Contacts of the helix formed by residues 730 - 755 (chain B) in PDB entry 5QSY
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 PRO 730 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
676B LEU* 6.1 0.4 - - + -
688B ILE* 3.8 41.3 - - + -
692B LEU* 5.9 2.2 - - + -
728B ALA 3.6 8.5 - - - +
729B MET* 1.4 96.4 - - + +
731B GLU* 1.3 66.2 + - + +
732B GLN* 3.2 6.1 - - + +
733B ILE* 3.0 26.1 + - + +
734B VAL* 3.1 10.0 + - - +
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Residues in contact with GLU 731 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
729B MET 3.4 3.6 + - - -
730B PRO* 1.3 70.9 - - + +
732B GLN* 1.3 80.6 + - + +
734B VAL* 3.1 5.6 + - - +
735B VAL* 2.7 36.9 + - - +
784B ASN* 3.7 35.2 - - + +
786B PRO* 3.5 33.6 - - - +
787B VAL* 3.7 17.8 - - + +
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Residues in contact with GLN 732 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
692B LEU* 3.7 27.3 - - + +
696B LYS* 5.7 6.9 - - - +
730B PRO* 3.2 3.4 - - + +
731B GLU* 1.3 105.0 - - + +
733B ILE* 1.3 58.2 + - - +
735B VAL* 3.9 15.6 - - - +
736B GLN* 2.9 51.1 + - - +
786B PRO* 5.0 3.1 - - - +
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Residues in contact with ILE 733 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
676B LEU* 4.8 3.1 - - + -
688B ILE* 3.7 42.0 - - + +
691B VAL* 3.9 24.2 - - + -
692B LEU* 3.8 28.5 - - + +
695B LEU* 3.5 5.5 - - + +
719B LEU* 4.2 14.6 - - + -
729B MET* 3.7 26.7 - - + -
730B PRO* 3.0 21.6 + - + +
732B GLN* 1.3 73.8 - - - +
734B VAL* 1.3 65.8 + - - +
737B ALA* 3.0 23.2 + - - +
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Residues in contact with VAL 734 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
719B LEU* 5.4 1.1 - - - +
720B LEU* 3.5 25.4 - - + +
723B GLY* 5.2 5.6 - - - -
729B MET* 3.7 29.8 - - + +
730B PRO 3.1 14.0 + - - +
731B GLU* 3.1 8.2 + - - +
733B ILE* 1.3 78.3 - - - +
735B VAL* 1.3 56.9 + - - +
737B ALA 3.4 0.3 + - - -
738B LEU* 2.9 34.6 + - + +
779B CYS* 4.3 6.1 - - - -
782B ASN* 4.6 11.7 - - - +
787B VAL* 3.5 32.8 - - + -
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Residues in contact with VAL 735 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
731B GLU 2.7 21.3 + - - +
732B GLN* 3.9 17.5 - - - +
734B VAL* 1.3 70.0 - - - +
736B GLN* 1.3 79.3 + - - +
738B LEU* 3.2 9.7 + - - +
739B GLN* 3.0 21.0 + - + +
786B PRO* 4.0 10.8 - - + -
787B VAL* 3.8 33.4 - - + +
790B GLN* 3.9 28.7 - - + +
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Residues in contact with GLN 736 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
692B LEU* 4.0 16.8 - - + -
695B LEU* 3.8 21.3 - - + -
696B LYS* 3.7 29.0 - - + +
699B THR* 3.3 32.5 + - - +
732B GLN* 2.9 34.4 + - - +
735B VAL* 1.3 83.5 - - - +
737B ALA* 1.3 51.6 + - - +
739B GLN* 2.9 9.6 + - - +
740B CYS* 2.7 34.7 + - - +
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Residues in contact with ALA 737 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
695B LEU* 3.6 13.7 - - + +
716B CYS* 3.9 23.2 - - + +
719B LEU* 4.6 9.0 - - + -
720B LEU* 3.9 19.7 - - + -
733B ILE 3.0 21.3 + - - +
734B VAL* 3.7 3.6 - - - +
736B GLN* 1.3 75.1 - - - +
738B LEU* 1.3 58.7 + - - +
741B SER* 2.7 34.8 + - - -
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Residues in contact with LEU 738 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
720B LEU* 3.9 16.7 - - + +
734B VAL* 2.9 31.8 + - + +
735B VAL* 3.3 9.2 - - - +
737B ALA* 1.3 77.3 - - - +
739B GLN* 1.3 62.6 + - - +
742B HIS* 3.1 19.9 + - - +
772B PHE* 3.3 21.8 - - + -
775B VAL* 4.4 7.2 - - + -
776B CYS* 3.6 31.0 - - - -
779B CYS* 4.3 13.2 - - - -
787B VAL* 4.3 7.6 - - + +
790B GLN* 4.0 17.0 - - + -
791B ALA* 4.2 14.8 - - - +
794B LEU* 3.7 11.7 - - + -
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Residues in contact with GLN 739 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
699B THR* 3.9 9.9 - - + -
735B VAL 3.0 10.7 + - - +
736B GLN* 2.9 16.4 + - - +
738B LEU* 1.3 72.6 - - - +
740B CYS* 1.3 63.2 + - - +
742B HIS* 3.3 29.1 + - - +
743B TYR* 3.0 64.7 + - + +
790B GLN* 3.1 29.6 + - - +
794B LEU* 3.9 7.0 - - - +
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Residues in contact with CYS 740 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
669B PHE* 6.4 0.2 - - - -
695B LEU* 4.2 5.6 - - + -
698B LEU* 5.0 0.9 - - - -
699B THR* 3.5 33.7 - - - +
702B HIS* 3.9 20.3 - - - -
712B LEU* 4.1 18.4 - - - -
716B CYS* 3.7 27.6 - - - -
736B GLN 2.7 14.2 + - - +
737B ALA 4.0 0.4 - - - +
739B GLN* 1.3 73.4 - - - +
741B SER* 1.3 52.4 + - - +
743B TYR* 3.2 8.4 + - - +
744B SER* 2.9 33.0 + - - -
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Residues in contact with SER 741 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
713B PHE* 3.7 24.9 - - - +
716B CYS* 3.3 20.4 - - - +
717B TYR* 4.8 0.5 + - - -
720B LEU* 4.1 5.2 - - - +
737B ALA 2.7 19.4 + - - -
738B LEU 3.5 0.4 - - - -
740B CYS* 1.3 73.7 - - - +
742B HIS* 1.3 61.2 + - - +
744B SER* 3.3 5.8 + - - -
745B ILE* 2.9 31.9 + - - +
772B PHE* 3.3 29.3 - - - -
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Residues in contact with HIS 742 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
738B LEU 3.1 10.0 + - - +
739B GLN* 3.5 21.5 - - - +
741B SER* 1.3 77.6 - - - +
743B TYR* 1.3 63.7 + + - +
745B ILE* 3.1 6.7 + - - +
746B LEU* 2.8 55.3 + - + +
772B PHE* 3.9 9.8 - - + -
794B LEU* 3.4 31.8 - - + +
797B ASP* 3.1 29.7 + - + -
798B LEU* 3.7 37.7 - - + +
801B ILE* 4.5 0.2 - - + -
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Residues in contact with TYR 743 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
699B THR* 3.5 29.6 - - + -
700B SER* 5.5 0.7 - - - -
702B HIS* 3.6 23.8 - - + +
703B ASN* 3.7 43.8 + - + +
739B GLN* 3.0 60.2 + - + +
740B CYS* 3.6 5.4 - - - +
742B HIS* 1.3 77.0 - + - +
744B SER* 1.3 62.9 + - - +
746B LEU* 3.2 16.3 + - + +
747B TRP* 3.0 29.8 + - + -
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Residues in contact with SER 744 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
702B HIS* 3.5 21.6 + - - -
708B THR* 3.9 11.0 - - - +
712B LEU* 5.6 1.9 - - - +
713B PHE* 4.2 25.0 + - - +
740B CYS 2.9 14.1 + - - -
741B SER* 3.4 10.5 - - - -
743B TYR* 1.3 76.7 - - - +
745B ILE* 1.3 62.6 + - - +
747B TRP* 3.4 2.8 + - - +
748B GLN* 3.0 37.2 + - - +
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Residues in contact with ILE 745 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
713B PHE* 4.0 13.5 - - + -
741B SER 2.9 19.0 + - - +
742B HIS* 3.4 7.6 - - - +
744B SER* 1.3 71.4 - - - +
746B LEU* 1.3 66.3 + - + +
748B GLN* 2.9 11.5 + - - +
749B LEU* 2.9 19.9 + - - +
765B LEU* 4.7 3.5 - - + +
768B THR* 4.4 10.1 - - + -
769B VAL* 4.1 18.8 - - + -
772B PHE* 3.4 45.8 - - + -
798B LEU* 4.3 12.1 - - + -
802B PHE* 3.8 33.0 - - + -
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Residues in contact with LEU 746 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
742B HIS* 2.8 47.8 + - + +
743B TYR* 3.2 19.3 + - + +
745B ILE* 1.3 77.4 - - + +
747B TRP* 1.3 63.9 + - + +
749B LEU* 3.3 10.6 + - + +
750B VAL* 3.1 25.7 + - - +
797B ASP* 4.8 2.5 - - - +
798B LEU* 5.3 0.9 - - + -
801B ILE* 3.6 35.7 - - + -
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Residues in contact with TRP 747 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
702B HIS* 2.7 38.1 + + - -
703B ASN 3.5 10.4 + - - -
704B ALA* 3.5 22.2 - - - -
706B ASP* 3.4 48.0 - - + +
708B THR* 3.6 20.9 - - + -
743B TYR* 3.0 26.8 + - + +
744B SER 3.7 0.2 - - - +
746B LEU* 1.3 76.0 - - + +
748B GLN* 1.3 64.4 + - - +
750B VAL* 3.1 29.7 + - + +
751B LYS* 3.1 26.6 + - + +
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Residues in contact with GLN 748 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
708B THR* 4.0 16.1 - - + +
713B PHE* 5.2 4.0 - - - +
744B SER* 3.0 29.8 + - - +
745B ILE* 2.9 11.4 + - - +
747B TRP* 1.3 76.2 - - - +
749B LEU* 1.3 59.8 + - - +
751B LYS* 3.2 20.6 + - + +
752B ILE* 3.2 19.5 + - + +
764B VAL* 5.3 6.9 - - - +
765B LEU* 3.7 35.6 - - + +
768B THR* 4.7 15.7 + - - +
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Residues in contact with LEU 749 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
745B ILE 2.9 11.6 + - - +
746B LEU* 3.3 14.1 + - + +
748B GLN* 1.3 76.3 - - - +
750B VAL* 1.3 52.1 + - + +
752B ILE* 3.7 3.5 + - + +
753B THR* 2.7 60.1 + - + +
765B LEU* 4.1 6.3 - - + +
801B ILE* 3.4 33.7 - - + -
802B PHE* 3.9 28.7 - - + -
806B LEU* 4.0 18.4 - - + -
817B LEU* 4.3 16.2 - - + -
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Residues in contact with VAL 750 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
746B LEU 3.1 17.0 + - - +
747B TRP* 3.1 34.5 + - + +
749B LEU* 1.3 74.8 - - + +
751B LYS* 1.3 62.9 + - + +
753B THR* 3.4 7.7 + - - +
754B ASP* 2.9 47.5 + - + +
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Residues in contact with LYS 751 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
706B ASP* 3.9 16.8 + - - +
708B THR* 3.0 33.7 + - + +
709B LYS* 4.9 5.1 - - - +
747B TRP 3.1 18.9 + - - +
748B GLN* 3.2 11.8 + - + +
750B VAL* 1.3 78.1 - - + +
752B ILE* 1.3 58.4 + - + +
754B ASP* 5.4 0.9 - - - -
755B GLY* 3.1 26.2 + - - -
757B PRO* 5.8 0.2 - - - +
----------------------------------------------------------
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Residues in contact with ILE 752 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
748B GLN* 3.2 12.5 + - + +
749B LEU* 3.7 8.5 - - + +
751B LYS* 1.3 78.6 - - + +
753B THR* 1.3 67.6 + - + +
754B ASP 3.2 1.0 + - - -
755B GLY 3.4 16.5 - - - +
757B PRO* 3.9 23.7 - - + +
761B ASP* 4.5 14.4 - - + +
762B LEU* 4.1 11.0 - - + -
765B LEU* 3.2 42.8 - - + -
811B ARG* 3.6 5.5 + - - -
814B LEU* 3.8 27.6 - - + -
817B LEU* 4.1 10.8 - - + -
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Residues in contact with THR 753 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
749B LEU* 2.7 53.7 + - + +
750B VAL* 3.2 14.2 + - - +
752B ILE* 1.3 73.1 - - + +
754B ASP* 1.3 67.6 + - - +
755B GLY 4.5 0.3 - - - +
806B LEU* 4.3 7.2 - - + -
811B ARG* 3.5 24.3 + - - +
814B LEU* 3.8 21.1 - - + -
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Residues in contact with ASP 754 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
750B VAL* 2.9 28.5 + - + +
751B LYS* 5.4 0.7 - - - -
753B THR* 1.3 93.0 + - - +
755B GLY* 1.3 59.1 + - - +
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Residues in contact with GLY 755 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
751B LYS 3.1 19.6 + - - -
752B ILE 3.4 12.1 + - - +
754B ASP* 1.3 79.8 - - - +
756B SER* 1.3 63.0 + - - -
757B PRO* 3.8 2.1 - - - +
811B ARG* 3.9 10.2 + - - -
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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