Contacts of the helix formed by residues 703 - 732 (chain A) in PDB entry 3TE3
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 SER 703 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
701A TRP* 5.5 1.1 - - - -
702A VAL* 1.3 85.8 - - - +
704A GLY* 1.3 55.9 + - - +
705A GLU* 3.1 7.4 - - - +
706A GLU* 2.7 43.6 + - - +
707A PHE 3.1 3.1 + - - -
701C TRP* 5.0 2.3 - - - +
702C VAL* 4.5 0.2 - - - -
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Residues in contact with GLY 704 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
702A VAL 3.7 1.2 - - - -
703A SER* 1.3 72.3 - - - +
705A GLU* 1.3 56.7 + - - +
707A PHE* 3.3 3.3 + - - +
708A TYR* 2.9 26.7 + - - +
701C TRP* 4.5 16.1 - - - +
702C VAL* 3.4 24.9 - - - +
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Residues in contact with GLU 705 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
703A SER* 3.0 5.7 + - - -
704A GLY* 1.3 75.2 - - - +
706A GLU* 1.3 61.4 + - - +
708A TYR* 3.2 14.0 + - + +
709A MET* 2.9 43.0 + - + +
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Residues in contact with GLU 706 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
702A VAL 4.2 1.8 - - - +
703A SER* 2.7 34.2 + - - +
705A GLU* 1.3 77.8 - - + +
707A PHE* 1.3 63.3 + - - +
709A MET* 3.2 13.7 + - - +
710A LEU* 3.0 17.7 + - - +
707B PHE* 3.6 28.5 - - + -
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Residues in contact with PHE 707 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
702A VAL 5.3 1.3 - - - +
703A SER 3.1 3.2 + - - +
704A GLY 3.3 7.2 + - - +
706A GLU* 1.3 78.5 - - - +
708A TYR* 1.3 59.7 + - - +
710A LEU* 3.1 3.1 + - - +
711A THR* 2.9 41.9 + - - -
707B PHE* 4.1 23.9 - + + -
710B LEU* 5.2 0.4 - - + -
702C VAL* 3.8 30.3 - - + -
706C GLU* 3.4 54.3 - - + -
707C PHE* 3.8 24.9 - + + -
709C MET* 5.7 3.4 - - + -
710C LEU* 3.5 29.2 - - + -
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Residues in contact with TYR 708 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
704A GLY 2.9 14.6 + - - +
705A GLU* 3.2 15.5 + - + +
707A PHE* 1.3 76.7 - - - +
709A MET* 1.3 68.8 + - + +
711A THR* 3.2 12.5 + - + -
712A ARG* 3.0 64.0 + - + +
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Residues in contact with MET 709 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
705A GLU* 2.9 36.9 + - + +
706A GLU* 3.2 13.9 + - - +
708A TYR* 1.3 83.5 - - + +
710A LEU* 1.3 57.5 + - - +
712A ARG* 3.4 20.2 + - - +
713A ARG* 3.0 35.5 + - + +
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Residues in contact with LEU 710 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
706A GLU 3.0 12.5 + - - +
707A PHE* 3.1 7.6 + - - +
709A MET* 1.3 73.6 - - - +
711A THR* 1.3 66.3 + - - +
713A ARG* 3.1 27.1 + - + +
714A VAL* 2.9 27.8 + - - +
707B PHE* 3.4 30.1 - - + -
710B LEU* 4.2 23.8 - - + -
711B THR* 3.6 29.8 - - + +
714B VAL* 4.3 22.9 - - + -
710C LEU* 4.4 10.5 - - + -
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Residues in contact with THR 711 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
707A PHE* 2.9 33.3 + - - -
708A TYR* 3.4 17.7 - - + -
710A LEU* 1.3 75.4 - - - +
712A ARG* 1.3 64.2 + - + +
714A VAL* 3.0 8.8 + - - +
715A LEU* 2.9 23.2 + - + +
709C MET* 6.3 2.5 - - + -
710C LEU* 4.4 14.5 - - + +
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Residues in contact with ARG 712 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
708A TYR* 3.0 61.9 + - + +
709A MET* 3.4 19.9 - - - +
711A THR* 1.3 75.1 - - + +
713A ARG* 1.3 65.4 - - + +
715A LEU* 3.0 15.4 + - + +
716A GLN* 2.9 47.8 + - + +
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Residues in contact with ARG 713 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
709A MET* 3.0 22.1 + - + +
710A LEU* 3.1 30.8 + - - +
712A ARG* 1.3 75.5 - - + +
714A VAL* 1.3 57.6 + - - +
716A GLN* 3.4 17.0 + - - +
717A LEU* 2.9 29.5 + - - +
711B THR* 4.4 16.8 + - - +
714B VAL* 4.3 15.2 - - + +
715B LEU* 4.4 13.5 - - - +
718B GLU* 2.8 48.0 + - - +
729D ASP* 4.8 8.8 + - - -
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Residues in contact with VAL 714 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
710A LEU 2.9 20.0 + - - +
711A THR 3.0 6.7 + - - +
713A ARG* 1.3 77.3 - - - +
715A LEU* 1.3 56.8 + - - +
717A LEU* 3.3 10.1 + - + +
718A GLU* 2.9 32.6 + - - +
714B VAL* 4.3 14.4 - - + -
710C LEU* 3.8 31.9 - - + -
713C ARG* 4.4 11.0 - - + -
714C VAL* 4.1 17.9 - - + -
717C LEU* 3.9 22.7 - - + -
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Residues in contact with LEU 715 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
711A THR* 2.9 15.4 + - + +
712A ARG* 3.4 15.5 - - + +
714A VAL* 1.3 73.8 - - - +
716A GLN* 1.3 62.5 + - + +
718A GLU* 3.3 17.3 + - + +
719A THR* 2.6 42.0 + - - +
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Residues in contact with GLN 716 (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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712A ARG* 2.9 46.0 + - + +
713A ARG* 3.8 18.8 - - - +
715A LEU* 1.3 75.4 - - + +
717A LEU* 1.3 57.9 + - - +
719A THR* 3.2 8.3 + - - -
720A VAL* 2.9 37.0 + - + +
718B GLU* 5.4 1.6 - - - +
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Residues in contact with LEU 717 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
713A ARG 2.9 17.1 + - - +
714A VAL* 3.5 6.7 - - + +
716A GLN* 1.3 74.4 - - - +
718A GLU* 1.3 60.4 + - - +
720A VAL* 4.6 2.0 - - - -
721A LEU* 3.0 31.9 + - + +
714B VAL* 4.6 16.2 - - + +
717B LEU* 3.9 50.0 - - + +
718B GLU* 4.2 12.8 - - + -
721B LEU* 2.9 41.2 - - + +
714C VAL* 6.1 0.2 - - + -
717C LEU* 4.2 17.3 - - + -
721C LEU* 5.6 2.0 - - + -
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Residues in contact with GLU 718 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
714A VAL* 2.9 21.4 + - - +
715A LEU* 3.5 19.9 - - + +
717A LEU* 1.3 76.2 - - - +
719A THR* 1.3 57.6 + - - +
721A LEU* 3.3 7.9 + - + +
722A GLU* 2.9 29.7 + - - +
713C ARG* 2.6 42.3 + - - +
717C LEU* 3.6 23.6 - - + -
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Residues in contact with THR 719 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
715A LEU* 2.6 30.9 + - - +
716A GLN* 3.2 10.7 + - - -
718A GLU* 1.3 73.5 - - - +
720A VAL* 1.3 68.6 + - + +
722A GLU* 3.0 19.6 + - - +
723A GLY* 3.0 18.0 + - - -
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Residues in contact with VAL 720 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
716A GLN* 2.9 26.0 + - + +
717A LEU* 3.9 4.3 - - - +
719A THR* 1.3 72.8 - - + +
721A LEU* 1.3 59.5 + - - +
723A GLY* 3.0 4.9 + - - -
724A VAL* 2.9 27.2 + - + +
721B LEU* 3.5 26.0 - - + -
725B VAL* 4.0 19.5 - - + -
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Residues in contact with LEU 721 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
717A LEU* 3.0 22.3 + - + +
718A GLU* 3.3 7.0 - - + +
720A VAL* 1.3 73.2 - - - +
722A GLU* 1.3 64.9 - - - +
724A VAL* 3.2 19.3 - - + +
725A VAL* 2.9 32.6 + - + +
721B LEU* 4.0 8.3 - - + +
717C LEU* 4.0 31.2 - - + +
720C VAL* 4.0 22.4 - - + -
721C LEU* 3.9 27.6 - - + -
724C VAL* 4.4 14.1 - - + -
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Residues in contact with GLU 722 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
718A GLU 2.9 11.8 + - - +
719A THR* 3.2 21.0 - - - +
721A LEU* 1.3 74.6 - - - +
723A GLY* 1.3 63.2 + - - +
725A VAL* 3.3 7.4 + - - +
726A SER* 3.0 23.8 + - - -
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Residues in contact with GLY 723 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
719A THR 3.0 12.5 + - - -
720A VAL* 3.0 5.6 + - - -
722A GLU* 1.3 79.3 - - - +
724A VAL* 1.3 56.1 + - - +
726A SER* 3.0 9.5 - - - -
727A GLN* 2.9 27.8 + - - +
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Residues in contact with VAL 724 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
720A VAL* 2.9 19.6 + - + +
721A LEU* 3.2 27.8 - - + +
723A GLY* 1.3 70.5 - - - +
725A VAL* 1.3 70.5 + - - +
727A GLN* 4.1 5.6 - - - +
728A ILE* 2.9 30.6 + - + +
721B LEU* 4.3 8.5 - - + -
724B VAL* 4.3 12.6 - - + -
725B VAL* 3.6 32.5 - - + -
728B ILE* 4.9 9.0 - - + -
724C VAL* 4.3 16.8 - - + -
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Residues in contact with VAL 725 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
721A LEU* 2.9 26.3 + - + +
722A GLU* 3.6 9.0 - - - +
724A VAL* 1.3 77.0 - - - +
726A SER* 1.3 64.2 + - - +
728A ILE* 4.0 6.5 - - - +
729A ASP* 2.9 27.6 + - + +
720C VAL* 5.6 3.6 - - + -
724C VAL* 4.0 26.0 - - + -
727C GLN* 5.5 7.4 - - - +
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Residues in contact with SER 726 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
722A GLU* 3.0 13.7 + - - -
723A GLY* 3.0 14.4 - - - -
725A VAL* 1.3 76.7 - - - +
727A GLN* 1.3 64.3 + - - -
729A ASP* 3.0 7.3 + - - +
730A ALA* 3.0 24.4 + - - +
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Residues in contact with GLN 727 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
723A GLY 2.9 18.3 + - - +
724A VAL* 3.2 5.6 + - - +
726A SER* 1.3 73.2 + - - +
728A ILE* 1.3 57.2 + - - +
730A ALA* 3.6 9.9 + - - +
731A VAL* 2.9 34.0 + - + +
728B ILE* 3.7 29.2 + - + +
729B ASP* 5.8 3.2 + - - +
732B GLY* 4.6 17.4 - - - -
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Residues in contact with ILE 728 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
724A VAL 2.9 21.0 + - - +
725A VAL* 4.0 4.7 - - - +
727A GLN* 1.3 74.5 - - - +
729A ASP* 1.3 69.0 + - + +
731A VAL* 2.9 14.5 + - - +
732A GLY* 3.3 9.4 + - - -
724B VAL* 4.4 4.7 - - + -
728B ILE* 3.7 28.0 - - + -
724C VAL* 4.1 22.9 - - + +
727C GLN* 4.3 27.8 - - + +
728C ILE* 3.3 33.7 - - + +
731C VAL* 4.6 16.0 - - + +
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Residues in contact with ASP 729 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
725A VAL* 2.9 25.0 + - + +
726A SER* 3.5 4.3 - - - +
728A ILE* 1.3 80.0 - - - +
730A ALA* 1.3 62.5 + - - +
732A GLY* 3.7 10.6 + - - +
727C GLN* 5.9 2.5 - - - +
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Residues in contact with ALA 730 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
726A SER 3.0 14.8 + - - +
727A GLN* 3.9 13.9 - - - +
729A ASP* 1.3 76.7 - - - +
731A VAL* 1.3 65.2 + - - +
732A GLY 3.1 11.6 + - - +
733A SER 3.5 6.6 - - - +
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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
----------------------------------------------------------
727A GLN* 2.9 29.6 + - + +
728A ILE* 2.9 9.9 + - - +
730A ALA* 1.3 75.9 - - - +
732A GLY* 1.3 65.9 + - - +
733A SER* 2.9 12.3 + - - +
728B ILE* 4.0 15.3 - - + -
731B VAL* 4.3 15.9 - - + +
732B GLY* 4.8 10.5 - - - -
731C VAL* 3.5 33.7 - - + -
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Residues in contact with GLY 732 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
728A ILE 3.3 9.5 + - - -
729A ASP 3.7 7.2 + - - +
730A ALA 3.1 9.3 + - - +
731A VAL* 1.3 74.9 - - - +
733A SER* 1.3 70.6 + - - +
731C VAL* 4.9 9.1 - - - +
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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