Contacts of the helix formed by residues 757 - 774 (chain B) 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 B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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754A ALA 3.3 26.9 - - - +
755A HIS 4.0 16.6 - - - +
756A GLY* 4.3 1.1 - - - +
820A ASP* 6.0 1.1 - - - +
148B HIS* 3.5 32.8 - - + +
153B ILE* 3.5 20.1 - - + -
756B GLY* 1.3 78.9 - - - +
758B ALA* 1.3 65.4 + - + +
759B VAL 3.0 3.6 - - - -
760B ASP* 2.9 23.0 + - - +
761B TRP* 3.8 2.8 - - - +
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Residues in contact with ALA 758 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
821A THR* 6.1 3.6 - - + -
748B GLU* 4.4 6.5 - - - +
756B GLY* 3.1 3.4 - - - +
757B PRO* 1.3 81.1 - - + +
759B VAL* 1.3 62.1 + - - +
761B TRP* 2.9 26.8 + - + +
762B TRP 3.1 4.7 + - - -
820B ASP* 4.3 23.3 - - + +
823B ARG* 3.0 30.8 + - + +
824B ALA 6.1 0.4 - - - +
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Residues in contact with VAL 759 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153B ILE* 3.9 13.0 - - + -
155B ARG* 4.7 6.1 - - + -
744B TYR 5.0 1.4 - - - +
746B ALA* 4.3 11.1 + - + +
748B GLU* 3.3 31.0 - - + +
749B LEU* 4.2 20.2 - - + -
755B HIS* 3.7 21.3 - - + +
756B GLY 3.5 18.2 - - - +
757B PRO 3.0 0.6 + - - -
758B ALA* 1.3 76.5 - - - +
760B ASP* 1.3 77.4 + - - +
762B TRP* 3.0 14.4 + - - +
763B ALA* 3.1 12.6 + - - +
823B ARG* 4.0 5.6 - - - +
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Residues in contact with ASP 760 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144B LEU* 3.4 26.9 - - + +
148B HIS* 2.8 28.1 + - + +
153B ILE* 3.4 9.6 - - - +
154B HIS* 2.6 36.7 + - - +
155B ARG* 2.7 29.2 + - - -
156B ASP 4.5 0.5 + - - -
157B LEU* 3.6 7.9 - - + +
757B PRO 2.9 10.0 + - - +
759B VAL* 1.3 81.0 - - - +
761B TRP* 1.3 61.4 + - - +
763B ALA* 3.9 5.1 + - - -
764B LEU 3.4 12.0 + - - -
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Residues in contact with TRP 761 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141B ALA* 3.8 31.0 - - + -
144B LEU* 4.3 10.5 - - + -
145B ASP* 4.5 5.2 - - - -
148B HIS* 3.5 27.9 + + - -
757B PRO* 3.8 14.4 - - - +
758B ALA* 2.9 17.3 + - + +
760B ASP* 1.3 77.7 - - - +
762B TRP* 1.3 65.2 + - - +
764B LEU* 2.9 38.5 + - + +
765B GLY* 2.9 18.9 + - - -
815B LEU* 3.3 17.7 - - + +
823B ARG* 4.3 4.0 - - - -
824B ALA 3.7 22.4 - - - +
825B GLY* 4.1 12.2 - - - -
826B MET* 3.7 37.9 - - + +
829B LEU* 4.3 7.6 - - + -
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Residues in contact with TRP 762 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
743B ASP 4.4 0.6 + - - -
744B TYR 3.3 22.4 + - - -
745B LEU 3.1 11.9 + - - -
746B ALA* 3.5 20.0 - - + -
747B PRO* 3.6 29.6 - - + -
758B ALA 3.1 4.9 + - - -
759B VAL 3.0 9.5 + - - +
761B TRP* 1.3 75.4 - - - +
763B ALA* 1.3 63.6 + - - +
765B GLY 2.9 11.3 + - - -
766B VAL* 3.0 21.3 + - + +
778B PHE* 3.6 30.4 - + - -
790B ILE* 3.8 10.3 - - + -
793B ARG* 4.8 2.2 - - + -
815B LEU 3.9 9.2 - - - -
816B LEU* 3.3 26.7 - - + +
817B THR 3.4 36.8 - - - -
818B ILE* 3.8 12.1 - - + -
823B ARG* 3.5 28.3 - - - +
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Residues in contact with ALA 763 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157B LEU* 3.4 42.0 - - + +
744B TYR* 3.7 20.4 - - + +
759B VAL 3.1 8.1 + - - +
760B ASP* 3.9 5.4 - - - +
762B TRP* 1.3 78.6 - - - +
764B LEU* 1.3 64.0 + - - +
766B VAL* 2.9 10.8 + - - +
767B CYS* 2.8 27.0 + - - -
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Residues in contact with LEU 764 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137B ILE* 3.6 35.9 - - + -
140B VAL* 3.6 31.0 - - + -
141B ALA* 4.2 6.1 - - + -
144B LEU* 4.4 1.6 - - + -
157B LEU* 3.7 10.0 - - + +
162B MET* 5.0 0.2 - - + -
760B ASP 3.4 10.8 + - - +
761B TRP* 2.9 44.2 + - + +
763B ALA* 1.3 77.2 - - - +
765B GLY* 1.3 57.9 + - - +
767B CYS* 2.9 5.7 + - + +
768B LEU* 2.9 31.2 + - - +
815B LEU* 4.3 10.3 - - + -
829B LEU* 4.2 15.7 - - + -
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Residues in contact with GLY 765 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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761B TRP 2.9 7.9 + - - -
762B TRP 2.9 8.0 + - - -
764B LEU* 1.3 75.4 - - - +
766B VAL* 1.3 62.1 + - - +
768B LEU* 4.1 3.0 - - - +
769B PHE* 3.4 19.4 + - - +
812B VAL* 3.8 11.6 - - - +
815B LEU* 3.6 28.1 - - - +
816B LEU* 3.5 14.2 - - - +
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Residues in contact with VAL 766 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
743B ASP 3.5 24.0 - - - +
744B TYR* 3.5 32.8 - - + -
762B TRP* 3.0 28.6 + - + +
763B ALA 2.9 7.5 + - - +
765B GLY* 1.3 73.2 - - - +
767B CYS* 1.3 55.5 + - - +
769B PHE* 3.0 6.2 + - - +
770B GLU* 2.7 32.6 + - - +
776B PRO* 4.1 8.7 - - + -
777B PRO* 3.7 22.8 - - + +
778B PHE* 4.2 8.1 - - + -
816B LEU* 3.9 7.0 - - + -
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Residues in contact with CYS 767 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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137B ILE* 4.1 10.5 - - + -
157B LEU* 4.4 5.4 - - - -
158B LYS* 4.1 8.5 - - - -
159B PRO* 3.9 19.3 - - - -
162B MET* 3.7 28.7 - - + -
744B TYR* 4.2 4.9 - - - -
763B ALA 2.8 25.7 + - - -
764B LEU* 2.9 6.7 + - - +
766B VAL* 1.3 72.2 - - - +
768B LEU* 1.3 51.6 + - - +
770B GLU* 2.9 11.8 + - - +
771B PHE* 2.5 50.3 + - + -
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Residues in contact with LEU 768 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133B ALA* 4.2 21.1 - - + +
134B VAL* 5.1 1.3 - - + +
137B ILE* 3.5 32.3 - - + +
764B LEU 2.9 19.3 + - - +
765B GLY* 4.1 4.0 - - - +
767B CYS* 1.3 72.0 - - - +
769B PHE* 1.3 64.5 + - - +
771B PHE* 2.9 6.1 + - - +
772B LEU* 2.8 35.8 + - + +
808B ALA 4.7 0.7 - - - +
811B ALA* 3.9 25.6 - - + -
812B VAL* 3.8 24.9 - - + +
815B LEU* 4.7 8.1 - - + -
834B LEU* 4.2 15.0 - - + -
835B PHE* 4.8 6.1 - - + -
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Residues in contact with PHE 769 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
765B GLY 3.4 11.6 + - - +
766B VAL 3.0 9.6 + - - +
768B LEU* 1.3 77.2 - - - +
770B GLU* 1.3 64.4 + - - +
772B LEU* 3.0 8.8 + - - +
773B THR* 2.9 43.8 + - + -
775B ILE 3.6 12.3 - - - -
776B PRO 4.4 0.2 - - - -
777B PRO* 3.6 41.3 - - + -
795B ILE* 3.6 22.2 - - + -
796B PRO* 3.6 24.9 - - + -
797B TRP* 3.8 28.9 - + - -
798B PRO* 4.5 2.0 - - + -
804B LEU* 4.2 13.2 - - + -
812B VAL* 4.0 14.8 - - + +
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Residues in contact with GLU 770 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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119B LYS* 3.3 17.8 + - - -
122B LEU* 3.5 25.2 - - + +
159B PRO* 3.3 15.4 - - - +
744B TYR* 2.8 28.1 + - - -
766B VAL 2.7 16.9 + - - +
767B CYS* 3.3 8.0 - - - +
769B PHE* 1.3 71.9 - - - +
771B PHE* 1.3 62.0 + - + +
774B GLY* 2.5 45.3 + - - +
775B ILE 4.0 10.5 - - - -
776B PRO* 3.3 31.8 - - + +
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Residues in contact with PHE 771 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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118B VAL* 3.8 26.9 - - + -
122B LEU* 4.0 15.9 - - + -
127B TYR* 3.9 1.6 - - - +
128B PHE* 2.9 46.9 + + + +
133B ALA* 3.9 17.3 - - + -
136B TYR* 3.7 28.7 - + + -
137B ILE* 3.9 28.0 - - + -
140B VAL* 5.7 0.2 - - + -
159B PRO* 4.0 22.9 - - + -
162B MET* 3.8 23.1 - - + -
767B CYS* 2.5 21.7 + - + -
768B LEU 3.2 8.5 - - - +
770B GLU* 1.3 73.8 - - + +
772B LEU* 1.3 60.1 + - - +
773B THR 3.5 0.2 + - - -
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Residues in contact with LEU 772 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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127B TYR* 4.2 15.1 - - - -
128B PHE 3.9 5.7 - - - +
130B GLU* 3.8 37.5 - - + +
133B ALA* 3.9 12.6 - - + -
768B LEU* 2.8 36.8 + - + +
769B PHE* 3.0 7.1 + - - +
771B PHE* 1.3 77.4 - - - +
773B THR* 1.3 60.9 + - - +
804B LEU* 4.0 32.7 - - + +
808B ALA* 3.7 27.8 - - + -
812B VAL* 4.5 5.4 - - + -
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Residues in contact with THR 773 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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126B GLY 4.4 0.7 - - - +
127B TYR* 3.8 17.6 - - - +
769B PHE* 2.9 33.3 + - + -
770B GLU 3.0 0.2 + - - -
772B LEU* 1.3 83.5 + - - +
774B GLY* 1.3 58.3 + - - +
775B ILE* 3.7 24.2 - - + +
798B PRO* 4.0 22.1 - - + +
804B LEU* 4.5 2.8 - - - +
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Residues in contact with GLY 774 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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122B LEU* 4.7 8.8 - - - +
126B GLY 3.7 20.0 - - - -
127B TYR* 4.2 1.5 - - - +
770B GLU* 2.5 35.8 + - - +
773B THR* 1.3 71.0 - - - +
775B ILE* 1.3 65.9 + - - +
776B PRO* 4.5 0.3 - - - +
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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