Contacts of the helix formed by residues 768 - 779 (chain C) in PDB entry 4UN0
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 768 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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738C TYR* 4.9 11.4 - - + -
758C VAL* 3.6 28.5 - - + -
759C ARG 4.4 1.3 - - - +
760C LEU* 4.3 3.4 - - + -
763C GLU* 3.7 24.2 - - - +
765C GLU* 4.2 9.4 - - + -
766C GLY 3.5 6.9 - - - +
767C PHE* 1.3 96.1 - - + +
769C ILE* 1.3 65.5 + - - +
770C THR* 4.2 13.7 - - - +
771C ALA* 3.1 19.2 + - + +
772C ILE 3.3 7.8 + - - -
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Residues in contact with ILE 769 (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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105A LYS* 3.8 48.0 - - + +
108A GLU* 5.1 3.6 - - - -
110A PRO* 4.6 17.3 - - + -
765C GLU* 5.1 3.4 - - + +
767C PHE 3.3 3.8 + - - -
768C PRO* 1.3 68.1 - - - +
770C THR* 1.3 71.6 + - + +
772C ILE* 3.0 21.0 + - + +
773C ARG* 3.2 51.5 + - + +
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Residues in contact with THR 770 (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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738C TYR* 3.4 29.4 + - - -
768C PRO* 4.2 7.3 - - - +
769C ILE* 1.3 87.3 - - + +
771C ALA* 1.3 61.5 + - - +
773C ARG* 3.7 21.5 + - - +
774C GLU* 3.6 18.2 + - - +
879C GLY* 4.7 10.0 - - - +
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Residues in contact with ALA 771 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
738C TYR* 3.6 33.0 - - + +
758C VAL* 4.7 3.8 - - + -
767C PHE* 3.7 18.8 - - + -
768C PRO* 3.1 20.3 + - + +
770C THR* 1.3 79.3 + - - +
772C ILE* 1.3 64.6 + - - +
774C GLU* 3.3 3.2 + - - +
775C ILE* 3.0 31.1 + - + +
811C LEU* 5.2 3.5 - - + +
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Residues in contact with ILE 772 (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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102A LEU* 4.2 14.4 - - + -
105A LYS* 3.7 44.9 - - + +
106A VAL* 4.1 11.9 - - + -
148A LEU* 6.2 0.4 - - + -
155A LEU* 3.7 22.0 - - + -
767C PHE* 3.5 29.4 - - + +
768C PRO 3.5 3.1 - - - +
769C ILE* 3.0 14.3 + - + +
771C ALA* 1.3 75.5 - - - +
773C ARG* 1.3 62.0 + - + +
775C ILE* 3.3 7.0 + - - +
776C LYS* 3.0 43.6 + - - +
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Residues in contact with ARG 773 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105A LYS 5.9 0.7 - - - +
108A GLU* 3.4 36.6 + - + +
769C ILE* 3.2 53.3 + - + +
770C THR* 4.0 19.4 - - - +
771C ALA 3.4 0.2 - - - -
772C ILE* 1.3 75.8 - - + +
774C GLU* 1.3 62.3 + - - +
776C LYS* 3.4 18.6 + - - +
777C ILE* 3.1 38.7 + - + +
879C GLY 4.9 13.6 + - - +
881C ALA 5.2 5.6 - - - +
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Residues in contact with GLU 774 (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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737C THR* 5.0 2.4 + - - -
738C TYR* 2.4 31.5 + - - +
770C THR 3.6 8.6 + - - +
771C ALA 3.3 9.4 + - - +
772C ILE 3.2 0.2 - - - -
773C ARG* 1.3 78.9 - - - +
775C ILE* 1.3 57.9 + - + +
777C ILE* 3.3 2.6 + - - +
778C LEU* 3.0 56.9 + - + +
811C LEU* 5.5 4.9 - - + -
813C PHE* 4.8 9.3 - - + -
877C ASP* 4.4 8.1 + - - +
878C PHE* 3.6 34.8 + - + +
879C GLY* 3.9 16.9 + - - -
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Residues in contact with ILE 775 (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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153A PHE* 3.9 23.3 - - + +
155A LEU* 4.6 10.3 - - + -
767C PHE* 4.0 22.4 - - + -
771C ALA 3.0 18.1 + - - +
772C ILE* 3.7 6.3 - - - +
774C GLU* 1.3 75.7 - - + +
776C LYS* 1.3 62.9 + - - +
777C ILE 3.2 0.9 + - - -
778C LEU* 4.2 0.2 - - - -
779C ARG* 3.2 37.8 + - - +
789C MET* 3.9 33.4 - - + -
792C ILE* 3.8 22.0 - - + -
811C LEU* 4.1 13.7 - - + -
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Residues in contact with LYS 776 (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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105A LYS 4.9 1.1 - - - -
106A VAL* 3.2 42.3 + - + +
108A GLU* 4.2 12.4 + - - -
155A LEU* 4.1 20.6 - - + -
156A GLN* 4.8 25.4 + - + +
772C ILE* 3.0 32.4 + - - +
773C ARG* 3.6 21.3 + - - +
774C GLU 3.3 0.2 - - - -
775C ILE* 1.3 76.7 - - - +
777C ILE* 1.3 63.8 + - + +
779C ARG* 4.3 6.1 + - - +
780C GLN* 4.2 21.8 + - - +
855C PHE* 5.4 0.6 - - - -
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Residues in contact with ILE 777 (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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773C ARG* 3.1 23.4 + - + +
774C GLU* 3.8 3.8 - - - +
775C ILE 3.1 0.2 - - - -
776C LYS* 1.3 81.1 - - + +
778C LEU* 1.3 60.4 + - + +
779C ARG 3.2 2.0 - - - -
780C GLN* 3.1 17.5 + - - +
781C LEU* 3.1 36.2 + - + +
855C PHE* 3.8 34.0 - - + -
878C PHE* 4.1 19.5 - - + +
881C ALA* 3.6 41.5 - - + +
882C ARG* 4.4 1.6 - - - +
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Residues in contact with LEU 778 (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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774C GLU* 3.0 43.3 + - + +
775C ILE* 4.3 3.4 - - - +
777C ILE* 1.3 76.0 - - - +
779C ARG* 1.3 59.7 + - - +
780C GLN 3.1 0.4 - - - -
781C LEU* 3.2 21.5 - - + +
782C ILE* 5.3 1.9 - - - +
786C VAL* 5.2 1.3 - - + -
787C VAL* 3.5 23.6 - - + +
788C ASN* 4.9 1.1 - - - +
789C MET* 4.1 29.9 + - + +
813C PHE* 3.5 32.5 - - + -
878C PHE* 3.6 33.7 - - + -
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Residues in contact with ARG 779 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22A PRO* 4.4 20.6 - - - +
152A LYS 3.9 11.5 + - - -
153A PHE* 3.5 30.3 + - - +
154A ASP* 4.1 19.5 + - - +
155A LEU 5.4 1.6 - - - +
719C TRP 4.9 3.4 + - - +
721C LYS* 3.0 44.8 - - - +
775C ILE* 3.2 24.2 + - - +
776C LYS* 4.6 6.7 - - - +
777C ILE 3.2 1.0 - - - -
778C LEU* 1.3 76.9 - - - +
780C GLN* 1.3 62.1 + - + +
781C LEU 3.6 0.7 - - - -
782C ILE* 5.0 9.9 - - - +
789C MET* 4.2 12.9 - - + +
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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