Contacts of the helix formed by residues 758 - 775 (chain A) in PDB entry 5G04
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 HIS 758 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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628A ILE* 5.6 0.2 - - + -
629A LEU* 3.8 25.1 - - + +
630A PRO* 4.5 3.6 - - - +
633A ILE* 3.5 32.0 - - + +
756A PHE* 2.6 18.2 + - + +
757A THR* 1.3 71.2 + - - +
759A ILE* 1.3 48.2 + - - +
760A PRO* 2.9 6.1 - - - +
761A ALA* 2.6 51.4 + - + +
762A ILE* 4.4 11.4 - - + -
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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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668A MET* 3.5 38.8 - - + -
752A SER 5.9 1.1 - - - +
756A PHE 3.7 3.0 + - - -
757A THR* 2.8 23.9 + - + +
758A HIS* 1.3 67.0 - - - +
760A PRO* 1.4 65.2 - - + +
761A ALA 3.2 0.2 - - - -
762A ILE* 3.8 11.0 - - + +
763A PHE* 3.1 28.0 + - + +
793A LEU* 3.7 40.6 - - + -
797A LEU* 4.4 19.3 - - + -
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Residues in contact with PRO 760 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
757A THR 3.7 8.3 - - - +
758A HIS* 3.5 9.0 - - - +
759A ILE* 1.4 91.8 - - + +
761A ALA* 1.3 59.3 + - + +
763A PHE* 5.1 1.2 - - + +
764A PHE* 3.9 18.7 + - - +
797A LEU* 4.3 22.8 - - + -
837A PHE 5.5 3.0 - - - +
838A THR* 4.3 13.8 - - - +
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Residues in contact with ALA 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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628A ILE* 3.7 28.6 - - + +
758A HIS* 2.6 40.1 + - + +
760A PRO* 1.3 74.3 - - - +
762A ILE* 1.3 64.8 + - + +
764A PHE* 4.3 4.2 - - - +
765A VAL* 3.7 18.9 + - - +
837A PHE 5.9 2.2 - - - -
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Residues in contact with ILE 762 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
625A ILE* 3.9 36.6 - - + +
628A ILE* 5.2 2.9 - - + -
629A LEU* 4.2 19.7 - - + -
637A MET* 5.8 0.7 - - + -
664A LEU* 4.2 24.2 - - + -
667A MET* 6.4 1.8 - - + -
668A MET* 5.9 5.2 - - + -
756A PHE 5.3 2.9 - - - +
758A HIS* 3.6 14.3 + - + +
759A ILE* 3.3 17.0 + - + +
761A ALA* 1.3 77.9 - - + +
763A PHE* 1.3 56.9 + - - +
765A VAL* 2.9 12.7 - - + +
766A LEU* 2.8 47.0 + - + -
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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
----------------------------------------------------------
759A ILE* 3.1 15.6 + - + +
760A PRO 5.1 0.9 - - - +
762A ILE* 1.3 81.0 - - - +
764A PHE* 1.3 57.2 + - + +
766A LEU* 3.1 7.8 + - - +
767A HIS* 2.5 35.0 + - + +
789A LEU* 5.8 0.9 - - + -
790A LEU* 3.5 38.8 - - + -
793A LEU* 3.7 15.3 - - + -
794A ALA* 3.1 50.5 - - + -
795A ARG 5.4 0.4 - - - -
797A LEU* 5.1 2.2 - - + -
799A LEU* 4.9 6.7 - - + -
802A TYR* 4.0 33.0 - + + -
806A TYR* 3.5 23.3 - + - -
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Residues in contact with PHE 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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628A ILE* 6.1 5.2 - - + -
760A PRO 3.9 16.6 + - - +
761A ALA* 3.9 5.3 + - - +
762A ILE 3.3 1.0 - - - -
763A PHE* 1.3 78.6 - - + +
765A VAL* 1.3 60.5 + - + +
767A HIS* 3.2 8.1 + + - +
768A LEU* 2.8 55.7 + - + +
802A TYR* 3.6 23.3 - + + +
837A PHE 5.1 4.7 - - - -
838A THR* 4.2 21.5 - - - -
839A SER* 4.4 18.8 - - - -
842A PRO* 3.9 25.6 - - + -
861A PRO* 4.6 16.2 - - + -
863A LEU* 6.0 1.1 - - + -
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Residues in contact with VAL 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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624A ALA* 3.7 32.3 - - + +
625A ILE* 4.7 7.2 - - + +
628A ILE* 3.5 33.9 - - + -
761A ALA 3.7 9.9 + - - +
762A ILE* 2.9 27.1 - - + +
764A PHE* 1.3 83.5 - - + +
766A LEU* 1.3 58.3 + - + +
768A LEU* 3.2 11.3 + - + +
769A VAL* 3.0 27.9 + - - +
863A LEU* 3.7 23.8 - - + -
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Residues in contact with LEU 766 (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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621A CYS* 4.0 18.6 - - + -
624A ALA* 5.8 1.1 - - + -
625A ILE* 4.2 26.9 - - + -
657A TRP* 4.9 1.1 - - + -
660A PHE* 5.0 6.1 - - + -
664A LEU* 5.1 4.3 - - + -
762A ILE* 2.8 31.2 + - + +
763A PHE* 3.5 8.3 - - - +
765A VAL* 1.3 70.7 - - + +
767A HIS* 1.3 64.8 + - - +
769A VAL* 3.4 7.8 + - + +
770A TYR 3.3 15.6 + - - -
786A LEU* 3.8 30.0 - - + +
789A LEU* 3.9 20.4 - - + -
790A LEU* 3.8 20.4 - - + -
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Residues in contact with HIS 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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763A PHE* 2.5 22.0 + - + +
764A PHE* 3.4 11.0 - + - +
766A LEU* 1.3 72.9 - - - +
768A LEU* 1.3 59.9 + - - +
770A TYR* 3.0 21.4 + + - +
771A GLU* 2.9 39.6 + - + +
790A LEU* 3.9 9.6 - - + +
802A TYR* 3.8 23.0 - + + -
805A HIS* 4.3 9.6 - + - -
806A TYR* 2.6 39.1 + + - +
841A PRO* 4.9 2.5 - - + -
842A PRO* 3.0 41.5 + - + +
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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
----------------------------------------------------------
764A PHE* 2.8 47.0 + - + +
765A VAL* 3.2 15.9 + - + +
767A HIS* 1.3 73.1 - - + +
769A VAL* 1.3 55.3 - - - +
771A GLU* 3.3 9.3 + - + +
772A GLU* 2.9 28.1 + - - +
842A PRO* 4.4 19.3 - - + -
860A TYR* 4.6 13.7 - - + +
861A PRO* 3.8 25.6 - - + +
863A LEU* 4.0 27.4 - - + +
867A CYS* 5.1 13.0 - - - -
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Residues in contact with VAL 769 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
617A LEU 5.2 0.2 - - - +
620A THR* 4.1 28.3 - - + +
621A CYS* 4.0 16.2 - - - -
624A ALA* 3.6 26.7 - - + -
765A VAL 3.0 16.3 + - - +
766A LEU* 3.4 11.7 - - + +
768A LEU* 1.3 73.2 - - - +
770A TYR* 1.3 54.0 + - - +
772A GLU* 3.1 8.5 + - - +
773A LEU* 2.8 44.6 + - + +
786A LEU* 3.7 23.3 - - + -
866A ILE* 5.4 3.8 - - + -
867A CYS* 6.2 1.8 - - - -
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Residues in contact with TYR 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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766A LEU 3.3 2.6 + - - -
767A HIS* 3.0 11.0 + - - +
769A VAL* 1.3 77.1 - - - +
771A GLU* 1.3 86.6 + - - +
773A LEU* 4.5 0.7 - - - -
774A LYS* 2.9 60.6 + - - +
783A ILE* 3.3 30.9 - - + +
786A LEU* 3.6 22.0 - - + +
787A VAL* 3.4 28.9 - - + -
790A LEU* 3.9 7.2 - - + -
805A HIS* 4.0 8.8 - + - -
806A TYR* 3.7 28.1 - + - -
809A ASP* 3.7 18.4 + - - +
810A TYR* 4.1 4.8 - + - -
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Residues in contact with GLU 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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767A HIS* 2.9 44.5 + - + +
768A LEU* 3.6 11.7 - - + +
769A VAL 3.2 0.4 - - - -
770A TYR* 1.3 81.8 - - - +
772A GLU* 1.3 66.3 + - - +
774A LYS* 3.2 34.3 - - - +
775A LEU* 3.6 7.4 + - - +
805A HIS* 3.4 15.5 - - - -
842A PRO 3.1 21.8 - - - +
843A SER* 4.0 7.1 + - - -
844A ILE* 4.0 22.3 + - + +
860A TYR* 4.4 14.4 - - - +
870A SER* 5.6 2.0 - - - -
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Residues in contact with GLU 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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620A THR* 5.7 6.6 - - + +
768A LEU 2.9 14.2 + - - +
769A VAL* 3.4 12.6 - - + +
771A GLU* 1.3 75.7 - - - +
773A LEU* 1.3 62.3 + - + +
775A LEU* 3.1 24.8 + - - +
776A ASN* 3.6 5.4 + - - +
866A ILE 3.8 13.0 - - - +
867A CYS* 3.3 29.8 - - + -
868A GLU 3.6 0.2 + - - -
869A ARG* 3.1 24.4 + - - +
870A SER* 2.7 43.0 + - - -
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Residues in contact with LEU 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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617A LEU* 3.9 27.4 - - + -
620A THR* 4.5 23.3 - - + +
769A VAL* 2.8 26.7 + - + +
772A GLU* 1.3 72.0 - - - +
774A LYS* 1.3 66.4 + - - +
775A LEU 2.9 2.2 - - - -
776A ASN* 3.0 21.9 + - + +
777A THR 3.8 4.3 + - - -
779A MET* 3.7 37.1 - - + +
783A ILE* 3.3 29.4 - - + +
786A LEU* 3.8 27.4 - - + -
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Residues in contact with LYS 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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770A TYR* 2.9 50.2 + - + +
771A GLU* 3.2 31.9 - - - +
773A LEU* 1.3 75.0 - - - +
775A LEU* 1.3 59.6 + - - +
776A ASN 3.7 0.3 + - - -
777A THR* 4.4 4.2 + - - -
783A ILE* 3.5 8.6 - - - +
805A HIS* 6.0 1.3 - - + -
809A ASP* 2.9 28.6 + - - -
810A TYR* 4.1 10.9 + - - -
843A SER* 5.8 0.4 - - - +
844A ILE* 4.7 7.9 - - + -
845A TYR* 3.5 37.8 + - + +
948A PRO* 3.9 12.0 - - - +
1809A SER* 4.3 10.3 + - - +
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Residues in contact with LEU 775 (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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771A GLU 4.1 5.8 - - - +
772A GLU 3.1 11.3 + - - +
773A LEU 2.9 1.2 - - - -
774A LYS* 1.3 80.2 - - - +
776A ASN* 1.3 57.0 + - - +
777A THR 3.7 0.4 - - - -
844A ILE* 5.0 11.0 - - + -
869A ARG* 3.2 46.1 + - + +
870A SER* 3.6 13.7 - - - +
873A VAL* 3.5 24.9 - - + -
947A LEU* 4.1 8.8 - - + -
948A PRO* 3.2 31.0 - - + +
951A ILE* 3.7 34.1 - - + -
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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
------------------------------------------------------------
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