Contacts of the helix formed by residues 781 - 801 (chain A) in PDB entry 3KZ1
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 ASN 781 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
780A PRO* 1.3 80.0 - - - +
782A LEU* 1.3 63.5 + - - +
783A PRO* 3.4 5.6 - - - -
784A GLU* 3.1 28.4 + - + +
785A LEU* 3.0 20.0 + - - +
828A VAL* 3.2 42.2 + - - +
831A GLN* 3.8 26.1 - - - +
832A PHE* 3.5 27.1 - - - +
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Residues in contact with LEU 782 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
753A LEU* 4.3 15.9 - - + +
756A LEU* 4.0 7.9 - - + -
757A ASP* 3.7 35.0 - - + +
761A TYR* 4.0 10.8 - - + -
779A PHE* 3.7 35.2 + - + +
780A PRO 3.9 0.6 - - - -
781A ASN* 1.3 75.8 - - - +
783A PRO* 1.3 72.5 - - + +
784A GLU 3.1 0.2 + - - -
785A LEU* 3.2 15.3 + - + +
786A ILE* 2.9 39.9 + - + +
832A PHE* 3.9 23.0 - - + -
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Residues in contact with PRO 783 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
757A ASP* 5.0 6.7 - - - +
761A TYR* 4.9 19.7 - - + +
762A GLN* 5.9 0.7 - - - +
779A PHE 5.8 0.7 - - - +
780A PRO 5.5 0.2 - - - +
781A ASN* 3.4 1.6 - - - -
782A LEU* 1.3 95.7 - - + +
784A GLU* 1.3 72.8 + - - +
786A ILE* 3.6 10.9 + - + +
787A GLU* 3.1 25.5 + - - +
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Residues in contact with GLU 784 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
780A PRO 5.2 1.0 - - - +
781A ASN* 3.1 26.9 + - + +
783A PRO* 1.3 101.3 - - + +
785A LEU* 1.3 65.8 + - - +
787A GLU* 3.4 9.8 - - - +
788A ILE* 3.2 26.0 + - - +
828A VAL* 4.4 12.3 - - + -
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Residues in contact with LEU 785 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
753A LEU* 4.1 20.2 - - + -
781A ASN* 3.0 12.0 + - - +
782A LEU* 3.4 11.2 - - + +
784A GLU* 1.3 76.8 - - - +
786A ILE* 1.3 60.7 + - - +
788A ILE* 3.1 19.4 + - + +
789A HIS* 3.3 23.7 + - + +
825A LEU* 5.6 2.0 - - + -
828A VAL* 3.9 22.3 - - + +
829A ALA* 4.6 10.8 - - + +
832A PHE* 3.8 42.0 - - + -
878A GLU* 3.6 33.2 - - + +
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Residues in contact with ILE 786 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
750A LEU* 4.2 6.2 - - + +
753A LEU* 3.5 50.3 - - + +
754A ARG* 4.0 35.4 - - + +
757A ASP* 3.8 24.2 - - + +
782A LEU* 2.9 26.2 + - + +
783A PRO* 3.7 8.7 - - + +
785A LEU* 1.3 72.0 - - - +
787A GLU* 1.3 62.5 + - - +
789A HIS 3.4 1.7 + - - -
790A ASN* 2.8 33.2 + - + +
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Residues in contact with GLU 787 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
783A PRO 3.1 15.7 + - - +
784A GLU* 3.4 14.1 - - - +
786A ILE* 1.3 79.1 - - - +
788A ILE* 1.3 63.9 + - + +
790A ASN* 4.2 12.9 + - - -
791A SER* 3.0 35.1 + - - -
824A GLU* 6.0 1.8 - - - +
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Residues in contact with ILE 788 (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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784A GLU 3.2 12.2 + - - +
785A LEU* 3.1 11.2 + - + +
787A GLU* 1.3 79.5 - - + +
789A HIS* 1.3 68.4 + - + +
791A SER* 2.7 18.5 + - - -
792A TRP* 3.3 10.7 + - - +
816A ARG* 3.5 37.5 + - + +
824A GLU* 4.1 17.0 - - + +
825A LEU* 3.7 35.9 - - + -
828A VAL* 3.9 37.0 - - + -
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Residues in contact with HIS 789 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
746A GLU* 2.6 27.1 + - - +
749A HIS* 3.2 33.2 + + - +
750A LEU* 4.0 13.7 - - + +
753A LEU* 3.8 12.1 - - + -
785A LEU* 3.3 26.4 + - + +
786A ILE 4.2 3.8 - - - +
788A ILE* 1.3 83.8 - - + +
790A ASN* 1.3 59.8 + - - +
792A TRP* 4.0 6.1 - + - -
793A CYS* 3.1 27.0 + - - +
825A LEU* 4.7 9.0 - - + +
878A GLU* 3.1 25.5 + - - -
881A ARG* 4.4 2.0 - - + -
882A LEU* 5.0 1.1 - - + -
885A TYR* 3.3 24.8 + + - -
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Residues in contact with ASN 790 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
750A LEU* 3.6 16.3 - - + +
754A ARG* 3.0 30.5 + - - +
786A ILE* 2.8 21.0 + - + +
787A GLU* 3.9 14.8 + - - +
788A ILE 3.2 0.2 - - - -
789A HIS* 1.3 76.9 - - - +
791A SER* 1.3 61.5 + - - +
792A TRP 3.2 0.2 - - - -
793A CYS* 3.3 1.0 + - - +
794A GLU* 2.9 56.1 + - - +
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Residues in contact with SER 791 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
787A GLU* 3.0 25.0 + - - -
788A ILE 2.7 22.3 + - - -
790A ASN* 1.3 76.1 - - - +
792A TRP* 1.3 63.2 + - - +
794A GLU* 3.6 5.7 + - - +
795A ALA* 3.4 20.8 + - - +
816A ARG* 3.6 13.3 + - - -
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Residues in contact with TRP 792 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
742A LEU* 4.5 6.1 - - + -
746A GLU* 3.5 25.6 - - - -
788A ILE 3.3 13.4 + - - +
789A HIS* 4.2 5.2 - - - +
790A ASN 3.2 0.4 - - - -
791A SER* 1.3 79.5 + - - +
793A CYS* 1.3 67.1 + - - +
795A ALA* 3.2 6.9 + - + +
796A MET* 3.1 52.2 + - + +
812A LEU* 2.9 39.7 + - + +
813A MET* 3.8 19.1 - - - -
815A ALA* 5.3 2.9 - - + -
816A ARG* 3.4 34.8 - - + +
817A PHE* 3.5 34.1 - + - -
885A TYR* 3.5 31.2 - + - -
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Residues in contact with CYS 793 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
743A PHE 5.1 2.2 - - - -
746A GLU* 4.2 11.0 - - + -
747A ALA* 4.1 33.4 - - - -
750A LEU* 4.2 17.3 - - + -
789A HIS 3.1 19.5 + - - +
790A ASN 3.3 3.8 + - - +
792A TRP* 1.3 80.5 - - - +
794A GLU* 1.3 59.9 + - + +
796A MET* 3.3 15.3 + - - +
797A LYS* 3.1 39.1 + - - +
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Residues in contact with GLU 794 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
750A LEU* 5.8 1.6 - - - +
790A ASN* 2.9 44.6 + - - +
791A SER* 4.1 6.5 - - - +
792A TRP 3.2 0.4 - - - -
793A CYS* 1.3 82.5 - - + +
795A ALA* 1.3 56.0 + - - +
797A LYS* 3.5 27.7 + - - +
798A LYS* 3.0 26.7 + - - +
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Residues in contact with ALA 795 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
791A SER 3.4 11.7 + - - +
792A TRP* 3.2 12.1 + - + +
793A CYS 3.2 0.4 - - - -
794A GLU* 1.3 76.1 - - - +
796A MET* 1.3 59.9 + - - +
798A LYS* 3.6 8.8 - - - +
799A LEU* 3.2 25.3 + - - +
812A LEU* 4.2 19.5 - - + +
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Residues in contact with MET 796 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
742A LEU* 4.2 17.0 - - + -
743A PHE* 3.5 46.4 - - + +
746A GLU* 4.1 25.6 - - + -
792A TRP* 3.1 61.4 + - + +
793A CYS* 3.3 10.5 - - - +
795A ALA* 1.3 74.9 - - - +
797A LYS* 1.3 64.2 + - - +
799A LEU* 3.1 5.9 + - - +
800A ARG* 3.0 18.7 + - - +
812A LEU* 3.9 18.4 - - + -
813A MET* 4.5 4.3 - - + -
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Residues in contact with LYS 797 (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 PHE* 5.7 0.2 - - - -
747A ALA* 5.8 4.8 - - - +
793A CYS* 3.1 24.1 + - - +
794A GLU* 3.7 28.5 + - - +
795A ALA 3.4 0.2 - - - -
796A MET* 1.3 79.4 - - - +
798A LYS* 1.3 61.3 + - - +
800A ARG* 3.4 10.8 + - + +
801A GLU* 3.3 27.9 + - + +
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Residues in contact with LYS 798 (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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794A GLU 3.0 17.1 + - - +
795A ALA* 3.6 11.2 - - - +
796A MET 3.1 0.2 - - - -
797A LYS* 1.3 76.5 - - - +
799A LEU* 1.3 61.4 + - - +
801A GLU* 3.4 35.3 - - - +
802A GLU* 3.4 16.7 + - - +
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Residues in contact with LEU 799 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
743A PHE* 4.4 3.1 - - + -
795A ALA 3.2 11.8 + - - +
796A MET 3.1 10.3 + - - +
798A LYS* 1.3 74.4 - - - +
800A ARG* 1.3 60.2 + - - +
801A GLU 3.0 5.9 + - - -
802A GLU* 3.2 36.0 + - + +
803A GLY 4.3 4.0 - - - +
806A ILE* 3.8 30.9 - - + +
807A LYS* 5.9 5.6 - - - +
808A GLU 4.2 17.9 - - - +
809A ILE* 4.3 5.4 - - + -
812A LEU* 3.7 28.9 - - + -
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Residues in contact with ARG 800 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
716A TRP* 5.6 4.0 - - - +
719A THR* 6.2 1.4 - - - +
720A VAL* 5.6 3.4 - - - +
740A ASN* 6.1 0.6 - - - +
743A PHE* 4.9 8.9 - - + -
796A MET 3.0 11.6 + - - +
797A LYS* 3.5 15.3 - - + +
799A LEU* 1.3 76.0 - - - +
801A GLU* 1.3 61.8 + - - +
802A GLU 3.2 1.0 + - - -
803A GLY* 3.4 17.6 + - - -
804A PRO* 3.6 40.0 + - - +
806A ILE* 4.2 21.5 - - + -
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Residues in contact with GLU 801 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
797A LYS* 3.3 14.0 + - + +
798A LYS* 3.4 43.1 - - - +
799A LEU 3.0 1.2 - - - -
800A ARG* 1.3 77.6 - - - +
802A GLU* 1.3 58.3 + - + +
803A GLY 3.3 3.8 + - - -
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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) + - + + + + + -
------------------------------------------------------------
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