Contacts of the helix formed by residues 801 - 823 (chain C) in PDB entry 6AH0
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 LEU 801 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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799C GLU 3.3 4.1 - - - -
800C PRO* 1.3 75.1 - - - +
802C HIS* 1.3 63.1 + - - +
803C ARG 3.3 0.3 + - - -
804C GLY* 3.5 0.5 + - - -
805C GLY* 3.3 17.0 + - - -
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Residues in contact with HIS 802 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
800C PRO 3.5 0.8 + - - -
801C LEU* 1.3 68.8 - - - +
803C ARG* 1.3 64.9 + - - +
805C GLY* 3.8 3.1 - - - +
806C GLY* 3.0 22.2 + - - -
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Residues in contact with ARG 803 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
800C PRO 3.2 9.9 + - - -
802C HIS* 1.3 75.2 - - - +
804C GLY* 1.3 57.5 + - - +
807C GLN* 3.0 30.3 + - - -
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Residues in contact with GLY 804 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
800C PRO* 3.7 12.7 + - - +
801C LEU 3.5 4.9 + - - -
803C ARG* 1.3 72.8 - - - +
805C GLY* 1.3 64.2 + - - +
808C ILE* 3.1 26.0 + - - -
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Residues in contact with GLY 805 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
765C SER* 6.2 0.2 - - - -
801C LEU 3.3 13.9 + - - -
802C HIS* 3.9 4.5 - - - -
803C ARG 3.4 0.2 - - - -
804C GLY* 1.3 76.7 - - - +
806C GLY* 1.3 57.9 + - - +
808C ILE 4.5 1.6 + - - -
809C ILE* 4.7 5.2 + - - -
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Residues in contact with GLY 806 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
802C HIS 3.0 15.1 + - - -
805C GLY* 1.3 76.5 - - - +
807C GLN* 1.3 63.0 + - - +
808C ILE 3.5 0.2 - - - -
809C ILE* 4.2 5.4 + - - -
810C PRO 4.7 4.0 - - - -
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Residues in contact with GLN 807 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
678C THR* 4.7 11.9 - - - +
679C PRO 5.2 8.9 - - - -
680C ASN 6.3 0.2 - - - +
803C ARG 3.0 16.7 + - - -
806C GLY* 1.3 76.3 - - - +
808C ILE* 1.3 65.2 + - - +
809C ILE 3.4 0.3 + - - -
810C PRO* 3.6 3.1 - - - +
811C THR* 3.3 17.2 + - - -
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Residues in contact with ILE 808 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
765C SER 5.6 3.4 - - - -
766C ILE* 5.5 3.0 - - - -
803C ARG 4.4 0.2 + - - -
804C GLY* 3.1 18.1 + - - -
805C GLY 5.2 0.2 - - - -
807C GLN* 1.3 76.9 - - - +
809C ILE* 1.3 56.1 + - - +
811C THR* 3.2 1.9 + - - +
812C ALA* 2.7 28.9 + - - -
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Residues in contact with ILE 809 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
765C SER* 4.6 16.0 + - - +
766C ILE* 5.9 0.4 - - - +
769C GLY* 3.9 14.1 - - - -
805C GLY 4.7 5.2 + - - -
806C GLY 4.2 5.7 + - - -
807C GLN 3.3 1.2 - - - -
808C ILE* 1.3 74.3 - - - +
810C PRO* 1.4 61.7 - - - +
812C ALA* 3.2 2.8 + - - +
813C ARG* 3.2 18.0 + - - -
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Residues in contact with PRO 810 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
806C GLY 4.7 3.2 - - - -
807C GLN 3.6 4.9 - - - +
808C ILE 3.5 0.2 - - - -
809C ILE* 1.4 73.8 - - - +
811C THR* 1.3 63.2 + - - +
813C ARG* 3.4 3.7 + - - -
814C ARG* 3.3 15.1 + - - -
157W VAL 5.7 4.5 - - - +
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Residues in contact with THR 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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676C ALA* 5.4 8.2 - - - +
677C GLU 5.2 9.6 - - - -
678C THR* 5.3 4.7 - - - +
807C GLN 3.3 10.3 + - - -
808C ILE* 3.2 7.6 + - - +
810C PRO* 1.3 76.3 - - - +
812C ALA* 1.3 51.4 - - - +
814C ARG* 2.9 5.4 + - - +
815C VAL* 2.8 32.1 + - - -
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Residues in contact with ALA 812 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
766C ILE* 5.3 9.0 - - - +
769C GLY* 4.7 11.6 - - - -
770C PHE* 5.0 3.4 + - - -
808C ILE 2.7 19.7 + - - -
809C ILE* 3.2 3.1 + - - +
811C THR* 1.3 72.4 - - - +
813C ARG* 1.3 56.9 - - - +
815C VAL* 3.1 3.0 + - - +
816C VAL* 2.9 26.9 + - - -
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Residues in contact with ARG 813 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
769C GLY 4.1 15.7 + - - -
770C PHE* 5.7 0.2 - - - +
773C GLY* 5.0 12.9 - - - -
809C ILE 3.2 11.3 + - - -
810C PRO* 3.4 4.5 + - - -
811C THR 3.2 0.4 - - - -
812C ALA* 1.3 77.8 - - - +
814C ARG* 1.3 60.3 + - - +
816C VAL* 3.5 1.8 + - - +
817C TYR* 3.2 17.5 + - - -
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Residues in contact with ARG 814 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
810C PRO 3.3 8.8 + - - -
811C THR* 2.9 8.3 + - - +
813C ARG* 1.3 72.5 - - - +
815C VAL* 1.3 61.4 + - - +
817C TYR* 3.2 3.0 + - - +
818C SER* 2.9 26.7 + - - -
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Residues in contact with VAL 815 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
674C CYS 4.9 10.8 - - - +
676C ALA* 5.8 5.2 - - - +
685C ILE 5.6 4.9 - - - -
687C MET* 5.1 5.2 - - - +
811C THR 2.8 13.2 + - - -
812C ALA* 3.1 5.7 + - - +
814C ARG* 1.3 77.2 - - - +
816C VAL* 1.3 62.0 + - - +
818C SER* 3.2 2.2 + - - +
819C ALA* 3.1 20.4 + - - -
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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
----------------------------------------------------------
770C PHE* 6.3 2.2 - - - +
773C GLY* 6.5 1.6 - - - -
812C ALA 2.9 14.1 + - - -
813C ARG* 3.5 2.4 + - - +
815C VAL* 1.3 75.4 - - - +
817C TYR* 1.3 58.0 + - - +
819C ALA* 3.4 1.6 + - - -
820C PHE* 2.9 24.8 + - - -
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Residues in contact with TYR 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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778C PRO* 5.8 8.1 - - - -
813C ARG 3.2 10.3 + - - -
814C ARG* 3.2 7.2 + - - +
816C VAL* 1.3 76.2 - - - +
818C SER* 1.3 53.1 + - - +
820C PHE* 3.0 4.4 + - - +
821C LEU* 2.7 31.0 + - - -
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Residues in contact with SER 818 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
674C CYS* 5.4 10.5 + - - +
814C ARG 2.9 14.6 + - - -
815C VAL* 3.2 3.5 + - - +
817C TYR* 1.3 78.2 - - - +
819C ALA* 1.3 51.8 + - - +
821C LEU* 3.0 3.8 + - - +
822C MET* 2.8 30.8 + - - -
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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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672C LEU 5.8 0.7 - - - -
673C LYS* 5.7 2.2 - - - +
674C CYS 5.4 6.2 + - - +
687C MET 4.2 18.2 - - - -
688C ILE* 5.2 1.8 - - - +
689C ALA* 4.9 13.9 + - - +
815C VAL 3.1 13.1 + - - -
816C VAL 3.9 2.2 - - - -
818C SER* 1.3 72.9 - - - +
820C PHE* 1.3 53.8 + - - +
822C MET* 4.3 2.0 - - - +
823C ALA* 2.5 36.4 + - - -
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Residues in contact with PHE 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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816C VAL 2.9 14.8 + - - -
817C TYR* 3.0 6.2 + - - +
819C ALA* 1.3 79.2 - - - +
821C LEU* 1.3 59.5 + - - +
823C ALA* 3.5 7.9 + - - +
824C THR 3.3 16.5 - - - +
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Residues in contact with LEU 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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817C TYR 2.7 16.5 + - - -
818C SER* 3.0 5.3 + - - +
820C PHE* 1.3 75.1 - - - +
822C MET* 1.3 60.2 + - - +
824C THR 3.9 8.5 + - - +
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Residues in contact with MET 822 (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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670C SER* 3.0 18.2 - - - -
671C SER 4.3 1.2 + - - -
672C LEU 4.4 16.1 + - - -
818C SER 2.8 17.4 + - - -
819C ALA* 3.4 3.1 - - - +
821C LEU* 1.3 74.0 - - - +
823C ALA* 1.3 57.5 + - - +
824C THR 3.1 6.8 + - - -
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Residues in contact with ALA 823 (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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666C VAL* 4.2 13.5 - - - -
668C GLU 2.8 14.4 - - - +
670C SER* 3.1 22.1 - - - +
689C ALA 4.3 8.2 - - - +
819C ALA 2.5 21.1 + - - -
820C PHE* 3.5 5.5 + - - +
821C LEU 3.4 0.8 - - - -
822C MET* 1.3 68.7 - - - +
824C THR* 1.3 64.0 + - - +
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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) + - + + + + + -
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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