Contacts of the helix formed by residues 737 - 749 (chain C) in PDB entry 4X52
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 HIS 737 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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732B GLU* 3.7 26.8 + - + +
733B ILE 4.0 2.1 + - - -
734B HIS* 3.5 49.9 - + + +
733C ILE* 3.3 16.7 - - + +
734C HIS* 3.1 22.8 + - + +
736C LEU* 1.3 78.5 - - - +
738C PRO* 1.3 72.7 - - + +
739C GLU* 3.0 53.5 + - + +
740C TYR* 2.9 13.3 + - - +
741C VAL* 3.1 10.6 + - - +
761C LYS* 5.9 0.4 + - - +
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Residues in contact with PRO 738 (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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734B HIS* 3.3 48.0 - - + +
901B SO4 4.6 4.5 - - - +
736C LEU 3.5 5.8 - - - +
737C HIS* 1.3 84.7 - - + +
739C GLU* 1.4 58.8 + - + +
741C VAL* 3.4 9.7 + - + +
742C ARG* 2.9 30.8 + - - +
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Residues in contact with GLU 739 (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* 4.5 6.0 - - + +
737C HIS* 3.0 29.2 + - + +
738C PRO* 1.4 77.5 - - + +
740C TYR* 1.4 62.4 + - - +
742C ARG* 3.5 10.8 + - - +
743C VAL* 3.0 30.8 + - - +
761C LYS* 3.0 41.3 + - - +
889C TYR* 2.6 36.1 + - + +
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Residues in contact with TYR 740 (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* 3.5 31.3 - - + +
734C HIS 3.2 18.6 - - - +
735C HIS* 3.3 38.3 - - + +
737C HIS 2.9 6.7 + - - +
739C GLU* 1.4 75.2 - - - +
741C VAL* 1.3 57.6 + - - +
743C VAL* 3.3 1.7 + - - -
744C SER* 2.7 50.7 + - - -
756C ILE* 3.5 23.9 + - + +
757C GLU 5.1 3.6 + - - -
758C LYS* 4.8 1.3 - - - -
759C ILE* 3.7 48.5 - - + +
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Residues in contact with VAL 741 (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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735C HIS 4.0 14.1 - - - +
736C LEU* 4.2 13.2 - - + +
737C HIS 3.1 13.3 + - - +
738C PRO* 3.6 10.5 - - + +
740C TYR* 1.3 75.7 - - - +
742C ARG* 1.3 58.3 + - - +
744C SER* 3.5 5.0 + - - -
745C GLU* 2.9 47.7 + - + +
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Residues in contact with ARG 742 (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 PRO 2.9 17.3 + - - +
739C GLU* 3.7 12.1 - - - +
740C TYR 3.3 0.2 - - - -
741C VAL* 1.3 77.6 - - - +
743C VAL* 1.3 66.1 + - - +
745C GLU* 3.5 4.0 + - - +
746C HIS* 3.1 44.5 + - + +
782C GLY 5.8 0.8 + - - -
784C LEU* 3.6 32.2 - - - +
844C GLN* 3.9 15.6 + - - +
888C GLN* 4.5 18.2 + - - +
889C TYR* 4.8 6.2 + - - -
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Residues in contact with VAL 743 (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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739C GLU 3.0 18.1 + - - +
740C TYR 3.9 1.8 - - - +
742C ARG* 1.3 77.3 - - - +
744C SER* 1.3 63.6 + - - +
746C HIS* 3.2 8.6 + - - +
747C PHE* 3.0 22.3 + - - +
759C ILE* 3.8 18.8 - - + -
784C LEU* 4.8 10.8 - - + -
786C PHE* 5.1 0.5 - - - -
842C VAL* 3.8 12.6 - - + -
889C TYR* 3.3 38.8 - - + -
891C ILE* 3.6 29.8 - - + -
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Residues in contact with SER 744 (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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740C TYR* 2.7 39.0 + - - -
741C VAL* 3.7 5.2 - - - -
743C VAL* 1.3 73.3 - - - +
745C GLU* 1.3 58.0 + - - +
747C PHE* 3.4 1.7 + - - +
748C LYS* 2.9 60.3 + - - +
756C ILE* 3.5 26.0 - - - +
759C ILE* 3.9 2.2 - - - +
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Residues in contact with GLU 745 (chain C).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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741C VAL* 2.9 32.1 + - + +
742C ARG* 3.8 4.9 - - - +
744C SER* 1.3 75.1 + - - +
746C HIS* 1.4 63.8 + - + +
748C LYS* 3.2 33.9 + - - +
749C ALA* 3.1 23.7 + - - +
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Residues in contact with HIS 746 (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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742C ARG* 3.1 46.4 + - + +
743C VAL* 3.6 8.1 - - - +
745C GLU* 1.4 76.6 - - + +
747C PHE* 1.3 63.1 + - - +
749C ALA* 3.6 15.3 + - - +
750C SER* 4.5 2.4 + - - -
784C LEU* 3.6 47.3 + - + +
786C PHE* 3.8 16.7 - - + -
822C LYS 6.0 0.4 + - - -
824C ALA 5.4 0.3 + - - -
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Residues in contact with PHE 747 (chain C).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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743C VAL 3.0 16.0 + - - +
744C SER 3.6 4.0 - - - +
746C HIS* 1.3 76.3 - - - +
748C LYS* 1.3 65.7 + - + +
749C ALA 3.2 1.0 + - - -
750C SER* 3.4 5.2 + - - -
751C MET* 2.9 67.1 + - + +
754C PHE* 4.3 11.0 - - + -
756C ILE* 3.6 31.6 - - + -
786C PHE* 3.9 8.4 - + + -
824C ALA* 3.9 11.9 - - + -
840C MET* 4.1 15.5 - - + -
891C ILE* 3.7 25.8 - - + -
893C TYR* 3.6 38.8 - + + -
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Residues in contact with LYS 748 (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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744C SER* 2.9 41.3 + - - +
745C GLU* 3.2 29.9 + - - +
747C PHE* 1.3 77.3 - - + +
749C ALA* 1.4 60.3 + - - +
750C SER 3.2 3.6 + - - -
751C MET 3.7 16.1 + - - +
752C LYS* 2.9 28.6 + - - +
754C PHE 5.5 4.9 - - - +
756C ILE* 4.5 5.8 - - + -
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Residues in contact with ALA 749 (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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745C GLU 3.1 13.0 + - - +
746C HIS* 3.6 15.0 - - - +
747C PHE 3.2 1.0 - - - -
748C LYS* 1.4 75.5 - - - +
750C SER* 1.4 58.4 + - - +
752C LYS* 3.3 22.0 + - - +
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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