Contacts of the helix formed by residues 736 - 753 (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 SER 736 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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733A ASN 4.4 6.1 - - - -
734A ASP 2.6 13.0 + - - -
735A GLN* 1.3 73.0 - - - +
737A CYS* 1.3 64.8 + - - +
738A GLU* 3.2 10.6 + - - +
739A ILE* 2.6 41.0 + - - +
740A MET* 3.0 27.5 + - - +
587B THR 3.8 4.9 - - - -
589B PRO* 4.4 11.0 - - - -
717B MET* 4.3 0.2 - - - +
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Residues in contact with CYS 737 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
736A SER* 1.3 69.8 - - - +
738A GLU* 1.3 57.9 + - - +
740A MET* 3.1 12.7 + - - +
741A LEU* 2.8 33.2 + - - +
587B THR* 3.1 38.5 + - - +
713B LEU* 3.9 17.3 - - - -
717B MET* 3.5 29.3 - - - +
744B LEU* 4.1 8.6 - - + +
747B ALA* 3.9 13.0 - - + -
748B ARG* 5.5 5.6 - - + +
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Residues in contact with GLU 738 (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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736A SER* 3.1 8.4 + - - +
737A CYS* 1.3 80.1 - - - +
739A ILE* 1.3 71.1 + - - +
741A LEU* 3.2 8.7 + - + +
742A ASN* 3.0 37.3 + - - +
587B THR 4.9 0.2 + - - -
748B ARG* 5.8 9.0 - - - +
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Residues in contact with ILE 739 (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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692A HIS* 3.7 24.7 - - + +
693A GLU* 3.7 24.7 - - + +
730A TRP* 4.1 12.8 - - + -
733A ASN 5.2 4.0 - - - +
734A ASP* 4.7 4.0 - - - +
736A SER* 2.6 41.1 + - - +
738A GLU* 1.3 85.9 - - + +
740A MET* 1.3 63.3 + - - +
742A ASN* 3.1 18.8 + - - +
743A HIS* 3.2 24.4 + - + +
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Residues in contact with MET 740 (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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716A LEU* 4.0 22.3 - - + +
730A TRP* 3.5 34.8 - - + -
734A ASP 5.1 0.2 - - - +
735A GLN* 5.1 2.2 - - - -
736A SER 3.0 17.2 + - - +
737A CYS* 3.1 33.0 - - - +
739A ILE* 1.3 76.3 - - - +
741A LEU* 1.3 62.9 + - - +
743A HIS* 3.5 2.5 + - - +
744A LEU* 3.1 26.3 + - - +
716B LEU* 5.1 2.0 - - - +
717B MET* 3.4 44.4 - - + -
744B LEU* 3.6 26.5 - - + +
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Residues in contact with LEU 741 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
737A CYS 2.8 19.0 + - - +
738A GLU* 3.2 6.9 + - + +
740A MET* 1.3 75.1 - - - +
742A ASN* 1.3 62.3 + - - +
744A LEU* 3.2 0.8 + - - -
745A ALA* 2.7 36.9 + - + +
834A POG 6.5 0.4 - - + -
741B LEU* 3.2 34.5 - - + -
744B LEU* 4.0 22.5 - - + +
745B ALA* 4.3 12.3 - - + +
748B ARG* 4.0 44.4 - - + +
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Residues in contact with ASN 742 (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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693A GLU* 3.2 19.4 + - - +
694A GLY 3.3 19.1 - - - +
695A ARG* 4.2 14.0 + - - +
738A GLU* 3.0 35.1 + - - +
739A ILE* 3.1 11.5 + - - +
741A LEU* 1.3 77.4 - - - +
743A HIS* 1.3 60.4 + - - +
745A ALA* 3.5 4.5 + - - +
746A THR* 2.8 30.6 + - - -
834A POG 4.0 22.7 - - - +
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Residues in contact with HIS 743 (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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691A LEU 3.5 13.2 - - - -
692A HIS 3.0 21.7 + - - -
694A GLY* 3.4 23.5 + - - -
696A GLU* 5.0 6.2 + - - -
709A LEU* 4.4 4.1 - - + +
712A PRO* 3.7 28.8 - - + +
713A LEU* 4.2 22.2 + - + +
716A LEU* 5.6 2.2 - - + -
730A TRP* 3.6 22.1 - + + -
739A ILE* 3.2 27.3 + - + +
740A MET* 3.5 4.7 + - - +
742A ASN* 1.3 77.1 - - - +
744A LEU* 1.3 53.6 + - + +
746A THR* 3.1 8.1 + - - +
747A ALA* 2.7 35.8 + - - +
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Residues in contact with LEU 744 (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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713A LEU* 3.5 25.1 - - + -
716A LEU* 4.4 14.1 - - + -
717A MET* 5.2 0.2 - - + -
740A MET 3.1 15.7 + - - +
741A LEU 4.0 1.6 - - - +
743A HIS* 1.3 73.9 - - - +
745A ALA* 1.3 66.9 + - - +
747A ALA* 3.4 2.2 + - - +
748A ARG* 3.2 22.0 + - - +
737B CYS* 3.9 28.2 - - + +
740B MET* 3.2 39.7 - - + -
741B LEU* 3.9 18.4 - - + +
744B LEU* 3.0 31.4 - - + -
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Residues in contact with ALA 745 (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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741A LEU* 2.7 31.1 + - + +
742A ASN 3.9 3.4 - - - +
744A LEU* 1.3 72.7 - - - +
746A THR* 1.3 61.3 + - - +
748A ARG* 3.5 9.2 + - - +
749A PHE* 3.3 20.8 + - - +
834A POG 4.1 31.7 - - + +
741B LEU* 4.0 14.8 - - + +
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Residues in contact with THR 746 (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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694A GLY* 3.9 11.0 + - - -
696A GLU* 4.2 32.5 - - + +
697A SER* 4.1 20.4 + - - -
742A ASN 2.8 22.9 + - - -
743A HIS* 3.4 8.1 - - - +
745A ALA* 1.3 76.2 - - - +
747A ALA* 1.3 53.7 + - - +
749A PHE* 3.2 11.2 + - + +
750A MET* 2.8 35.8 + - + +
757A TYR* 5.8 2.9 - - - +
834A POG 4.2 9.6 - - + +
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Residues in contact with ALA 747 (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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587A THR* 3.9 4.7 - - + +
713A LEU* 3.3 42.0 - - + -
743A HIS 2.7 13.2 + - - +
744A LEU 3.6 6.1 - - - +
746A THR* 1.3 73.1 - - - +
748A ARG* 1.3 62.0 + - - +
750A MET* 3.1 18.4 + - - +
751A ALA* 3.0 21.8 + - - +
737B CYS* 3.9 14.8 - - + -
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Residues in contact with ARG 748 (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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587A THR* 5.5 1.1 - - - -
744A LEU 3.2 11.4 + - - +
745A ALA* 3.8 12.2 + - - +
746A THR 3.2 0.2 - - - -
747A ALA* 1.3 79.4 - - - +
749A PHE* 1.3 65.6 + - - +
751A ALA* 3.4 6.7 + - - +
752A GLU* 3.2 39.2 + - - +
834A POG 4.6 22.5 - - - +
737B CYS* 5.3 6.7 - - + +
738B GLU* 6.3 5.2 - - - +
741B LEU* 4.0 26.8 - - + +
748D ARG* 4.5 17.9 - - - +
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Residues in contact with PHE 749 (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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697A SER* 4.6 13.5 - - - -
745A ALA 3.3 9.6 + - - +
746A THR* 3.2 10.7 + - + +
748A ARG* 1.3 80.3 - - + +
750A MET* 1.3 66.8 + - - +
752A GLU* 3.3 4.7 + - - -
753A ALA* 2.9 32.7 + - + +
757A TYR* 5.0 9.0 - + - -
834A POG 3.9 45.3 - - + -
697C SER* 3.6 37.0 - - - -
698C THR* 4.1 15.7 - - + -
749C PHE* 4.9 15.0 - + - -
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Residues in contact with MET 750 (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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583A LEU* 3.3 33.0 - - + +
586A ILE* 3.8 16.4 - - + -
587A THR* 3.8 10.1 - - + -
708A PRO* 3.6 24.5 - - + -
710A LEU* 3.9 11.9 - - - -
713A LEU* 4.1 7.4 - - + -
746A THR* 2.8 19.9 + - + +
747A ALA* 3.1 22.0 + - - +
749A PHE* 1.3 73.0 - - - +
751A ALA* 1.3 51.7 - - - +
753A ALA 3.2 1.0 + - - -
754A ALA* 2.7 37.2 + - - +
757A TYR* 3.8 33.8 - - + +
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Residues in contact with ALA 751 (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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583A LEU 4.2 7.9 - - - -
584A GLU* 3.6 35.6 - - + +
587A THR* 4.0 22.4 - - + +
747A ALA 3.0 13.9 + - - +
748A ARG* 3.8 6.7 - - - +
749A PHE 3.2 0.4 - - - -
750A MET* 1.3 75.8 - - - +
752A GLU* 1.3 66.2 + - - +
753A ALA 3.4 0.5 + - - -
754A ALA* 3.4 15.2 + - - +
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Residues in contact with GLU 752 (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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748A ARG* 3.2 37.5 + - - +
749A PHE* 3.9 3.3 - - - +
751A ALA* 1.3 80.8 - - - +
753A ALA* 1.3 57.5 + - - +
754A ALA 3.7 0.5 + - - -
755A ASP* 6.0 0.3 - - - +
834A POG 6.0 3.6 - - - +
695C ARG* 3.3 27.6 + - - +
698C THR* 3.7 37.1 + - + +
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Residues in contact with ALA 753 (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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749A PHE* 2.9 31.4 + - + +
750A MET 3.3 2.9 - - - +
752A GLU* 1.3 76.0 - - - +
754A ALA* 1.3 64.6 + - - +
755A ASP* 2.8 6.3 + - - -
756A SER* 2.9 30.6 + - - +
757A TYR* 3.7 5.9 - - + -
697C SER 4.0 20.9 - - - +
698C THR* 4.1 12.1 - - + +
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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