Contacts of the helix formed by residues 796 - 816 (chain C) in PDB entry 3T6A
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 796 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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512C VAL* 6.2 3.1 - - - -
794C GLN 3.8 1.2 + - - -
795C VAL* 1.3 83.0 - - - +
797C GLN* 1.3 64.9 + - - +
798C THR* 3.4 9.7 + - - +
799C GLU* 3.0 48.4 + - - +
800C ARG* 3.0 14.9 + - - +
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Residues in contact with GLN 797 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
512C VAL* 5.0 16.1 - - + +
513C SER* 4.7 1.6 + - - +
596C LEU 5.2 1.4 + - - -
599C ILE* 4.9 2.9 - - - +
600C GLU* 2.5 33.1 + - - +
603C ASN* 4.7 0.2 - - - +
722C VAL* 3.8 34.3 + - + +
795C VAL 3.5 1.0 + - - -
796C ASN* 1.3 74.1 - - - +
798C THR* 1.3 58.2 + - - +
800C ARG* 3.0 26.1 + - - +
801C TYR* 2.8 59.4 + - + +
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Residues in contact with THR 798 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
722C VAL* 3.7 30.1 - - + +
796C ASN* 3.3 8.9 + - - +
797C GLN* 1.3 77.1 - - - +
799C GLU* 1.3 58.1 + - - +
801C TYR* 3.5 2.3 + - - +
802C GLU* 3.0 30.9 + - + +
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Residues in contact with GLU 799 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
795C VAL* 3.7 21.9 - - + +
796C ASN* 3.0 29.8 + - - +
798C THR* 1.3 76.0 - - - +
800C ARG* 1.3 63.3 + - - +
802C GLU* 4.2 4.9 - - - +
803C LYS* 3.1 23.8 + - + +
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Residues in contact with ARG 800 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
512C VAL* 5.5 4.4 - - - +
600C GLU* 3.0 41.8 + - - -
784C MET* 3.7 13.5 - - - +
788C TRP* 3.0 73.5 + - + +
792C GLY 3.7 20.6 - - - +
793C ALA 3.7 10.3 + - - -
795C VAL* 2.8 31.8 + - + +
796C ASN 3.0 5.9 + - - +
797C GLN* 3.0 30.3 + - - +
799C GLU* 1.3 77.9 - - - +
801C TYR* 1.3 67.2 + - + +
803C LYS* 3.4 12.8 - - - +
804C PHE* 3.5 4.3 + - - +
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Residues in contact with TYR 801 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
600C GLU* 2.7 30.5 + - - -
603C ASN* 3.3 35.0 + - + +
604C THR* 5.0 0.2 - - - -
607C ILE* 3.8 17.9 - - + -
722C VAL* 3.9 17.3 - - + -
723C THR 3.8 4.9 - - - +
724C PHE* 3.2 39.3 - + + -
725C GLU 5.2 0.9 - - - +
788C TRP* 3.9 10.1 - + - -
797C GLN* 2.8 37.7 + - + +
798C THR* 4.0 2.9 - - - +
800C ARG* 1.3 98.3 - - - +
802C GLU* 1.3 60.7 + - - +
803C LYS 3.2 0.2 - - - -
804C PHE* 3.0 3.1 + - - -
805C ASN* 2.8 25.9 + - - +
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Residues in contact with GLU 802 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
798C THR* 3.0 21.1 + - + +
799C GLU* 4.2 6.1 - - - +
801C TYR* 1.3 75.8 - - - +
803C LYS* 1.3 63.4 + - - +
805C ASN* 3.1 20.8 + - - +
806C GLN* 2.9 57.8 + - - +
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Residues in contact with LYS 803 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
788C TRP* 4.8 8.3 - - + +
799C GLU* 3.1 21.6 + - + +
800C ARG* 3.4 10.3 - - - +
802C GLU* 1.3 76.8 - - - +
804C PHE* 1.3 61.1 + - + +
806C GLN* 3.5 11.6 + - - +
807C ILE* 2.9 48.9 + - + +
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Residues in contact with PHE 804 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
532C LEU* 3.6 24.2 - - + -
607C ILE* 3.5 20.6 - - + -
611C VAL* 3.2 29.6 - - + -
724C PHE* 3.9 12.8 - - + -
787C LEU* 3.3 40.2 - - + -
788C TRP* 3.3 30.7 - + - -
800C ARG 3.5 3.7 + - - +
801C TYR 3.0 7.5 + - - +
803C LYS* 1.3 79.1 - - + +
805C ASN* 1.3 61.3 + - - +
806C GLN 3.1 1.6 - - - -
807C ILE* 3.6 24.9 - - + +
808C LEU* 2.8 41.9 + - + +
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Residues in contact with ASN 805 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
658C GLN* 2.8 26.3 + - - +
724C PHE* 3.5 8.7 - - + -
725C GLU* 3.7 24.1 + - + +
801C TYR 2.8 13.4 + - - +
802C GLU* 3.3 30.7 - - - +
804C PHE* 1.3 77.9 - - - +
806C GLN* 1.3 54.1 + - - +
809C THR* 2.8 37.5 + - - -
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Residues in contact with GLN 806 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
802C GLU* 2.9 45.3 + - - +
803C LYS* 3.7 11.7 - - + +
805C ASN* 1.3 75.0 - - - +
807C ILE* 1.3 67.7 + - + +
809C THR* 3.4 5.8 + - - -
810C ALA* 3.0 24.4 + - - +
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Residues in contact with ILE 807 (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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532C LEU* 4.2 25.4 - - + -
803C LYS* 2.9 51.1 + - + +
804C PHE* 3.4 28.7 + - + +
806C GLN* 1.3 75.0 - - + +
808C LEU* 1.3 63.6 + - + +
810C ALA* 3.2 6.0 + - - +
811C LEU* 3.0 40.5 + - + +
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Residues in contact with LEU 808 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
607C ILE* 5.0 4.3 - - + -
610C ALA* 4.0 18.4 - - + -
611C VAL* 3.7 36.6 - - + +
614C LEU* 3.6 29.7 - - + +
656C MET* 4.0 9.2 - - + -
658C GLN* 3.5 14.1 - - + +
724C PHE* 3.7 22.9 - - + -
804C PHE* 2.8 36.4 + - + +
807C ILE* 1.3 69.9 - - - +
809C THR* 1.3 60.5 + - - +
811C LEU* 3.4 8.7 + - + -
812C SER* 2.9 30.8 + - - -
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Residues in contact with THR 809 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
658C GLN* 3.0 20.4 + - + +
805C ASN* 2.8 28.9 + - - -
806C GLN* 3.7 7.6 - - - -
808C LEU* 1.3 75.8 - - - +
810C ALA* 1.3 64.1 + - - +
812C SER* 3.2 3.8 + - - -
813C ARG* 3.0 41.5 + - + +
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Residues in contact with ALA 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 GLN 3.0 17.4 + - - +
807C ILE* 3.5 6.1 - - - +
809C THR* 1.3 78.7 - - - +
811C LEU* 1.3 58.6 + - + +
813C ARG* 3.3 7.8 + - - +
814C LYS* 2.9 28.8 + - - +
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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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532C LEU* 6.4 0.9 - - + -
611C VAL* 5.7 5.2 - - + +
614C LEU* 3.5 39.3 - - + +
615C GLY* 4.6 7.0 - - - -
807C ILE* 3.0 38.1 + - + +
808C LEU* 3.7 11.0 - - + +
810C ALA* 1.3 78.3 - - + +
812C SER* 1.3 61.4 + - - +
814C LYS* 3.8 27.7 - - + +
815C LEU* 3.0 29.3 + - - +
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Residues in contact with SER 812 (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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614C LEU* 3.6 10.7 - - - +
658C GLN* 2.5 35.5 + - - -
661C ARG* 2.8 31.3 + - - +
662C LEU* 3.4 11.1 - - - +
808C LEU 2.9 18.3 + - - -
809C THR 3.2 4.9 + - - -
811C LEU* 1.3 76.4 - - - +
813C ARG* 1.3 58.3 + - - +
815C LEU* 3.6 1.9 + - - +
816C GLU* 3.0 21.8 + - - +
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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
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661C ARG* 2.8 23.9 - - - +
809C THR* 3.0 36.2 + - + +
810C ALA* 3.8 6.3 - - - +
812C SER* 1.3 75.5 - - - +
814C LYS* 1.3 63.2 + - - +
817C PRO* 3.2 28.3 - - - +
818C PRO* 3.8 31.6 - - + +
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Residues in contact with LYS 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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810C ALA 2.9 16.5 + - - +
811C LEU* 3.8 28.6 - - + +
813C ARG* 1.3 77.3 - - - +
815C LEU* 1.3 79.2 + - - +
816C GLU 3.3 0.9 + - - -
817C PRO* 3.6 11.2 - - - +
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Residues in contact with LEU 815 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
614C LEU* 3.9 42.4 - - + +
617C THR* 4.8 8.7 - - - +
618C GLY 5.5 2.7 - - - +
623C ARG* 3.6 48.3 + - - +
662C LEU* 4.6 3.8 - - + -
664C LYS* 5.9 0.3 + - - -
811C LEU 3.0 16.2 + - - +
812C SER* 3.7 4.9 - - - +
814C LYS* 1.3 90.0 - - - +
816C GLU* 1.3 71.1 + - + +
817C PRO* 4.0 1.8 - - - +
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Residues in contact with GLU 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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623C ARG* 3.0 14.1 + - - +
661C ARG* 2.9 26.0 + - - +
662C LEU* 3.5 19.1 - - + +
663C GLU* 3.5 9.4 + - - +
664C LYS* 3.0 49.9 + - + +
665C THR* 2.8 35.9 + - - -
812C SER 3.0 9.1 + - - +
813C ARG 3.6 2.5 - - - -
815C LEU* 1.3 84.3 - - - +
817C PRO* 1.3 71.5 - - - +
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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
------------------------------------------------------------
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