Contacts of the helix formed by residues 591 - 606 (chain C) in PDB entry 6UZA
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 PRO 591 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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485C ARG* 5.6 0.2 - - - +
543C ALA* 3.6 26.0 - - + +
546C MET* 4.0 18.2 - - + -
547C ALA* 3.8 22.4 - - + +
550C HIS* 5.0 9.9 - - + +
589C SER 3.9 5.4 - - - +
590C ASP* 1.3 96.7 - - - +
592C GLN* 1.3 56.7 + - - +
593C ILE 3.2 0.2 - - - -
594C ILE* 3.6 11.8 - - + +
595C SER* 3.0 30.1 + - - -
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Residues in contact with GLN 592 (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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485C ARG* 3.9 7.4 + - - +
488C THR* 3.5 30.1 + - - -
489C SER* 2.4 27.2 + - - -
544C ARG* 3.8 19.0 - - - +
547C ALA* 3.8 9.6 - - + +
583C ARG* 5.5 0.2 - - - +
586C TRP* 3.7 26.6 - - + -
590C ASP* 3.2 17.6 - - - +
591C PRO* 1.3 81.6 - - - +
593C ILE* 1.3 57.3 + - - +
595C SER* 3.1 17.6 + - - -
596C GLU* 3.1 39.6 + - - +
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Residues in contact with ILE 593 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
583C ARG* 3.8 13.9 - - - +
586C TRP* 3.7 27.1 - - + -
587C ASP 4.0 2.7 - - - +
588C PRO 3.3 29.4 - - - +
590C ASP* 3.2 17.4 + - + +
592C GLN* 1.3 76.5 - - - +
594C ILE* 1.3 65.0 + - + +
595C SER 3.5 0.4 - - - -
596C GLU* 4.1 8.1 - - - +
597C GLY 3.5 8.0 + - - -
659D TYR* 4.3 6.1 - - - +
697D HIS* 3.8 35.7 - - + +
699D PHE* 3.3 25.2 - - + -
700D ILE* 4.0 13.0 - - + +
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Residues in contact with ILE 594 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
543C ALA* 4.5 10.8 - - + -
588C PRO 5.2 0.9 - - - +
589C SER* 4.7 15.5 - - - +
590C ASP 3.3 17.9 - - - +
591C PRO* 3.2 13.1 + - + +
593C ILE* 1.3 79.7 - - + +
595C SER* 1.3 61.0 + - - +
597C GLY* 3.3 1.4 + - - -
598C LEU* 3.0 47.7 + - + +
699D PHE* 3.8 38.2 - - + -
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Residues in contact with SER 595 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
540C SER* 3.0 40.8 + - - +
543C ALA* 4.1 1.9 - - - +
544C ARG* 3.8 25.9 + - - +
591C PRO 3.0 13.1 + - - -
592C GLN* 3.1 18.2 + - - -
594C ILE* 1.3 78.5 - - - +
596C GLU* 1.3 62.5 + - - +
598C LEU 3.4 0.2 + - - -
599C TYR* 2.9 28.1 + - - +
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Residues in contact with GLU 596 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
544C ARG* 5.1 5.7 + - - +
583C ARG* 2.6 40.8 + - - -
592C GLN* 3.1 39.4 + - - +
593C ILE* 4.1 5.4 - - - +
594C ILE 3.4 0.4 - - - -
595C SER* 1.3 83.8 + - - +
597C GLY* 1.3 59.2 + - - +
599C TYR* 4.1 6.3 - - - +
600C ALA* 3.9 11.3 + - - +
654D ASN 4.7 7.2 - - - +
655D LEU* 3.7 22.0 - - + +
658D TYR* 3.7 27.1 - - + -
700D ILE* 4.6 7.8 - - + +
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Residues in contact with GLY 597 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
593C ILE 3.5 7.3 + - - -
594C ILE 3.3 5.7 + - - -
595C SER 3.2 0.6 - - - -
596C GLU* 1.3 80.4 - - - +
598C LEU* 1.3 62.4 + - - +
600C ALA* 3.8 4.7 + - - +
601C ILE* 3.6 18.9 - - - +
655D LEU* 4.0 13.0 - - - -
699D PHE* 3.9 19.7 - - - -
700D ILE* 4.7 1.7 - - - +
703D ILE* 3.7 13.6 - - - +
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Residues in contact with LEU 598 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
536C ILE* 3.3 30.3 - - + +
539C ALA* 3.9 30.1 - - + +
540C SER* 4.0 18.8 - - - +
594C ILE* 3.0 36.4 + - + +
597C GLY* 1.3 76.6 - - - +
599C TYR* 1.3 58.8 + - - +
600C ALA 3.2 0.4 - - - -
601C ILE* 3.3 16.2 + - + -
602C ALA* 3.0 23.7 + - - +
699D PHE* 4.6 11.7 - - + -
1001D Y01 4.8 12.6 - - + -
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Residues in contact with TYR 599 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
457C LEU* 3.3 20.1 + - + +
460C ASN* 3.1 30.9 + - - +
498C ILE* 3.9 5.7 - - + +
537C PHE* 3.8 28.3 - + - -
540C SER* 3.6 14.1 + - - +
541C PHE* 4.7 16.6 - + - -
595C SER 2.9 19.8 + - - +
596C GLU* 4.4 7.2 - - - +
597C GLY 3.4 0.4 - - - -
598C LEU* 1.3 76.5 - - - +
600C ALA* 1.3 57.8 + - - +
602C ALA* 3.4 5.1 + - - +
603C VAL* 2.9 36.6 + - + +
654D ASN* 3.5 35.8 + - + -
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Residues in contact with ALA 600 (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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596C GLU 3.9 5.0 + - - +
597C GLY 3.8 9.1 + - - +
598C LEU 3.2 0.6 - - - -
599C TYR* 1.3 79.0 - - - +
601C ILE* 1.3 60.2 + - - +
603C VAL* 3.3 5.7 + - - +
604C VAL* 3.0 34.4 + - - +
651D GLY* 3.3 23.6 - - - +
654D ASN* 5.0 2.0 - - - -
655D LEU* 3.8 27.8 - - + +
703D ILE* 4.8 0.9 - - + -
707D LEU* 4.3 9.2 - - + -
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Residues in contact with ILE 601 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
536C ILE* 4.1 20.4 - - + -
597C GLY 3.6 13.9 - - - +
598C LEU* 3.3 16.3 + - + +
600C ALA* 1.3 75.5 - - - +
602C ALA* 1.3 57.7 + - - +
604C VAL* 3.4 6.1 + - + +
605C LEU* 2.9 38.9 + - + +
703D ILE* 3.7 37.2 - - + -
706D VAL* 6.4 1.1 - - + -
707D LEU* 4.7 15.5 - - + -
1001D Y01 4.1 34.8 - - + -
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Residues in contact with ALA 602 (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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533C MET* 3.9 5.3 - - - +
536C ILE* 3.9 14.3 - - + +
537C PHE* 3.7 45.0 - - + +
598C LEU 3.0 17.2 + - - +
599C TYR* 3.7 4.3 - - - +
600C ALA 3.2 0.2 - - - -
601C ILE* 1.3 77.6 - - - +
603C VAL* 1.3 56.6 + - - +
605C LEU* 3.8 4.6 - - - +
606C SER* 2.9 32.6 + - - -
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Residues in contact with VAL 603 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
457C LEU* 3.8 23.6 - - + -
537C PHE* 4.6 1.3 - - + -
599C TYR* 2.9 51.1 + - + +
600C ALA* 3.3 5.8 + - - +
602C ALA* 1.3 74.9 - - - +
604C VAL* 1.3 62.1 + - - +
606C SER* 3.1 17.6 + - - -
607C PHE* 3.2 17.7 - - + -
647D ALA 5.0 0.2 - - - +
650D ILE* 3.8 29.4 - - + -
651D GLY* 3.8 14.6 - - - +
654D ASN* 3.9 7.2 - - - +
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Residues in contact with VAL 604 (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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600C ALA 3.0 20.9 + - - +
601C ILE* 3.8 6.5 - - + +
603C VAL* 1.3 77.8 - - - +
605C LEU* 1.3 63.5 + - + +
606C SER 3.4 0.5 + - - -
607C PHE* 3.4 15.9 + - - +
1003C S9Y 4.1 19.4 - - + +
647D ALA* 3.9 14.9 - - - +
648D PHE* 3.8 40.8 - - + -
651D GLY* 3.7 20.9 - - - -
707D LEU* 4.3 21.5 - - + -
710D VAL* 6.1 0.7 - - + -
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Residues in contact with LEU 605 (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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529C LEU* 4.4 16.4 - - + +
533C MET* 4.0 29.4 - - + +
536C ILE* 4.1 25.4 - - + -
601C ILE* 2.9 29.0 + - + +
602C ALA* 5.3 0.2 - - - -
604C VAL* 1.3 77.9 - - + +
606C SER* 1.3 58.6 + - - +
607C PHE 3.2 0.2 - - - -
608C SER* 2.5 28.8 + - - +
1003C S9Y 4.4 17.9 - - + -
1001D Y01 4.1 34.8 - - + -
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Residues in contact with SER 606 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
450C PHE* 3.5 23.4 - - - -
453C PHE* 4.2 18.6 - - - -
454C LEU* 4.6 1.3 - - - +
457C LEU* 3.3 19.8 - - - +
533C MET* 3.9 26.4 - - - +
537C PHE* 4.2 2.7 - - - -
602C ALA 2.9 13.2 + - - -
603C VAL 3.1 14.6 + - - -
604C VAL 3.3 0.2 - - - -
605C LEU* 1.3 77.1 - - - +
607C PHE* 1.3 60.7 + - - +
608C SER 3.2 2.9 + - - -
609C ARG* 3.7 6.9 + - - +
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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
------------------------------------------------------------
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