Contacts of the helix formed by residues 587 - 610 (chain C) in PDB entry 3HFC
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 THR 587 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
586C ASN* 1.3 83.8 - - - +
588C ILE* 1.3 57.4 + - - +
589C GLY* 3.9 4.5 + - - -
590C ALA* 3.2 23.2 + - - +
591C ARG* 2.7 37.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 588 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
588A ILE* 4.5 13.2 - - + -
589A GLY* 4.8 14.6 - - - -
592A LEU* 4.0 17.3 - - + +
588B ILE* 4.0 26.0 - - + -
586C ASN 5.2 2.9 - - - +
587C THR* 1.3 70.6 - - - +
589C GLY* 1.3 62.3 + - - +
591C ARG* 4.0 24.6 - - - +
592C LEU* 2.8 33.4 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 589 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
588B ILE* 5.5 5.8 - - - +
591B ARG* 5.4 5.6 + - - -
587C THR* 3.2 5.3 + - - -
588C ILE* 1.3 81.4 - - - +
590C ALA* 1.3 61.1 + - - +
592C LEU* 4.0 4.9 - - - +
593C ASN* 3.3 23.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 590 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
586C ASN* 3.6 24.0 - - - +
587C THR* 3.2 25.6 + - - +
589C GLY* 1.3 76.7 - - - +
591C ARG* 1.3 61.0 + - - +
593C ASN* 3.6 8.0 + - - +
594C ARG* 3.3 25.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 591 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
589A GLY* 4.3 10.1 + - - -
592A LEU* 3.7 27.2 - - + +
593A ASN* 3.0 21.4 + - - +
596A GLU* 2.5 62.9 + - - +
586C ASN* 4.2 20.0 + - + +
587C THR 2.7 24.0 + - - +
588C ILE* 4.0 22.4 - - - +
589C GLY 3.4 0.2 - - - -
590C ALA* 1.3 71.7 - - - +
592C LEU* 1.3 65.5 + - - +
594C ARG* 3.2 31.3 + - - +
595C VAL* 3.0 24.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 592 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
588A ILE* 6.6 0.2 - - + -
592A LEU* 4.1 13.3 - - + +
588B ILE* 4.2 25.1 - - + +
591B ARG* 3.6 43.1 - - + +
592B LEU* 4.2 35.9 - - + +
595B VAL* 4.9 4.3 - - + -
588C ILE* 2.8 25.2 + - + +
589C GLY* 4.0 4.7 - - - +
591C ARG* 1.3 71.3 - - - +
593C ASN* 1.3 63.5 + - - +
595C VAL* 3.1 11.5 + - + +
596C GLU* 2.9 40.8 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 593 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
591B ARG* 4.3 7.3 + - - +
589C GLY 3.3 15.7 + - - +
590C ALA* 3.8 6.7 + - - +
591C ARG 3.3 0.4 - - - -
592C LEU* 1.3 75.7 - - - +
594C ARG* 1.3 67.8 + - - +
596C GLU* 3.1 15.2 + - - +
597C ASP* 3.2 37.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 594 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
596A GLU* 5.5 4.4 + - - -
586C ASN* 2.7 42.0 - - - +
590C ALA* 3.3 10.8 + - - +
591C ARG* 3.2 31.1 + - - +
593C ASN* 1.3 81.9 - - - +
595C VAL* 1.3 61.3 + - - +
597C ASP* 3.7 3.9 + - - +
598C LYS* 3.2 25.5 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 595 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
592A LEU* 3.7 24.2 - - + -
595A VAL* 4.0 18.8 - - + +
596A GLU* 4.6 11.4 - - + +
599A VAL* 3.9 29.8 - - + -
595B VAL* 4.2 12.3 - - + -
591C ARG 3.0 18.8 + - - +
592C LEU* 3.1 11.4 + - + +
594C ARG* 1.3 78.3 - - + +
596C GLU* 1.3 57.8 + - - +
597C ASP 3.2 0.4 - - - -
598C LYS* 3.8 4.8 - - - +
599C VAL* 3.0 30.3 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 596 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
591B ARG* 2.4 52.7 + - - +
594B ARG* 5.0 7.5 + - - +
595B VAL* 3.7 28.0 - - + +
598B LYS* 5.9 1.0 - - - +
592C LEU* 2.9 36.9 + - + +
593C ASN* 3.1 8.8 + - - +
595C VAL* 1.3 76.4 - - - +
597C ASP* 1.3 64.5 + - - +
599C VAL* 4.1 3.3 - - - +
600C THR* 2.7 25.5 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 597 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
593C ASN* 3.2 27.9 + - - +
594C ARG* 4.2 3.8 - - - +
596C GLU* 1.3 80.5 - - - +
598C LYS* 1.3 56.0 + - - +
600C THR* 2.9 14.0 + - - +
601C GLN* 2.8 34.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 598 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
599A VAL* 3.5 29.4 - - + -
603A ASP* 3.4 30.9 + - - +
594C ARG* 3.2 18.1 + - + +
595C VAL* 3.4 4.9 + - - +
597C ASP* 1.3 78.8 - - - +
599C VAL* 1.3 62.9 + - - +
601C GLN* 2.8 47.8 + - + +
602C MSE 3.1 19.7 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 599 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
599A VAL* 3.8 13.7 - - + -
595B VAL* 4.9 4.9 - - + -
598B LYS* 3.7 39.5 - - + -
599B VAL* 3.3 32.8 - - + -
602B MSE 4.1 20.5 - - + +
595C VAL* 3.0 20.8 + - + +
596C GLU* 4.1 5.6 - - - +
598C LYS* 1.3 75.2 - - - +
600C THR* 1.3 64.0 + - - +
602C MSE 3.5 5.5 + - - +
603C ASP* 3.1 24.3 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 600 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
598B LYS* 5.8 3.7 - - - +
596C GLU 2.7 18.8 + - - -
597C ASP* 2.9 18.4 + - - +
599C VAL* 1.3 80.1 - - - +
601C GLN* 1.3 58.0 + - - +
603C ASP* 3.6 8.1 - - + +
604C GLN* 3.3 34.3 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 601 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
597C ASP 2.8 13.3 + - - +
598C LYS* 2.8 43.5 + - - +
600C THR* 1.3 70.8 - - - +
602C MSE 1.3 61.2 + - - +
603C ASP 3.2 1.6 - - - -
604C GLN* 3.2 16.0 + - - +
605C ARG* 3.0 54.1 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with MSE 602 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
599A VAL* 4.2 15.7 - - - +
602A MSE 3.2 57.0 - - + +
603A ASP* 4.0 18.8 - - - +
606A MSE 3.2 15.6 - - + +
602B MSE 3.9 14.6 - - + -
606B MSE 3.5 15.9 - - + -
598C LYS* 3.1 16.5 + - + +
599C VAL* 3.7 9.0 - - - +
601C GLN* 1.3 72.9 - - - +
603C ASP* 1.3 61.3 + - - +
605C ARG* 3.6 24.2 - - - +
606C MSE 3.0 32.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 603 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
598B LYS* 5.9 2.8 - - - +
602B MSE 4.1 9.2 - - + -
605B ARG* 4.0 15.1 + - - +
599C VAL* 3.1 20.3 + - + +
600C THR* 3.6 10.8 - - - +
601C GLN 3.2 0.2 - - - -
602C MSE 1.3 78.4 - - - +
604C GLN* 1.3 57.5 + - - +
606C MSE 3.0 8.5 - - - +
607C ALA* 2.9 29.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 604 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
600C THR* 3.3 27.6 + - + +
601C GLN* 3.2 17.4 + - - +
603C ASP* 1.3 75.6 - - - +
605C ARG* 1.3 66.4 + - + +
606C MSE 3.2 0.2 - - - -
607C ALA* 3.4 7.7 + - - +
608C LEU* 3.3 23.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 605 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
603A ASP* 3.0 32.7 + - - -
606A MSE 3.4 25.0 - - - +
607A ALA* 4.3 8.3 - - - +
610A THR* 3.9 24.4 + - + +
611A ASP* 3.8 26.9 + - - +
598C LYS* 4.8 0.2 - - - +
601C GLN* 3.0 44.2 + - + +
602C MSE 3.6 23.1 - - - +
604C GLN* 1.3 73.3 - - + +
606C MSE 1.3 67.9 + - - +
608C LEU* 3.6 8.5 + - - +
609C ILE* 3.5 21.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with MSE 606 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
606A MSE 3.5 24.6 - - + +
609A ILE* 5.1 11.2 - - - -
610A THR* 5.6 0.2 - - - -
602B MSE 4.2 3.8 - - - -
605B ARG* 3.5 74.5 - - + +
606B MSE 4.1 19.1 - - + +
609B ILE* 4.8 9.2 - - + -
602C MSE 3.0 22.8 + - - +
603C ASP 3.0 10.3 - - - +
605C ARG* 1.3 75.3 - - - +
607C ALA* 1.3 58.1 + - - +
609C ILE* 2.9 25.3 + - - +
610C THR* 3.1 26.0 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 607 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
605B ARG* 5.4 1.8 - - - +
603C ASP* 2.9 23.7 + - - +
604C GLN* 3.4 9.6 + - - +
606C MSE 1.3 72.1 - - - +
608C LEU* 1.3 61.7 + - - +
609C ILE 4.1 0.2 - - - -
610C THR* 3.4 21.5 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 608 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
610A THR* 5.6 0.9 - - - +
611A ASP* 5.4 8.5 - - - +
604C GLN 3.3 13.4 + - - +
605C ARG* 4.0 7.0 - - - +
606C MSE 3.0 0.8 + - - -
607C ALA* 1.3 74.8 - - - +
609C ILE* 1.3 76.1 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 609 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
609A ILE* 4.6 18.4 - - + +
610A THR* 2.8 42.4 - - + +
605C ARG 3.5 8.3 + - - +
606C MSE 2.9 11.3 + - - +
607C ALA 4.2 0.3 - - - +
608C LEU* 1.3 91.8 - - + +
610C THR* 1.3 80.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 610 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
605B ARG* 3.7 26.2 - - - +
606C MSE 3.1 26.2 + - + +
607C ALA* 3.4 18.9 - - - +
609C ILE* 1.3 90.4 - - - +
----------------------------------------------------------
Back to top of page
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