Contacts of the helix formed by residues 717 - 733 (chain A) in PDB entry 3L6X
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 717 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1A SO4 3.1 30.3 + - - +
670A LYS 6.0 0.2 - - - -
672A PRO* 3.5 28.7 - - + +
715A ASN* 2.8 29.0 + - - +
716A GLU* 1.3 102.1 + - + +
718A GLU* 1.3 66.7 + - - +
719A ARG* 3.2 4.6 + - - -
720A VAL* 2.9 24.9 + - + +
721A VAL* 3.1 11.6 + - - +
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Residues in contact with GLU 718 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1A SO4 3.0 19.4 + - - +
716A GLU 3.6 4.4 + - - -
717A HIS* 1.3 71.3 - - - +
719A ARG* 1.3 59.3 + - - +
721A VAL* 3.0 11.0 + - - +
722A LYS* 2.9 26.5 + - - +
763A ASN 4.3 3.3 - - - +
764A PHE* 3.6 36.8 - - + -
765A SER* 2.7 32.2 + - - -
768A THR* 2.6 31.7 + - + +
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Residues in contact with ARG 719 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1A SO4 2.8 47.2 + - - +
672A PRO* 4.0 23.6 - - - +
673A ALA* 4.3 15.2 - - - +
676A GLU* 3.8 37.2 + - + +
717A HIS* 4.0 10.3 + - - -
718A GLU* 1.3 75.2 - - - +
720A VAL* 1.3 73.0 + - + +
722A LYS* 3.5 8.6 + - - +
723A ALA* 3.2 22.5 + - - +
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Residues in contact with VAL 720 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
672A PRO* 3.9 33.2 - - + +
675A LEU* 4.0 9.9 - - + -
676A GLU* 4.8 2.7 - - - -
712A LEU* 3.7 30.4 - - + +
715A ASN* 3.4 41.3 - - + +
717A HIS* 2.9 16.4 + - + +
719A ARG* 1.3 77.2 - - + +
721A VAL* 1.3 65.6 + - - +
723A ALA* 3.1 7.2 + - - +
724A ALA* 3.0 23.0 + - - +
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Residues in contact with VAL 721 (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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712A LEU 4.0 7.9 - - - +
713A LEU* 3.4 33.6 - - + +
715A ASN 3.4 18.6 - - - +
716A GLU 5.5 0.2 - - - -
717A HIS 3.1 7.7 + - - +
718A GLU* 3.0 10.9 + - - +
720A VAL* 1.3 79.9 - - - +
722A LYS* 1.3 63.7 + - - +
724A ALA* 3.3 3.7 + - - +
725A SER* 3.1 18.0 + - - -
752A ASN* 3.8 24.0 - - + +
764A PHE* 4.4 11.0 - - + -
768A THR* 4.2 9.6 - - + -
772A ILE* 4.1 20.2 - - + -
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Residues in contact with LYS 722 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
718A GLU 2.9 14.9 + - - +
719A ARG* 3.8 9.0 - - - +
720A VAL 3.1 0.2 - - - -
721A VAL* 1.3 81.2 - - - +
723A ALA* 1.3 57.7 + - - +
725A SER* 3.1 7.7 + - - -
726A GLY* 3.1 23.9 + - - -
767A ASP* 3.4 38.9 + - - +
768A THR* 4.3 22.7 - - + +
771A SER* 3.9 19.5 + - - +
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Residues in contact with ALA 723 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
676A GLU* 3.9 26.9 - - + +
679A ALA* 3.7 21.9 - - + +
680A GLY* 4.7 3.1 - - - +
683A GLN* 4.1 9.7 + - - +
712A LEU* 5.6 0.4 - - + -
719A ARG 3.2 14.4 + - - +
720A VAL 3.1 7.7 + - - +
722A LYS* 1.3 73.9 - - - +
724A ALA* 1.3 66.2 + - - +
726A GLY* 3.4 2.3 + - - +
727A ALA* 3.0 22.7 + - - +
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Residues in contact with ALA 724 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
679A ALA* 4.1 8.8 - - - +
709A ILE* 3.7 25.7 - - + +
712A LEU* 3.8 14.6 - - + -
713A LEU* 3.9 16.2 - - + -
720A VAL 3.0 11.8 + - - +
721A VAL 3.5 8.3 - - - +
723A ALA* 1.3 74.7 - - - +
725A SER* 1.3 58.0 + - - +
727A ALA* 3.2 4.3 + - - +
728A LEU* 2.9 35.8 + - - +
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Residues in contact with SER 725 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
713A LEU* 4.2 4.9 - - - +
721A VAL 3.1 13.6 + - - -
722A LYS* 3.1 7.2 + - - -
724A ALA* 1.3 77.3 - - - +
726A GLY* 1.3 51.9 + - - +
728A LEU* 3.3 4.2 + - - -
729A ARG 2.8 31.7 + - - -
749A LEU* 4.5 12.8 - - - -
771A SER* 2.6 31.5 + - - -
772A ILE* 3.7 9.6 + - - -
775A THR* 2.7 33.6 + - - +
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Residues in contact with GLY 726 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
683A GLN* 3.6 35.1 - - - +
722A LYS 3.1 12.7 + - - -
723A ALA 3.8 0.2 - - - -
725A SER* 1.3 75.9 + - - +
727A ALA* 1.3 62.6 + - - +
729A ARG* 3.3 20.3 + - - +
730A ASN* 3.1 20.3 + - - +
771A SER* 4.3 1.2 + - - -
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Residues in contact with ALA 727 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
679A ALA* 3.8 22.4 - - + +
682A ILE* 4.2 17.5 - - + +
683A GLN* 3.9 11.9 - - - +
686A CYS* 5.5 0.5 - - - +
709A ILE* 4.2 14.8 - - + -
723A ALA 3.0 17.0 + - - +
724A ALA* 3.2 4.9 + - - +
726A GLY* 1.3 74.2 - - - +
728A LEU* 1.3 64.2 + - - +
730A ASN* 3.1 5.0 + - - +
731A LEU* 3.1 26.8 + - - +
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Residues in contact with LEU 728 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
706A LEU* 4.2 24.2 - - + +
709A ILE* 3.8 19.3 - - + -
710A ALA* 4.3 13.2 - - + +
713A LEU* 3.5 34.1 - - + -
724A ALA 2.9 20.5 + - - +
725A SER 3.6 3.6 - - - +
727A ALA* 1.3 74.7 - - - +
729A ARG* 1.3 64.0 + - - +
731A LEU* 3.1 11.3 + - + +
732A ALA* 3.1 22.1 + - - +
741A ILE* 4.6 4.8 - - + +
744A HIS 5.9 0.2 - - - -
745A ALA* 4.3 25.8 - - + -
749A LEU* 4.5 6.3 - - + -
775A THR* 4.0 9.9 - - + -
779A VAL* 4.8 1.9 - - + +
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Residues in contact with ARG 729 (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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683A GLN* 4.2 10.1 + - - -
725A SER* 2.8 21.5 + - - +
726A GLY* 3.5 20.3 - - - +
727A ALA 3.2 0.2 - - - -
728A LEU* 1.3 73.3 - - - +
730A ASN* 1.3 72.6 + - - +
732A ALA* 3.0 16.8 + - - +
733A VAL* 3.6 14.2 + - + +
771A SER* 3.2 30.3 + - - +
774A ASN* 4.1 17.8 - - - +
775A THR* 3.0 41.0 + - + +
778A GLU* 3.9 18.8 - - + +
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Residues in contact with ASN 730 (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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683A GLN* 3.0 32.9 + - + +
686A CYS* 3.8 21.7 - - + +
687A ALA* 3.5 19.8 - - - +
697A ARG* 3.4 19.1 - - - -
726A GLY 3.1 14.1 + - - +
727A ALA 3.1 5.1 + - - +
729A ARG* 1.3 92.3 - - - +
731A LEU* 1.3 61.9 + - - +
732A ALA 3.4 0.3 + - - -
733A VAL* 3.7 19.6 + - - +
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Residues in contact with LEU 731 (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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682A ILE* 5.5 1.6 - - + -
686A CYS* 3.8 26.7 - - - -
697A ARG* 3.9 15.5 - - + +
700A LEU* 3.8 26.2 - - + +
701A ARG* 2.9 39.6 + - + +
706A LEU* 4.0 20.2 - - + -
709A ILE* 3.9 28.0 - - + -
727A ALA 3.1 14.3 + - - +
728A LEU* 3.1 14.1 + - + +
730A ASN* 1.3 78.5 - - - +
732A ALA* 1.3 58.5 + - - +
741A ILE* 3.7 11.0 - - + +
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Residues in contact with ALA 732 (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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728A LEU 3.1 9.8 + - - +
729A ARG 3.0 11.6 + - - +
731A LEU* 1.3 77.9 - - - +
733A VAL* 1.3 66.7 + - - +
734A ASP 3.3 0.4 - - - -
735A ALA* 3.2 13.6 + - + +
741A ILE* 3.4 17.9 - - + -
778A GLU* 4.0 18.0 - - + +
779A VAL* 3.7 28.9 - - + -
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Residues in contact with VAL 733 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
697A ARG* 5.7 2.7 - - - +
729A ARG* 3.8 15.7 - - + +
730A ASN* 3.9 17.7 - - - +
731A LEU 3.3 1.4 - - - -
732A ALA* 1.3 79.3 - - - +
734A ASP* 1.3 63.2 + - + +
778A GLU* 3.7 27.1 - - + +
782A GLU* 5.5 2.3 - - - +
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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