 - - + -
602F THR* 3.2 34.3 - - - +
605F TYR* 3.4 37.2 - - + -
606F LEU* 3.8 8.5 - - + +
609F LEU* 3.6 23.3 - - + -
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Residues in contact with MET 590 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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102D THR* 4.7 13.0 - - + +
105D HIS* 4.1 5.4 - - + +
106D LEU* 3.7 42.2 - - + +
109D MET* 3.7 17.3 - - + +
586F MET* 3.0 24.0 + - + +
587F LEU* 3.0 18.6 + - + +
589F LEU* 1.3 81.5 - - + +
591F TYR* 1.3 63.6 + - - +
593F TYR* 3.2 10.4 + - - +
594F TRP* 3.0 20.4 + - - +
606F LEU* 4.2 21.3 - - + -
433G PHE* 5.4 0.2 - - - -
436G MET* 3.6 30.5 - - + -
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Residues in contact with TYR 591 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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587F LEU 3.1 11.4 + - - +
588F GLY* 3.2 10.7 + - - +
590F MET* 1.3 76.2 - - - +
592F VAL* 1.3 75.3 + - + +
594F TRP* 3.0 28.9 + + - +
595F THR* 3.0 39.9 + - + +
433G PHE* 3.4 38.5 - + + -
436G MET* 5.4 0.2 - - - -
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Residues in contact with VAL 592 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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588F GLY 2.9 21.0 + - - +
589F LEU* 3.2 12.1 + - + +
591F TYR* 1.3 87.3 - - + +
593F TYR* 1.3 57.5 + - - +
595F THR* 4.4 4.0 - - - +
596F GLN* 2.9 37.0 + - + +
597F LEU* 3.4 29.5 + - + -
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Residues in contact with TYR 593 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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106D LEU* 4.5 13.2 - - + -
109D MET* 3.5 38.6 - - + -
110D ASN* 2.8 35.1 + - + -
589F LEU* 2.8 13.6 + - + +
590F MET* 3.5 11.2 - - - +
591F TYR 3.1 0.2 - - - -
592F VAL* 1.3 74.0 - - - +
594F TRP* 1.3 67.8 + - - +
595F THR 3.4 0.3 + - - -
596F GLN 4.0 1.0 + - - -
597F LEU* 3.4 25.9 - - - +
598F ASN* 3.7 16.8 - - - -
599F MET* 3.7 14.8 - - + +
602F THR* 3.4 41.5 - - + +
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Residues in contact with TRP 594 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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109D MET* 3.5 35.9 - - + -
112D VAL* 3.8 21.0 - - + +
590F MET 3.0 8.3 + - - +
591F TYR* 3.0 26.2 + + - +
593F TYR* 1.3 83.1 - - - +
595F THR* 1.3 67.5 + - - +
420G ARG* 4.0 19.8 + - - +
421G PHE* 3.4 39.5 - + - -
429G TYR* 4.0 39.7 - + + -
433G PHE* 3.3 34.1 - + + -
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Residues in contact with THR 595 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
591F TYR* 3.0 48.7 + - + +
592F VAL* 3.9 5.4 - - - -
593F TYR 3.2 0.2 - - - -
594F TRP* 1.3 84.2 - - - +
596F GLN* 1.3 84.1 + - + +
420G ARG* 4.0 15.1 + - - -
421G PHE* 4.7 12.4 - - + -
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Residues in contact with GLN 596 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
592F VAL* 2.9 20.8 + - - +
593F TYR 4.3 0.2 - - - -
594F TRP 3.8 0.2 - - - -
595F THR* 1.3 94.1 - - + +
597F LEU* 1.3 80.9 + - + +
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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
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Atomic class I II III IV V VI VII VIII
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I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
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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