Contacts of the helix formed by residues 866 - 884 (chain C) in PDB entry 7CN9
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 866 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
646B ARG* 3.8 26.7 + - - +
668B ALA* 5.4 8.1 - - - +
669B GLY* 5.7 0.2 - - - -
863C PRO* 3.9 7.2 + - - +
864C LEU 3.8 1.0 + - - -
865C LEU* 1.3 74.3 - - - +
867C ASP* 1.3 87.7 + - - +
868C GLU* 2.9 18.8 + - + +
869C MET* 3.0 42.9 + - + +
870C ILE* 3.1 13.1 + - - +
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Residues in contact with ASP 867 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
646B ARG* 5.4 0.9 + - - -
814C LYS* 4.4 10.3 - - + +
823C PHE* 4.0 30.3 - - + -
863C PRO* 5.8 1.0 - - - +
866C THR* 1.3 84.3 + - - +
868C GLU* 1.3 99.2 + - - +
870C ILE* 2.9 19.0 + - + +
871C ALA* 2.8 26.0 + - - +
1055C SER* 5.6 2.7 - - - -
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Residues in contact with GLU 868 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
646B ARG* 6.0 4.2 + - - +
811C LYS* 5.3 2.4 + - - -
813C SER 4.2 4.7 - - - +
814C LYS* 4.0 29.9 - - - +
866C THR* 2.9 14.4 + - + -
867C ASP* 1.3 111.5 + - - +
869C MET* 1.3 66.9 + - - +
871C ALA* 3.3 6.0 + - - +
872C GLN* 2.9 22.2 + - - +
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Residues in contact with MET 869 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
669B GLY* 3.5 30.3 - - - +
697B MET* 4.2 14.6 - - + +
699B LEU* 4.6 21.3 - - + -
865C LEU* 3.7 17.5 - - + -
866C THR* 3.0 47.7 + - + +
868C GLU* 1.3 82.5 - - - +
870C ILE* 1.3 65.6 + - - +
872C GLN* 3.0 9.3 + - - +
873C TYR* 2.9 29.0 + - + -
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Residues in contact with ILE 870 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
778C THR* 6.2 4.7 - - + -
782C PHE* 3.4 38.1 - - + -
863C PRO* 6.1 2.0 - - + -
865C LEU* 4.1 23.1 - - + +
866C THR 3.1 13.5 - - - +
867C ASP* 2.9 26.0 + - + +
869C MET* 1.3 75.4 - - - +
871C ALA* 1.3 67.1 + - - +
872C GLN 2.8 1.9 + - - -
873C TYR* 2.9 22.8 + - - +
874C THR* 3.0 12.5 + - - +
1055C SER* 4.3 17.0 - - - +
1056C ALA 5.9 2.9 - - - +
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Residues in contact with ALA 871 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
814C LYS* 5.6 5.8 - - + -
815C ARG* 4.5 23.9 - - + +
819C GLU* 5.0 8.3 - - - +
867C ASP* 2.8 17.7 + - + +
868C GLU* 3.7 5.4 - - - +
870C ILE* 1.3 73.5 - - - +
872C GLN* 1.3 57.4 + - - +
874C THR* 3.2 5.2 - - - -
875C SER* 2.8 29.7 + - - -
1055C SER* 3.8 20.1 + - - +
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Residues in contact with GLN 872 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
702B GLU* 6.0 0.2 - - - +
788C ILE* 3.5 28.1 - - + +
789C TYR 3.7 15.6 - - - +
790C LYS* 5.6 7.2 - - - +
815C ARG* 5.7 8.1 - - - +
868C GLU 2.9 13.2 + - - +
869C MET* 3.3 12.8 - - - +
870C ILE 2.8 1.8 + - - -
871C ALA* 1.3 74.9 - - - +
873C TYR* 1.3 66.3 + - + +
875C SER* 2.3 43.2 + - - -
876C ALA* 3.0 7.4 + - - +
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Residues in contact with TYR 873 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
699B LEU* 3.0 48.4 - - + +
778C THR 5.7 0.2 - - - -
779C GLN* 4.6 4.9 + - - -
782C PHE* 3.4 44.9 - + + +
783C ALA* 4.5 19.6 - - + +
785C VAL* 5.6 8.5 - - + -
788C ILE* 4.3 14.6 - - + -
865C LEU* 3.5 34.5 - - + +
869C MET* 2.9 20.1 + - + -
870C ILE* 2.9 11.3 + - - +
872C GLN* 1.3 75.0 - - + +
874C THR* 1.3 67.4 + - - +
876C ALA* 3.2 6.2 + - - +
877C LEU* 3.0 28.2 + - + +
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Residues in contact with THR 874 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
782C PHE* 4.7 13.5 - - - -
870C ILE* 3.0 12.3 + - - +
871C ALA* 3.2 11.9 - - - -
873C TYR* 1.3 74.7 - - - +
875C SER* 1.3 56.1 + - - +
877C LEU* 2.5 32.7 + - - +
878C LEU* 2.8 33.3 + - + +
1053C PRO* 3.5 31.2 - - + +
1054C GLN* 4.3 12.1 + - - +
1055C SER* 3.6 14.1 + - - +
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Residues in contact with SER 875 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
789C TYR 4.5 1.8 - - - -
790C LYS* 6.5 1.1 - - - -
791C THR* 5.4 3.7 - - - -
807C PRO* 3.7 29.8 - - - +
815C ARG* 5.2 5.4 - - - -
871C ALA 2.8 10.0 + - - -
872C GLN* 2.3 47.2 + - - -
874C THR* 1.3 76.2 - - - +
876C ALA* 1.3 60.7 + - - -
878C LEU* 3.3 16.7 + - - +
879C ALA* 3.0 25.3 + - - +
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Residues in contact with ALA 876 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
785C VAL* 4.9 3.4 - - + -
788C ILE* 4.3 4.7 - - + -
789C TYR* 3.3 54.6 + - + +
872C GLN* 3.0 11.0 + - - +
873C TYR* 3.4 11.7 - - - +
874C THR 2.8 0.6 + - - -
875C SER* 1.3 78.5 + - - +
877C LEU* 1.3 68.3 + - + +
879C ALA* 3.9 2.1 - - - +
880C GLY* 2.9 22.5 + - - -
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Residues in contact with LEU 877 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
782C PHE 4.9 10.1 - - - +
784C GLN* 5.6 3.1 - - + -
785C VAL* 3.7 44.9 - - + -
873C TYR* 3.0 22.5 + - + +
874C THR* 2.5 15.9 + - - +
876C ALA* 1.3 73.0 - - - +
878C LEU* 1.3 66.5 + - + +
880C GLY* 3.8 0.6 - - - -
881C THR* 2.9 26.9 + - - -
888C PHE* 4.5 18.5 - - + -
1029C MET* 5.2 10.8 - - + -
1033C VAL* 4.6 17.5 - - + -
1034C LEU* 4.9 6.3 - - + -
1053C PRO* 4.9 12.3 - - + -
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Residues in contact with LEU 878 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
805C ILE* 5.0 6.5 - - + +
806C LEU* 5.5 3.4 - - + -
807C PRO* 4.4 16.8 - - + -
874C THR* 2.8 24.2 + - + +
875C SER* 3.4 23.1 - - - +
877C LEU* 1.3 77.9 - - - +
879C ALA* 1.3 66.9 + - - +
881C THR* 3.0 5.3 + - - -
882C ILE* 2.8 33.4 + - + +
1052C PHE* 4.4 17.0 - - + -
1053C PRO* 3.4 41.7 - - + +
1054C GLN* 4.6 9.6 - - - +
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Residues in contact with ALA 879 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
789C TYR* 5.8 1.3 - - + -
790C LYS 4.6 2.7 - - - +
791C THR* 3.6 41.3 - - - +
792C PRO* 4.8 4.0 - - + -
806C LEU* 5.8 0.4 - - + -
875C SER 3.0 11.4 + - - +
876C ALA* 4.1 2.9 - - - +
878C LEU* 1.3 78.9 - - - +
880C GLY* 1.3 51.5 + - - +
882C ILE* 2.8 15.0 + - + -
883C THR* 2.4 44.1 + - + +
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Residues in contact with GLY 880 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
789C TYR* 5.5 9.3 - - - +
876C ALA 2.9 16.0 + - - -
879C ALA* 1.3 75.6 - - - +
881C THR* 1.3 54.4 + - - +
883C THR* 2.6 14.2 + - - -
884C SER* 2.4 35.6 + - - -
885C GLY 3.0 1.4 + - - -
888C PHE* 3.1 21.5 - - - -
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Residues in contact with THR 881 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
877C LEU 2.9 13.3 + - - -
878C LEU* 3.2 10.5 - - - -
880C GLY* 1.3 74.7 - - - +
882C ILE* 1.3 61.5 + - - +
883C THR 3.3 0.3 + - - -
885C GLY* 4.1 9.5 + - - +
888C PHE* 3.2 22.5 - - + -
896C ILE* 4.7 0.7 - - - +
898C PHE* 3.7 8.8 - - + -
901C GLN* 3.9 9.9 + - - -
905C ARG* 3.9 12.1 - - - +
1033C VAL* 3.8 24.5 + - + +
1050C MET* 3.5 32.8 - - + -
1051C SER 4.9 2.9 - - - +
1052C PHE* 4.9 4.3 - - + -
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Residues in contact with ILE 882 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
707B TYR* 5.6 1.7 - - - -
797C PHE* 3.6 30.4 - - + -
802C PHE* 3.6 19.1 - - + -
806C LEU* 3.7 27.4 - - + -
878C LEU* 2.8 27.3 + - + +
879C ALA* 2.8 18.8 + - - +
881C THR* 1.3 77.8 - - - +
883C THR* 1.3 62.1 + - + +
896C ILE* 4.0 5.2 - - - +
898C PHE* 2.9 46.1 + - + +
1052C PHE* 4.9 12.8 - - + -
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Residues in contact with THR 883 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
704B SER* 5.5 2.4 + - - -
705B VAL 5.7 3.9 + - - -
707B TYR* 4.8 24.5 - - + -
792C PRO* 4.8 15.5 - - + -
797C PHE* 4.8 7.2 - - + -
879C ALA* 2.4 26.0 + - + +
880C GLY* 2.6 19.1 + - - -
881C THR 3.1 0.6 + - - -
882C ILE* 1.3 85.3 - - + +
884C SER* 1.3 52.3 + - - -
895C GLN* 3.0 8.4 - - - +
896C ILE* 2.2 49.3 + - - +
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Residues in contact with SER 884 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
705B VAL* 6.3 1.1 - - - -
880C GLY* 2.4 23.6 + - - -
883C THR* 1.3 74.2 + - - +
885C GLY* 1.3 60.9 + - - -
886C TRP 3.4 2.1 + - - -
887C THR* 2.5 18.9 + - - +
888C PHE* 4.2 5.1 - - - -
893C ALA* 2.9 16.6 - - - -
894C LEU 2.3 54.3 + - - +
895C GLN* 3.8 2.9 - - - -
896C ILE* 3.3 13.0 - - - +
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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