Contacts of the helix formed by residues 736 - 753 (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 SER 736 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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733C ASN 4.5 6.1 - - - -
734C ASP 3.0 4.6 + - - -
735C GLN* 1.3 78.0 - - - +
737C CYS* 1.3 63.7 + - - +
738C GLU* 3.5 11.0 + - - +
739C ILE* 3.0 29.5 + - - +
740C MET* 3.0 26.7 + - - +
587D THR 3.7 7.0 - - - -
588D LEU* 4.9 1.8 - - - -
589D PRO* 3.9 19.5 - - - -
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Residues in contact with CYS 737 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
736C SER* 1.3 71.0 - - - +
738C GLU* 1.3 55.2 + - - +
740C MET* 3.2 8.4 + - - +
741C LEU* 2.8 38.2 + - - +
587D THR* 3.0 39.0 + - - +
713D LEU* 3.8 19.1 - - - -
717D MET* 3.5 29.2 - - - -
744D LEU* 4.0 11.8 - - + +
747D ALA* 3.9 13.2 - - + -
748D ARG* 5.2 5.4 - - + +
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Residues in contact with GLU 738 (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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736C SER* 3.1 10.0 + - - +
737C CYS* 1.3 78.2 - - - +
739C ILE* 1.3 64.9 + - + +
741C LEU* 3.4 5.7 + - - +
742C ASN* 3.1 38.4 + - - +
587D THR 4.6 1.2 + - - -
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Residues in contact with ILE 739 (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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692C HIS* 3.8 16.2 - - + +
693C GLU* 4.1 29.4 - - + +
730C TRP* 3.9 14.8 - - + -
733C ASN 4.1 17.7 - - - +
734C ASP* 4.6 12.3 - - + +
736C SER* 3.0 24.4 + - - +
738C GLU* 1.3 74.7 - - + +
740C MET* 1.3 67.3 + - - +
742C ASN* 3.1 16.4 + - - +
743C HIS* 3.1 32.2 + - + -
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Residues in contact with MET 740 (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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716C LEU* 4.1 23.2 - - + +
730C TRP* 3.5 33.4 - - + -
734C ASP 5.0 0.4 - - - +
735C GLN* 4.4 1.8 - - - -
736C SER 3.0 40.1 + - - +
737C CYS* 3.3 12.6 - - - +
739C ILE* 1.3 78.3 - - - +
741C LEU* 1.3 56.0 + - - +
743C HIS* 3.2 3.9 + - - +
744C LEU* 2.9 31.5 + - - +
716D LEU* 4.8 3.1 - - - +
717D MET* 3.4 46.2 - - + -
744D LEU* 3.6 22.4 - - + -
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Residues in contact with LEU 741 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
834A POG 5.8 0.4 - - + -
737C CYS 2.8 22.4 + - - +
738C GLU* 3.7 6.3 - - - +
740C MET* 1.3 70.0 - - - +
742C ASN* 1.3 63.3 + - - +
744C LEU* 4.4 0.7 - - - +
745C ALA* 2.8 36.4 + - + +
741D LEU* 3.4 30.1 - - + -
744D LEU* 4.1 23.3 - - + +
745D ALA* 4.1 14.8 - - + +
748D ARG* 4.0 46.4 - - + +
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Residues in contact with ASN 742 (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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834A POG 3.9 23.1 - - + +
693C GLU* 2.9 21.9 + - - +
694C GLY 3.2 17.9 - - - +
695C ARG* 3.7 17.4 - - - +
738C GLU* 3.1 30.0 + - - +
739C ILE* 3.4 11.7 - - - +
741C LEU* 1.3 78.6 - - - +
743C HIS* 1.3 54.2 + - - +
745C ALA* 4.0 0.7 - - - +
746C THR* 2.7 37.4 + - - -
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Residues in contact with HIS 743 (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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691C LEU 3.5 12.6 - - - -
692C HIS 3.0 21.7 + - - -
694C GLY* 3.1 23.5 + - - -
696C GLU* 5.0 6.7 + - - -
709C LEU* 4.3 5.3 - - + +
712C PRO* 3.5 32.6 - - + +
713C LEU* 4.3 22.7 + - + +
716C LEU* 5.1 3.4 - - + -
730C TRP* 3.9 12.9 - + + -
739C ILE* 3.1 31.8 + - + -
740C MET* 3.6 7.4 - - - +
742C ASN* 1.3 81.5 - - - +
744C LEU* 1.3 58.1 + - - +
746C THR* 3.4 7.0 + - - +
747C ALA* 2.9 26.3 + - - +
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Residues in contact with LEU 744 (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 LEU* 3.8 21.3 - - + -
716C LEU* 4.4 4.5 - - + -
740C MET 2.9 14.6 + - - +
741C LEU* 4.1 1.8 - - - +
743C HIS* 1.3 73.9 - - - +
745C ALA* 1.3 65.1 + - - +
747C ALA* 3.0 4.8 + - - +
748C ARG* 3.0 22.3 + - - +
737D CYS* 4.3 14.5 - - - +
740D MET* 3.4 56.8 - - + -
741D LEU* 3.7 20.1 - - + +
744D LEU* 2.7 36.8 - - + -
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Residues in contact with ALA 745 (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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834A POG 4.2 34.7 - - + +
741C LEU* 2.8 32.9 + - + +
742C ASN 4.2 2.0 - - - +
744C LEU* 1.3 72.4 - - - +
746C THR* 1.3 61.3 + - - +
748C ARG* 3.4 10.5 + - - +
749C PHE* 3.2 21.3 + - - +
741D LEU* 3.8 14.2 - - + +
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Residues in contact with THR 746 (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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834A POG 3.7 15.5 - - - -
694C GLY 4.0 8.5 + - - -
696C GLU* 4.2 32.0 - - + +
697C SER* 4.0 15.0 + - - -
742C ASN 2.7 24.0 + - - -
743C HIS* 3.6 7.2 - - - +
744C LEU 3.1 0.2 - - - -
745C ALA* 1.3 78.7 - - - +
747C ALA* 1.3 56.8 + - - +
749C PHE* 3.2 10.7 + - + +
750C MET* 2.8 31.0 + - + +
757C TYR* 5.4 4.3 - - - +
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Residues in contact with ALA 747 (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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587C THR* 3.8 6.1 - - + +
713C LEU* 3.6 30.1 - - + -
743C HIS 2.9 14.0 + - - +
744C LEU 3.0 8.0 + - - +
746C THR* 1.3 73.6 - - - +
748C ARG* 1.3 67.3 + - - +
750C MET* 3.6 12.0 - - + +
751C ALA* 3.0 24.6 + - - +
737D CYS* 3.8 20.4 - - - -
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Residues in contact with ARG 748 (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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834A POG 3.6 50.6 + - - +
834B POG 5.8 1.8 + - - -
587C THR* 5.7 0.2 - - - -
744C LEU 3.0 6.4 + - - +
745C ALA* 3.7 17.0 + - - +
746C THR 3.3 0.2 - - - -
747C ALA* 1.3 78.1 - - - +
749C PHE* 1.3 64.0 + - - +
751C ALA* 3.5 4.8 + - - +
752C GLU* 3.2 43.3 + - + +
737D CYS* 5.4 5.1 - - + +
738D GLU* 6.6 0.4 - - - -
741D LEU* 3.6 35.9 - - + +
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Residues in contact with PHE 749 (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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697A SER* 3.4 37.0 - - - -
698A THR* 4.4 9.9 - - + -
749A PHE* 4.9 16.2 - + - -
834A POG 4.1 29.6 - - + +
697C SER* 5.4 12.6 - - - -
745C ALA 3.2 11.3 + - - +
746C THR* 3.5 15.9 - - + +
747C ALA 3.2 0.2 - - - -
748C ARG* 1.3 81.6 - - - +
750C MET* 1.3 67.6 + - - +
752C GLU* 2.9 11.0 + - - +
753C ALA* 2.9 38.6 + - + +
756C SER* 5.7 1.3 - - - -
757C TYR* 4.0 17.7 - + - -
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Residues in contact with MET 750 (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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583C LEU* 3.4 35.9 - - + +
586C ILE* 4.2 6.7 - - + -
587C THR* 3.6 20.4 - - + -
708C PRO* 3.7 24.7 - - + -
710C LEU* 4.0 12.1 - - - -
713C LEU* 4.1 21.3 - - + -
746C THR* 2.8 21.4 + - + +
747C ALA* 3.6 5.8 - - - +
749C PHE* 1.3 73.8 - - - +
751C ALA* 1.3 62.5 + - - +
753C ALA 3.1 1.4 + - - -
754C ALA* 2.9 26.5 + - - +
757C TYR* 3.7 34.7 - - + +
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Residues in contact with ALA 751 (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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583C LEU 4.4 2.0 - - - -
584C GLU* 3.6 37.3 - - + +
587C THR* 4.0 24.9 - - + +
747C ALA 3.0 17.6 + - - +
748C ARG* 3.7 5.6 - - - +
750C MET* 1.3 77.8 - - - +
752C GLU* 1.3 65.4 + - + +
753C ALA 3.3 0.5 + - - -
754C ALA* 3.4 13.8 + - - +
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Residues in contact with GLU 752 (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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695A ARG* 4.7 9.1 + - - +
698A THR* 3.5 32.6 - - + +
834A POG 3.3 21.3 + - - -
748C ARG* 3.2 39.2 + - + +
749C PHE* 2.9 10.2 + - - +
751C ALA* 1.3 80.3 - - + +
753C ALA* 1.3 58.2 + - - +
754C ALA 3.4 1.2 + - - -
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Residues in contact with ALA 753 (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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697A SER 4.5 1.6 - - - +
698A THR* 4.2 20.2 - - - +
700A VAL* 6.4 0.2 - - + -
749C PHE* 2.9 40.0 + - + +
750C MET* 3.3 4.3 - - - +
752C GLU* 1.3 79.8 - - - +
754C ALA* 1.3 61.5 + - - +
755C ASP 3.0 4.0 + - - -
756C SER* 2.8 31.0 + - - +
757C TYR* 3.7 4.5 - - + -
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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