Contacts of the helix formed by residues 714 - 737 (chain A) in PDB entry 4FYT
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 VAL 714 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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709A PHE* 3.6 44.0 - - + -
712A SER* 3.0 11.1 - - - +
713A GLU* 1.3 84.9 - - + +
715A TYR* 1.3 59.4 + - - +
717A PRO* 3.4 4.8 - - - +
718A MET* 3.0 24.5 + - + +
955A LYS* 3.8 24.9 - - + +
958A VAL* 3.8 18.8 - - + -
959A LEU* 4.0 19.3 - - + +
962A PHE* 3.9 11.4 - - + -
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Residues in contact with TYR 715 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
706A LYS* 3.6 33.4 + - + +
709A PHE 3.3 16.0 + - - +
710A ASP* 3.6 39.3 - - + -
712A SER 3.1 10.8 + - - +
714A VAL* 1.3 76.9 - - - +
716A GLY* 1.3 66.6 + - - +
718A MET* 3.3 25.9 + - + -
719A LYS* 2.9 52.1 + - + +
762A SER* 5.1 3.1 + - - -
763A ASN* 4.8 4.0 + - - -
1020A SO4 3.6 34.3 + - - -
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Residues in contact with GLY 716 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
712A SER 4.7 0.6 + - - -
713A GLU 4.0 2.2 + - - -
715A TYR* 1.3 79.1 - - - +
717A PRO* 1.3 64.2 - - - +
719A LYS* 3.2 11.1 + - - +
720A ASN* 2.8 38.7 + - - +
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Residues in contact with PRO 717 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
713A GLU 3.4 11.9 - - - +
714A VAL 3.4 9.2 - - - +
716A GLY* 1.3 89.6 - - - +
718A MET* 1.3 56.1 + - - +
720A ASN* 3.6 13.3 - - + +
721A TYR* 2.9 30.8 + - - +
959A LEU* 3.8 15.3 - - + +
962A PHE* 3.6 23.0 - - + +
963A THR* 3.6 28.3 - - + +
966A SER* 5.0 0.7 - - - +
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Residues in contact with MET 718 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
702A LEU* 3.5 34.8 - - + +
705A PHE* 3.8 23.1 - - + +
706A LYS* 3.6 18.6 - - + +
709A PHE* 5.0 4.0 - - - -
714A VAL* 3.0 16.4 + - + +
715A TYR* 3.3 28.0 + - + +
717A PRO* 1.3 76.6 - - - +
719A LYS* 1.3 62.4 + - - +
721A TYR* 3.2 3.8 + - - +
722A LEU* 3.0 45.7 + - + +
962A PHE* 3.6 31.9 - - + +
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Residues in contact with LYS 719 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
715A TYR* 2.9 56.2 + - + +
716A GLY* 3.6 9.4 - - - +
718A MET* 1.3 72.4 - - - +
720A ASN* 1.3 59.7 + - - +
722A LEU 3.3 0.5 + - - -
723A LYS* 2.8 31.4 + - - +
762A SER 3.8 20.3 + - - +
763A ASN* 3.4 33.7 - - - +
1020A SO4 2.6 32.5 + - - +
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Residues in contact with ASN 720 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
716A GLY* 2.8 29.9 + - - +
717A PRO* 3.6 12.6 - - - +
719A LYS* 1.3 72.5 - - - +
721A TYR* 1.3 62.6 + - - +
723A LYS* 3.5 14.2 + - - +
724A LYS* 3.0 24.9 + - - +
763A ASN 5.6 0.3 - - - +
966A SER* 3.7 20.9 + - - +
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Residues in contact with TYR 721 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
680A LEU* 5.6 1.1 - - + -
683A THR* 2.6 35.4 + - - -
684A LEU* 3.6 8.2 + - + +
702A LEU* 5.3 5.6 - - + -
717A PRO 2.9 16.7 + - - +
718A MET 3.5 3.6 - - - +
720A ASN* 1.3 76.9 - - - +
722A LEU* 1.3 71.2 + - + +
724A LYS* 3.2 4.9 + - + +
725A GLN* 2.9 72.8 + - + +
961A TRP* 3.5 29.4 - + - -
962A PHE* 3.6 30.7 - + + +
965A ASN* 3.5 26.0 - - + -
966A SER* 3.5 11.4 - - - +
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Residues in contact with LEU 722 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
695A TRP* 4.6 10.5 - - + -
699A LEU* 4.6 12.8 - - + -
702A LEU* 4.1 26.9 - - + -
718A MET* 3.0 41.5 + - + +
721A TYR* 1.3 82.6 - - + +
723A LYS* 1.3 65.6 + - - +
725A GLN* 3.3 5.7 + - + +
726A VAL* 3.0 29.9 + - - +
759A THR* 4.5 12.8 - - + -
763A ASN* 3.5 37.7 - - - +
962A PHE* 6.1 0.2 - - + -
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Residues in contact with LYS 723 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
719A LYS 2.8 18.3 + - - +
720A ASN* 3.5 14.4 - - + +
722A LEU* 1.3 75.0 - - - +
724A LYS* 1.3 61.7 + - - +
726A VAL* 3.8 2.0 - - - +
727A THR* 2.7 37.5 + - - +
763A ASN* 3.5 19.4 - - - +
764A GLY* 3.5 23.6 - - - +
765A VAL* 3.8 19.3 - - + -
766A PRO* 4.1 15.3 - - - +
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Residues in contact with LYS 724 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
684A LEU* 6.1 1.5 - - - +
687A ILE* 3.4 21.7 - - + +
720A ASN 3.0 13.8 + - - +
721A TYR 3.2 8.0 + - - +
723A LYS* 1.3 81.5 - - - +
725A GLN* 1.3 77.5 + - - +
726A VAL 3.3 0.3 + - - -
727A THR* 4.2 3.1 - - - -
728A PRO* 3.5 10.9 - - - +
965A ASN* 2.9 30.7 + - - +
966A SER* 3.6 18.6 - - - +
967A LYS* 2.8 25.9 + - - +
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Residues in contact with GLN 725 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
683A THR 3.0 18.7 + - - +
684A LEU* 3.0 30.1 + - - +
686A LEU* 4.1 1.9 - - + +
687A ILE* 3.4 49.3 - - - +
695A TRP* 3.5 21.2 - - + -
721A TYR* 2.9 54.1 + - + +
722A LEU* 3.3 8.5 + - + +
724A LYS* 1.3 88.6 - - - +
726A VAL* 1.3 59.6 + - - +
727A THR 3.5 0.2 - - - -
728A PRO* 4.2 1.7 - - - +
729A LEU* 5.1 1.2 + - - +
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Residues in contact with VAL 726 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
695A TRP* 3.9 20.2 - - + -
722A LEU 3.0 19.6 + - - +
723A LYS* 3.8 5.6 - - - +
725A GLN* 1.3 78.1 - - - +
727A THR* 1.3 69.0 + - - +
728A PRO* 3.4 2.0 - - - -
729A LEU* 3.2 7.8 + - + -
730A PHE* 2.9 19.8 + - - +
756A ALA* 3.8 31.4 - - + +
759A THR* 3.9 20.0 - - + -
760A ALA* 3.6 31.0 - - + +
765A VAL* 4.1 4.5 - - + -
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Residues in contact with THR 727 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
723A LYS* 2.7 30.0 + - - +
724A LYS* 4.2 3.1 - - - -
725A GLN 3.5 0.2 - - - -
726A VAL* 1.3 77.9 - - - +
728A PRO* 1.4 68.1 - - + +
730A PHE* 3.1 6.7 + - - +
731A ILE* 2.9 42.9 + - + +
765A VAL* 3.4 26.1 - - + +
767A GLU* 5.6 2.9 - - - +
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Residues in contact with PRO 728 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
687A ILE* 3.8 35.2 - - + +
724A LYS 3.5 13.0 - - - +
725A GLN 4.2 0.9 - - - +
726A VAL 3.7 2.0 - - - -
727A THR* 1.4 94.4 - - + +
729A LEU* 1.3 50.6 + - - +
731A ILE* 3.3 8.4 + - + +
732A HIS* 2.8 35.4 + - - +
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Residues in contact with LEU 729 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
686A LEU 5.7 0.2 - - - +
687A ILE 4.9 5.1 + - - +
689A GLU 3.9 15.9 - - - +
690A ARG* 3.9 24.9 - - + +
695A TRP* 3.6 39.7 - - + +
725A GLN 5.1 1.1 + - - +
726A VAL* 3.2 13.7 + - + +
728A PRO* 1.3 74.6 - - - +
730A PHE* 1.3 67.9 + - - +
732A HIS* 3.2 9.9 + - + +
733A PHE* 2.9 51.9 + - + -
752A SER* 4.3 10.5 - - - +
756A ALA* 3.7 21.5 - - + +
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Residues in contact with PHE 730 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
726A VAL 2.9 13.1 + - - +
727A THR* 3.5 9.0 - - - +
729A LEU* 1.3 76.0 - - - +
731A ILE* 1.3 73.5 + - + +
733A PHE* 3.2 5.3 + - - +
734A ARG* 2.9 30.9 + - - +
740A TRP* 3.5 37.2 - + - -
756A ALA* 4.2 15.9 - - + +
757A ILE* 4.3 6.5 - - + -
760A ALA* 3.7 24.9 - - + -
765A VAL* 4.3 9.9 - - + -
767A GLU* 3.7 27.1 - - + -
768A CYS* 3.6 37.7 - - + -
771A MET* 4.2 8.1 - - + -
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Residues in contact with ILE 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 THR* 2.9 33.4 + - + +
728A PRO* 3.7 6.1 - - + +
730A PHE* 1.3 88.2 - - + +
732A HIS* 1.3 66.7 + - - +
734A ARG* 3.3 42.8 + - - +
735A ASN* 3.0 24.9 + - + +
765A VAL* 6.0 0.2 - - + -
767A GLU* 4.7 14.1 - - + +
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Residues in contact with HIS 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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690A ARG* 3.4 57.8 + - - +
728A PRO 2.8 17.6 + - - +
729A LEU* 3.2 17.5 + - + +
731A ILE* 1.3 72.9 - - - +
733A PHE* 1.3 84.9 + + - +
735A ASN* 3.3 5.1 + - - +
736A ASN* 2.8 60.1 + - - +
1015A SO4 4.8 6.2 + - - -
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Residues in contact with PHE 733 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
690A ARG* 4.8 3.6 - - + -
729A LEU* 2.9 48.0 + - + +
730A PHE* 3.8 4.5 - - - +
732A HIS* 1.3 91.3 - + - +
734A ARG* 1.3 60.2 + - - +
736A ASN* 4.3 7.2 - - + -
737A THR* 2.7 42.2 + - + +
740A TRP* 3.9 16.4 - - + -
744A PRO* 4.2 13.9 - - + -
749A ASP* 3.9 13.9 - - + -
752A SER* 3.8 14.8 - - - -
753A GLU* 3.5 50.0 - - + -
756A ALA* 3.8 11.2 - - + -
757A ILE* 6.1 0.2 - - + -
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Residues in contact with ARG 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 PHE* 2.9 18.0 + - + +
731A ILE* 3.3 39.1 + - - +
733A PHE* 1.3 78.3 - - - +
735A ASN* 1.3 57.3 + - - +
737A THR* 3.5 0.3 + - - -
739A ASN* 2.8 64.8 + - - +
740A TRP* 3.5 31.5 - - + +
767A GLU* 3.8 27.3 + - - +
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Residues in contact with ASN 735 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
731A ILE* 3.0 17.7 + - + +
732A HIS* 3.7 4.9 - - - +
734A ARG* 1.3 80.0 - - - +
736A ASN* 1.3 67.0 + - - +
738A ASN* 3.2 14.7 + - - +
739A ASN 5.0 0.4 - - - +
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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
----------------------------------------------------------
732A HIS* 2.8 48.3 + - + +
733A PHE* 3.3 9.8 + - + +
735A ASN* 1.3 77.2 + - - +
737A THR* 1.3 60.3 + - + +
738A ASN* 3.2 3.4 + - - +
742A GLU* 3.8 10.4 - - - +
744A PRO* 6.1 1.6 - - - +
1021A SO4 3.6 37.4 + - - -
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Residues in contact with THR 737 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
733A PHE* 2.7 31.8 + - + +
734A ARG 3.5 2.3 + - - -
736A ASN* 1.3 77.9 - - + +
738A ASN* 1.3 65.5 + - - +
740A TRP* 2.8 30.5 + - - -
741A ARG 2.9 15.4 + - - -
742A GLU* 3.0 40.3 + - - +
743A ILE 5.2 0.4 - - - -
744A PRO* 4.5 9.6 - - + -
753A GLU* 3.6 25.8 - - - +
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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) + - + + + + + -
------------------------------------------------------------
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