Contacts of the helix formed by residues 807 - 821 (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 PRO 807 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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784C ILE* 3.2 33.7 - - + -
785C ALA 3.5 5.8 - - - +
786C TYR* 3.5 15.0 - - + +
805C ASN 3.9 3.4 - - - +
806C ILE* 1.3 85.7 - - - +
808C ALA* 1.3 66.7 + - - +
809C LEU* 4.4 6.7 - - + +
810C GLU* 3.0 47.7 + - + +
811C LEU* 3.1 8.3 + - - +
925C ARG* 3.3 24.5 - - - +
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Residues in contact with ALA 808 (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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709C LEU* 4.0 8.3 - - + +
712C ILE* 4.2 5.6 - - + -
713C PHE* 4.1 13.0 - - + -
785C ALA* 3.0 26.1 + - + +
786C TYR* 4.0 2.7 - - - +
787C ILE* 3.5 33.7 - - + +
806C ILE 3.6 1.4 + - - -
807C PRO* 1.3 70.9 - - - +
809C LEU* 1.3 58.9 + - - +
811C LEU* 3.3 4.4 + - - +
812C MET* 2.8 32.2 + - - +
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Residues in contact with LEU 809 (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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713C PHE* 4.0 17.1 - - + -
784C ILE* 6.4 0.2 - - + -
785C ALA 4.9 0.4 + - - -
807C PRO* 3.1 6.1 + - + +
808C ALA* 1.3 79.2 - - - +
810C GLU* 1.3 60.2 + - + +
812C MET* 3.5 5.0 + - + +
813C ALA* 3.1 26.0 + - - +
874C LEU* 4.0 28.9 - - + -
878C GLU* 4.3 27.4 - - + +
881C ARG* 4.3 27.6 - - + +
882C PHE* 3.7 27.3 - - + +
885C LEU* 5.0 3.1 - - + -
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Residues in contact with GLU 810 (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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806C ILE* 3.4 13.1 - - + +
807C PRO* 3.0 26.0 + - + +
809C LEU* 1.3 76.3 - - + +
811C LEU* 1.3 67.2 + - - +
813C ALA* 3.4 4.2 + - - +
814C LEU* 3.2 19.8 + - - +
881C ARG* 2.8 23.1 + - - +
885C LEU* 3.5 28.8 - - + +
922C GLU* 5.4 0.4 - - - -
925C ARG* 2.7 51.7 + - - +
926C LEU 6.0 0.2 - - - -
929C CYS* 4.4 9.7 - - - +
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Residues in contact with LEU 811 (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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709C LEU* 6.0 0.4 - - + -
753C THR* 4.0 29.2 - - + +
787C ILE* 3.8 28.3 - - + -
802C LEU 4.5 0.2 - - - +
803C SER* 3.7 30.7 - - - -
806C ILE* 3.7 39.0 - - + +
807C PRO 3.1 3.7 + - - +
808C ALA* 3.8 6.7 - - - +
810C GLU* 1.3 74.7 - - - +
812C MET* 1.3 66.5 + - - +
814C LEU* 3.1 17.6 + - + +
815C TYR* 3.1 37.9 + - + +
929C CYS* 4.5 1.6 - - - -
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Residues in contact with MET 812 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
704C PHE* 3.9 31.9 - - + -
709C LEU* 4.0 19.4 - - + +
713C PHE* 3.6 42.6 - - + -
715C ILE* 4.3 8.5 - - - -
808C ALA 2.8 18.2 + - - +
809C LEU* 3.8 7.2 - - + +
811C LEU* 1.3 76.6 - - - +
813C ALA* 1.3 61.0 + - - +
815C TYR* 3.5 3.5 + - - +
816C VAL* 3.1 32.7 + - + +
870C PHE* 5.7 0.2 - - - -
871C LEU* 4.1 19.5 - - + -
874C LEU* 4.6 2.7 - - + -
882C PHE* 3.6 27.6 - - + -
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Residues in contact with ALA 813 (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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809C LEU 3.1 15.4 + - - +
810C GLU 3.5 10.1 - - - +
811C LEU 3.1 0.4 - - - -
812C MET* 1.3 78.0 - - - +
814C LEU* 1.3 55.2 + - - +
817C ALA* 3.0 30.1 + - - +
882C PHE* 3.5 18.6 - - + -
885C LEU* 3.6 32.1 - - + -
886C VAL* 3.5 17.9 - - + +
889C ALA* 5.8 0.2 - - - -
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Residues in contact with LEU 814 (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* 4.0 21.2 - - + +
753C THR* 4.0 26.9 - - + -
810C GLU 3.2 12.2 + - - +
811C LEU* 3.1 19.2 + - + +
813C ALA* 1.3 74.0 - - - +
815C TYR* 1.3 68.2 + - + +
817C ALA* 3.3 6.5 + - - +
818C ALA* 3.0 21.1 + - - +
889C ALA* 4.7 9.2 - - + -
929C CYS* 3.2 44.0 - - + +
932C CYS* 4.1 7.9 - - - -
933C ILE* 3.9 20.2 - - + +
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Residues in contact with TYR 815 (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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700C MET* 4.3 7.6 - - + -
703C LEU* 5.8 3.1 - - + -
704C PHE* 4.3 10.3 - + + -
707C THR* 4.2 13.9 - - + -
709C LEU* 4.0 28.5 - - + -
746C LEU* 4.0 21.6 - - + +
749C VAL* 3.7 16.4 - - + -
750C TRP* 3.7 25.8 - + + -
753C THR* 2.7 30.1 + - - -
754C THR* 3.8 15.9 - - - +
787C ILE* 3.9 10.7 - - + +
811C LEU* 3.1 21.2 + - + +
812C MET 3.8 4.7 - - - +
813C ALA 3.4 0.2 - - - -
814C LEU* 1.3 81.4 - - + +
816C VAL* 1.3 55.7 + - - +
818C ALA* 2.8 27.4 + - - +
819C ALA* 2.9 11.3 + - - +
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Residues in contact with VAL 816 (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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700C MET* 5.0 2.0 - - - -
704C PHE* 4.1 21.5 - - + -
724C PHE* 4.3 20.2 - - + -
812C MET* 3.1 18.9 + - + +
813C ALA 3.9 3.4 - - - +
815C TYR* 1.3 76.1 - - - +
817C ALA* 1.3 60.5 + - - +
819C ALA* 3.2 9.9 + - - +
820C MET* 2.9 53.1 + - + +
859C TRP* 5.4 1.3 - - + -
870C PHE* 5.1 8.3 - - + -
882C PHE* 3.9 21.1 - - + -
886C VAL* 4.4 9.6 - - + -
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Residues in contact with ALA 817 (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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813C ALA 3.0 20.5 + - - +
814C LEU 3.5 5.4 - - - +
815C TYR 3.1 0.2 - - - -
816C VAL* 1.3 73.1 - - - +
818C ALA* 1.3 59.6 + - - +
820C MET* 2.9 2.8 + - - -
821C HIS* 2.7 37.8 + - - +
886C VAL* 3.9 11.0 - - + +
889C ALA* 3.8 22.2 - - + -
890C ILE* 3.8 23.7 - - + +
933C ILE* 4.2 4.5 - - + -
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Residues in contact with ALA 818 (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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731C TYR* 4.1 0.7 + - - -
742C ALA* 4.1 6.3 - - - +
745C VAL* 3.9 11.9 - - + -
746C LEU* 3.7 31.2 - - - +
749C VAL* 4.2 6.5 - - + -
814C LEU 3.0 12.3 + - - +
815C TYR 2.8 9.6 + - - +
817C ALA* 1.3 73.8 - - - +
819C ALA* 1.3 64.1 + - - +
821C HIS* 2.5 34.1 + - - -
933C ILE* 4.2 9.1 - - + +
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Residues in contact with ALA 819 (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* 3.8 22.0 - - + +
700C MET* 3.9 28.3 - - + -
724C PHE* 4.1 14.8 - - + -
727C LEU* 3.7 10.3 - - + +
731C TYR* 3.0 22.5 + - - -
742C ALA* 4.1 1.2 - - - +
746C LEU* 4.9 2.1 - - + +
815C TYR 2.9 9.8 + - - +
816C VAL 3.3 10.5 - - - +
817C ALA 3.1 0.2 - - - -
818C ALA* 1.3 78.4 - - - +
820C MET* 1.3 56.9 + - - +
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Residues in contact with MET 820 (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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723C TYR* 3.1 42.2 - - + +
727C LEU* 4.0 13.7 - - + -
731C TYR* 3.5 3.1 - - - -
816C VAL* 2.9 30.7 - - + +
817C ALA 2.9 3.5 + - - +
819C ALA* 1.3 76.1 - - - +
821C HIS* 1.3 64.5 + - - +
822C ASP 3.1 5.2 + - - -
823C TYR* 3.2 14.7 + - - +
854C HIS* 3.7 9.9 - - - +
858C ALA* 3.5 28.5 - - + -
859C TRP* 4.2 20.9 - - + -
862C TYR* 5.8 0.7 - - + -
886C VAL* 3.9 23.1 - - - -
890C ILE* 4.1 10.3 - - + -
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Residues in contact with HIS 821 (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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475C MG 2.8 28.0 - - - -
476C MG 4.1 0.9 - - - -
731C TYR* 4.2 0.6 + - - -
741C HIS* 3.9 1.1 + + - -
742C ALA* 4.0 13.7 - - - -
745C VAL* 3.6 27.8 - - + +
817C ALA 2.7 18.1 + - - +
818C ALA* 2.5 33.1 + - - -
820C MET* 1.3 71.5 - - - +
822C ASP* 1.3 75.9 + - + +
854C HIS* 2.8 23.7 - - - +
890C ILE* 4.1 23.4 - - + +
893C THR* 4.1 22.2 + - + -
933C ILE* 4.8 2.2 - - + -
937C ASP* 3.0 19.5 + - + -
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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
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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