Contacts of the helix formed by residues 744 - 764 (chain A) in PDB entry 2G5T
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 744 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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738A GLU* 2.9 29.7 + - - -
742A ILE 3.7 0.2 - - - -
743A ALA* 1.3 81.8 - - - +
745A SER* 1.3 64.8 + - - +
746A THR* 3.6 7.6 + - - -
747A ALA* 3.1 18.2 + - - +
748A HIS* 2.9 18.5 + - - +
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Residues in contact with SER 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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743A ALA 3.3 2.7 + - - -
744A SER* 1.3 74.5 - - - +
746A THR* 1.3 66.2 + - - +
748A HIS* 3.9 4.2 - - - +
749A GLN* 2.9 45.0 + - - +
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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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744A SER* 3.6 8.8 + - - -
745A SER* 1.3 79.8 - - - +
747A ALA* 1.3 65.4 + - - +
749A GLN* 3.5 7.9 + - - +
750A HIS* 3.0 24.1 + - - +
724B VAL* 3.8 17.0 - - - +
725B ASP* 3.0 47.2 + - + +
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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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735A TYR* 4.3 8.9 - - + -
738A GLU* 3.5 30.3 - - + +
742A ILE* 3.9 12.0 - - + +
744A SER* 3.1 18.6 + - - +
746A THR* 1.3 81.3 + - - +
748A HIS* 1.3 58.1 + - - +
750A HIS* 3.6 1.2 - - - +
751A ILE* 2.8 34.5 + - - +
724B VAL* 3.8 13.2 - - + +
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Residues in contact with HIS 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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48A TYR* 3.3 36.9 + - - -
49A LEU* 4.2 14.5 - - + +
629A TRP* 6.3 0.4 - - - -
741A GLY 5.8 0.2 + - - -
742A ILE 3.6 16.4 + - - +
743A ALA* 4.1 10.2 - - - +
744A SER 2.9 19.1 + - - +
745A SER* 3.9 4.3 - - - +
747A ALA* 1.3 77.7 - - - +
749A GLN* 1.3 67.9 + - + +
751A ILE* 3.4 7.7 - - - +
752A TYR* 3.2 49.6 + + - +
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Residues in contact with GLN 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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49A LEU* 3.7 45.2 + - + +
50A LYS* 2.9 34.1 + - - +
745A SER* 2.9 39.8 + - - +
746A THR* 4.0 7.2 - - - +
747A ALA 3.3 0.4 - - - -
748A HIS* 1.3 83.0 - - + +
750A HIS* 1.3 55.2 + - - +
753A THR* 2.8 36.6 + - - -
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Residues in contact with HIS 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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733A MET* 4.4 10.3 - - + -
735A TYR* 2.8 26.6 + + + +
746A THR 3.0 18.7 + - - +
747A ALA 3.2 4.2 + - - +
749A GLN* 1.3 75.8 - - - +
751A ILE* 1.3 59.5 + - - +
753A THR* 3.3 5.7 + - - +
754A HIS* 2.9 27.2 + - - +
724B VAL* 3.8 33.9 - - + +
727B GLY* 4.9 4.5 - - - -
728B VAL 2.8 35.6 + - - -
729B ASP* 3.8 19.8 - - + -
730B PHE* 3.7 21.0 - + - -
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Residues in contact with ILE 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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629A TRP* 4.1 9.9 - - + -
653A VAL* 3.9 15.5 - - + -
703A ILE* 3.6 37.2 - - + -
735A TYR* 3.0 24.6 + - + +
742A ILE* 3.8 26.7 - - + +
747A ALA 2.8 19.3 + - - +
748A HIS* 3.4 16.4 - - - +
750A HIS* 1.3 73.2 - - - +
752A TYR* 1.3 85.2 + - + +
754A HIS* 3.1 3.2 + - - +
755A MET* 2.9 34.1 + - - +
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Residues in contact with TYR 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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45A LEU* 4.7 3.4 - - + -
48A TYR* 4.1 13.2 + + + -
49A LEU* 4.1 15.3 - - + -
563A TRP* 3.5 56.9 + + + -
627A TRP* 3.9 15.2 - + - -
629A TRP* 3.8 25.0 - + - -
748A HIS* 3.2 52.8 + + - +
750A HIS 3.3 0.4 - - - -
751A ILE* 1.3 88.8 - - + +
753A THR* 1.3 63.4 + - - +
755A MET* 4.1 8.5 - - - +
756A SER* 2.8 30.0 + - - -
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Residues in contact with THR 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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45A LEU* 4.1 15.3 - - + +
49A LEU* 3.6 15.4 - - - +
749A GLN* 2.8 23.9 + - - +
750A HIS* 3.7 6.7 - - + -
752A TYR* 1.3 77.6 - - - +
754A HIS* 1.3 62.7 + - - +
756A SER* 3.4 2.9 + - - -
757A HIS* 3.2 42.7 + - + +
729B ASP* 5.0 11.0 - - + -
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Residues in contact with HIS 754 (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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701A LEU* 4.1 25.4 - - + +
703A ILE* 4.9 2.9 - - + -
731A GLN* 5.9 1.8 - - - +
732A ALA 4.7 2.8 + - - -
733A MET* 3.5 32.7 - - + +
735A TYR* 4.2 6.5 - - - +
750A HIS* 2.9 18.6 + - - +
751A ILE* 3.4 5.4 - - + +
753A THR* 1.3 78.2 - - - +
755A MET* 1.3 61.3 + - + +
757A HIS* 3.4 8.6 + - + +
758A PHE* 3.2 18.4 + - + +
729B ASP* 2.7 27.2 + - - +
730B PHE 3.1 25.3 + - - -
731B GLN* 4.1 18.3 - - - -
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Residues in contact with MET 755 (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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563A TRP* 3.8 18.8 - - + -
627A TRP* 3.2 41.1 - - + -
629A TRP* 5.7 0.2 - - - -
651A ILE* 3.3 39.0 - - + +
653A VAL* 4.1 12.8 - - + -
701A LEU* 4.4 2.2 - - + -
703A ILE* 3.8 18.2 - - + -
751A ILE* 2.9 30.2 + - - +
752A TYR* 4.1 12.3 - - - +
754A HIS* 1.3 73.7 - - - +
756A SER* 1.3 67.4 + - - +
758A PHE* 3.1 4.7 + - - +
759A ILE* 2.9 26.9 + - - +
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Residues in contact with SER 756 (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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45A LEU* 3.7 13.3 - - - +
563A TRP* 2.9 25.4 + - - -
566A TYR* 3.6 24.7 - - - -
567A LEU* 5.4 1.7 - - - +
752A TYR 2.8 22.9 + - - -
753A THR 3.6 5.2 - - - -
754A HIS 3.3 0.2 - - - -
755A MET* 1.3 76.2 - - - +
757A HIS* 1.3 60.2 + - - +
759A ILE* 3.1 4.6 + - - +
760A LYS* 2.8 37.3 + - - +
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Residues in contact with HIS 757 (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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753A THR* 3.2 33.9 + - + +
754A HIS* 3.5 8.3 - - - +
755A MET 3.3 0.2 - - - -
756A SER* 1.3 80.7 - - - +
758A PHE* 1.3 57.6 + - - +
760A LYS* 3.7 14.8 + - - +
761A GLN* 3.0 31.2 + - - +
729B ASP* 3.5 29.7 + - - +
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Residues in contact with PHE 758 (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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649A CYS* 3.9 20.2 - - + -
650A GLY 4.0 5.6 - - - -
651A ILE* 3.6 30.3 - - + -
699A GLU* 3.6 34.1 - - + -
700A TYR 4.5 0.4 - - - -
701A LEU* 3.9 32.3 - - + -
731A GLN* 3.9 26.9 - - + -
754A HIS* 3.2 10.3 + - + +
755A MET 3.1 8.8 + - - +
757A HIS* 1.3 79.1 - - - +
759A ILE* 1.3 60.3 + - + +
761A GLN* 2.6 43.7 + - - +
762A CYS* 2.9 15.1 + - + +
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Residues in contact with ILE 759 (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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543A LEU* 4.5 16.2 - - + -
563A TRP* 4.0 14.8 - - + -
567A LEU* 4.7 7.9 - - + -
573A ILE* 3.8 15.9 - - + -
625A ALA* 4.5 20.0 - - + -
626A ILE 6.0 0.7 - - - +
627A TRP* 5.8 0.4 - - + -
649A CYS* 4.8 4.9 - - - -
650A GLY* 6.2 0.7 - - - -
651A ILE* 3.8 24.2 - - + -
755A MET 2.9 19.2 + - - +
756A SER* 3.7 5.2 - - - +
758A PHE* 1.3 79.3 - - + +
760A LYS* 1.3 68.2 + - + +
762A CYS* 3.2 2.6 + - - +
763A PHE* 2.9 49.9 + - + +
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Residues in contact with LYS 760 (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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566A TYR* 4.2 7.7 + - - +
567A LEU* 6.3 1.6 - - + -
571A GLU* 3.2 46.5 + - + +
573A ILE* 6.0 2.7 - - + -
756A SER* 2.8 33.6 + - - +
757A HIS* 3.7 16.2 + - - +
759A ILE* 1.3 73.7 - - + +
761A GLN* 1.3 53.8 + - - +
763A PHE* 3.5 2.6 - - - -
764A SER* 2.7 47.5 + - - +
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Residues in contact with GLN 761 (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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648A LYS* 5.2 0.7 + - - -
699A GLU* 2.9 23.3 - - - +
731A GLN* 5.9 0.9 - - - +
757A HIS 3.0 13.6 + - - +
758A PHE* 2.6 55.7 + - - +
760A LYS* 1.3 78.1 - - - +
762A CYS* 1.3 66.7 + - - +
763A PHE 3.3 0.2 + - - -
764A SER* 3.3 18.0 + - - +
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Residues in contact with CYS 762 (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* 4.8 1.0 - - - +
648A LYS* 3.1 49.4 + - - +
649A CYS* 2.0 52.3 - - + -
699A GLU* 4.5 5.2 - - - +
758A PHE* 2.9 19.4 + - + +
759A ILE* 3.2 5.6 + - - +
761A GLN* 1.3 84.2 - - - +
763A PHE* 1.3 69.6 + - - +
764A SER 5.1 1.2 - - - +
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Residues in contact with PHE 763 (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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541A PRO* 3.8 20.2 - - + -
542A LEU 3.6 8.5 - - - -
543A LEU* 4.7 2.5 - - + -
573A ILE* 3.8 26.2 - - + -
623A ARG* 2.9 84.4 + - + +
624A ILE 3.9 1.3 - - - -
625A ALA* 3.3 32.3 - - + -
649A CYS* 4.9 0.2 - - - -
759A ILE* 2.9 39.6 + - + +
760A LYS* 4.1 2.5 - - - +
762A CYS* 1.3 90.0 - - - +
764A SER* 1.3 63.3 + - - +
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Residues in contact with SER 764 (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* 5.1 1.1 + - - +
760A LYS* 2.7 30.9 + - - +
761A GLN* 3.3 15.3 + - - +
762A CYS 5.1 1.0 - - - +
763A PHE* 1.3 79.6 + - - +
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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