Contacts of the helix formed by residues 747 - 766 (chain N) in PDB entry 5A31
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 LYS 747 (chain N).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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514N LEU* 5.3 15.9 - - + +
517N ASN* 5.9 1.2 + - - -
748N GLU* 1.3 62.1 + - - +
749N GLU* 3.5 4.7 - - - +
750N GLU* 3.1 17.5 - - - +
751N LEU* 2.9 28.9 + - - +
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Residues in contact with GLU 748 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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747N LYS* 1.3 74.1 - - - +
749N GLU* 1.3 69.0 + - - +
750N GLU 3.0 1.3 - - - -
751N LEU* 3.1 5.8 + - - +
752N LEU* 3.0 38.9 + - + +
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Residues in contact with GLU 749 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
747N LYS 3.5 2.6 - - - +
748N GLU* 1.3 81.7 + - - +
750N GLU* 1.3 56.0 + - - +
752N LEU* 4.0 5.1 - - - +
753N LEU* 3.0 31.0 + - - +
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Residues in contact with GLU 750 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
513N ASP* 5.7 1.8 - - - +
747N LYS* 3.1 21.4 - - - +
749N GLU* 1.3 79.3 - - - +
751N LEU* 1.3 57.8 + - - +
753N LEU* 3.0 7.2 + - - +
754N PHE* 2.9 48.2 + - + -
788N ALA* 4.2 18.6 - - + -
789N GLU 5.4 3.1 - - - +
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Residues in contact with LEU 751 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
747N LYS 2.9 17.9 + - - +
748N GLU* 3.1 4.4 + - - +
750N GLU* 1.3 69.2 - - - +
752N LEU* 1.3 61.4 + - - +
754N PHE* 3.4 16.0 + - + +
755N TRP 3.1 21.1 + - - -
794N GLU* 5.8 3.8 - - - +
798N TYR* 3.3 30.9 + - + -
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Residues in contact with LEU 752 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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748N GLU* 3.0 27.8 + - + +
749N GLU* 4.3 4.5 - - - +
751N LEU* 1.3 73.5 - - - +
753N LEU* 1.3 65.8 + - - +
755N TRP* 3.3 16.5 + - + +
756N THR* 3.1 25.2 + - - -
798N TYR* 4.9 8.1 - - - +
802N LYS* 5.7 1.8 - - - +
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Residues in contact with LEU 753 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
749N GLU 3.0 22.5 + - - +
750N GLU* 3.0 6.7 + - - +
752N LEU* 1.3 73.6 - - - +
754N PHE* 1.3 66.9 + - - +
756N THR* 3.2 14.7 + - + +
757N TYR* 3.0 48.2 + - + +
781N VAL* 4.2 9.0 - - + -
786N ALA* 3.7 30.1 - - + -
788N ALA* 5.5 1.8 - - + -
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Residues in contact with PHE 754 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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750N GLU* 2.9 34.9 + - + -
751N LEU* 3.5 13.7 - - + +
753N LEU* 1.3 76.0 - - - +
755N TRP* 1.3 57.9 + - - +
757N TYR* 3.1 5.1 + - - +
758N ILE* 2.8 43.6 + - + +
777N LEU* 3.9 22.9 - - + -
781N VAL* 3.3 33.2 - - + -
782N VAL* 4.8 0.9 - - + -
788N ALA* 3.8 26.2 - - + -
789N GLU 3.8 17.0 - - - -
790N ILE* 3.8 34.3 - - + -
794N GLU* 5.7 0.2 - - - -
798N TYR* 5.1 5.4 - + + -
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Residues in contact with TRP 755 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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751N LEU 3.1 7.2 + - - +
752N LEU* 3.7 18.4 - - + +
753N LEU 3.2 0.2 - - - -
754N PHE* 1.3 75.7 - - - +
756N THR* 1.3 64.5 + - - +
758N ILE* 3.8 31.8 - - + +
759N GLN* 2.9 69.0 + - + +
798N TYR* 3.3 19.7 + + + +
802N LYS* 3.5 29.4 - - + +
807N GLN* 3.7 49.4 + - + -
808N LEU* 3.8 22.9 - - + -
817N LEU* 4.5 3.1 - - + -
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Residues in contact with THR 756 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
752N LEU 3.1 14.8 + - - -
753N LEU* 3.2 19.9 + - + +
755N TRP* 1.3 78.1 - - - +
757N TYR* 1.3 64.7 + - + +
759N GLN* 3.5 12.5 + - - +
760N ALA* 3.1 21.5 + - + +
43Q MET* 5.4 12.8 - - + -
53Q PHE* 6.5 0.9 - - + -
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Residues in contact with TYR 757 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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753N LEU* 3.0 50.8 + - + +
754N PHE 3.1 6.5 + - - +
756N THR* 1.3 79.9 - - + +
758N ILE* 1.3 57.9 + - - +
760N ALA* 3.2 6.7 + - - +
761N MET* 2.9 37.5 + - + +
776N MET 5.9 0.2 - - - -
777N LEU* 4.0 13.7 - - + -
780N PHE* 3.7 27.0 + + + -
781N VAL* 3.5 31.4 - - + -
785N PRO* 5.3 4.9 - - - +
786N ALA* 5.6 2.4 - - - +
36Q GLN* 5.4 2.4 + - - -
39Q LEU* 5.2 9.3 - - + +
53Q PHE* 4.4 28.5 - + - -
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Residues in contact with ILE 758 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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754N PHE* 2.8 28.7 + - + +
755N TRP* 3.7 27.6 - - + +
757N TYR* 1.3 73.1 - - - +
759N GLN* 1.3 65.9 + - - +
761N MET* 3.3 9.8 + - - +
762N LEU* 3.0 41.5 + - + +
773N ILE* 4.1 19.5 - - + -
777N LEU* 4.2 21.8 - - + -
795N LEU* 4.3 6.3 - - + -
798N TYR* 4.4 11.9 - - + -
799N LEU* 3.9 29.8 - - + -
808N LEU* 4.7 1.1 - - + -
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Residues in contact with GLN 759 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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755N TRP* 2.9 75.7 + - + +
756N THR* 3.7 10.9 + - - +
758N ILE* 1.3 76.9 - - - +
760N ALA* 1.3 57.0 + - - +
763N THR* 2.7 34.1 + - - +
817N LEU* 3.6 19.7 - - + +
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Residues in contact with ALA 760 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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756N THR 3.1 15.0 + - - +
757N TYR 3.2 6.2 + - - +
759N GLN* 1.3 73.1 - - - +
761N MET* 1.3 66.6 + - - +
763N THR* 3.6 5.8 - - - -
764N ASN* 2.7 39.7 + - - +
53Q PHE* 4.3 33.7 - - + -
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Residues in contact with MET 761 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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757N TYR* 2.9 29.3 + - + +
758N ILE* 3.4 9.2 - - - +
760N ALA* 1.3 75.5 - - - +
762N LEU* 1.3 59.6 + - + +
764N ASN* 5.3 0.2 - - - -
765N LEU* 2.9 42.3 + - + +
768N LEU* 3.5 27.6 - - + -
773N ILE* 4.1 22.0 - - - -
776N MET* 3.7 38.6 - - + -
777N LEU* 3.8 30.3 - - + +
780N PHE* 6.1 1.3 - - + -
53Q PHE* 5.8 1.9 - - - -
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Residues in contact with LEU 762 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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758N ILE* 3.0 30.0 + - + +
761N MET* 1.3 77.2 - - + +
763N THR* 1.3 60.9 + - - +
766N GLU* 2.9 31.7 + - - +
767N SER* 4.0 6.1 - - - -
768N LEU* 3.8 31.2 - - + +
773N ILE* 4.9 3.8 - - + -
808N LEU* 3.6 30.5 - - + -
815N TYR* 3.5 29.6 - - + +
816N ARG* 4.2 9.0 - - - +
817N LEU* 3.7 25.8 - - + +
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Residues in contact with THR 763 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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759N GLN* 2.7 24.4 + - - +
760N ALA* 3.6 7.1 - - - -
762N LEU* 1.3 78.8 - - - +
764N ASN* 1.3 71.8 + - - +
766N GLU* 4.4 2.9 + - - +
817N LEU* 3.5 15.5 - - - +
80Q LYS* 6.1 3.1 - - - +
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Residues in contact with ASN 764 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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760N ALA* 2.7 34.8 + - - +
761N MET* 4.3 0.9 - - - +
763N THR* 1.3 90.5 - - - +
765N LEU* 1.3 72.9 + - + +
766N GLU* 3.5 1.0 - - - +
53Q PHE* 4.6 19.7 - - - +
54Q PRO 5.5 4.0 + - - +
55Q GLU* 6.1 2.5 - - - -
56Q SER 5.9 2.9 - - - +
63Q VAL* 4.8 20.2 - - + +
80Q LYS* 5.6 4.5 + - - -
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Residues in contact with LEU 765 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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761N MET* 2.9 26.2 + - + +
764N ASN* 1.3 86.2 - - + +
766N GLU* 1.3 58.2 + - - +
767N SER* 2.9 20.0 + - - +
768N LEU* 4.2 21.0 - - + +
772N ARG* 4.6 9.5 + - - +
776N MET* 3.5 38.6 - - + -
55Q GLU* 6.1 1.3 - - + -
56Q SER* 4.2 28.0 - - - +
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Residues in contact with GLU 766 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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761N MET 4.1 0.2 + - - -
762N LEU* 2.9 25.3 + - - +
763N THR 4.9 2.5 - - - +
764N ASN 3.5 2.7 - - - +
765N LEU* 1.3 77.3 - - - +
767N SER* 1.3 57.8 + - - +
816N ARG* 3.3 25.1 - - - +
817N LEU 4.7 1.9 + - - -
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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
------------------------------------------------------------
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