Contacts of the helix formed by residues 709 - 737 (chain M) in PDB entry 3HOU
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 709 (chain M).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
704M ALA* 4.4 2.0 - - - +
708M MET* 1.3 76.4 - - - +
710M LEU* 1.3 87.4 + - + +
711M ARG* 3.2 14.8 - - + +
712M GLU* 3.1 33.8 + - - +
713M SER* 2.8 25.3 + - - -
93U LYS* 3.2 36.1 + - - +
94U ASP* 3.7 8.8 - - - +
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Residues in contact with LEU 710 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
697M ALA 6.0 1.3 - - - +
700M ASN* 4.2 13.2 - - - +
702M LEU* 4.3 20.1 - - + +
704M ALA* 4.4 20.3 - - + +
709M THR* 1.3 84.4 - - + +
711M ARG* 1.3 52.7 + - - +
713M SER* 3.4 4.5 + - - -
714M PHE* 2.6 34.7 + - - +
94U ASP* 2.9 29.2 - - + +
95U THR 3.7 3.6 - - - +
96U SER* 3.3 33.0 - - - -
97U MET* 3.7 14.8 - - + +
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Residues in contact with ARG 711 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
709M THR* 3.2 6.7 - - + +
710M LEU* 1.3 73.6 - - + +
712M GLU* 1.3 67.1 + - + +
714M PHE* 2.8 18.6 + - + +
715M GLU* 3.0 21.6 + - + +
792M TYR* 3.9 14.5 + - + -
87U GLN* 2.5 38.4 + - - +
88U SER 5.5 1.8 + - - -
90U GLN 5.1 1.4 + - - -
92U ARG 3.9 6.7 + - - -
93U LYS* 3.8 10.1 - - - +
95U THR* 3.0 52.9 - - - +
96U SER 3.9 10.3 + - - -
97U MET* 3.6 22.2 - - + +
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Residues in contact with GLU 712 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
707M GLY 4.0 4.9 - - - +
708M MET* 3.4 21.3 - - + +
709M THR* 3.1 38.8 + - - +
710M LEU 3.4 0.4 - - - -
711M ARG* 1.3 81.8 - - + +
713M SER* 1.3 62.1 + - - +
714M PHE 3.1 0.3 + - - -
715M GLU* 4.0 4.0 - - - +
716M ASP* 3.1 21.7 + - - +
1281M ARG* 4.6 17.5 + - - -
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Residues in contact with SER 713 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
702M LEU* 5.6 2.5 - - - -
703M THR 4.9 1.1 - - - -
704M ALA* 4.6 2.0 - - - -
705M LYS* 3.2 36.7 + - - +
708M MET* 3.1 22.0 - - - +
709M THR 2.8 21.1 + - - -
710M LEU* 3.7 5.6 - - - -
712M GLU* 1.3 76.2 - - - +
714M PHE* 1.3 55.9 + - - +
716M ASP* 3.9 7.3 - - - +
717M ASN* 2.6 38.7 + - - -
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Residues in contact with PHE 714 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
690M VAL* 5.7 0.2 - - + -
693M VAL* 3.8 33.7 - - + -
694M THR* 3.7 30.1 - - + -
697M ALA* 4.3 3.1 - - + -
702M LEU* 4.5 5.2 - - + -
710M LEU 2.6 18.7 + - - +
711M ARG* 2.8 10.8 + - + +
713M SER* 1.3 73.1 - - - +
715M GLU* 1.3 93.2 + - + +
717M ASN* 3.1 10.3 + - - +
718M VAL* 3.0 41.5 + - + +
774M ARG* 5.2 0.2 - - - -
792M TYR* 3.9 26.5 - + + -
97U MET* 3.3 34.1 - - + -
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Residues in contact with GLU 715 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
711M ARG* 3.0 16.0 + - + +
712M GLU* 4.0 3.8 - - - +
714M PHE* 1.3 99.1 - - + +
716M ASP* 1.3 65.9 + - - +
718M VAL* 2.7 17.5 + - - -
719M VAL* 2.7 21.4 + - + +
773M LYS* 5.8 1.4 - - - +
774M ARG* 2.8 57.6 + - - +
792M TYR* 3.9 12.3 - - + -
797M LYS* 4.2 6.0 - - - -
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Residues in contact with ASP 716 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
705M LYS* 4.4 6.8 + - - -
708M MET* 4.7 17.3 - - - +
712M GLU 3.1 15.2 + - - +
713M SER* 3.9 9.9 - - - +
715M GLU* 1.3 77.3 - - - +
717M ASN* 1.3 67.5 + - - +
719M VAL* 4.1 4.8 - - - +
720M ARG* 2.8 43.0 + - - +
1093M LYS* 5.2 9.3 + - - +
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Residues in contact with ASN 717 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
693M VAL* 4.5 12.2 - - + +
702M LEU* 5.8 4.6 - - - +
705M LYS* 2.9 34.4 + - - +
713M SER* 2.6 25.1 + - - -
714M PHE* 3.1 7.9 + - - +
716M ASP* 1.3 73.4 + - - +
718M VAL* 1.3 69.3 + - - +
720M ARG* 3.0 26.0 + - - +
721M PHE* 3.2 37.9 + - + -
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Residues in contact with VAL 718 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
690M VAL* 3.4 29.4 - - + -
693M VAL* 4.8 2.7 - - + -
714M PHE* 3.0 53.1 + - + +
715M GLU* 2.7 15.9 + - - +
717M ASN* 1.3 70.0 - - - +
719M VAL* 1.3 52.6 + - - +
721M PHE* 2.7 31.4 + - - +
722M LEU* 2.8 24.8 - - + +
774M ARG* 3.8 27.8 - - - +
792M TYR 5.4 1.1 - - - +
794M PRO* 6.0 0.2 - - + -
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Residues in contact with VAL 719 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
715M GLU* 2.7 21.6 + - + +
716M ASP* 4.1 4.7 - - - +
718M VAL* 1.3 73.4 - - - +
720M ARG* 1.3 60.4 + - - +
721M PHE 2.8 6.1 + - - -
722M LEU* 3.1 11.1 + - - +
723M ASN* 3.1 44.5 + - - +
767M GLN* 5.2 9.2 - - + -
772M GLY 5.9 2.5 - - - +
773M LYS* 6.5 0.2 - - - -
774M ARG* 3.5 31.9 - - + +
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Residues in contact with ARG 720 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
705M LYS* 4.6 5.4 - - - +
716M ASP* 2.8 37.2 + - - +
717M ASN* 3.0 34.2 + - - +
718M VAL 3.2 0.2 - - - -
719M VAL* 1.3 81.6 - - - +
721M PHE* 1.3 72.6 + - - +
723M ASN* 4.5 5.2 - - - +
724M GLU* 2.6 52.0 + - + +
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Residues in contact with PHE 721 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
686M ALA* 4.2 16.5 - - + +
689M LYS* 3.3 50.7 - - + -
690M VAL* 4.0 12.3 - - + -
693M VAL* 3.3 34.5 - - + -
717M ASN* 3.2 24.7 - - + -
718M VAL* 2.7 21.4 + - - +
720M ARG* 1.3 95.3 - - - +
722M LEU* 1.3 54.8 + - + +
724M GLU* 3.6 12.1 - - - +
725M ALA* 2.7 36.9 + - - +
----------------------------------------------------------
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Residues in contact with LEU 722 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
686M ALA* 5.3 3.6 - - + +
690M VAL* 4.6 6.1 - - + -
718M VAL* 2.8 51.1 - - + +
719M VAL* 3.6 9.2 - - + +
721M PHE* 1.3 76.0 - - + +
723M ASN* 1.3 60.7 + - - +
725M ALA* 3.2 6.9 - - - +
726M ARG* 2.8 29.5 + - - +
767M GLN* 3.5 16.8 - - + +
774M ARG* 4.9 2.7 - - - +
794M PRO* 3.3 31.6 - - + -
799M PHE* 3.3 45.9 - - + -
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Residues in contact with ASN 723 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
719M VAL* 3.1 38.8 + - - +
720M ARG* 4.5 4.2 - - - +
722M LEU* 1.3 71.3 - - - +
724M GLU* 1.3 69.0 + - - +
725M ALA 2.9 2.0 + - - -
726M ARG* 2.9 29.3 + - - +
727M ASP* 2.8 35.1 + - - +
767M GLN* 4.2 17.5 + - - +
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Residues in contact with GLU 724 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
689M LYS* 4.0 14.9 + - - -
720M ARG* 2.6 40.1 + - + +
721M PHE* 3.6 22.0 - - - +
723M ASN* 1.3 78.6 - - - +
725M ALA* 1.3 63.9 + - - +
727M ASP* 3.9 7.5 + - - +
728M LYS* 3.4 19.3 + - - +
731M ARG* 4.1 3.5 + - - +
----------------------------------------------------------
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Residues in contact with ALA 725 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
682M THR* 4.1 13.7 - - - +
683M ILE* 4.9 6.5 - - + -
685M GLU* 5.8 0.7 - - - -
686M ALA* 3.3 27.6 - - + -
721M PHE 2.7 23.5 + - - +
722M LEU* 3.2 8.7 - - - +
723M ASN 2.9 0.6 + - - -
724M GLU* 1.3 71.4 - - - +
726M ARG* 1.3 65.5 + - - +
728M LYS* 2.8 20.9 + - - +
729M ALA* 3.0 13.0 + - - +
799M PHE* 5.3 4.5 - - + -
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Residues in contact with ARG 726 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
683M ILE* 5.9 0.9 - - - +
722M LEU 2.8 19.4 + - - +
723M ASN* 2.9 32.3 + - - +
725M ALA* 1.3 70.7 - - - +
727M ASP* 1.3 94.7 + - - +
729M ALA* 2.9 12.3 + - - +
730M GLY* 2.8 20.8 + - - -
756M ILE* 4.1 25.9 - - - +
759M ALA* 5.7 5.2 - - + +
760M GLN* 5.6 2.0 - - - +
763M ALA* 5.2 0.2 - - - +
764M CYS* 3.5 30.5 - - - +
765M VAL 3.5 8.9 + - - -
766M GLY* 3.5 27.8 - - - -
767M GLN 4.6 4.0 + - - +
799M PHE* 4.7 2.8 - - + -
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Residues in contact with ASP 727 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
723M ASN* 2.8 22.0 + - - +
724M GLU* 3.9 4.9 - - - +
726M ARG* 1.3 102.3 + - - +
728M LYS* 1.3 57.7 + - - +
730M GLY* 3.2 1.9 + - - -
731M ARG* 2.8 49.1 + - - +
755M PHE* 3.5 20.6 - - + -
756M ILE* 5.9 0.2 - - - +
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Residues in contact with LYS 728 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
682M THR* 3.4 26.0 - - + +
685M GLU* 4.4 16.7 + - - -
724M GLU* 3.4 9.1 + - - +
725M ALA* 2.8 11.7 + - - +
727M ASP* 1.3 73.2 - - - +
729M ALA* 1.3 67.1 + - - +
730M GLY 2.9 1.9 + - - -
731M ARG* 2.9 28.9 + - - +
732M LEU* 2.8 40.9 + - + +
----------------------------------------------------------
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Residues in contact with ALA 729 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
679M ILE* 3.5 32.8 - - + +
682M THR* 4.3 6.0 - - + +
683M ILE* 4.6 7.9 - - + -
725M ALA 3.0 9.9 + - - +
726M ARG* 2.9 14.5 + - - +
728M LYS* 1.3 75.2 - - - +
730M GLY* 1.3 63.8 + - - +
732M LEU* 3.2 21.8 - - - +
733M ALA 3.4 4.3 + - - -
763M ALA* 3.4 16.4 - - + +
764M CYS* 4.3 8.5 - - + -
----------------------------------------------------------
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Residues in contact with GLY 730 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
726M ARG 2.8 12.5 + - - -
727M ASP 3.5 3.4 - - - -
728M LYS 2.9 1.0 - - - -
729M ALA* 1.3 73.4 - - - +
731M ARG* 1.3 54.2 + - - -
732M LEU 2.6 16.2 + - - -
733M ALA* 2.7 15.2 + - - +
734M GLU* 2.9 10.3 + - - -
755M PHE* 3.8 14.4 - - - -
759M ALA* 4.3 13.2 - - - -
763M ALA* 3.7 13.9 - - - +
----------------------------------------------------------
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Residues in contact with ARG 731 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
724M GLU 4.1 4.2 + - - -
727M ASP* 2.8 28.4 + - - +
728M LYS* 2.9 54.3 - - - +
730M GLY* 1.3 69.4 - - - -
732M LEU* 1.3 62.0 + - + +
734M GLU* 3.9 13.2 - - - +
735M VAL* 3.0 32.7 + - + +
755M PHE* 3.4 25.0 - - + -
----------------------------------------------------------
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Residues in contact with LEU 732 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
675M THR* 3.9 7.5 - - + +
678M GLU* 3.6 38.1 - - + +
679M ILE* 3.9 21.5 - - + -
682M THR* 3.7 24.2 - - - +
728M LYS* 2.8 31.2 + - + +
729M ALA* 3.2 11.7 - - - +
730M GLY 2.6 4.9 + - - -
731M ARG* 1.3 76.4 - - - +
733M ALA* 1.3 63.6 + - - +
735M VAL* 3.2 4.3 + - - +
736M ASN* 3.1 20.6 + - - +
----------------------------------------------------------
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Residues in contact with ALA 733 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
671M ALA* 4.1 21.5 - - + -
675M THR* 4.1 3.8 - - - +
679M ILE* 4.3 8.1 - - + -
729M ALA 3.4 6.0 + - - +
730M GLY 2.7 11.5 + - - +
732M LEU* 1.3 74.8 - - - +
734M GLU* 1.3 57.3 + - - +
736M ASN* 2.8 28.2 + - - +
737M LEU* 3.0 21.5 + - + +
758M ILE* 5.3 4.5 - - + +
759M ALA* 6.2 0.2 - - - -
762M SER* 4.5 11.7 - - - -
763M ALA* 4.4 9.4 - - + -
----------------------------------------------------------
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Residues in contact with GLU 734 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
730M GLY 2.9 13.9 + - - +
731M ARG* 3.9 16.8 - - - +
733M ALA* 1.3 76.6 - - - +
735M VAL* 1.3 65.1 + - + +
737M LEU* 3.7 18.1 + - - +
744M LYS* 3.9 19.0 - - - +
747M VAL* 5.7 3.3 - - - +
755M PHE* 3.3 44.2 - - + +
758M ILE* 4.4 26.0 - - + +
----------------------------------------------------------
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Residues in contact with VAL 735 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
731M ARG* 3.0 21.5 - - + +
732M LEU* 3.2 5.1 + - - +
733M ALA 3.0 0.4 - - - -
734M GLU* 1.3 81.7 - - + +
736M ASN* 1.3 61.6 + - - +
737M LEU 3.1 10.9 + - - +
744M LYS* 5.5 2.2 + - - +
19T ARG* 4.9 9.0 + - - -
----------------------------------------------------------
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Residues in contact with ASN 736 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
671M ALA* 3.9 6.1 - - - +
672M ASP* 2.9 43.1 + - - +
675M THR* 2.3 52.8 + - + +
732M LEU 3.1 5.0 + - - +
733M ALA* 2.8 8.8 + - - +
735M VAL* 1.3 77.8 - - - +
737M LEU* 1.3 61.3 + - - +
738M LYS* 3.5 13.7 + - - +
----------------------------------------------------------
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Residues in contact with LEU 737 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
668M ASP 4.6 7.9 - - - +
669M THR 5.7 1.3 - - - -
670M ILE 4.5 16.4 - - - +
671M ALA* 4.8 5.4 - - + -
733M ALA* 3.0 18.1 + - + +
734M GLU* 3.8 9.2 - - - +
735M VAL 3.1 6.7 - - - +
736M ASN* 1.3 86.5 - - - +
738M LYS* 1.3 68.3 + - - +
741M ASN* 3.2 29.4 - - - +
743M VAL* 5.8 1.6 - - + -
744M LYS* 3.4 30.5 + - + +
758M ILE* 3.4 39.0 - - + -
762M SER* 5.3 3.8 - - - +
19T ARG* 5.0 1.8 + - - -
----------------------------------------------------------
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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