Contacts of the helix formed by residues 724 - 737 (chain A) in PDB entry 1HWL
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 THR 724 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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717A VAL* 3.7 5.6 - - - -
718A ARG* 5.2 10.5 - - + +
723A THR* 1.3 87.8 + - - +
725A THR* 1.3 65.6 + - - +
726A GLU* 3.8 8.7 + - - +
727A ALA* 3.2 23.9 + - - +
728A MET* 3.1 25.8 + - - +
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Residues in contact with THR 725 (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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714A ALA* 4.7 0.2 - - - -
717A VAL* 3.8 15.0 - - - +
724A THR* 1.3 73.5 - - - +
726A GLU* 1.3 63.1 + - - +
728A MET* 3.2 7.7 + - - +
729A ILE* 3.0 42.7 + - + +
783A ALA* 4.4 5.2 - - + -
788A ASN 5.1 0.7 - - - +
789A GLU* 2.7 29.7 + - - +
790A ASP 3.6 20.6 - - - +
791A LEU* 3.4 23.7 + - + +
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Residues in contact with GLU 726 (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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724A THR* 3.2 8.4 - - - +
725A THR* 1.3 81.7 - - - +
727A ALA* 1.3 60.9 + - - +
729A ILE* 3.5 8.5 + - - +
730A GLU* 3.1 30.2 + - + +
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Residues in contact with ALA 727 (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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723A THR* 3.5 16.8 - - - +
724A THR* 3.2 17.9 + - - +
726A GLU* 1.3 75.7 - - - +
728A MET* 1.3 66.2 + - - +
730A GLU* 3.3 6.2 + - - +
731A VAL* 3.0 28.3 + - + +
858A ALA* 4.1 13.0 - - + +
681B LEU* 5.5 0.3 - - - +
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Residues in contact with MET 728 (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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717A VAL* 4.5 2.0 - - + -
721A LEU* 4.5 3.1 - - + -
723A THR* 3.8 13.2 - - + -
724A THR 3.1 17.1 + - - +
725A THR* 3.4 8.5 - - - +
727A ALA* 1.3 74.5 - - - +
729A ILE* 1.3 59.9 + - - +
731A VAL* 3.2 4.0 + - - +
732A ASN* 2.9 30.5 + - - +
781A MET* 3.9 22.6 - - + +
791A LEU* 3.6 32.3 - - + -
851A LEU* 3.5 33.4 - - + +
854A MET* 3.8 7.5 - - + +
855A ALA* 3.4 32.3 - - + +
858A ALA* 4.3 5.4 - - - +
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Residues in contact with ILE 729 (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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725A THR* 3.0 32.7 + - + +
726A GLU* 3.8 7.9 - - - +
727A ALA 3.3 0.2 - - - -
728A MET* 1.3 74.5 - - - +
730A GLU* 1.3 64.0 + - - +
732A ASN* 3.3 6.0 + - - +
733A ILE* 3.0 47.3 + - + +
781A MET* 4.2 11.7 - - - +
782A GLU* 3.5 13.9 - - - +
783A ALA* 3.2 36.8 - - + +
791A LEU* 4.1 10.5 - - + -
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Residues in contact with GLU 730 (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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726A GLU* 3.1 22.0 + - + +
727A ALA* 3.6 7.4 - - - +
729A ILE* 1.3 87.7 - - - +
731A VAL* 1.3 60.4 + - - +
733A ILE* 4.9 6.0 - - - +
734A ASN* 2.8 37.1 + - - +
595B ARG* 2.9 46.6 + - - +
681B LEU* 4.0 9.3 - - + +
782C GLU* 3.9 11.1 - - - +
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Residues in contact with VAL 731 (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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727A ALA 3.0 20.1 + - - +
728A MET* 3.7 4.5 - - - +
730A GLU* 1.3 74.6 - - - +
732A ASN* 1.3 58.5 + - - +
735A LYS* 2.9 47.1 + - + +
854A MET* 3.4 30.7 - - + +
857A LEU* 4.5 4.5 - - + -
858A ALA* 3.7 21.3 - - + +
681B LEU* 3.7 37.7 - - + +
682B ALA* 4.4 10.1 - - + -
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Residues in contact with ASN 732 (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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728A MET 2.9 17.0 + - - +
729A ILE 3.7 4.0 - - - +
731A VAL* 1.3 76.7 - - - +
733A ILE* 1.3 63.0 + - + +
736A ASN* 2.8 55.9 + - - +
737A LEU* 3.3 6.4 + - - +
779A THR* 3.0 33.6 + - - +
780A LEU* 3.6 3.8 - - - +
781A MET* 3.4 41.4 + - + +
854A MET* 3.4 12.1 - - + +
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Residues in contact with ILE 733 (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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729A ILE* 3.0 33.4 + - + +
730A GLU* 4.2 10.1 - - - +
732A ASN* 1.3 78.9 - - + +
734A ASN* 1.3 72.7 + - - +
737A LEU* 3.1 24.8 + - + +
738A VAL* 2.9 27.9 + - + +
781A MET 5.3 4.5 - - - +
733C ILE* 3.8 29.4 - - + -
737C LEU* 4.4 21.3 - - + -
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Residues in contact with ASN 734 (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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730A GLU* 2.8 33.8 + - - +
731A VAL 4.5 0.2 - - - +
733A ILE* 1.3 87.0 - - - +
735A LYS* 1.3 56.6 + - - +
738A VAL* 4.0 12.2 - - - +
739A GLY 3.2 7.8 + - - -
593B VAL* 4.4 5.2 - - + +
595B ARG* 3.8 20.8 + - - +
642B ASN* 2.7 30.8 + - - +
644B TYR* 2.7 29.0 + - - +
681B LEU* 3.6 21.1 - - + +
780C LEU* 5.3 2.8 - - - +
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Residues in contact with LYS 735 (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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731A VAL* 2.9 22.7 + - + +
734A ASN* 1.3 77.2 - - - +
736A ASN* 1.3 68.5 + - - +
737A LEU 3.3 1.1 - - - -
739A GLY* 3.3 3.6 + - - -
740A SER 3.2 25.1 + - - -
751A ALA* 3.6 23.6 - - - -
854A MET* 3.8 14.8 - - + -
857A LEU* 3.7 14.7 - - + +
1B FBI 2.7 28.4 + - - -
593B VAL* 5.2 2.9 - - + -
682B ALA* 5.3 0.9 - - + -
684B SER* 2.9 36.6 + - - +
685B GLY* 3.9 10.3 - - - -
686B ASN* 2.8 35.2 + - - +
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Residues in contact with ASN 736 (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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732A ASN* 2.8 37.7 + - - +
735A LYS* 1.3 89.8 - - - +
737A LEU* 1.3 59.6 + - + +
740A SER* 3.3 3.1 + - - -
749A TYR* 3.2 42.7 - - - +
750A ASN* 3.1 28.6 - - - +
751A ALA 3.4 8.9 + - - +
779A THR* 4.0 6.3 - - - +
850A GLU* 3.9 5.9 + - - -
854A MET* 3.6 21.4 - - - +
686B ASN* 3.3 9.2 + - - +
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Residues in contact with LEU 737 (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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732A ASN* 3.3 10.3 + - - +
733A ILE* 3.1 26.1 + - + +
736A ASN* 1.3 85.3 - - - +
738A VAL* 1.3 62.6 + - - +
740A SER* 3.5 1.2 + - - -
741A ALA* 2.9 30.1 + - - +
749A TYR* 4.1 8.9 - - + -
778A ILE* 4.1 20.2 - - + -
779A THR 4.7 3.4 - - - +
780A LEU* 4.0 24.2 - - + -
733C ILE* 4.3 15.7 - - + -
737C LEU* 4.4 23.1 - - + +
738C VAL* 4.0 24.9 - - + +
741C ALA* 5.7 0.4 - - + -
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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