Contacts of the helix formed by residues 596 - 613 (chain C) in PDB entry 7ATU
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 SER 596 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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452C HIS* 6.2 0.2 - - - -
529C LYS* 4.3 13.2 - - - +
532C VAL* 4.9 3.4 - - - -
594C ARG 3.8 1.8 + - - -
595C PRO* 1.3 77.6 - - - +
597C PHE* 1.3 53.4 + - - +
598C VAL* 3.7 12.2 - - - +
599C LYS* 3.1 26.3 + - - +
600C LEU* 2.7 32.2 + - - +
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Residues in contact with PHE 597 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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445C ALA* 3.5 30.1 - - - +
448C MET* 3.6 27.8 - - + -
449C ALA* 3.7 17.2 - - - +
452C HIS* 3.6 31.8 + + + +
531C ASP* 3.4 26.5 - - + -
532C VAL* 3.5 32.5 - - + -
535C PHE* 3.6 27.6 - + + -
596C SER* 1.3 70.1 - - - +
598C VAL* 1.3 57.8 + - - +
600C LEU* 3.7 15.2 - - + +
601C GLU* 2.8 32.6 + - - +
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Residues in contact with VAL 598 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
449C ALA* 4.0 14.0 - - + +
596C SER* 3.7 12.0 + - - +
597C PHE* 1.3 74.4 - - - +
599C LYS* 1.3 70.8 + - + +
601C GLU* 3.3 24.9 + - - +
602C HIS* 3.5 9.0 + - - +
598D VAL* 6.3 5.6 - - + -
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Residues in contact with LYS 599 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
595C PRO* 4.4 7.0 - - + -
596C SER* 3.1 24.0 + - - +
598C VAL* 1.3 82.7 - - + +
600C LEU* 1.3 64.4 + - - +
602C HIS* 3.0 18.4 + - + +
603C TRP* 3.1 46.9 + - + +
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Residues in contact with LEU 600 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
445C ALA* 4.0 11.0 - - + -
532C VAL* 3.8 14.6 - - + -
535C PHE* 3.7 18.8 - - + -
582C ILE* 3.4 33.0 - - + -
586C CYS* 3.6 24.5 - - - -
595C PRO* 3.6 16.2 - - + +
596C SER 2.7 21.6 + - - +
597C PHE* 3.7 21.3 - - + -
599C LYS* 1.3 72.5 - - - +
601C GLU* 1.3 64.1 + - - +
602C HIS 3.0 1.0 + - - -
603C TRP* 4.0 7.6 - - + -
604C LEU* 3.1 32.2 + - + +
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Residues in contact with GLU 601 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
393C HIS* 4.9 2.1 + - - -
442C LYS* 3.9 14.2 + - - +
445C ALA* 3.9 9.4 - - - +
446C SER* 2.7 48.0 + - - +
449C ALA* 3.5 15.4 - - - +
597C PHE 2.8 19.6 + - - +
598C VAL* 3.4 13.5 - - - +
599C LYS 3.2 0.2 - - - -
600C LEU* 1.3 72.1 - - - +
602C HIS* 1.3 55.9 + - + +
604C LEU* 5.0 0.9 - - - -
605C GLU* 3.3 26.3 + - - +
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Residues in contact with HIS 602 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
598C VAL 3.8 8.5 - - - +
599C LYS* 3.4 12.6 - - + +
600C LEU 3.0 0.6 - - - -
601C GLU* 1.3 77.0 - - - +
603C TRP* 1.3 66.0 + + + +
604C LEU 3.3 1.1 - - - -
605C GLU* 3.2 3.1 + - - +
606C THR* 2.7 55.7 + - - -
453D SER* 3.3 39.3 + - - -
454D MET* 5.0 7.8 - - + +
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Residues in contact with TRP 603 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
582C ILE* 3.4 37.0 - - + -
585C ARG* 4.8 14.4 - - + -
595C PRO* 3.7 36.1 - - + -
599C LYS* 3.1 35.3 + - + +
600C LEU* 4.0 11.0 - - + +
602C HIS* 1.3 86.2 - + - +
604C LEU* 1.3 54.8 + - - +
606C THR* 3.2 6.7 + - - -
607C LEU* 2.5 38.7 + - - +
620C GLN* 4.5 17.6 - - + +
621C LEU* 3.8 30.0 - - + +
624C LEU* 5.6 14.6 - - + -
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Residues in contact with LEU 604 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
438C VAL* 3.5 7.4 - - + +
441C ALA* 3.2 31.9 - - + +
442C LYS* 3.9 18.3 - - + +
445C ALA* 3.8 7.0 - - + -
535C PHE* 3.7 21.3 - - + -
539C LEU* 4.7 5.6 - - + -
579C PHE* 4.0 31.9 - - + -
582C ILE* 4.7 15.3 - - + -
600C LEU* 3.1 23.3 + - + +
603C TRP* 1.3 76.6 - - + +
605C GLU* 1.3 57.0 + - - +
607C LEU* 4.1 9.9 - - + -
608C ARG* 2.7 29.1 + - - +
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Residues in contact with GLU 605 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
442C LYS* 3.0 32.0 - - - +
601C GLU 3.3 19.0 + - - +
602C HIS* 3.2 5.9 + - - +
603C TRP 3.1 0.6 - - - -
604C LEU* 1.3 77.9 - - - +
606C THR* 1.3 65.5 + - - +
608C ARG* 2.8 37.3 + - - +
609C MET* 3.0 58.5 + - + +
392D GLU* 4.0 6.1 - - - +
450D TYR* 3.1 19.8 + - + -
454D MET* 4.0 11.9 - - + -
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Residues in contact with THR 606 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
602C HIS* 2.7 41.5 + - - -
603C TRP* 3.4 4.4 - - - -
605C GLU* 1.3 73.2 - - - +
607C LEU* 1.3 63.5 + - - +
609C MET* 3.1 8.2 + - - +
610C HIS* 3.0 20.3 + - - +
616C PRO 4.4 7.5 - - - +
617C LEU* 3.7 18.2 - - - +
618C GLY* 5.4 1.6 - - - -
621C LEU* 3.5 26.6 - - + +
454D MET* 5.3 4.8 - - - +
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Residues in contact with LEU 607 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
438C VAL* 3.6 23.1 - - + -
576C PRO* 4.3 7.0 - - + -
577C PRO* 3.4 11.7 - - + +
578C SER* 3.4 24.9 - - - +
579C PHE* 3.5 37.9 - - + -
582C ILE* 4.8 1.6 - - + -
603C TRP 2.5 20.6 + - - +
604C LEU* 3.8 9.2 - - + +
606C THR* 1.3 74.5 - - - +
608C ARG* 1.3 62.6 + - - +
610C HIS* 3.4 13.4 + - + -
611C LEU* 3.0 42.4 - - + +
617C LEU* 6.1 2.0 - - + +
621C LEU* 4.4 7.8 - - + +
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Residues in contact with ARG 608 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
435C SER* 4.5 10.0 - - - +
438C VAL* 3.9 10.5 - - + +
439C SER* 4.1 33.5 - - - +
442C LYS* 4.8 4.7 - - + +
604C LEU 2.7 22.1 + - - +
605C GLU* 2.8 36.8 + - - +
606C THR 3.2 0.6 - - - -
607C LEU* 1.3 74.0 - - - +
609C MET* 1.3 70.0 + - - +
611C LEU* 3.3 5.9 + - - +
612C ALA* 3.3 38.4 + - + +
390D CYS* 3.3 27.3 + - - +
392D GLU* 4.0 15.0 - - - +
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Residues in contact with MET 609 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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605C GLU* 3.0 46.1 + - + +
606C THR* 3.8 5.2 - - - +
608C ARG* 1.3 83.6 - - - +
610C HIS* 1.3 62.8 + - - +
611C LEU 3.0 5.5 + - - -
612C ALA* 4.6 1.1 - - - +
613C GLY 3.2 18.6 + - - +
615C LEU* 3.4 36.9 + - + +
390D CYS* 3.8 29.2 - - + +
391D LEU* 4.9 6.1 - - - -
450D TYR* 3.6 7.0 - - - +
454D MET* 3.2 39.5 - - + +
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Residues in contact with HIS 610 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
577C PRO* 4.8 15.6 - - + +
606C THR 3.0 11.9 + - - +
607C LEU* 3.4 16.8 + - + +
609C MET* 1.3 75.1 - - - +
611C LEU* 1.3 75.7 + - + +
614C HIS* 3.6 22.8 + - - -
615C LEU* 2.6 30.2 + - - +
616C PRO* 3.9 9.8 + - + +
617C LEU* 3.8 30.1 + - + +
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Residues in contact with LEU 611 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
434C TRP* 4.8 10.8 - - + -
435C SER* 4.3 25.0 - - - +
438C VAL* 5.4 3.6 - - + -
576C PRO* 4.5 25.1 - - + -
577C PRO* 5.9 0.2 - - + -
607C LEU* 3.0 37.9 - - + +
608C ARG* 3.3 6.7 + - - +
609C MET 3.0 1.0 - - - -
610C HIS* 1.3 104.8 - - + +
612C ALA* 1.3 60.2 + - - +
613C GLY 3.7 0.2 - - - -
614C HIS* 4.5 10.7 - - - -
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Residues in contact with ALA 612 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
435C SER* 4.9 11.2 - - - -
608C ARG* 3.3 29.9 + - - +
609C MET* 5.4 0.9 - - - -
611C LEU* 1.3 76.7 - - - +
613C GLY* 1.3 59.3 + - - +
614C HIS* 3.7 2.7 - - - -
389D ARG* 5.6 2.1 + - - -
390D CYS* 5.1 4.0 - - - -
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Residues in contact with GLY 613 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
609C MET 3.2 8.7 + - - -
612C ALA* 1.3 77.6 - - - +
614C HIS* 1.3 65.2 + - - +
615C LEU* 2.9 28.8 + - - +
386D LYS* 4.4 14.0 - - - +
389D ARG* 5.5 6.7 - - - -
390D CYS* 3.9 11.4 - - - -
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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
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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) + - + + + + + -
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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