Contacts of the strand formed by residues 752 - 759 (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 LEU 752 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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730C ILE* 3.7 29.2 - - + -
743C LYS* 3.7 14.8 - - - +
744C ALA 3.4 6.7 - - - +
745C LYS* 4.1 8.3 - - + -
751C GLU* 1.3 80.5 - - - +
753C VAL* 1.3 69.7 + - - +
814C GLU* 5.0 0.7 - - - -
815C TYR* 3.6 52.7 + - + +
817C ASP* 4.6 4.5 - - - +
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Residues in contact with VAL 753 (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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727C PHE* 3.7 27.4 - - + -
743C LYS* 3.9 1.2 - - - -
744C ALA* 2.7 39.7 + - - +
745C LYS* 5.0 0.7 - - - -
746C ASP* 5.1 6.3 - - - +
750C GLY 5.7 0.9 - - - +
751C GLU 4.8 3.8 - - - +
752C LEU* 1.3 83.4 - - - +
754C ALA* 1.3 67.3 + - - +
755C LEU* 3.7 10.2 + - + -
790C LYS* 4.4 13.0 - - + -
812C VAL* 3.6 30.5 - - + -
813C PHE 3.6 9.6 - - - +
814C GLU* 5.2 0.2 - - - -
815C TYR* 3.9 6.1 - - - -
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Residues in contact with ALA 754 (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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733C ILE* 4.6 9.4 - - + -
741C VAL* 4.7 6.7 - - + -
742C TYR 3.7 6.3 - - - +
753C VAL* 1.3 75.6 - - - +
755C LEU* 1.3 60.3 + - - +
756C LYS 4.0 0.7 - - - -
811C LEU 3.4 2.8 - - - +
812C VAL* 3.6 3.3 - - - -
813C PHE* 2.9 50.5 + - + +
814C GLU 4.9 0.7 - - - +
815C TYR* 4.0 21.9 - - + +
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Residues in contact with LEU 755 (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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725C ASP* 5.7 6.1 - - - +
727C PHE* 4.2 19.3 - - + -
729C ILE* 4.9 9.2 - - + -
740C GLN 3.8 0.3 - - - +
741C VAL* 3.3 6.1 - - - +
742C TYR* 2.9 53.6 + - + +
744C ALA* 3.9 23.1 - - + -
753C VAL* 3.7 17.7 - - + -
754C ALA* 1.3 73.2 - - - +
756C LYS* 1.3 60.9 + - - +
757C LYS 3.5 2.1 + - - -
793C VAL* 4.9 2.7 - - + -
810C TYR* 4.5 26.7 - - + -
811C LEU 3.5 3.1 - - - +
812C VAL* 3.7 30.3 - - + -
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Residues in contact with LYS 756 (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 5.9 2.2 - - - +
738C TYR* 5.7 4.7 - - + -
739C GLY 6.0 0.2 - - - +
740C GLN 4.3 2.7 - - - -
741C VAL* 4.3 17.9 - - + +
754C ALA 4.0 1.0 - - - -
755C LEU* 1.3 70.0 - - - +
757C LYS* 1.3 64.4 + - - +
758C VAL* 3.6 2.2 + - + +
810C TYR* 3.5 1.1 - - - -
811C LEU* 2.9 46.0 + - + +
813C PHE* 3.9 26.2 - - + -
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Residues in contact with LYS 757 (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 4.7 0.3 - - - +
738C TYR* 2.9 20.1 - - - +
739C GLY* 3.4 9.8 - - - +
740C GLN* 3.1 27.6 + - + +
742C TYR* 3.8 27.1 + - + +
755C LEU 3.5 1.8 + - - -
756C LYS* 1.3 72.5 - - - +
758C VAL* 1.3 65.2 + - - +
759C ARG* 3.6 44.1 - - + +
808C ALA* 4.1 7.2 - - + -
809C PHE 3.7 5.2 - - - +
810C TYR* 3.4 42.5 + - + -
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Residues in contact with VAL 758 (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* 3.8 29.4 - - + +
756C LYS 4.0 8.7 - - - +
757C LYS* 1.3 78.1 - - - +
759C ARG* 1.3 64.0 + - - +
760C LEU* 4.1 0.4 + - + -
767C PHE* 4.0 16.4 - - + -
768C PRO* 3.6 37.0 - - + -
771C ALA* 4.7 2.7 - - + -
808C ALA* 3.6 1.5 - - - +
809C PHE* 2.8 48.6 + - + +
811C LEU* 4.2 19.3 - - + -
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Residues in contact with ARG 759 (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 4.5 4.6 + - - -
757C LYS* 3.6 41.6 + - + +
758C VAL* 1.3 79.5 - - - +
760C LEU* 1.3 67.3 + - - +
761C ASP* 3.5 30.6 + - - +
762C ASN* 2.6 51.4 + - - +
763C GLU* 4.0 19.2 - - - +
768C PRO* 4.4 0.9 - - - +
806C LYS 5.3 1.2 + - - -
807C GLY 5.3 0.2 - - - +
808C ALA* 3.9 10.3 - - + +
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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