Contacts of the helix formed by residues 738 - 755 (chain C) 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 C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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731C TYR* 3.4 14.9 - - - -
732C ARG 3.5 21.3 - - - +
733C ASP* 5.3 1.1 - - - -
734C ILE 2.8 24.1 + - - +
735C PRO* 3.5 10.5 + - - +
736C TYR 2.9 13.8 + - - +
737C HIS* 1.3 73.1 - - - +
739C ARG* 1.3 67.6 + - + +
740C ILE* 3.0 31.9 + - - +
741C HIS* 3.0 21.3 + - - +
742C ALA 3.1 9.9 + - - -
951C TRP* 4.9 2.8 - - - -
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Residues in contact with ARG 739 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
692C SER 4.8 2.9 - - - -
693C GLY* 2.9 39.8 + - - -
695C ILE* 4.3 12.1 - - + -
696C LEU* 4.3 8.9 - - + +
728C GLU* 3.1 26.0 + - + +
729C ASN* 3.1 36.8 + - - +
731C TYR* 3.0 41.0 + - + +
732C ARG 5.5 0.6 - - - -
738C ASN* 1.3 76.5 - - + +
740C ILE* 1.3 57.0 + - + +
742C ALA* 3.3 6.6 + - - +
743C THR* 2.7 36.9 + - - -
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Residues in contact with ILE 740 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
681C ILE* 3.6 21.4 - - + +
682C PHE* 4.3 16.8 - - + -
685C VAL* 4.3 31.4 - - + -
695C ILE* 4.8 10.8 - - + -
738C ASN* 3.0 17.6 + - + +
739C ARG* 1.3 76.5 - - + +
741C HIS* 1.3 64.7 + - - +
743C THR* 3.2 8.0 + - - -
744C ASP* 2.9 21.0 + - - +
951C TRP* 3.5 20.2 - - + -
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Residues in contact with HIS 741 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
475C MG 2.7 28.8 - - - -
731C TYR* 6.2 0.4 - + - -
736C TYR* 3.3 53.3 + + - +
737C HIS* 4.1 7.0 - + - -
738C ASN* 3.0 12.6 + - - +
740C ILE* 1.3 75.2 - - - +
742C ALA* 1.3 53.6 + - - +
744C ASP* 3.0 10.4 + - - +
745C VAL* 2.8 43.9 + - + +
821C HIS* 4.1 4.0 - + - -
822C ASP* 3.4 11.0 - - + -
936C ALA 5.2 0.2 - - - -
937C ASP* 2.8 28.9 + - - -
939C ASN* 5.8 0.7 - - - -
951C TRP* 3.7 19.7 - - + -
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Residues in contact with ALA 742 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
696C LEU* 3.9 18.3 - - + +
731C TYR* 3.6 36.3 - - + +
738C ASN 3.1 5.1 + - - -
739C ARG 3.3 10.5 - - - +
741C HIS* 1.3 75.1 - - - +
743C THR* 1.3 65.5 + - - +
745C VAL* 3.1 4.9 + - - +
746C LEU* 2.9 22.3 + - - +
818C ALA 4.1 5.1 - - - +
819C ALA 4.1 3.6 - - - +
821C HIS* 4.0 14.1 - - - -
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Residues in contact with THR 743 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
674C MET* 5.6 0.4 - - + -
679C PHE* 5.4 4.0 - - + -
681C ILE* 4.2 13.9 - - + -
695C ILE* 3.9 12.3 - - + +
696C LEU* 3.4 29.0 + - + +
699C VAL* 3.7 38.1 - - + -
739C ARG 2.7 21.1 + - - -
740C ILE* 3.3 8.7 - - - -
742C ALA* 1.3 77.2 - - - +
744C ASP* 1.3 57.3 + - - +
746C LEU* 3.1 6.0 - - - +
747C HIS* 2.8 28.0 + - + +
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Residues in contact with ASP 744 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
679C PHE* 5.6 2.6 - - - +
681C ILE* 3.9 19.2 - - + +
740C ILE 2.9 13.9 + - - +
741C HIS* 3.3 14.5 + - - +
743C THR* 1.3 77.0 - - - +
745C VAL* 1.3 62.0 + - - +
747C HIS* 3.3 9.7 + - - +
748C ALA* 3.1 21.1 + - - +
939C ASN* 2.9 30.5 + - - +
943C LYS* 3.3 19.3 + - - -
947C LEU* 6.1 0.2 - - - +
951C TRP* 3.9 30.9 + - + -
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Residues in contact with VAL 745 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
741C HIS* 2.8 28.6 + - + +
742C ALA 3.6 6.3 - - - +
744C ASP* 1.3 76.4 - - + +
746C LEU* 1.3 62.9 + - - +
748C ALA* 3.1 3.4 + - - +
749C VAL* 3.1 23.8 + - + +
818C ALA* 3.9 16.2 - - + -
821C HIS* 3.6 19.1 - - + +
933C ILE* 4.3 12.6 - - + -
936C ALA* 3.6 33.7 - - + +
937C ASP* 3.5 25.8 - - + +
939C ASN* 5.2 0.4 - - - +
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Residues in contact with LEU 746 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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696C LEU* 4.1 14.4 - - + -
699C VAL* 3.9 22.9 - - + -
700C MET* 3.1 50.9 - - + +
703C LEU* 3.8 14.4 - - + -
742C ALA 2.9 13.3 + - - +
743C THR 3.1 9.4 - - - +
745C VAL* 1.3 77.9 - - - +
747C HIS* 1.3 60.4 + - - +
749C VAL* 3.1 16.3 - - - +
750C TRP* 3.2 8.5 + - - +
815C TYR* 4.0 24.5 - - + +
818C ALA* 3.7 13.5 - - + -
819C ALA* 4.9 2.5 - - + +
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Residues in contact with HIS 747 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
674C MET* 2.8 64.0 + - + -
676C ASN 3.5 15.9 + - - -
677C TRP* 3.8 17.0 - + - -
679C PHE* 3.6 20.9 - + + +
703C LEU* 4.3 9.6 - - + -
743C THR* 2.8 14.6 + - + +
744C ASP* 3.8 10.4 + - - +
745C VAL 3.3 0.2 - - - -
746C LEU* 1.3 76.1 - - - +
748C ALA* 1.3 61.1 + - - +
750C TRP* 3.7 8.9 - + - -
751C TYR* 3.0 36.5 + + + +
943C LYS* 5.0 7.2 + - - -
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Residues in contact with ALA 748 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
677C TRP* 4.3 22.7 - - + -
744C ASP 3.1 12.9 + - - +
745C VAL 3.1 9.0 + - - +
747C HIS* 1.3 80.7 + - - +
749C VAL* 1.3 61.9 + - - +
751C TYR* 3.0 3.0 + - - +
752C LEU* 2.7 36.7 + - + +
936C ALA* 3.5 22.9 - - + -
939C ASN* 4.3 8.7 - - - +
943C LYS* 5.5 1.1 - - - -
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Residues in contact with VAL 749 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
745C VAL* 3.1 8.9 + - + +
746C LEU* 3.1 19.1 - - - +
748C ALA* 1.3 75.4 - - - +
750C TRP* 1.3 64.6 - - - +
752C LEU* 3.3 0.3 + - - +
753C THR* 2.7 38.5 + - - +
814C LEU* 4.0 18.2 - - + -
815C TYR* 3.7 20.9 - - + -
818C ALA* 4.2 9.0 - - + -
932C CYS* 4.1 15.0 - - - +
933C ILE* 3.9 26.9 - - + -
936C ALA* 3.5 22.7 - - + -
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Residues in contact with TRP 750 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
671C ILE* 4.1 8.1 - - + -
674C MET* 3.5 29.6 - - + -
675C SER* 4.6 0.9 - - - -
703C LEU* 3.2 43.7 - - + +
706C ASP* 3.2 26.8 + - - -
707C THR* 3.8 21.6 - - + +
746C LEU* 3.2 14.6 + - + +
747C HIS* 3.7 17.9 - + - +
748C ALA 3.1 0.4 - - - -
749C VAL* 1.3 82.8 - - - +
751C TYR* 1.3 80.7 + + + +
753C THR* 3.1 11.6 + - - -
754C THR* 3.0 25.1 + - + +
755C ARG* 3.1 39.5 - - - -
791C SER* 3.7 7.4 - - - -
815C TYR* 3.7 22.2 - + + -
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Residues in contact with TYR 751 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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674C MET 4.2 13.0 - - - -
675C SER 3.5 22.6 + - - -
677C TRP* 3.5 51.3 + + + +
747C HIS* 3.0 23.2 + + + +
748C ALA* 3.6 4.5 - - - +
750C TRP* 1.3 88.8 - + + +
752C LEU* 1.3 65.7 + - + +
754C THR* 4.1 3.4 - - - -
755C ARG* 3.0 55.4 + - + +
1010C PRO* 4.3 16.1 - - + +
1060C GLN* 5.4 1.4 + - - -
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Residues in contact with LEU 752 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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677C TRP* 4.8 9.6 - - + -
748C ALA* 2.7 27.5 + - + +
749C VAL 3.7 4.0 - - - +
751C TYR* 1.3 75.4 - - + +
753C THR* 1.3 59.5 + - - +
754C THR 3.5 0.4 + - - -
755C ARG 4.8 4.1 + - - +
757C VAL* 5.0 1.6 - - - +
802C LEU* 3.8 15.2 + - - +
932C CYS* 3.8 30.5 - - - +
935C LEU* 3.6 29.6 - - + -
936C ALA* 4.8 1.8 - - + -
1003C TYR* 4.6 9.6 - - + +
1008C LEU 4.7 1.9 - - - +
1009C LEU* 4.3 14.8 - - + -
1010C PRO* 3.9 38.5 - - + +
1061C LEU* 4.5 13.2 - - + -
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Residues in contact with THR 753 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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749C VAL 2.7 20.7 + - - +
750C TRP 3.1 2.3 + - - -
752C LEU* 1.3 81.1 - - - +
754C THR* 1.3 57.0 + - - +
755C ARG 5.3 0.2 - - - -
801C CYS* 5.0 0.2 - - - -
802C LEU* 3.5 28.5 + - + -
803C SER* 2.8 33.1 + - - -
806C ILE* 5.4 1.6 - - + -
811C LEU* 4.0 25.6 - - + -
814C LEU* 4.0 13.9 - - + -
815C TYR* 2.7 26.4 + - - -
932C CYS* 4.1 8.1 - - - -
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Residues in contact with THR 754 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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707C THR* 4.7 0.7 - - + -
750C TRP* 3.0 31.0 + - + +
751C TYR 3.9 0.2 + - - -
752C LEU 3.5 0.4 - - - -
753C THR* 1.3 83.7 - - - +
755C ARG* 1.3 89.9 + - - +
756C PRO* 4.4 0.2 - - - +
787C ILE* 4.6 13.2 - - + -
789C SER* 3.7 22.6 - - - +
792C CYS* 3.5 11.6 - - - -
794C ASN* 5.2 0.7 - - - +
801C CYS* 3.6 14.5 - - - +
803C SER* 4.2 9.5 + - - +
815C TYR* 3.8 15.0 - - - +
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Residues in contact with ARG 755 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
675C SER* 4.2 16.8 + - - +
750C TRP* 3.1 28.4 - - - -
751C TYR* 3.0 62.3 + - + +
752C LEU 4.8 1.4 - - - +
754C THR* 1.3 102.8 + - - +
756C PRO* 1.3 74.2 - - + +
757C VAL* 3.5 13.0 + - - +
789C SER* 2.5 31.7 + - - -
791C SER* 3.3 15.8 + - - -
792C CYS* 3.5 24.5 - - - +
800C GLY 3.8 3.1 - - - +
801C CYS* 3.8 4.6 - - - +
802C LEU 5.2 0.3 + - - -
1010C PRO* 3.8 10.3 - - + +
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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) + - + + + + + -
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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