Contacts of the helix formed by residues 796 - 816 (chain A) 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 A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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794A GLN 4.1 0.2 + - - -
795A VAL* 1.3 82.7 - - - +
797A GLN* 1.3 67.6 + - - +
798A THR* 3.1 14.2 + - - +
799A GLU* 2.8 52.9 + - - +
800A ARG* 2.9 20.1 + - - +
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Residues in contact with GLN 797 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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513A SER* 4.9 3.7 + - - -
596A LEU* 5.1 3.2 + - - +
599A ILE* 4.4 7.7 - - - +
600A GLU* 3.3 27.2 + - - +
720A GLN 5.5 0.2 - - - +
721A ALA* 5.5 0.3 - - - -
722A VAL* 3.6 37.2 + - + +
795A VAL 3.6 1.6 + - - -
796A ASN* 1.3 72.0 - - - +
798A THR* 1.3 54.7 + - - +
800A ARG* 3.1 25.6 + - - +
801A TYR* 2.7 63.8 + - + +
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Residues in contact with THR 798 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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722A VAL* 3.7 29.0 - - + +
796A ASN* 3.1 9.7 + - - +
797A GLN* 1.3 77.8 - - - +
799A GLU* 1.3 60.1 + - - +
801A TYR* 4.0 2.2 - - - +
802A GLU* 2.9 32.4 + - + +
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Residues in contact with GLU 799 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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795A VAL* 3.5 23.7 - - + +
796A ASN* 2.8 33.3 + - - +
798A THR* 1.3 73.4 - - + +
800A ARG* 1.3 64.9 + - - +
802A GLU* 3.9 5.1 - - - +
803A LYS* 3.0 25.1 + - + +
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Residues in contact with ARG 800 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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600A GLU* 2.9 36.4 + - - -
784A MET* 3.7 11.8 - - - +
788A TRP* 3.0 81.1 + - + +
792A GLY 3.4 23.8 - - - +
793A ALA 3.6 10.2 + - - -
795A VAL* 2.9 26.8 + - + +
796A ASN 2.9 12.3 + - - +
797A GLN* 3.6 20.8 - - - +
799A GLU* 1.3 78.5 - - - +
801A TYR* 1.3 65.8 + - + +
803A LYS* 3.4 12.1 - - - +
804A PHE* 3.4 5.0 + - - -
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Residues in contact with TYR 801 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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600A GLU* 2.7 28.7 + - - -
603A ASN* 3.3 38.4 + - + +
604A THR* 5.0 0.2 - - - -
607A ILE* 3.9 23.8 - - + -
722A VAL* 3.9 18.4 - - + -
723A THR 3.8 6.3 - - - +
724A PHE* 3.6 41.2 - - + -
725A GLU 5.2 1.1 - - - +
788A TRP* 4.0 3.1 - + - -
797A GLN* 2.7 41.8 + - + +
798A THR* 4.1 2.9 - - - +
800A ARG* 1.3 93.3 - - - +
802A GLU* 1.3 66.1 + - - +
803A LYS 3.1 0.2 - - - -
804A PHE 3.1 2.8 + - - -
805A ASN* 3.0 19.3 + - - +
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Residues in contact with GLU 802 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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798A THR* 2.9 22.3 + - + +
799A GLU* 3.9 5.6 - - - +
801A TYR* 1.3 76.0 - - - +
803A LYS* 1.3 63.6 + - - +
805A ASN* 3.3 20.2 + - - +
806A GLN* 3.0 48.4 + - - +
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Residues in contact with LYS 803 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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531A PRO* 4.5 23.6 - - - +
787A LEU 5.8 0.4 - - - -
788A TRP* 4.1 26.7 + - + +
792A GLY* 6.2 1.2 - - - -
799A GLU 3.0 15.0 + - - +
800A ARG* 3.4 10.5 - - - +
801A TYR 3.1 0.4 - - - -
802A GLU* 1.3 77.3 - - - +
804A PHE* 1.3 63.9 + - + +
806A GLN* 3.2 15.0 + - - +
807A ILE* 3.0 44.6 + - + +
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Residues in contact with PHE 804 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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532A LEU* 3.6 30.3 - - + -
607A ILE* 3.9 14.4 - - + -
611A VAL* 3.6 31.9 - - + -
724A PHE* 4.1 14.1 - - + -
787A LEU* 3.4 42.0 - - + -
788A TRP* 3.5 37.0 - + - -
800A ARG 3.4 2.1 + - - +
801A TYR 3.1 7.0 + - - +
803A LYS* 1.3 79.6 - - + +
805A ASN* 1.3 61.1 + - - +
807A ILE* 4.1 21.8 - - + -
808A LEU* 2.7 37.9 + - + +
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Residues in contact with ASN 805 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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657A PRO* 5.8 0.3 - - - +
658A GLN* 3.3 19.1 - - - +
724A PHE* 3.7 11.5 - - + -
725A GLU* 3.3 23.8 - - + +
801A TYR 3.0 12.7 + - - +
802A GLU* 3.6 29.0 + - - +
803A LYS 3.3 0.2 - - - -
804A PHE* 1.3 77.1 - - - +
806A GLN* 1.3 58.4 + - - +
809A THR* 2.7 37.7 + - - -
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Residues in contact with GLN 806 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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802A GLU* 3.0 41.4 + - - +
803A LYS* 3.2 12.6 + - - +
804A PHE 3.1 0.4 - - - -
805A ASN* 1.3 77.3 - - - +
807A ILE* 1.3 65.2 + - + +
809A THR* 3.4 5.5 + - - -
810A ALA* 3.1 23.7 + - - +
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Residues in contact with ILE 807 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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532A LEU* 4.2 16.8 - - + -
611A VAL* 5.8 0.2 - - + -
803A LYS* 3.0 45.4 + - + +
804A PHE* 3.2 37.4 + - + +
806A GLN* 1.3 76.5 - - + +
808A LEU* 1.3 60.8 + - + +
810A ALA* 3.3 6.6 + - - +
811A LEU* 3.0 44.6 + - + +
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Residues in contact with LEU 808 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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607A ILE* 4.8 7.4 - - + -
610A ALA* 4.0 22.9 - - + -
611A VAL* 3.8 29.2 - - + -
614A LEU* 3.7 26.7 - - + +
656A MET* 4.3 5.8 - - - -
658A GLN* 3.7 18.8 - - + +
724A PHE* 3.7 25.1 - - + -
804A PHE* 2.7 33.8 + - + +
807A ILE* 1.3 73.9 - - + +
809A THR* 1.3 60.4 + - - +
811A LEU* 4.5 4.5 - - + +
812A SER* 3.0 31.2 + - - -
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Residues in contact with THR 809 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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658A GLN* 3.3 20.8 + - + +
805A ASN* 2.7 29.0 + - - -
806A GLN* 3.8 6.1 - - - -
807A ILE 3.3 0.2 - - - -
808A LEU* 1.3 77.8 - - - +
810A ALA* 1.3 53.0 + - - +
812A SER* 3.9 1.9 - - - -
813A ARG* 2.7 56.2 + - + +
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Residues in contact with ALA 810 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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806A GLN 3.1 16.3 + - - +
807A ILE* 3.7 7.2 - - - +
808A LEU 3.1 0.4 - - - -
809A THR* 1.3 76.7 - - - +
811A LEU* 1.3 61.6 + - + +
813A ARG* 3.3 8.6 + - - +
814A LYS* 2.8 30.4 + - - +
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Residues in contact with LEU 811 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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532A LEU* 6.0 2.9 - - + -
611A VAL* 5.7 4.9 - - + +
614A LEU* 3.5 40.4 - - + +
615A GLY* 4.1 9.4 - - - -
807A ILE* 3.0 34.4 + - + +
808A LEU* 4.1 9.0 - - + +
810A ALA* 1.3 75.4 - - + +
812A SER* 1.3 60.1 + - - +
814A LYS* 3.5 31.2 - - - +
815A LEU* 2.9 35.0 + - - +
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Residues in contact with SER 812 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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614A LEU* 3.4 12.7 - - - +
658A GLN* 2.9 33.0 + - - -
661A ARG* 3.0 28.6 + - - +
662A LEU* 3.6 8.5 - - - +
808A LEU 3.0 19.3 + - - -
809A THR* 3.9 5.2 - - - -
811A LEU* 1.3 78.7 - - - +
813A ARG* 1.3 54.9 + - - +
815A LEU* 3.9 1.1 - - - +
816A GLU* 2.9 26.2 + - - +
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Residues in contact with ARG 813 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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661A ARG* 3.3 19.5 - - - +
809A THR* 2.7 40.8 + - + +
810A ALA* 3.6 7.0 - - - +
812A SER* 1.3 75.1 - - - +
814A LYS* 1.3 65.7 + - - +
817A PRO* 3.2 31.5 - - + +
818A PRO* 4.8 20.0 - - + +
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Residues in contact with LYS 814 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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614A LEU 5.4 1.0 + - - -
810A ALA 2.8 17.8 + - - +
811A LEU* 3.5 32.1 - - - +
813A ARG* 1.3 78.0 - - - +
815A LEU* 1.3 77.7 + - - +
817A PRO* 4.0 9.4 - - - +
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Residues in contact with LEU 815 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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614A LEU* 3.4 46.4 - - + +
617A THR* 5.0 7.6 - - - +
618A GLY 4.9 7.9 - - - +
623A ARG* 3.8 48.1 + - - +
662A LEU* 4.9 2.9 - - + -
811A LEU 2.9 18.6 + - - +
812A SER* 3.9 3.8 - - - +
814A LYS* 1.3 95.2 - - - +
816A GLU* 1.3 67.4 + - + +
817A PRO* 3.8 3.0 - - - +
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Residues in contact with GLU 816 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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623A ARG* 3.0 14.8 + - - +
661A ARG* 2.5 36.4 + - - +
662A LEU* 3.7 20.5 - - + +
663A GLU* 3.1 10.7 + - - +
664A LYS* 2.9 51.4 + - + +
665A THR* 2.7 35.0 + - - -
812A SER 2.9 13.4 + - - +
813A ARG 3.6 0.4 - - - -
815A LEU* 1.3 80.1 - - - +
817A PRO* 1.3 64.1 - - - +
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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