Contacts of the helix formed by residues 781 - 802 (chain B) 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 B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
780B PRO* 1.3 78.4 - - - +
782B LEU* 1.3 63.8 + - - +
783B PRO* 4.6 0.2 - - - -
784B GLU* 3.4 32.9 + - + +
785B LEU* 3.1 18.6 + - - +
828B VAL* 2.8 46.0 + - - +
831B GLN* 3.6 25.2 + - - +
832B PHE* 3.3 28.5 - - - +
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Residues in contact with LEU 782 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
753B LEU* 4.3 17.0 - - + +
756B LEU* 4.3 4.0 - - + -
757B ASP* 4.0 33.2 - - + +
761B TYR* 4.1 14.1 - - + -
779B PHE* 3.7 38.0 + - + +
780B PRO 3.8 1.6 - - - -
781B ASN* 1.3 73.9 - - - +
783B PRO* 1.3 79.2 - - + +
785B LEU* 3.0 16.1 + - + +
786B ILE* 3.0 40.2 + - + +
832B PHE* 4.2 21.3 - - + -
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Residues in contact with PRO 783 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
757B ASP* 4.9 9.0 - - - +
761B TYR* 5.5 10.3 - - + -
762B GLN* 5.6 2.2 - - - +
780B PRO 5.6 0.2 - - - +
781B ASN* 4.6 0.7 - - - -
782B LEU* 1.3 94.0 - - + +
784B GLU* 1.3 66.9 + - - +
786B ILE* 3.5 11.9 + - + +
787B GLU* 2.9 29.5 + - - +
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Residues in contact with GLU 784 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
780B PRO 4.8 1.2 - - - +
781B ASN* 3.4 32.3 - - + +
782B LEU 3.1 0.2 - - - -
783B PRO* 1.3 88.3 - - - +
785B LEU* 1.3 65.5 + - - +
787B GLU* 3.1 10.0 + - - +
788B ILE* 3.0 28.1 + - + +
828B VAL* 4.4 17.5 - - + -
831B GLN* 5.3 0.7 - - - +
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Residues in contact with LEU 785 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
753B LEU* 4.0 16.6 - - + -
781B ASN* 3.1 9.7 + - - +
782B LEU* 3.0 13.1 + - + +
784B GLU* 1.3 79.2 - - - +
786B ILE* 1.3 62.1 + - - +
788B ILE* 3.2 18.0 + - + +
789B HIS* 3.3 22.4 + - + -
825B LEU* 5.7 2.0 - - + -
828B VAL* 3.8 24.4 - - + +
829B ALA* 4.6 10.1 - - + +
832B PHE* 3.5 42.6 - - + -
878B GLU* 3.5 38.8 - - + +
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Residues in contact with ILE 786 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
750B LEU* 4.0 12.4 - - + +
753B LEU* 3.8 44.2 - - + +
754B ARG* 3.6 33.4 - - + +
757B ASP* 4.0 21.3 - - + -
782B LEU* 3.0 22.4 + - + +
783B PRO* 3.7 10.8 - - + +
785B LEU* 1.3 72.9 - - - +
787B GLU* 1.3 57.1 + - - +
788B ILE 3.1 0.3 + - - -
789B HIS 3.2 1.4 + - - -
790B ASN* 2.7 39.9 + - + +
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Residues in contact with GLU 787 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
783B PRO 2.9 14.6 + - - +
784B GLU* 3.1 12.5 + - - +
786B ILE* 1.3 76.4 - - - +
788B ILE* 1.3 60.8 + - + +
790B ASN* 4.4 13.9 + - - -
791B SER* 2.9 42.2 + - - -
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Residues in contact with ILE 788 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
784B GLU* 3.0 12.7 + - + +
785B LEU* 3.3 11.0 - - + +
786B ILE 3.1 0.2 - - - -
787B GLU* 1.3 80.1 - - + +
789B HIS* 1.3 69.8 + - + +
791B SER* 2.6 23.5 + - - -
792B TRP* 3.4 7.8 + - - +
816B ARG* 3.5 23.3 + - - +
824B GLU* 3.5 44.6 - - + +
825B LEU* 4.1 24.9 - - + -
828B VAL* 3.9 30.3 - - + -
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Residues in contact with HIS 789 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
746B GLU* 2.5 28.1 + - - +
749B HIS* 3.6 14.5 + + - +
750B LEU* 3.9 18.2 - - + -
753B LEU* 3.7 24.0 - - + -
785B LEU* 3.3 12.2 + - + +
786B ILE 3.2 2.2 + - - -
788B ILE* 1.3 87.6 - - + +
790B ASN* 1.3 60.6 + - - +
792B TRP* 3.2 8.7 + + - +
793B CYS* 3.0 31.7 + - - -
816B ARG* 6.3 1.8 - - + +
825B LEU* 4.7 7.5 - - + +
878B GLU* 2.8 29.4 + - - -
881B ARG* 4.6 0.4 - - + -
885B TYR* 3.1 28.0 + + - -
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Residues in contact with ASN 790 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
750B LEU* 3.6 16.9 - - + +
754B ARG* 3.7 22.8 + - - +
786B ILE* 2.7 27.5 + - + +
787B GLU* 3.9 15.1 + - - +
789B HIS* 1.3 71.6 - - - +
791B SER* 1.3 64.8 + - - +
793B CYS* 3.4 4.2 + - - +
794B GLU* 3.1 46.7 + - - +
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Residues in contact with SER 791 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
787B GLU* 2.9 26.8 + - - -
788B ILE* 2.6 22.9 + - - -
790B ASN* 1.3 77.2 - - - +
792B TRP* 1.3 57.7 + - - +
794B GLU* 3.5 7.7 + - - +
795B ALA* 3.0 25.6 + - - +
816B ARG* 3.9 12.6 + - - -
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Residues in contact with TRP 792 (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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742B LEU* 4.3 8.3 - - + -
746B GLU* 3.6 32.5 - - + -
788B ILE* 3.4 8.9 + - + +
789B HIS* 3.2 11.6 + + - +
790B ASN 3.2 0.4 - - - -
791B SER* 1.3 81.6 + - - +
793B CYS* 1.3 59.1 + - - +
795B ALA* 3.4 6.2 - - + +
796B MET* 2.9 55.5 + - + +
812B LEU* 3.0 36.7 + - + +
813B MET* 3.6 31.2 - - + -
815B ALA* 4.9 4.3 - - + -
816B ARG* 3.5 38.0 - - + +
817B PHE* 3.8 21.1 - + - -
885B TYR* 4.0 17.0 - + - -
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Residues in contact with CYS 793 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
743B PHE 5.4 0.4 - - - -
746B GLU* 3.8 37.2 - - - -
747B ALA* 4.1 12.3 - - - -
750B LEU* 4.2 13.7 - - + -
789B HIS 3.0 18.8 + - - +
790B ASN* 3.9 9.2 - - - +
791B SER 3.3 0.2 - - - -
792B TRP* 1.3 73.8 - - - +
794B GLU* 1.3 58.8 + - + +
796B MET* 3.0 11.1 + - - +
797B LYS* 2.6 47.8 + - + +
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Residues in contact with GLU 794 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
790B ASN* 3.1 33.2 + - - +
791B SER* 3.5 9.6 - - - +
793B CYS* 1.3 75.9 - - - +
795B ALA* 1.3 65.8 + - - +
796B MET 3.1 0.3 + - - -
797B LYS* 3.1 32.1 + - - +
798B LYS* 3.0 27.7 + - - +
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Residues in contact with ALA 795 (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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791B SER 3.0 15.1 + - - +
792B TRP* 3.4 15.0 - - + +
794B GLU* 1.3 77.0 - - - +
796B MET* 1.3 61.0 + - - +
798B LYS* 3.6 9.1 - - - +
799B LEU* 3.5 18.7 + - - +
812B LEU* 3.5 26.5 - - + +
815B ALA* 5.8 2.9 - - + -
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Residues in contact with MET 796 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
742B LEU* 4.1 19.1 - - + -
743B PHE* 3.4 53.9 - - + +
746B GLU* 3.8 29.2 - - + -
792B TRP* 2.9 61.2 + - + +
793B CYS* 3.0 12.5 + - - +
795B ALA* 1.3 72.1 - - - +
797B LYS* 1.3 67.0 + - + +
798B LYS 3.1 1.6 - - - -
799B LEU* 3.0 12.5 + - - +
800B ARG* 3.3 7.6 + - - +
812B LEU* 3.7 12.8 - - + -
813B MET* 5.0 1.1 - - + -
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Residues in contact with LYS 797 (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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743B PHE* 5.5 0.9 - - - -
793B CYS* 2.6 28.7 + - + +
794B GLU* 3.1 32.1 + - - +
796B MET* 1.3 71.8 - - + +
798B LYS* 1.3 57.6 + - - +
800B ARG* 3.1 11.7 + - - +
801B GLU* 3.1 33.6 + - - +
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Residues in contact with LYS 798 (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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794B GLU 3.0 16.7 + - - +
795B ALA* 3.6 9.2 - - - +
797B LYS* 1.3 73.0 - - - +
799B LEU* 1.3 67.6 + - - +
800B ARG 3.0 1.3 - - - -
801B GLU* 3.0 36.5 + - - +
802B GLU* 3.7 7.0 + - - +
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Residues in contact with LEU 799 (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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743B PHE* 4.6 11.4 - - + -
795B ALA 3.5 7.3 + - - +
796B MET 3.0 10.6 + - - +
798B LYS* 1.3 78.6 - - - +
800B ARG* 1.3 60.7 + - - +
802B GLU* 3.3 42.1 - - + +
803B GLY 4.0 4.3 - - - +
805B ILE 5.3 1.2 - - - +
806B ILE* 4.5 24.5 - - + +
807B LYS* 5.0 6.5 - - + +
808B GLU 4.5 16.8 - - - +
809B ILE* 5.7 1.3 - - + -
811B ASP* 6.5 0.7 - - + -
812B LEU* 4.2 28.9 - - + +
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Residues in contact with ARG 800 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
716B TRP* 4.4 15.4 - - - +
719B THR* 5.8 1.4 + - - -
720B VAL* 4.6 9.9 - - - +
740B ASN* 4.9 7.9 - - - +
743B PHE* 5.1 7.4 - - + -
796B MET 3.3 5.1 + - - +
797B LYS* 3.1 14.9 + - - +
798B LYS 3.0 1.0 - - - -
799B LEU* 1.3 75.3 - - - +
801B GLU* 1.3 59.4 + - - +
802B GLU 3.1 2.7 - - - -
803B GLY* 2.8 43.8 + - - +
804B PRO* 3.7 33.0 + - - +
806B ILE* 4.5 11.0 - - + +
29F GLN* 5.5 5.3 + - - -
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Residues in contact with GLU 801 (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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797B LYS* 3.1 20.8 + - - +
798B LYS* 3.0 28.7 + - + +
800B ARG* 1.3 78.2 - - - +
802B GLU* 1.3 56.4 + - - +
803B GLY 3.1 5.9 + - - -
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Residues in contact with GLU 802 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
798B LYS 3.7 5.9 + - - +
799B LEU* 3.3 35.1 + - + +
800B ARG 3.1 2.0 + - - -
801B GLU* 1.3 75.8 - - - +
803B GLY* 1.3 56.9 + - - +
805B ILE 4.6 3.1 - - - +
807B LYS* 3.6 35.0 + - - +
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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