Contacts of the helix formed by residues 757 - 774 (chain A) in PDB entry 5LOH
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 PRO 757 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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148A HIS* 3.9 27.0 - - + +
153A ILE* 3.5 23.3 - - + -
756A GLY* 1.3 80.2 - - - +
758A ALA* 1.3 65.6 + - + +
759A VAL 3.0 3.4 - - - -
760A ASP* 3.0 23.3 + - - +
761A TRP* 3.9 3.9 - - + +
754B ALA* 3.8 20.0 - - + +
755B HIS* 3.6 20.6 - - - +
756B GLY* 3.8 3.1 - - - +
820B ASP* 5.8 2.5 - - - +
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Residues in contact with ALA 758 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
748A GLU* 4.5 3.6 - - - +
756A GLY* 3.3 4.3 - - - +
757A PRO* 1.3 82.6 - - + +
759A VAL* 1.3 63.0 + - - +
761A TRP* 2.9 27.1 + - + +
762A TRP 3.1 4.3 + - - -
820A ASP* 4.2 22.0 - - + +
823A ARG* 3.1 30.5 + - + +
824A ALA 5.7 1.1 - - - +
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Residues in contact with VAL 759 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153A ILE* 3.9 7.2 - - + -
155A ARG* 4.8 5.8 - - + -
744A TYR 5.1 0.7 - - - +
746A ALA* 3.9 5.0 - - + +
748A GLU* 3.4 23.1 - - + +
749A LEU* 3.8 32.9 - - + +
755A HIS* 3.5 29.6 - - + +
756A GLY 3.2 18.8 - - - +
757A PRO 4.1 0.2 - - - +
758A ALA* 1.3 77.3 - - - +
760A ASP* 1.3 74.2 + - - +
762A TRP* 3.0 14.0 + - - +
763A ALA* 3.0 13.9 + - - +
823A ARG* 3.9 5.4 - - - +
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Residues in contact with ASP 760 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144A LEU* 3.8 17.0 - - + +
148A HIS* 2.7 32.4 + - + +
153A ILE* 3.6 11.6 - - - +
154A HIS* 2.7 31.8 + - - +
155A ARG* 2.9 26.3 + - - -
156A ASP 4.7 0.3 + - - -
157A LEU* 3.8 5.7 - - + +
757A PRO 3.0 10.4 + - - +
759A VAL* 1.3 77.6 - - - +
761A TRP* 1.3 61.1 + - - +
763A ALA* 3.7 7.7 + - - +
764A LEU* 3.2 19.6 + - - +
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Residues in contact with TRP 761 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141A ALA* 3.7 26.2 - - + -
144A LEU* 4.0 13.2 - - + -
145A ASP 4.6 2.0 - - - -
148A HIS* 3.4 22.4 + + - -
757A PRO* 3.9 13.9 - - + +
758A ALA* 2.9 15.6 + - - +
760A ASP* 1.3 75.7 - - - +
762A TRP* 1.3 65.0 + - - +
764A LEU* 2.9 29.6 + - + +
765A GLY* 2.8 19.9 + - - -
815A LEU* 3.6 15.9 - - + +
823A ARG* 4.7 3.8 - - - -
824A ALA 3.6 23.3 - - - +
825A GLY* 4.1 6.4 - - - -
826A MET* 3.6 26.9 - - + -
829A LEU* 3.6 25.1 - - + -
902A CL 3.4 27.5 - - + +
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Residues in contact with TRP 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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743A ASP 5.1 0.2 + - - -
744A TYR 3.8 4.0 - - - -
745A LEU 3.1 18.2 + - - -
746A ALA* 3.4 20.4 - - + -
747A PRO* 3.5 36.3 - - + -
758A ALA 3.1 4.8 + - - -
759A VAL 3.0 8.8 + - - +
761A TRP* 1.3 75.4 - - - +
763A ALA* 1.3 65.7 + - - +
765A GLY 2.9 11.3 + - - -
766A VAL* 3.1 22.2 + - + +
778A PHE* 3.7 23.2 - + - -
790A ILE* 4.1 9.1 - - + +
793A ARG* 4.1 12.3 - - + -
815A LEU 3.7 9.9 - - - -
816A LEU* 3.2 40.6 - - + +
817A THR 3.2 30.7 - - - -
818A ILE* 4.0 11.0 - - + -
823A ARG* 3.6 23.4 - - - +
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Residues in contact with ALA 763 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157A LEU* 3.7 34.1 - - + +
744A TYR* 3.6 22.9 - - + +
759A VAL 3.0 11.1 + - - +
760A ASP* 3.8 10.1 - - - +
762A TRP* 1.3 76.5 - - - +
764A LEU* 1.3 62.7 + - - +
766A VAL* 3.0 9.5 + - - +
767A CYS* 2.9 27.5 + - - -
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Residues in contact with LEU 764 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137A ILE* 3.6 37.5 - - + +
140A VAL* 3.6 29.6 - - + -
141A ALA* 4.3 4.3 - - + +
144A LEU* 4.0 3.8 - - + -
157A LEU* 4.0 9.3 - - + +
760A ASP 3.2 14.9 + - - +
761A TRP* 2.9 42.5 + - + +
763A ALA* 1.3 75.5 - - - +
765A GLY* 1.3 58.4 + - - +
767A CYS* 3.0 5.6 + - + +
768A LEU* 2.8 31.2 + - - +
815A LEU* 4.2 8.7 - - + -
829A LEU* 3.8 15.7 - - + -
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Residues in contact with GLY 765 (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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761A TRP 2.8 11.9 + - - -
762A TRP 2.9 5.1 + - - -
764A LEU* 1.3 75.9 - - - +
766A VAL* 1.3 60.8 + - - +
768A LEU* 3.8 3.0 - - - +
769A PHE* 3.2 22.3 + - - +
812A VAL* 3.9 8.7 - - - +
815A LEU* 3.5 31.9 - - - +
816A LEU* 3.8 11.6 - - - +
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Residues in contact with VAL 766 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
743A ASP 3.8 21.1 - - - +
744A TYR* 3.5 28.0 - - + -
762A TRP* 3.1 26.4 + - + +
763A ALA* 3.0 9.7 + - - +
765A GLY* 1.3 73.2 - - - +
767A CYS* 1.3 55.2 + - - +
769A PHE* 3.0 8.1 + - - +
770A GLU* 2.7 33.5 + - - +
776A PRO* 4.2 7.2 - - + -
777A PRO* 3.7 21.7 - - + +
778A PHE* 4.6 8.3 - - + -
816A LEU* 3.8 11.9 - - + -
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Residues in contact with CYS 767 (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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137A ILE* 4.1 12.3 - - + -
157A LEU* 4.4 5.2 - - - -
158A LYS* 4.1 7.2 - - - -
159A PRO* 3.9 17.9 - - - -
162A MET* 3.7 27.4 - - + -
744A TYR* 4.1 7.6 - - - -
763A ALA 2.9 23.8 + - - -
764A LEU* 3.0 6.5 + - - +
766A VAL* 1.3 75.1 - - - +
768A LEU* 1.3 52.3 + - - +
770A GLU* 2.9 10.8 + - - -
771A PHE* 2.6 49.2 + - + -
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Residues in contact with LEU 768 (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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133A ALA* 4.6 10.5 - - + +
134A VAL* 5.2 2.5 - - + -
137A ILE* 3.6 35.6 - - + +
764A LEU 2.8 18.9 + - - +
765A GLY* 3.8 4.7 - - - +
767A CYS* 1.3 70.5 - - - +
769A PHE* 1.3 64.1 + - - +
771A PHE* 3.0 15.0 + - - +
772A LEU* 3.1 34.2 + - + +
808A ALA 4.9 0.2 - - - +
811A ALA* 3.7 29.4 - - + -
812A VAL* 3.9 17.7 - - + -
815A LEU* 3.9 17.5 - - + -
834A LEU* 4.4 13.9 - - + -
835A PHE* 5.1 1.6 - - + -
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Residues in contact with PHE 769 (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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765A GLY 3.2 11.4 + - - +
766A VAL 3.0 9.2 + - - +
768A LEU* 1.3 77.6 - - - +
770A GLU* 1.3 62.4 + - - +
772A LEU* 3.0 6.6 + - - +
773A THR* 2.9 55.0 + - + -
775A ILE 3.9 2.9 - - - -
776A PRO 4.9 0.2 - - - -
777A PRO* 3.5 42.8 - - + -
795A ILE* 3.7 23.3 - - + -
796A PRO* 3.7 25.4 - - + -
797A TRP* 3.8 17.9 - + - -
798A PRO* 4.3 1.1 - - + -
804A LEU* 4.0 14.4 - - + -
812A VAL* 3.6 26.0 - - + -
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Residues in contact with GLU 770 (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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119A LYS* 5.8 4.0 - - - +
122A LEU* 3.8 16.7 - - + +
159A PRO* 3.4 16.1 - - - +
744A TYR* 2.4 41.6 + - - -
766A VAL 2.7 16.0 + - - +
767A CYS* 3.4 7.7 - - - +
769A PHE* 1.3 73.7 - - - +
771A PHE* 1.3 63.6 + - + +
774A GLY* 3.1 35.5 + - - +
775A ILE 4.2 8.5 - - - -
776A PRO* 3.4 29.5 - - + +
777A PRO* 4.9 0.2 - - - +
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Residues in contact with PHE 771 (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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118A VAL* 3.8 28.3 - - + -
122A LEU* 4.1 10.5 - - + -
127A TYR* 3.8 1.4 - - - +
128A PHE* 2.8 47.8 + + + +
133A ALA* 3.6 24.2 - - + -
136A TYR* 3.9 20.4 - + + -
137A ILE* 3.8 32.8 - - + -
159A PRO* 3.9 20.2 - - + -
162A MET* 3.8 21.5 - - - -
767A CYS* 2.6 25.9 + - + -
768A LEU 3.0 7.4 + - - +
770A GLU* 1.3 77.5 - - + +
772A LEU* 1.3 59.8 + - - +
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Residues in contact with LEU 772 (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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127A TYR* 3.8 19.2 - - - -
128A PHE 3.9 6.6 - - - +
129A ASP 4.4 0.2 - - - -
130A GLU* 3.9 29.2 - - + +
133A ALA* 3.7 23.6 - - + -
134A VAL* 5.9 0.7 - - + -
768A LEU* 3.1 34.3 + - + +
769A PHE* 3.0 7.6 + - - +
771A PHE* 1.3 79.3 - - - +
773A THR* 1.3 62.1 + - + +
804A LEU* 4.0 27.7 - - + +
808A ALA* 3.8 27.6 - - + -
812A VAL* 4.8 3.6 - - + -
834A LEU* 5.9 0.4 - - + -
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Residues in contact with THR 773 (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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127A TYR* 3.8 15.5 - - - +
769A PHE* 2.9 46.4 + - + +
772A LEU* 1.3 79.7 - - - +
774A GLY* 1.3 58.6 + - - +
775A ILE 3.0 20.0 + - - -
798A PRO* 4.0 25.4 - - + -
804A LEU* 4.3 8.7 - - + -
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Residues in contact with GLY 774 (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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122A LEU* 4.4 7.6 - - - +
126A GLY 3.5 23.2 - - - +
127A TYR* 4.1 1.5 - - - +
770A GLU* 3.1 28.5 + - - +
772A LEU 3.8 0.4 - - - -
773A THR* 1.3 79.1 + - - +
775A ILE* 1.3 58.7 + - - +
776A PRO* 4.5 0.2 - - - +
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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
------------------------------------------------------------
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