Contacts of the helix formed by residues 738 - 755 (chain B) in PDB entry 1SO2
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 738 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
731B TYR* 3.4 15.3 - - - -
732B ARG 3.8 16.2 - - - +
733B ASP* 5.4 1.1 - - - +
734B ILE 2.7 29.5 + - - +
735B PRO 3.5 12.7 + - - -
736B TYR 2.7 20.3 + - - +
737B HIS* 1.3 73.5 - - - +
739B ARG* 1.3 61.5 + - + +
740B ILE* 3.1 38.1 + - + +
741B HIS* 3.1 9.0 + - - +
742B ALA 3.0 23.0 + - - -
951B TRP* 4.8 2.9 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 739 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
693B GLY* 2.9 38.3 + - - -
695B ILE* 4.4 13.5 - - + -
696B LEU* 4.2 10.3 - - + +
728B GLU* 3.0 25.5 + - + +
729B ASN* 2.7 41.6 + - - +
731B TYR* 2.8 42.3 + - + +
732B ARG 4.9 2.8 + - - -
733B ASP* 5.8 1.6 - - - +
738B ASN* 1.3 76.1 - - + +
740B ILE* 1.3 60.7 + - + +
742B ALA* 3.3 6.5 + - - +
743B THR* 2.8 31.3 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 740 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
681B ILE* 3.7 19.4 - - + +
682B PHE* 4.3 17.3 - - + -
685B VAL* 4.6 26.2 - - + -
695B ILE* 4.8 11.0 - - + -
738B ASN* 3.1 19.3 + - - +
739B ARG* 1.3 76.0 - - + +
741B HIS* 1.3 62.9 + - - +
743B THR* 3.0 8.1 + - - -
744B ASP* 2.7 27.9 + - - +
951B TRP* 3.5 20.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 741 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
473B MG 2.5 29.8 - - - -
736B TYR* 3.0 55.7 - + - +
737B HIS* 4.4 6.3 - + - -
738B ASN* 3.1 9.0 + - - +
740B ILE* 1.3 78.2 - - - +
742B ALA* 1.3 59.8 + - - +
744B ASP* 3.1 9.5 + - - +
745B VAL* 2.9 44.8 + - + +
821B HIS* 3.7 5.5 + + - -
822B ASP* 3.4 11.7 - - + -
936B ALA 5.2 0.2 - - - -
937B ASP* 3.2 25.8 + - - -
951B TRP* 3.6 19.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 742 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
696B LEU* 3.9 11.7 - - + +
731B TYR* 3.5 38.8 - - + +
738B ASN 3.0 6.2 + - - +
739B ARG 3.5 8.7 - - - +
741B HIS* 1.3 78.8 - - - +
743B THR* 1.3 56.5 + - - +
745B VAL* 3.5 1.6 + - - +
746B LEU* 2.9 29.8 + - - +
818B ALA 3.9 10.4 - - - +
819B ALA 3.9 8.5 - - - +
821B HIS* 4.5 9.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with THR 743 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
674B MET* 5.2 0.2 - - + -
679B PHE* 5.0 4.0 - - + -
681B ILE* 3.6 18.2 - - + -
695B ILE* 3.9 10.8 - - + +
696B LEU* 3.4 31.0 + - - +
699B VAL* 3.5 35.4 - - + -
739B ARG 2.8 21.4 + - - -
740B ILE* 3.0 10.1 + - - -
742B ALA* 1.3 77.3 - - - +
744B ASP* 1.3 57.6 + - - +
746B LEU* 3.3 3.7 + - - +
747B HIS* 2.8 28.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 744 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
679B PHE* 5.8 1.4 - - - -
681B ILE* 3.8 15.2 - - + +
740B ILE 2.7 11.8 + - - +
741B HIS* 3.2 16.3 + - - +
743B THR* 1.3 74.6 - - - +
745B VAL* 1.3 65.6 + - - +
747B HIS* 3.2 8.3 + - - +
748B ALA* 3.0 22.0 + - - +
936B ALA 4.6 1.4 - - - +
939B ASN* 2.7 26.8 + - - +
943B LYS* 3.2 21.7 + - - -
951B TRP* 3.9 32.7 + - + -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 745 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
741B HIS* 2.9 38.9 + - + +
742B ALA 3.9 4.5 - - - +
744B ASP* 1.3 75.3 - - + +
746B LEU* 1.3 63.9 + - - +
748B ALA* 3.2 2.4 + - - +
749B VAL* 3.0 22.2 + - - +
818B ALA* 3.9 15.0 - - + -
821B HIS* 3.5 29.2 - - + +
933B ILE* 4.2 14.4 - - + -
936B ALA* 3.7 35.0 - - + +
937B ASP* 3.7 6.1 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 746 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
696B LEU* 3.8 20.6 - - + -
699B VAL* 3.5 26.7 - - + -
700B MET* 2.9 43.5 - - + +
703B LEU* 3.7 15.3 - - + -
742B ALA 2.9 19.2 + - - +
743B THR 3.3 3.1 - - - +
745B VAL* 1.3 76.7 - - - +
747B HIS* 1.3 64.2 + - - +
749B VAL* 3.2 17.5 - - + +
750B TRP* 3.2 7.8 + - - +
815B TYR* 4.1 23.8 - - + +
818B ALA* 3.6 12.7 - - + +
819B ALA 5.0 1.1 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 747 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
674B MET* 2.9 53.0 + - + -
676B ASN 3.6 16.2 - - - -
677B TRP* 3.6 18.2 + + - -
679B PHE* 3.6 27.6 - + + +
699B VAL* 5.5 0.2 - - + -
703B LEU* 4.5 7.0 - - - -
743B THR 2.8 14.4 + - - +
744B ASP* 3.2 11.3 + - - +
746B LEU* 1.3 80.0 - - - +
748B ALA* 1.3 62.9 + - - +
750B TRP* 3.5 13.1 - + - -
751B TYR* 3.0 37.7 + + + +
943B LYS* 4.7 7.3 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 748 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
677B TRP* 4.4 17.7 - - + -
744B ASP 3.0 15.5 + - - +
745B VAL 3.2 0.4 + - - +
747B HIS* 1.3 80.7 + - - +
749B VAL* 1.3 60.4 + - - +
751B TYR* 3.9 4.2 - - - +
752B LEU* 2.9 35.3 + - + +
936B ALA* 3.4 28.9 - - + -
939B ASN* 3.9 11.0 - - - +
943B LYS* 5.2 1.6 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 749 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
745B VAL* 3.0 11.6 + - + +
746B LEU* 3.2 16.6 - - - +
748B ALA* 1.3 73.7 - - - +
750B TRP* 1.3 55.7 + - - +
753B THR* 2.6 40.6 + - - +
814B LEU* 4.0 20.9 - - + +
815B TYR* 3.7 20.0 - - + -
818B ALA* 3.9 15.0 - - + -
932B CYS* 4.0 13.0 - - - -
933B ILE* 3.8 25.8 - - + -
936B ALA* 3.7 21.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with TRP 750 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
671B ILE* 5.0 4.5 - - + -
674B MET* 3.5 35.7 - - + -
675B SER* 4.4 1.8 - - - -
703B LEU* 3.5 36.8 - - + +
706B ASP* 3.1 26.0 + - - -
707B THR* 3.8 23.3 - - + +
746B LEU 3.2 16.0 + - - +
747B HIS* 3.5 22.2 - + - -
749B VAL* 1.3 77.9 - - - +
751B TYR* 1.3 73.1 + + + +
753B THR* 2.9 8.1 + - - -
754B THR* 2.8 41.1 + - + +
755B ARG* 3.0 40.4 - - - -
791B SER* 3.5 6.3 - - - -
815B TYR* 3.7 13.9 - + + -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 751 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
674B MET 4.0 15.9 - - - -
675B SER 3.5 23.3 + - - -
677B TRP* 3.6 49.8 + + + +
747B HIS* 3.0 24.5 + - + +
748B ALA* 3.9 4.5 - - - +
750B TRP* 1.3 85.3 - + + +
752B LEU* 1.3 70.4 + - - +
753B THR 3.2 0.7 + - - -
754B THR* 4.1 3.6 - - - -
755B ARG* 3.3 51.2 + - + +
1010B PRO* 3.8 21.7 + - + +
1060B GLN* 5.0 4.0 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 752 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
677B TRP* 4.4 21.5 - - + -
748B ALA* 2.9 25.2 + - + +
749B VAL 4.1 0.2 - - - +
751B TYR* 1.3 78.5 - - - +
753B THR* 1.3 60.5 + - - +
754B THR 3.8 0.2 + - - -
755B ARG 4.7 4.5 - - - +
802B LEU* 4.0 16.7 - - - +
932B CYS* 3.7 37.7 - - - +
935B LEU* 4.3 22.2 - - + -
936B ALA* 4.7 3.4 - - + +
1003B TYR* 4.3 11.6 + - + +
1008B LEU 4.7 1.0 - - - +
1009B LEU* 4.2 14.4 - - + -
1010B PRO* 3.7 37.1 - - + +
1061B LEU* 4.7 2.5 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with THR 753 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
749B VAL 2.6 24.5 + - - +
750B TRP 2.9 5.5 + - - -
752B LEU* 1.3 80.6 - - - +
754B THR* 1.3 59.9 + - - +
755B ARG 5.0 0.2 - - - -
802B LEU* 3.6 22.2 + - + -
803B SER* 3.1 26.5 + - - -
806B ILE* 5.5 0.4 - - + -
811B LEU* 3.6 28.9 - - + -
814B LEU* 3.9 15.5 - - + -
815B TYR* 2.6 28.1 + - - -
932B CYS* 4.2 9.9 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with THR 754 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
707B THR* 4.5 5.4 - - + -
750B TRP* 2.8 41.9 + - + +
751B TYR 3.3 0.4 + - - -
753B THR* 1.3 77.5 - - - +
755B ARG* 1.3 92.8 + - - +
756B PRO* 4.4 0.2 - - - +
787B ILE* 4.6 7.4 - - + -
789B SER* 3.6 31.4 - - - +
792B CYS* 3.6 9.2 - - - -
794B ASN* 5.1 0.3 - - - +
801B CYS* 3.4 16.3 - - - +
803B SER* 4.2 7.4 + - - -
815B TYR* 4.2 8.3 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 755 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
675B SER* 3.5 25.2 + - - +
750B TRP* 3.0 29.8 - - - -
751B TYR* 3.3 50.9 + - + +
752B LEU 4.7 1.9 - - - +
753B THR 3.9 0.4 - - - +
754B THR* 1.3 101.8 + - - +
756B PRO* 1.4 72.5 - - + +
757B VAL* 3.6 14.4 - - - +
789B SER* 2.8 31.3 + - - -
791B SER* 3.0 19.0 + - - -
792B CYS* 3.2 21.2 - - - +
801B CYS* 3.6 6.6 - - - +
1010B PRO* 4.0 14.9 - - + +
----------------------------------------------------------
Back to top of page
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