Contacts of the helix formed by residues 743 - 762 (chain A) in PDB entry 5ON2
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 GLY 743 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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742A ASP* 1.3 84.7 - - - +
744A GLU* 1.3 65.8 + - - -
745A GLN 3.4 2.7 - - - -
746A ASP* 3.6 13.8 + - - +
747A ARG* 3.3 22.5 + - - +
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Residues in contact with GLU 744 (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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687A ALA* 4.4 26.9 + - + +
743A GLY* 1.3 71.8 - - - -
745A GLN* 1.3 62.9 + - + +
747A ARG* 3.6 6.8 + - - +
748A ALA* 2.9 30.0 + - - +
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Residues in contact with GLN 745 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
688A ALA 4.3 5.9 - - - +
689A LEU* 4.1 7.6 - - - +
690A ASN* 3.0 54.3 + - - +
693A ALA* 3.4 16.6 + - + +
694A LEU* 3.2 20.3 - - - +
698A GLN* 4.0 17.4 - - - +
743A GLY* 3.4 0.6 - - - -
744A GLU* 1.3 75.2 - - + +
746A ASP* 1.3 62.5 + - - +
748A ALA* 3.6 5.1 + - - +
749A LEU* 3.1 26.7 + - - +
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Residues in contact with ASP 746 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
698A GLN* 2.9 40.3 + - - +
740A PRO* 3.3 29.9 - - - +
741A THR* 3.8 11.0 - - + +
742A ASP* 4.2 1.6 + - - +
743A GLY* 3.6 19.8 + - - +
744A GLU 3.3 0.4 - - - -
745A GLN* 1.3 76.5 - - - +
747A ARG* 1.3 61.3 + - - +
749A LEU* 3.2 10.1 + - - +
750A MET* 2.8 28.6 + - - +
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Residues in contact with ARG 747 (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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680A HIS* 3.0 36.6 + - + +
683A LYS* 3.6 26.2 - - - +
684A GLY* 2.8 32.2 + - - +
685A ASP 3.1 20.8 + - - -
686A VAL* 3.6 24.0 - - + +
741A THR* 3.3 33.2 - - - +
742A ASP 4.6 5.4 - - - -
743A GLY 3.3 13.9 + - - +
744A GLU* 4.1 6.2 - - - +
746A ASP* 1.3 73.5 - - - +
748A ALA* 1.3 64.2 + - - +
750A MET* 4.1 7.2 - - - -
751A GLN 3.1 17.0 + - - -
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Residues in contact with ALA 748 (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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686A VAL* 4.6 4.0 - - - +
687A ALA* 3.9 24.0 - - + +
688A ALA 4.6 2.5 - - - +
689A LEU* 3.6 33.8 - - + +
744A GLU 2.9 19.4 + - - +
745A GLN* 3.7 6.1 - - - +
747A ARG* 1.3 76.8 - - - +
749A LEU* 1.3 61.0 + - - +
751A GLN* 3.6 7.7 + - - +
752A GLU* 3.5 18.7 + - - +
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Residues in contact with LEU 749 (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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689A LEU* 3.8 10.0 - - + +
694A LEU* 5.5 4.3 - - + -
698A GLN* 3.7 36.6 - - + +
701A LEU* 3.7 30.7 - - + -
702A ARG* 3.8 38.8 - - + -
705A VAL* 5.0 7.6 - - + -
736A LEU* 5.9 0.4 - - + -
745A GLN 3.1 15.1 + - - +
746A ASP* 3.5 11.0 - - - +
748A ALA* 1.3 75.9 - - - +
750A MET* 1.3 59.0 + - - +
752A GLU* 3.3 11.1 + - + +
753A ALA* 3.0 27.1 + - + +
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Residues in contact with MET 750 (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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676A LEU* 4.3 18.6 - - + -
680A HIS* 3.4 28.5 - - + +
701A LEU* 5.9 0.7 - - + -
736A LEU* 3.3 50.9 - - + +
739A ALA* 4.6 4.0 - - + +
741A THR* 3.4 32.1 - - + -
746A ASP 2.8 19.9 + - - +
747A ARG* 3.8 3.8 - - - +
748A ALA 3.4 0.2 - - - -
749A LEU* 1.3 70.8 - - - +
751A GLN* 1.3 59.2 + - - +
753A ALA* 4.2 2.9 - - - -
754A LEU* 2.9 50.2 + - + +
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Residues in contact with GLN 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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680A HIS* 2.8 35.1 + - - -
686A VAL* 3.7 28.5 - - + +
747A ARG 3.1 13.6 + - - +
748A ALA 3.6 10.3 - - - +
749A LEU 3.3 0.4 - - - -
750A MET* 1.3 76.2 - - - +
752A GLU* 1.3 57.6 + - - +
754A LEU* 3.9 2.0 - - - +
755A LEU* 3.0 56.7 + - + +
776A LEU* 2.9 34.7 + - - +
777A LYS 5.4 0.6 + - - -
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Residues in contact with GLU 752 (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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689A LEU* 3.5 15.9 - - + +
702A ARG* 3.1 40.1 + - - +
705A VAL* 5.1 7.1 - - + +
706A HIS* 3.8 21.1 + - + +
748A ALA 3.5 8.3 + - - +
749A LEU* 3.3 12.2 + - + +
751A GLN* 1.3 78.4 - - - +
753A ALA* 1.3 56.3 + - - +
755A LEU* 3.7 7.4 + - - +
756A ALA* 3.1 30.0 + - + +
759A ARG* 5.0 3.0 + - - +
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Residues in contact with ALA 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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705A VAL* 4.1 24.0 - - + +
736A LEU* 3.4 39.5 - - + -
749A LEU* 3.0 17.5 + - + +
750A MET* 3.7 4.5 - - - +
752A GLU* 1.3 76.0 - - - +
754A LEU* 1.3 52.0 + - - +
756A ALA* 3.1 3.6 + - - +
757A VAL* 2.8 41.0 + - + +
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Residues in contact with LEU 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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673A VAL* 5.9 1.3 - - + -
676A LEU* 3.7 31.2 - - + +
677A VAL* 3.8 25.4 - - + -
680A HIS* 3.7 28.7 - - + -
733A MET* 4.7 10.1 - - + -
736A LEU* 5.1 2.7 - - + -
750A MET* 2.9 43.0 + - + +
751A GLN 4.2 0.7 - - - +
753A ALA* 1.3 76.5 - - - +
755A LEU* 1.3 57.4 + - - +
757A VAL* 4.4 4.7 - - + +
758A VAL* 3.0 37.4 + - + +
776A LEU* 3.8 18.2 - - + -
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Residues in contact with LEU 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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751A GLN* 3.0 48.8 + - + +
752A GLU* 4.0 6.5 - - - +
754A LEU* 1.3 75.7 - - - +
756A ALA* 1.3 60.6 + - - +
758A VAL* 4.8 0.4 - - - -
759A ARG* 2.9 40.7 + - - +
773A TRP* 3.6 32.6 - - + -
776A LEU* 3.7 32.5 - - + +
777A LYS 6.1 0.2 - - - +
778A GLY* 4.8 7.2 - - - -
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Residues in contact with ALA 756 (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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705A VAL* 4.6 5.8 - - + -
709A ILE* 4.0 28.0 - - + -
752A GLU* 3.1 20.8 + - + +
753A ALA* 3.1 6.3 + - - +
755A LEU* 1.3 75.2 - - - +
757A VAL* 1.3 60.0 + - + +
759A ARG* 3.3 17.5 + - - +
760A MET* 3.0 39.7 + - + +
788A PRO* 4.4 2.4 - - + +
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Residues in contact with VAL 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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673A VAL* 5.1 4.9 - - + -
729A ILE* 3.8 21.8 - - + -
732A LEU* 3.7 31.2 - - + -
733A MET* 3.9 23.6 - - + -
736A LEU* 4.2 11.4 - - + -
753A ALA 2.8 25.1 + - - +
754A LEU* 3.5 7.6 + - + +
756A ALA* 1.3 73.1 - - + +
758A VAL* 1.3 59.3 + - + +
760A MET* 3.4 11.2 + - + +
761A LEU* 3.1 37.7 + - + +
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Residues in contact with VAL 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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673A VAL* 5.0 7.0 - - + -
677A VAL* 4.8 7.4 - - + -
754A LEU* 3.0 22.4 + - + +
755A LEU* 4.4 3.1 - - - +
757A VAL* 1.3 77.7 - - + +
759A ARG* 1.3 61.3 + - - +
761A LEU* 4.8 1.3 - - - -
762A ASN* 3.2 18.0 + - - +
769A CYS* 3.2 43.8 - - + +
772A LEU* 4.0 26.0 - - + -
773A TRP* 4.1 11.0 - - + +
776A LEU* 3.9 16.2 - - + -
782A ILE* 3.7 8.9 - - + +
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Residues in contact with ARG 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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68A MET* 3.5 24.0 - - + +
709A ILE* 5.9 0.2 - - - +
752A GLU* 5.0 3.0 + - - +
755A LEU* 2.9 29.5 + - - +
756A ALA* 3.3 17.2 + - - +
758A VAL* 1.3 75.6 - - - +
760A MET* 1.3 64.4 + - - +
762A ASN* 3.3 11.8 + - - +
763A PRO* 3.4 10.7 - - - +
773A TRP* 3.5 33.6 - - + -
782A ILE* 4.2 6.5 - - + -
785A ALA* 5.0 2.7 - - + -
786A PRO* 3.3 37.2 + - - +
787A TRP* 3.5 3.5 - - - -
788A PRO* 3.8 37.7 - - + +
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Residues in contact with MET 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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708A THR* 4.0 15.0 - - + +
709A ILE* 3.9 32.3 - - + -
712A VAL* 3.8 34.1 - - + -
716A ILE* 4.7 0.9 - - - +
729A ILE* 3.8 17.0 - - + +
732A LEU* 4.4 4.5 - - + -
756A ALA* 3.0 32.6 + - + +
757A VAL* 3.4 19.3 + - + +
759A ARG* 1.3 75.9 - - - +
761A LEU* 1.3 61.7 + - - +
763A PRO* 3.6 9.4 - - - +
764A PHE* 3.8 17.2 - - - -
787A TRP* 3.8 15.9 - - + -
788A PRO* 4.2 13.7 - - + -
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Residues in contact with LEU 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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644A LEU* 5.4 7.2 - - + -
669A PHE* 3.9 28.7 - - + -
670A LEU* 5.0 6.3 - - + -
673A VAL* 4.2 21.5 - - + -
726A ILE* 5.8 2.7 - - + -
729A ILE* 3.4 42.4 - - + -
757A VAL* 3.1 22.8 + - + +
758A VAL* 5.5 0.4 - - - -
760A MET* 1.3 74.8 - - - +
762A ASN* 1.3 56.4 + - - +
763A PRO 3.4 1.3 - - - -
764A PHE* 3.1 14.3 + - + +
765A THR* 2.8 44.6 + - + +
768A ILE* 6.1 0.4 - - + -
769A CYS* 3.6 17.0 - - - -
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Residues in contact with ASN 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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64A ARG* 4.0 8.9 - - - +
68A MET* 3.3 26.6 - - + +
758A VAL 3.2 12.5 + - - +
759A ARG 3.5 9.6 - - - +
761A LEU* 1.3 77.3 - - - +
763A PRO* 1.4 67.4 - - + +
765A THR 4.1 0.2 - - - -
766A PRO* 3.1 46.1 - - - +
769A CYS* 3.8 9.4 - - - +
782A ILE* 3.5 43.2 + - + +
783A ASP* 4.4 9.7 + - - +
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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