Contacts of the helix formed by residues 688 - 706 (chain A) in PDB entry 4EZJ
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 688 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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196A TYR* 4.3 5.8 + - - +
199A HIS* 5.2 9.1 + - - +
200A PRO 4.8 11.1 + - - -
201A TRP* 5.9 3.6 - - - +
653A ASP* 2.8 39.4 + - - +
657A LEU* 5.6 2.0 - - - +
684A ARG 3.1 10.8 + - - +
685A GLY 2.6 23.5 - - - +
687A ARG* 1.3 77.0 - - + +
689A LYS* 1.3 56.7 + - - +
690A ARG* 2.6 36.7 + - - +
691A ILE* 2.9 19.2 + - + +
692A GLY* 3.1 12.3 + - - -
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Residues in contact with LYS 689 (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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196A TYR* 3.3 46.8 + - + +
197A ALA* 4.2 6.8 + - - +
199A HIS* 4.0 30.2 - - + +
316A ASP* 2.7 32.8 + - - -
688A ASN* 1.3 71.9 + - - +
690A ARG* 1.4 59.6 + - - +
692A GLY* 3.6 0.7 + - - -
693A HIS* 3.1 27.9 + - - +
727A ALA* 4.4 7.7 - - - +
728A MET* 3.7 42.8 - - + +
731A ASP* 5.6 2.0 + - - -
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Residues in contact with ARG 690 (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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199A HIS* 5.1 6.7 - - + +
201A TRP* 3.5 56.0 - - + -
277A ARG* 6.1 0.2 - - - +
279A GLU* 5.1 4.6 + - - -
657A LEU* 3.7 24.9 - - + +
688A ASN* 2.6 15.8 + - - +
689A LYS* 1.4 70.3 - - - +
691A ILE* 1.4 65.0 + - - +
693A HIS* 3.3 6.3 + - - +
694A PHE* 3.2 60.8 + - + -
787A TYR 4.7 4.4 + - - -
788A ASP* 4.9 7.1 + - - +
789A PRO* 3.4 31.2 - - + +
790A GLY* 4.6 5.7 - - - +
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Residues in contact with ILE 691 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
653A ASP* 3.6 46.0 - - - +
656A VAL* 3.8 15.3 - - + -
657A LEU* 3.9 27.8 - - + +
660A LEU* 3.7 26.3 - - + +
681A LEU 5.4 0.2 - - - +
684A ARG* 3.9 35.2 - - + +
685A GLY* 3.9 3.6 - - - +
688A ASN* 2.9 17.0 + - + +
690A ARG* 1.4 75.5 - - - +
692A GLY* 1.3 57.1 + - - +
694A PHE 3.3 0.5 + - - -
695A LEU* 2.9 31.5 + - + +
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Residues in contact with GLY 692 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
685A GLY* 3.5 17.8 + - - -
688A ASN 3.1 12.9 + - - -
689A LYS 3.6 2.2 + - - -
690A ARG 3.3 0.2 - - - -
691A ILE* 1.3 77.4 - - - +
693A HIS* 1.3 55.2 + - - +
695A LEU* 3.7 2.5 - - - +
696A PHE* 3.1 24.4 + - - +
720A TYR* 3.1 38.3 + - - -
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Residues in contact with HIS 693 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
689A LYS 3.1 17.6 + - - +
690A ARG 3.3 5.1 + - - +
692A GLY* 1.3 73.5 - - - +
694A PHE* 1.3 71.1 + + - +
696A PHE* 3.3 5.9 + - - +
697A TRP* 3.1 37.6 + + - -
720A TYR* 4.0 0.4 + - - -
728A MET* 4.7 6.8 - - + +
732A PHE* 3.7 22.8 - - + -
735A GLN* 3.1 32.9 + - - -
784A ARG* 4.8 4.7 - - + -
785A VAL 4.4 1.1 - - - -
786A PRO* 2.7 33.9 + - + +
789A PRO* 3.5 38.4 - - + +
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Residues in contact with PHE 694 (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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657A LEU* 3.8 14.4 - - + -
660A LEU* 3.8 17.5 - - + -
690A ARG* 3.2 58.7 + - + -
691A ILE 3.9 0.9 - - - +
693A HIS* 1.3 76.8 - + - +
695A LEU* 1.3 56.2 + - - +
697A TRP* 3.2 4.1 + - + +
698A PHE* 2.6 58.9 + + + -
786A PRO 3.9 14.6 - - - -
787A TYR 4.0 9.6 - - - -
789A PRO* 3.7 24.0 - - + -
870A ILE* 4.0 25.1 - - + -
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Residues in contact with LEU 695 (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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660A LEU* 3.9 24.8 - - + +
664A VAL* 4.3 9.2 - - + -
681A LEU* 3.7 46.0 - - + +
682A LEU* 5.0 1.3 - - - +
685A GLY* 4.3 5.2 - - - -
691A ILE* 2.9 17.8 + - + +
692A GLY* 3.7 4.3 - - - +
694A PHE* 1.3 74.6 - - - +
696A PHE* 1.4 54.7 + - - +
698A PHE* 3.7 5.3 - - - +
699A LEU* 2.8 56.3 + - + +
716A ILE* 5.3 2.9 - - + -
720A TYR* 4.0 34.3 - - + -
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Residues in contact with PHE 696 (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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157A LEU* 3.7 18.2 - - + -
692A GLY 3.1 13.0 + - - +
693A HIS 3.4 7.9 - - - +
694A PHE 3.3 0.2 - - - -
695A LEU* 1.4 78.0 - - - +
697A TRP* 1.4 90.9 + + - +
699A LEU* 3.7 2.1 - - - +
700A ARG* 2.8 63.6 + - - +
717A LEU* 3.7 33.8 - - + +
720A TYR* 4.3 2.2 - - + -
721A LEU* 3.8 21.8 - - + -
732A PHE* 3.7 34.8 - + + -
736A VAL* 4.0 14.6 - - + -
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Residues in contact with TRP 697 (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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693A HIS* 3.1 46.3 + + - -
694A PHE* 3.8 6.5 - - - +
696A PHE* 1.4 94.6 - + - +
698A PHE* 1.4 63.7 + - + +
700A ARG* 3.0 21.1 + - + +
701A SER* 2.9 31.1 + - - -
732A PHE* 4.7 0.2 - - - -
735A GLN* 3.2 44.9 + - + -
736A VAL* 4.6 8.7 - - + -
739A ILE* 4.3 13.5 - - + -
786A PRO* 3.7 17.8 - - + +
842A MET* 5.1 0.2 - - - -
870A ILE* 3.7 23.1 - - + -
871A SER 4.1 6.2 - - - +
872A THR* 3.5 50.5 - - + -
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Residues in contact with PHE 698 (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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657A LEU 5.9 1.8 - - - -
660A LEU* 3.9 27.1 - - + -
661A LEU* 3.7 56.1 - - + +
664A VAL* 4.3 16.8 - - + +
694A PHE* 2.6 40.1 + + + +
695A LEU 3.7 2.9 - - - +
697A TRP* 1.4 69.8 - - + +
699A LEU* 1.4 61.5 + - - +
701A SER* 2.8 25.3 + - - -
702A GLU* 3.5 9.0 + - - +
842A MET* 3.4 32.1 - - + -
846A GLN* 4.4 16.4 - - - -
870A ILE* 3.9 13.5 - - + -
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Residues in contact with LEU 699 (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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664A VAL* 4.0 18.4 - - + -
681A LEU* 6.2 2.0 - - + -
695A LEU* 2.8 43.3 + - + +
696A PHE 3.7 3.1 - - - +
698A PHE* 1.4 70.8 - - - +
700A ARG* 1.4 56.5 + - - +
702A GLU* 3.3 7.2 + - - +
703A ILE* 3.1 36.0 + - + +
713A PHE* 3.6 32.7 - - + +
716A ILE* 3.8 21.1 - - + -
717A LEU* 3.7 42.4 - - + +
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Residues in contact with ARG 700 (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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156A ALA 3.2 24.7 + - - -
157A LEU 2.6 22.2 + - - +
158A ILE 3.7 16.5 - - - +
159A GLY* 4.3 10.0 - - - +
696A PHE* 2.8 43.4 + - + +
697A TRP* 3.0 20.6 + - + +
699A LEU* 1.4 69.9 - - - +
701A SER* 1.4 62.4 + - - +
703A ILE* 4.1 6.4 - - - +
704A ALA* 3.2 27.6 + - - +
717A LEU* 4.0 8.3 - - + +
736A VAL* 3.6 20.8 - - - +
739A ILE* 5.3 4.2 - - - +
740A GLU* 4.1 7.5 + - - +
871A SER 5.4 0.2 - - - -
872A THR 2.9 25.1 + - - +
873A GLY* 4.3 9.9 - - - -
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Residues in contact with SER 701 (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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661A LEU* 5.5 2.6 - - - +
665A GLN* 5.5 0.5 + - - -
697A TRP 2.9 11.8 + - - -
698A PHE* 2.8 22.0 + - - -
700A ARG* 1.4 74.9 - - - +
702A GLU* 1.4 64.5 + - - +
704A ALA* 3.8 1.1 - - - +
705A GLN* 3.1 38.9 + - - +
839A ARG* 3.9 14.2 - - - +
842A MET* 4.6 6.7 - - - -
871A SER* 3.7 36.9 + - - -
873A GLY 5.0 1.6 - - - +
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Residues in contact with GLU 702 (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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661A LEU* 5.3 0.2 - - - +
664A VAL* 4.9 3.6 - - + -
665A GLN* 2.6 34.3 + - - +
668A LYS* 3.2 17.9 + - - -
698A PHE 3.9 9.9 - - - +
699A LEU 3.3 6.3 + - - +
701A SER* 1.4 79.8 + - - +
703A ILE* 1.3 60.2 + - - +
704A ALA 3.2 1.6 - - - -
706A SER* 2.9 40.3 + - - +
710A GLN* 4.9 0.4 - - - -
713A PHE* 3.4 37.7 - - + -
839A ARG* 2.6 43.1 + - - +
1037A THR 5.2 0.2 - - - +
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Residues in contact with ILE 703 (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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158A ILE* 3.6 31.9 - - + +
159A GLY* 4.2 4.8 - - - +
160A TYR* 3.6 28.5 - - + -
699A LEU 3.1 25.3 + - - +
700A ARG 4.1 2.5 - - - +
701A SER 3.6 0.2 - - - -
702A GLU* 1.3 74.8 - - - +
704A ALA* 1.3 57.8 + - - +
706A SER 4.5 0.2 + - - -
710A GLN* 2.7 44.6 + - + +
713A PHE* 3.7 22.9 - - + +
714A ALA* 3.7 23.8 - - - +
717A LEU* 3.9 14.8 - - + -
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Residues in contact with ALA 704 (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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158A ILE 5.4 1.1 + - - +
159A GLY* 5.6 4.7 - - - -
700A ARG* 3.2 20.0 + - - +
701A SER 3.8 3.1 - - - +
702A GLU 3.2 0.4 - - - -
703A ILE* 1.3 80.9 - - - +
705A GLN* 1.3 59.4 + - - +
706A SER 3.8 0.4 - - - -
710A GLN* 5.0 2.4 + - - -
873A GLY* 3.5 12.1 - - - -
874A ASP* 3.4 42.2 - - + +
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Residues in contact with GLN 705 (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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701A SER* 3.1 23.7 + - - +
702A GLU 3.2 3.0 + - - -
704A ALA* 1.3 79.8 - - - +
706A SER* 1.3 58.0 + - - +
707A ARG* 4.1 2.4 + - - -
837A ASP* 3.3 24.7 + - - +
839A ARG* 3.4 37.6 + - - +
871A SER* 3.2 21.5 + - - -
873A GLY 2.9 23.3 + - - -
874A ASP* 3.6 12.3 - - - +
875A LYS* 3.1 23.8 + - + +
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Residues in contact with SER 706 (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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500A ASP* 4.4 5.2 + - - -
668A LYS* 4.7 3.8 + - - -
702A GLU* 2.9 33.4 + - - -
704A ALA 3.8 1.4 - - - -
705A GLN* 1.3 79.7 - - - +
707A ARG* 1.3 58.0 + - - +
708A HIS* 3.9 10.0 + - - +
709A TYR* 3.4 23.7 + - - +
710A GLN* 2.9 39.2 + - - +
839A ARG* 4.1 4.2 + - - -
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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
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Atomic class I II III IV V VI VII VIII
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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