Contacts of the helix formed by residues 750 - 762 (chain A) in PDB entry 2RC4
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 GLU 750 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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700A LEU* 6.4 1.6 - - + -
703A LEU* 4.4 7.6 - - + +
733A HIS* 5.8 0.3 - - - +
734A LEU* 3.3 55.3 + - - +
735A ARG* 5.0 6.5 - - + +
748A ARG 3.9 2.0 + - - -
749A ARG* 1.3 71.4 - - - +
751A LYS* 1.3 54.0 + - - +
752A LEU* 2.8 36.6 + - + +
753A ILE* 3.2 27.7 + - + +
754A GLN* 3.2 13.2 + - - +
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Residues in contact with LYS 751 (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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749A ARG* 3.6 9.3 + - + +
750A GLU* 1.3 71.7 - - - +
752A LEU* 1.3 55.8 + - - +
753A ILE 3.4 0.2 - - - -
754A GLN* 4.1 8.0 - - - +
755A ASP* 3.3 29.1 + - - +
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Residues in contact with LEU 752 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
750A GLU* 2.8 21.7 + - + +
751A LYS* 1.3 72.1 - - - +
753A ILE* 1.3 65.8 + - - +
755A ASP* 4.7 9.4 - - + +
756A HIS* 3.3 33.3 + - + +
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Residues in contact with ILE 753 (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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700A LEU* 4.5 13.8 - - + +
750A GLU* 3.5 26.7 - - + +
751A LYS 3.4 1.8 + - - -
752A LEU* 1.3 77.4 - - - +
754A GLN* 1.3 59.5 + - - +
755A ASP 2.9 4.9 - - - +
756A HIS* 3.0 20.5 + - + +
757A MET* 2.9 33.4 + - - +
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Residues in contact with GLN 754 (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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700A LEU* 4.2 18.4 - - - +
703A LEU* 3.6 42.2 - - + -
704A TYR* 3.9 12.5 - - + +
750A GLU 3.2 10.1 + - - +
751A LYS* 4.1 9.6 - - - +
753A ILE* 1.3 76.5 - - - +
755A ASP* 1.3 61.1 + - - +
757A MET* 4.3 0.6 - - - +
758A ALA* 3.6 20.3 + - - +
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Residues in contact with ASP 755 (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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704A TYR* 5.7 0.9 - - - -
751A LYS 3.3 18.1 + - - +
752A LEU* 4.7 10.5 - - + +
753A ILE 2.9 2.7 - - - +
754A GLN* 1.3 77.4 - - - +
756A HIS* 1.3 58.1 + - + +
757A MET 3.0 0.7 + - - -
758A ALA* 3.2 4.2 + - - +
759A LYS* 2.7 43.0 + - - +
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Residues in contact with HIS 756 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
752A LEU* 3.3 37.2 + - + +
753A ILE* 3.0 36.6 + - + +
755A ASP* 1.3 76.1 - - + +
757A MET* 1.3 53.0 + - - +
759A LYS* 3.4 7.8 - - - +
760A LEU* 2.7 31.6 + - - +
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Residues in contact with MET 757 (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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697A SER* 3.3 45.5 - - - +
700A LEU* 3.6 41.7 - - + +
701A GLU* 3.8 3.8 - - - +
753A ILE 2.9 13.8 + - - +
754A GLN 4.7 0.9 - - - +
756A HIS* 1.3 74.7 - - - +
758A ALA* 1.3 64.9 + - + +
759A LYS 3.1 1.3 - - - -
760A LEU* 2.9 20.0 + - + +
761A GLN* 2.8 60.2 + - + +
900A ACO 6.0 3.6 - - - +
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Residues in contact with ALA 758 (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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700A LEU 5.4 0.4 - - - +
701A GLU* 5.8 0.7 - - - +
704A TYR* 3.8 20.2 - - + -
705A HIS* 6.1 3.4 - - + +
754A GLN 3.6 17.4 + - - +
755A ASP* 3.2 3.7 + - - +
757A MET* 1.3 81.6 - - + +
759A LYS* 1.3 60.6 + - - +
761A GLN* 3.9 18.4 + - - +
762A LEU* 3.8 24.6 + - - +
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Residues in contact with LYS 759 (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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755A ASP* 2.7 28.3 + - - +
756A HIS* 3.4 9.6 - - - +
758A ALA* 1.3 77.1 - - - +
760A LEU* 1.3 62.7 + - - +
762A LEU* 3.3 25.2 + - - +
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Residues in contact with LEU 760 (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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756A HIS 2.7 18.2 + - - +
757A MET* 3.2 21.3 - - + +
759A LYS* 1.3 73.8 - - - +
761A GLN* 1.3 59.4 + - + +
762A LEU 2.9 1.6 + - - -
763A ASN* 2.7 45.5 - - + +
900A ACO 5.4 9.9 - - - +
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Residues in contact with GLN 761 (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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660A ARG* 5.2 14.0 - - - +
697A SER* 4.7 4.6 + - - -
701A GLU* 4.9 7.1 - - - +
705A HIS* 5.4 6.8 + - - -
757A MET* 2.8 48.9 + - + +
758A ALA* 4.0 14.4 - - - +
760A LEU* 1.3 71.8 - - + +
762A LEU* 1.3 60.2 - - + +
763A ASN* 2.9 16.3 + - - +
764A LEU 3.4 14.9 + - - +
765A ARG* 3.8 13.3 + - + +
766A PRO* 6.0 5.4 - - + -
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Residues in contact with LEU 762 (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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758A ALA 3.8 12.7 + - - +
759A LYS* 3.3 18.6 + - - +
760A LEU 2.9 2.5 + - - -
761A GLN* 1.3 76.5 - - + +
763A ASN* 1.3 60.4 + - - +
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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
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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