Contacts of the helix formed by residues 731 - 748 (chain A) in PDB entry 5UT2
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 ASN 731 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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670A ILE* 3.7 19.8 - - - +
722A GLU* 6.1 0.4 - - - +
729A ASN 3.6 10.1 - - - +
730A LEU* 1.3 78.2 + - - +
732A LEU* 1.3 81.8 + - - +
733A ALA* 3.2 20.8 + - + +
734A THR* 3.0 23.6 + - - +
735A ASP 3.9 1.2 + - - -
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Residues in contact with LEU 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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664A LEU 5.1 0.2 - - - -
665A GLU* 4.2 28.7 - - + +
668A THR* 4.0 25.4 - - + -
669A LEU 3.8 36.8 - - - +
670A ILE* 3.7 13.8 - - + +
731A ASN* 1.3 81.9 + - - +
733A ALA* 1.3 62.5 + - - +
735A ASP* 3.1 24.6 + - + +
736A LYS* 3.7 19.8 + - - +
798A PHE* 5.4 0.5 - - - -
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Residues in contact with ALA 733 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
722A GLU* 4.8 1.1 - - - +
731A ASN* 3.2 16.0 + - + +
732A LEU* 1.3 76.0 - - - +
734A THR* 1.4 63.1 + - - +
736A LYS* 3.1 23.3 + - + +
737A TRP 3.2 4.5 + - - -
792A PRO* 3.6 41.7 - - + +
793A ASP* 5.7 1.1 - - - +
795A ARG* 2.9 21.0 + - - +
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Residues in contact with THR 734 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
672A GLY* 4.9 4.9 - - - +
704A ILE* 4.8 3.1 - - + -
720A PRO* 3.5 31.5 - - + +
722A GLU* 4.2 3.5 + - - -
723A CYS* 3.7 8.4 - - - -
729A ASN 4.0 2.1 + - - -
730A LEU* 3.6 29.3 - - + +
731A ASN* 3.0 30.0 + - - +
733A ALA* 1.4 76.7 - - - +
735A ASP* 1.3 69.0 + - - +
737A TRP* 3.1 6.8 + - - +
738A SER* 3.1 24.6 + - - +
795A ARG* 3.9 1.7 - - - +
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Residues in contact with ASP 735 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
661A MET* 3.6 26.8 - - + +
669A LEU 4.3 2.4 - - - +
670A ILE* 3.6 12.7 - - - +
671A HIS* 2.8 30.8 + - - +
672A GLY* 2.8 27.9 + - - -
674A VAL* 3.9 9.4 + - + +
731A ASN 4.8 0.3 - - - +
732A LEU* 3.1 14.7 + - + +
734A THR* 1.3 81.1 - - - +
736A LYS* 1.3 59.0 + - - +
737A TRP 3.3 0.2 - - - -
738A SER* 3.8 5.5 + - - +
739A PHE* 2.8 30.0 + - - +
798A PHE* 4.0 6.9 - - + -
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Residues in contact with LYS 736 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
665A GLU* 2.7 36.7 + - - +
732A LEU* 3.7 22.4 + - - +
733A ALA* 3.1 17.2 + - + +
735A ASP* 1.3 74.5 - - - +
737A TRP* 1.3 66.2 + - - +
739A PHE* 3.4 2.6 + - - +
740A GLY 3.1 16.6 + - - -
787A CYS* 3.3 15.4 - - + +
792A PRO 5.5 0.2 - - - +
795A ARG* 3.8 28.9 - - + +
796A PRO 3.0 29.2 - - - +
797A SER* 3.7 8.1 - - - +
798A PHE* 3.6 25.2 - - + +
801A ILE* 4.7 3.8 - - + -
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Residues in contact with TRP 737 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
717A PRO 2.8 25.8 + - - -
718A TRP 3.6 12.1 - - - -
720A PRO* 3.5 10.3 - - + +
721A PRO* 3.6 27.1 - - + -
733A ALA 3.2 2.0 + - - -
734A THR 3.1 9.0 + - - +
736A LYS* 1.3 79.3 - - - +
738A SER* 1.3 65.1 + - - +
740A GLY* 2.9 13.9 + - - -
741A THR* 3.1 10.9 + - - -
765A PHE* 5.9 0.9 - + - -
766A TYR* 3.3 30.0 + + - -
770A HIS 5.4 0.9 - - - -
771A GLN* 5.0 0.9 - - - -
787A CYS 3.6 10.0 + - - -
788A MET* 3.3 59.5 - - + +
789A ASP 3.5 20.6 - - - -
790A TYR* 3.9 20.0 - + - -
795A ARG* 3.5 21.5 - - - +
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Residues in contact with SER 738 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
672A GLY 5.4 3.1 + - - -
673A ASN* 5.5 0.3 - - - -
674A VAL* 3.5 31.8 + - - +
718A TRP* 2.7 27.9 + - - -
720A PRO* 4.3 0.2 - - - +
734A THR* 3.1 24.0 + - - +
735A ASP* 4.0 4.4 + - - -
737A TRP* 1.3 77.4 - - - +
739A PHE* 1.3 57.9 + - - +
741A THR* 3.1 7.4 + - - -
742A THR* 2.8 33.6 + - - -
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Residues in contact with PHE 739 (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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654A ALA 4.2 3.1 - - - -
657A LEU* 3.6 37.7 - - + -
658A ALA* 3.8 21.5 - - + -
661A MET* 4.2 3.8 - - + -
674A VAL* 4.2 11.7 - - + +
735A ASP 2.8 19.5 + - - +
736A LYS 3.4 3.8 - - - +
738A SER* 1.3 76.7 - - - +
740A GLY* 1.3 64.2 + - - +
742A THR* 3.1 2.8 + - - -
743A LEU* 2.9 54.8 + - + +
787A CYS* 3.8 17.5 - - - -
798A PHE* 3.5 24.7 - + + -
801A ILE* 3.6 31.4 - - + -
805A LEU* 4.6 2.5 - - + -
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Residues in contact with GLY 740 (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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736A LYS 3.1 8.1 + - - -
737A TRP 2.9 9.0 + - - -
739A PHE* 1.3 77.8 - - - +
741A THR* 1.3 63.0 + - - +
743A LEU* 3.2 6.8 + - - +
744A TRP 3.0 17.7 + - - -
784A ILE* 3.6 16.2 - - - +
787A CYS* 3.8 19.5 - - - -
788A MET* 4.0 11.4 - - - -
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Residues in contact with THR 741 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
717A PRO* 2.8 33.5 + - + +
718A TRP* 3.6 28.4 - - + +
737A TRP* 3.1 12.4 + - - -
738A SER 3.1 6.5 + - - -
740A GLY* 1.3 75.6 - - - +
742A THR* 1.3 58.1 + - - +
744A TRP* 3.2 8.2 + - - +
745A GLU* 3.0 25.9 + - - +
753A PRO* 3.7 23.6 - - + -
772A LEU* 4.5 2.2 - - + -
788A MET* 3.3 16.9 - - - +
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Residues in contact with THR 742 (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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657A LEU* 3.8 11.2 - - + -
674A VAL* 3.2 9.9 + - + +
675A CYS* 3.2 22.7 + - - -
676A ALA* 3.8 14.6 - - - +
679A ILE* 3.5 32.3 - - + -
718A TRP* 4.3 0.5 - - - -
738A SER 2.8 17.0 + - - -
739A PHE* 3.5 6.7 - - - -
741A THR* 1.3 74.5 - - - +
743A LEU* 1.3 60.2 + - - +
745A GLU* 3.0 11.7 + - - +
746A ILE* 2.9 30.0 + - + +
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Residues in contact with LEU 743 (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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654A ALA* 3.5 33.0 - - + -
657A LEU* 5.1 1.6 - - + -
739A PHE* 2.9 43.1 + - + +
740A GLY* 3.6 8.1 - - - +
742A THR* 1.3 75.7 - - - +
744A TRP* 1.3 64.0 + - - +
746A ILE* 3.2 14.7 + - + +
747A CYS* 2.9 28.8 + - - -
780A LEU* 4.4 14.8 - - + -
783A LEU* 3.6 37.0 - - + -
784A ILE* 3.7 17.7 - - + +
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Residues in contact with TRP 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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740A GLY 3.0 12.8 + - - +
741A THR 3.2 11.4 - - - +
743A LEU* 1.3 77.2 - - - +
745A GLU* 1.3 63.6 + - - +
747A CYS* 3.1 2.4 + - - +
748A SER* 2.7 51.7 + - - -
751A ASP* 3.6 22.7 - - + -
752A LYS 4.4 0.9 - - - -
753A PRO* 3.4 49.6 - - + -
772A LEU* 3.7 26.7 - - + +
773A PRO* 2.7 44.3 + - + -
775A PRO* 3.6 20.4 - - + +
784A ILE* 3.6 17.4 - - + +
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Residues in contact with GLU 745 (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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635A ASP* 4.5 0.7 - - - +
638A LEU* 3.9 1.5 - - - +
676A ALA* 2.8 45.2 + - + +
677A LYS 4.6 1.2 + - - -
718A TRP* 2.8 35.1 + - + -
741A THR 3.0 15.0 + - - +
742A THR* 3.0 12.1 + - - +
744A TRP* 1.3 81.3 - - - +
746A ILE* 1.3 65.1 + - - +
748A SER* 3.1 10.3 + - - +
750A GLY* 3.2 24.4 + - - -
751A ASP 3.9 16.6 - - - +
752A LYS* 3.7 18.0 + - - +
753A PRO* 4.0 10.8 - - + -
901A GOL 4.8 1.2 + - - -
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Residues in contact with ILE 746 (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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634A LEU* 4.0 20.9 - - + -
638A LEU* 3.7 25.6 - - + +
649A TRP* 4.9 1.6 - - + -
650A LYS* 3.3 48.7 - - + +
653A VAL* 3.9 22.7 - - + -
654A ALA 4.9 2.5 - - - +
657A LEU* 4.7 4.3 - - + -
676A ALA* 5.3 1.1 - - + -
679A ILE* 4.6 3.6 - - + -
742A THR* 2.9 30.3 + - + +
743A LEU* 3.2 28.5 + - + +
745A GLU* 1.3 76.5 - - + +
747A CYS* 1.3 62.7 + - - +
748A SER 3.5 0.3 + - - -
749A GLY 4.0 2.1 + - - -
780A LEU* 5.7 0.7 - - + -
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Residues in contact with CYS 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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647A ILE* 5.8 2.5 - - - -
650A LYS* 3.8 24.8 - - - +
743A LEU 2.9 20.8 + - - +
744A TRP 3.8 0.2 - - - +
746A ILE* 1.3 80.6 - - - +
748A SER* 1.3 58.4 + - - +
749A GLY 3.5 1.4 + - - -
775A PRO* 3.7 30.7 - - + +
776A LYS 5.0 0.5 + - - -
777A ALA* 3.8 22.0 + - - +
779A GLU 5.9 0.2 - - - -
780A LEU* 3.8 39.7 - - - -
784A ILE* 4.7 2.0 - - - -
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Residues in contact with SER 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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642A LYS* 5.0 1.4 - - - -
744A TRP* 2.7 61.5 + - - -
745A GLU 3.1 3.0 + - - -
747A CYS* 1.3 78.9 - - - +
749A GLY* 1.3 65.0 + - - +
750A GLY 3.1 1.3 - - - -
751A ASP* 3.0 27.1 + - - +
775A PRO* 3.7 10.3 - - - +
776A LYS 6.0 0.7 - - - +
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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
------------------------------------------------------------
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