Contacts of the helix formed by residues 746 - 760 (chain A) in PDB entry 6AGF
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 ASP 746 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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151A SER* 4.7 4.3 - - - -
719A MET* 3.6 7.9 - - - +
743A HIS* 4.3 4.4 - - - +
744A MET 3.2 8.0 - - - +
745A HIS* 1.3 81.3 - - + +
747A PHE* 1.3 72.4 + - - +
748A PHE* 3.5 13.7 + - - +
749A HIS* 3.8 27.4 - - + +
750A SER* 3.2 15.9 + - - -
1913A 6OU 4.1 30.3 + - - +
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Residues in contact with PHE 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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149A THR* 3.5 46.2 - - + +
150A MET* 5.4 1.3 - - - -
151A SER* 4.9 1.0 + - - +
712A PHE* 4.4 14.8 - + - -
715A ALA* 3.7 30.3 - - + -
716A VAL* 4.2 17.0 - - + -
719A MET* 3.7 16.7 - - - -
746A ASP* 1.3 79.8 + - - +
748A PHE* 1.3 71.6 + - - +
750A SER* 2.8 18.9 + - - -
751A PHE* 3.0 18.6 + + + -
1913A 6OU 4.3 54.1 - - + +
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Residues in contact with PHE 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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746A ASP* 3.5 10.7 + - - +
747A PHE* 1.3 84.1 - - - +
749A HIS* 1.3 60.0 + + + +
751A PHE* 3.4 23.8 + + - +
752A LEU* 3.0 51.3 + - + +
1269A LEU* 3.9 36.8 - - + -
1270A TYR* 3.9 28.9 - + + +
1272A TYR* 4.4 6.1 - + + -
1273A LEU* 4.3 21.8 - - + -
1913A 6OU 4.0 40.1 + - + +
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Residues in contact with HIS 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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741A ARG 3.9 17.0 + - - -
742A TRP* 5.1 2.8 - - - -
743A HIS* 3.5 60.3 + + + +
746A ASP* 3.8 22.4 + - + +
747A PHE 3.2 0.6 - - - -
748A PHE* 1.3 80.2 - + + +
750A SER* 1.3 61.0 + - - +
752A LEU* 3.2 19.7 + - + +
753A ILE* 2.9 25.8 + - - +
1266A GLU* 4.8 10.2 - - + -
1269A LEU* 4.3 31.4 - - + +
1272A TYR* 5.2 2.9 - + - -
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Residues in contact with SER 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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714A PHE 5.5 0.2 - - - -
715A ALA* 3.0 28.0 + - - -
718A GLY* 4.9 0.4 - - - -
719A MET* 3.9 7.4 - - - +
743A HIS 3.9 0.8 + - - -
744A MET* 3.8 31.9 - - - +
746A ASP 3.2 14.8 + - - -
747A PHE* 2.8 17.2 + - - -
749A HIS* 1.3 75.9 - - - +
751A PHE* 1.3 62.2 + - - +
753A ILE* 3.7 3.1 + - - +
754A VAL* 3.2 28.1 + - - +
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Residues in contact with PHE 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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711A VAL* 3.7 35.2 - - + -
712A PHE* 6.2 0.4 - - - -
715A ALA* 3.9 13.4 - - + +
747A PHE* 3.0 23.2 + + + +
748A PHE* 3.5 33.0 - + - +
749A HIS 3.2 0.2 - - - -
750A SER* 1.3 77.3 + - - +
752A LEU* 1.3 64.0 + - + +
754A VAL* 3.2 3.0 + - + -
755A PHE* 2.8 48.1 + + + +
1273A LEU* 4.9 5.2 - - + -
1276A VAL* 5.0 7.4 - - + -
1913A 6OU 4.0 42.8 - - + -
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Residues in contact with LEU 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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742A TRP* 3.4 29.0 - - + -
748A PHE* 3.0 41.1 + - + +
749A HIS* 3.2 22.6 + - + +
751A PHE* 1.3 81.4 - - + +
753A ILE* 1.3 60.5 + - - +
755A PHE* 4.0 8.6 - - + +
756A ARG* 3.2 15.1 + - - +
1272A TYR* 3.9 54.1 - - + -
1276A VAL* 4.6 16.6 - - + -
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Residues in contact with ILE 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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726A TYR* 4.5 8.1 - - - +
742A TRP* 4.3 20.2 - - + +
743A HIS* 3.2 31.4 - - - +
744A MET* 3.8 33.7 - - + -
749A HIS 2.9 15.0 + - - +
750A SER 4.0 4.7 - - - +
751A PHE 3.2 0.4 - - - -
752A LEU* 1.3 75.5 - - - +
754A VAL* 1.3 67.1 + - + +
756A ARG* 3.1 15.5 + - - +
757A ILE* 3.1 30.3 + - + +
765A THR* 4.4 24.7 - - + +
782A PHE* 4.5 4.7 - - + -
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Residues in contact with VAL 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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711A VAL* 4.1 28.5 - - + +
714A PHE* 3.5 44.6 - - + +
715A ALA 4.1 0.9 - - - +
744A MET* 5.3 4.9 - - + -
750A SER 3.2 17.2 + - - +
751A PHE* 3.2 6.6 + - - +
753A ILE* 1.3 80.4 - - + +
755A PHE* 1.3 60.0 + - - +
756A ARG 3.5 0.2 + - - -
757A ILE* 3.5 9.7 + - + +
758A LEU* 3.5 24.7 + - + +
785A VAL* 4.2 17.9 - - + -
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Residues in contact with PHE 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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711A VAL* 5.5 3.1 - - + -
751A PHE* 2.8 36.8 + + + +
752A LEU* 4.0 11.0 - - + +
754A VAL* 1.3 79.0 - - - +
756A ARG* 1.3 62.0 + - + +
758A LEU* 3.5 10.5 + - + +
759A CYS* 3.3 41.8 + - - -
1246A TRP* 5.2 4.3 - + - -
1250A MET* 6.2 1.8 - - + -
1276A VAL* 3.7 49.8 - - + -
1279A ILE* 4.0 25.1 - - + -
1280A ILE* 4.6 7.9 - - + -
1910A 6OU 4.1 24.2 - - + -
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Residues in contact with ARG 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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742A TRP* 3.2 54.3 - - + +
752A LEU 3.2 15.3 + - - +
753A ILE* 3.1 7.0 + - - +
755A PHE* 1.3 78.2 - - + +
757A ILE* 1.3 61.6 + - + +
759A CYS* 3.3 10.3 + - - +
760A GLY 3.0 20.3 + - - -
761A GLU* 3.1 52.6 + - + +
764A GLU* 3.9 26.9 + - - +
765A THR* 3.4 28.4 - - - +
1246A TRP* 4.1 13.7 - - + -
1247A MET* 3.7 16.6 - - - +
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Residues in contact with ILE 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 ILE* 3.1 32.0 + - + +
754A VAL* 3.9 8.1 - - + +
755A PHE 3.3 0.4 - - - -
756A ARG* 1.3 78.1 - - + +
758A LEU* 1.3 58.2 + - - +
760A GLY* 3.0 19.0 + - - +
761A GLU 4.3 7.6 - - - +
762A TRP* 3.9 30.2 - - + -
765A THR* 5.1 2.7 - - - +
782A PHE* 4.4 28.3 - - + +
785A VAL* 3.8 33.2 - - + -
786A MET* 4.1 20.4 - - + +
790A ASN* 4.5 8.1 + - - +
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Residues in contact with LEU 758 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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707A LEU* 4.8 2.5 - - + -
711A VAL* 3.9 30.1 - - + -
754A VAL* 3.5 14.3 + - + +
755A PHE* 3.5 12.4 + - + +
756A ARG 3.3 0.4 - - - -
757A ILE* 1.3 76.6 - - + +
759A CYS* 1.3 63.0 + - - +
760A GLY* 3.4 1.2 + - - -
785A VAL* 4.6 13.0 - - + +
789A GLY* 3.6 37.5 - - - +
790A ASN* 3.8 20.7 - - - +
793A VAL* 4.2 19.6 - - + +
1910A 6OU 4.3 31.4 - - + +
1911A 6OU 4.9 4.3 + - - -
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Residues in contact with CYS 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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755A PHE* 3.3 41.9 + - - -
756A ARG 3.3 10.5 + - - +
758A LEU* 1.3 76.0 - - - +
760A GLY* 1.3 56.4 + - - +
761A GLU* 3.7 2.4 - - - +
1243A PHE* 3.6 44.7 - - + +
1246A TRP* 4.1 24.0 - - + -
1279A ILE* 4.3 1.3 - - - -
1910A 6OU 4.1 24.5 + - - +
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Residues in contact with GLY 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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404A THR* 5.1 4.2 - - - +
405A GLN 5.3 0.3 - - - +
406A ASP* 3.6 12.1 + - - +
756A ARG 3.0 3.0 + - - -
757A ILE 3.0 13.8 + - - -
758A LEU 4.3 1.3 - - - -
759A CYS* 1.3 80.3 - - - +
761A GLU* 1.3 62.3 + - - +
762A TRP* 3.4 19.7 - - - -
790A ASN* 6.1 1.3 - - - -
1910A 6OU 5.9 0.9 - - - -
1911A 6OU 6.1 1.6 - - - -
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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
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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