Contacts of the helix formed by residues 766 - 781 (chain A) in PDB entry 2IUK
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 766 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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305A SER* 3.6 12.1 - - - +
306A GLU* 4.0 9.6 - - - +
307A PHE* 3.9 4.9 - - + -
736A LEU* 4.2 7.2 - - + -
738A ARG* 3.3 36.1 - - - +
761A LEU 5.0 0.7 - - - +
764A ILE 3.2 10.0 - - - +
765A THR* 1.3 86.5 - - + +
767A LYS* 1.3 63.1 + - - +
768A PHE* 3.4 1.7 + - + +
769A GLU* 3.4 26.2 + - + +
770A THR* 2.7 29.4 + - - -
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Residues in contact with LYS 767 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
297A ILE* 4.4 5.4 - - + -
303A THR* 2.9 27.9 + - + +
304A SER* 2.8 39.1 + - - +
305A SER* 2.9 24.3 + - - +
306A GLU* 3.7 9.0 + - - +
307A PHE* 3.6 40.9 - - + -
312A ASP* 4.7 9.2 + - - -
316A LEU* 5.9 0.4 - - - -
321A ILE* 3.9 14.3 - - + +
766A PRO* 1.3 70.8 - - - +
768A PHE* 1.3 62.8 + - - +
770A THR* 3.6 1.4 + - - -
771A LEU* 3.0 34.0 + - + +
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Residues in contact with PHE 768 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
290A ILE* 3.3 35.9 - - + -
293A PHE* 4.0 11.2 - + + -
294A LYS* 3.7 41.7 - - + -
297A ILE* 3.6 27.4 - - + +
298A PHE* 4.2 23.1 - + + -
305A SER* 4.3 3.2 + - - +
581A LYS* 5.2 11.0 - - + -
766A PRO* 3.5 1.8 - - + +
767A LYS* 1.3 76.0 - - - +
769A GLU* 1.3 79.1 + - - +
771A LEU* 3.0 20.2 + - - +
772A ILE* 3.3 34.7 + - + +
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Residues in contact with GLU 769 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
581A LYS* 3.4 30.2 - - - +
582A SER* 4.0 5.5 + - - -
736A LEU* 3.4 21.4 - - + +
765A THR* 3.3 21.5 - - + +
766A PRO* 3.4 20.4 + - + +
768A PHE* 1.3 98.9 - - - +
770A THR* 1.3 57.9 + - - +
772A ILE* 3.3 10.8 + - + +
773A ASP* 3.0 29.6 + - - +
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Residues in contact with THR 770 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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307A PHE* 3.8 23.2 - - + -
313A VAL* 5.2 1.8 - - + -
316A LEU* 4.8 5.8 - - + -
730A ILE* 3.8 25.1 - - + +
765A THR* 3.0 27.9 + - - +
766A PRO 2.7 21.7 + - - -
767A LYS 3.6 4.3 - - - -
769A GLU* 1.3 76.5 - - - +
771A LEU* 1.3 57.0 + - + +
773A ASP* 4.3 4.0 - - - -
774A LEU* 3.0 48.0 + - + +
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Residues in contact with LEU 771 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
293A PHE* 3.6 47.0 - - + -
297A ILE* 4.6 8.3 - - + -
303A THR* 6.0 0.4 - - + -
307A PHE* 5.3 0.2 - - + -
316A LEU* 3.7 37.2 - - + -
321A ILE* 4.2 19.7 - - + -
323A LEU* 6.1 0.4 - - + -
349A LEU* 6.3 1.1 - - + -
767A LYS* 3.0 35.7 - - + +
768A PHE 3.0 7.3 + - - +
770A THR* 1.3 76.3 - - + +
772A ILE* 1.3 58.4 + - - +
774A LEU* 4.7 4.7 - - + +
775A SER* 2.6 32.3 + - - -
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Residues in contact with ILE 772 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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285A LEU* 4.3 2.1 - - - +
290A ILE* 3.8 36.6 - - + -
293A PHE* 5.6 0.9 - - + -
578A ILE* 3.9 23.6 - - + +
581A LYS* 4.2 21.3 - - + -
582A SER* 3.0 22.2 - - - +
768A PHE* 3.3 47.3 + - + +
769A GLU* 3.3 12.5 + - - +
771A LEU* 1.3 75.0 - - - +
773A ASP* 1.3 67.5 + - - +
775A SER* 3.5 4.7 + - - -
776A VAL* 3.2 21.0 + - - +
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Residues in contact with ASP 773 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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582A SER* 4.2 10.3 - - - +
583A PHE* 3.9 19.1 - - - -
727A GLY 4.0 10.4 - - - +
730A ILE* 3.4 23.6 - - + +
733A ARG 4.8 0.3 - - - +
735A THR* 3.6 16.9 - - + +
765A THR* 5.5 0.2 - - + -
769A GLU 3.0 16.4 + - - +
770A THR* 3.7 7.9 - - - +
772A ILE* 1.3 74.0 - - - +
774A LEU* 1.3 67.7 + - - +
775A SER 3.0 1.2 + - - -
776A VAL* 3.0 16.4 + - - +
777A ILE* 3.1 34.5 + - - +
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Residues in contact with LEU 774 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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313A VAL* 5.7 2.7 - - + +
316A LEU* 3.8 29.4 - - + -
317A TYR* 6.5 1.1 - - + -
351A PHE 5.7 2.5 - - - +
724A TYR* 3.5 19.9 - - + +
727A GLY 3.7 16.2 - - - +
728A GLY* 3.3 29.2 - - - +
730A ILE* 4.5 8.7 - - + +
770A THR* 3.0 36.3 + - + +
771A LEU* 4.9 4.3 - - + -
773A ASP* 1.3 81.7 - - - +
775A SER* 1.3 56.8 + - - +
777A ILE* 3.9 6.7 - - - -
778A GLU* 3.0 33.0 + - - +
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Residues in contact with SER 775 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
285A LEU* 3.7 22.8 - - - +
293A PHE* 3.9 7.3 - - - -
340A ILE* 3.6 14.2 - - - +
341A PHE* 3.6 21.4 - - - -
771A LEU 2.6 24.2 + - - -
772A ILE 3.5 4.9 + - - -
773A ASP 3.0 1.2 + - - -
774A LEU* 1.3 80.6 - - - +
776A VAL* 1.3 56.1 + - - -
778A GLU* 4.1 0.9 - - - -
779A ILE* 3.3 26.2 + - - +
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Residues in contact with VAL 776 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
282A ILE* 4.5 12.6 - - + -
285A LEU* 3.5 23.1 - - + -
572A LEU* 3.9 18.6 - - + -
578A ILE* 3.6 32.1 - - + -
579A ILE* 5.4 6.1 - - + -
582A SER* 5.6 0.9 - - - +
583A PHE* 6.2 1.3 - - + -
772A ILE 3.2 17.2 + - - +
773A ASP* 3.4 7.9 - - - +
775A SER* 1.3 71.3 - - - +
777A ILE* 1.3 70.4 + - + +
778A GLU 3.0 1.8 - - - -
779A ILE* 3.0 5.9 + - + +
780A LEU* 2.8 37.4 + - + +
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Residues in contact with ILE 777 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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521A GLN* 4.8 6.7 - - - +
583A PHE* 5.3 2.5 - - + -
723A GLN* 3.5 39.7 - - + +
724A TYR* 3.3 9.9 - - + +
727A GLY* 3.4 36.3 - - - +
728A GLY 4.0 0.4 - - - +
773A ASP* 3.1 37.4 + - - +
774A LEU* 3.6 8.1 - - - +
776A VAL* 1.3 80.5 - - + +
778A GLU* 1.4 56.6 + - - +
780A LEU* 4.0 11.6 - - + -
781A SER* 2.7 34.1 + - - -
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Residues in contact with GLU 778 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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339A GLU* 3.8 6.4 - - - +
340A ILE* 2.6 54.7 - - + +
341A PHE* 4.9 2.3 - - - -
351A PHE 4.9 0.9 - - - +
352A PRO* 3.4 25.4 - - - +
724A TYR* 3.7 24.6 - - + -
774A LEU 3.0 20.5 + - - +
775A SER* 4.1 5.2 - - - +
776A VAL 3.0 0.6 - - - -
777A ILE* 1.4 73.7 - - - +
779A ILE* 1.3 65.8 + - - +
781A SER 3.1 5.9 + - - -
782A ARG* 3.0 43.5 + - - +
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Residues in contact with ILE 779 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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278A LEU* 3.6 39.7 - - + +
281A GLY* 3.3 32.5 - - - +
282A ILE* 3.6 17.0 - - + +
285A LEU* 4.1 13.2 - - + -
337A LEU* 5.2 1.6 - - + -
340A ILE* 3.9 32.8 - - + -
775A SER 3.3 17.9 + - - +
776A VAL* 3.0 6.6 + - - +
778A GLU* 1.3 78.2 - - - +
780A LEU* 1.4 61.4 + - - +
781A SER 3.2 0.5 + - - -
782A ARG* 3.2 22.7 + - - +
864A ILE* 4.2 3.6 - - + +
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Residues in contact with LEU 780 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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282A ILE* 3.5 31.2 - - + -
521A GLN* 4.6 7.2 - - - +
525A HIS* 4.3 11.0 - - + -
564A ILE* 5.6 1.3 - - + -
572A LEU* 4.8 17.5 - - + -
720A ASN* 2.6 35.5 + - - +
723A GLN* 3.6 27.6 - - - +
776A VAL* 2.8 29.0 + - + +
777A ILE* 4.3 7.6 - - + +
779A ILE* 1.4 70.3 - - - +
781A SER* 1.3 51.7 + - - +
782A ARG 3.4 0.7 - - - -
864A ILE* 3.5 37.1 - - + +
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Residues in contact with SER 781 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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720A ASN 3.6 4.5 + - - -
721A PHE* 3.5 32.4 - - - +
723A GLN* 3.4 11.4 + - - +
724A TYR* 2.8 22.7 + - - -
777A ILE 2.7 21.4 + - - -
778A GLU 3.1 5.0 + - - -
780A LEU* 1.3 72.7 - - - +
782A ARG* 1.3 86.4 + - - +
783A HIS* 5.1 0.3 - - - -
852A GLY 3.8 6.8 - - - +
853A LEU* 4.6 0.5 - - - -
854A THR 4.7 1.9 + - - -
855A PHE 5.5 1.4 + - - -
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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
------------------------------------------------------------
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