Contacts of the helix formed by residues 699 - 721 (chain A) in PDB entry 4OSV
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 THR 699 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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697A ALA 3.9 2.9 + - - +
698A LEU* 1.3 77.1 - - - +
700A ASN* 1.3 59.2 + - - +
701A ASP* 3.6 9.3 + - - +
702A HIS* 3.1 38.9 + - + +
703A LEU* 2.9 27.4 + - - +
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Residues in contact with ASN 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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661A HIS* 3.1 27.1 + - - +
662A GLY 5.1 1.8 + - - +
663A LEU* 3.9 16.2 - - + +
667A GLN* 6.0 0.9 - - - +
688A LEU* 3.1 30.5 - - - +
698A LEU 5.5 0.2 - - - +
699A THR* 1.3 71.8 - - - +
701A ASP* 1.3 63.0 + - - +
703A LEU* 3.2 13.1 + - - +
704A VAL* 2.8 34.4 + - - +
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Residues in contact with ASP 701 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
667A GLN* 3.0 26.8 + - - +
699A THR* 3.2 9.0 + - - +
700A ASN* 1.3 80.1 - - - +
702A HIS* 1.3 63.3 + - + +
704A VAL* 3.2 8.1 + - - +
705A ALA* 2.9 27.7 + - - +
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Residues in contact with HIS 702 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
697A ALA 5.1 0.6 + - - -
698A LEU* 4.2 6.4 - - + -
699A THR* 3.1 37.7 + - + +
701A ASP* 1.3 79.6 - - + +
703A LEU* 1.3 58.3 + - - +
705A ALA* 3.2 5.7 + - + +
706A LEU* 2.9 29.0 + - - +
699B THR* 3.3 13.2 + - + +
701B ASP* 4.0 11.4 - - + +
702B HIS* 3.2 71.9 + + + +
705B ALA* 4.5 9.8 - - + +
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Residues in contact with LEU 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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684A ILE* 3.7 17.7 - - + +
687A GLN* 3.6 27.4 - - + +
688A LEU* 5.0 8.1 - - + -
695A LEU* 4.1 20.9 - - + +
698A LEU* 3.8 35.7 - - + +
699A THR 2.9 16.3 + - - +
700A ASN* 3.4 20.4 - - - +
702A HIS* 1.3 75.4 - - - +
704A VAL* 1.3 57.3 + - - +
706A LEU* 3.3 4.2 + - - +
707A ALA* 2.9 31.4 + - - +
715A LEU* 4.1 15.1 - - + +
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Residues in contact with VAL 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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663A LEU* 4.0 30.3 - - + -
667A GLN* 4.1 39.5 - - + +
670A ALA* 5.5 0.9 - - + -
671A ILE* 4.2 10.9 - - + +
684A ILE* 4.6 4.3 - - + -
700A ASN 2.8 21.6 + - - +
701A ASP 3.5 8.5 - - - +
702A HIS 3.2 0.2 - - - -
703A LEU* 1.3 73.4 - - - +
705A ALA* 1.3 56.5 + - - +
707A ALA* 3.3 6.1 + - - +
708A CYS* 2.9 42.5 + - - -
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Residues in contact with ALA 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 ASP 2.9 13.4 + - - +
702A HIS* 3.2 12.8 + - + +
704A VAL* 1.3 77.3 - - - +
706A LEU* 1.3 57.6 + - - +
708A CYS* 3.4 6.9 + - - +
709A LEU* 3.0 29.6 + - - +
698B LEU* 5.9 3.1 - - + -
702B HIS* 4.4 13.7 - - + +
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Residues in contact with LEU 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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698A LEU* 3.7 29.2 - - + -
702A HIS 2.9 15.0 + - - +
703A LEU* 3.6 6.1 - - + +
705A ALA* 1.3 77.6 - - - +
707A ALA* 1.3 62.9 + - - +
709A LEU* 3.2 14.1 + - + +
710A GLY 3.0 19.8 + - - -
711A GLY 3.8 1.6 + - - -
714A ALA* 3.8 17.5 - - + +
715A LEU* 3.7 19.7 - - + -
718A VAL* 3.6 29.8 - - + -
698B LEU* 5.4 2.5 - - + -
702B HIS* 4.5 14.4 - - + +
706B LEU* 5.2 1.3 - - + -
718B VAL* 4.4 23.8 - - + -
721B LEU* 5.2 0.7 - - + -
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Residues in contact with ALA 707 (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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671A ILE* 4.2 18.8 - - + +
674A ASN* 5.0 1.2 + - - -
680A ALA* 4.3 9.9 - - + +
684A ILE* 3.8 25.6 - - + -
703A LEU 2.9 18.5 + - - +
704A VAL 3.7 3.6 - - - +
706A LEU* 1.3 76.2 - - - +
708A CYS* 1.3 61.1 + - - +
711A GLY* 2.8 30.8 + - - +
715A LEU* 3.8 11.6 - - + +
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Residues in contact with CYS 708 (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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670A ALA* 3.6 19.5 - - - +
671A ILE* 3.6 32.1 - - - +
674A ASN* 3.7 26.2 + - - +
704A VAL* 2.9 27.9 + - - +
705A ALA* 3.7 6.7 - - - +
707A ALA* 1.3 78.2 - - - +
709A LEU* 1.3 62.6 + - - +
710A GLY* 4.7 0.2 - - - -
711A GLY 4.7 0.2 + - - -
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Residues in contact with LEU 709 (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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705A ALA 3.0 17.7 + - - +
706A LEU* 3.2 13.0 + - + +
708A CYS* 1.3 79.4 - - - +
710A GLY* 1.3 57.6 + - - +
698B LEU* 5.1 9.2 - - + -
718B VAL* 4.3 19.3 - - + +
721B LEU* 3.5 52.8 - - + +
14I T 4.5 13.0 - - - +
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Residues in contact with GLY 710 (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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706A LEU 3.0 6.5 + - - -
709A LEU* 1.3 78.5 - - - +
711A GLY* 1.3 69.8 + - - +
713A PRO* 3.2 13.7 - - - +
714A ALA* 3.1 25.5 + - - +
721B LEU* 4.8 2.7 - - - -
14I T 4.7 17.1 - - - +
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Residues in contact with GLY 711 (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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676A GLY 5.2 1.6 - - - -
680A ALA* 3.6 16.8 - - - -
706A LEU 3.8 0.2 + - - -
707A ALA* 2.8 26.0 + - - -
708A CYS 4.6 0.6 + - - -
710A GLY* 1.3 80.4 - - - +
712A ARG* 1.3 64.2 + - - -
713A PRO* 4.1 1.6 - - - -
714A ALA* 3.2 7.1 + - - +
715A LEU* 3.3 16.8 + - - +
12I T 5.6 0.9 - - - -
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Residues in contact with ARG 712 (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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679A PRO* 3.4 34.2 - - + +
680A ALA* 3.7 8.7 - - - +
682A GLU* 5.1 4.6 + - - -
683A SER* 3.3 31.2 - - - +
711A GLY* 1.3 70.3 - - - -
713A PRO* 1.4 64.6 - - + +
715A LEU* 3.2 3.2 + - - +
716A ASP* 2.9 45.5 + - - +
11I C 3.1 18.2 + - - -
12I T 2.8 29.7 + - - +
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Residues in contact with PRO 713 (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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710A GLY 3.2 12.8 - - - +
711A GLY* 3.4 0.4 - - - -
712A ARG* 1.4 95.3 - - + +
714A ALA* 1.3 56.6 + - - +
716A ASP* 3.2 7.0 + - + +
717A ALA* 2.7 32.4 + - - +
12I T 3.5 42.0 - - + +
13I C 3.3 26.2 - - - +
14I T 6.3 2.2 - - + -
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Residues in contact with ALA 714 (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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706A LEU* 3.8 18.2 - - + +
710A GLY* 3.1 34.1 + - - +
711A GLY 3.2 1.8 + - - +
713A PRO* 1.3 76.0 - - - +
715A LEU* 1.3 59.9 + - - +
717A ALA* 3.4 6.8 + - - +
718A VAL* 3.0 36.3 + - + +
721B LEU* 3.7 25.4 - - + -
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Residues in contact with LEU 715 (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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680A ALA 4.8 0.7 - - - +
683A SER* 3.6 38.6 - - - +
684A ILE* 4.0 18.8 - - + +
687A GLN* 5.5 1.1 - - + -
695A LEU* 4.1 19.6 - - + +
703A LEU* 4.1 11.9 - - + +
706A LEU* 3.7 33.2 - - + -
707A ALA* 3.8 18.8 - - + +
711A GLY 3.3 6.4 + - - +
712A ARG* 3.2 9.7 + - - +
714A ALA* 1.3 79.4 - - - +
716A ASP* 1.3 64.9 + - - +
718A VAL* 3.4 6.6 + - - +
719A LYS* 3.2 27.7 + - + +
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Residues in contact with ASP 716 (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 SER* 4.4 4.5 + - - -
712A ARG* 2.9 37.3 + - - +
713A PRO* 3.6 6.6 - - + +
715A LEU* 1.3 77.0 - - - +
717A ALA* 1.3 66.3 + - - +
719A LYS* 3.2 26.5 + - - +
720A LYS* 3.1 33.5 + - - +
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Residues in contact with ALA 717 (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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713A PRO 2.7 20.8 + - - +
714A ALA* 3.7 8.3 - - - +
716A ASP* 1.3 72.7 - - - +
718A VAL* 1.3 62.8 + - + +
720A LYS* 3.2 21.3 + - - +
721A LEU* 3.4 20.0 - - + +
717B ALA* 6.0 5.8 - - + -
721B LEU* 6.2 2.2 - - + -
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Residues in contact with VAL 718 (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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694A ALA 4.5 1.0 - - - +
695A LEU* 3.6 19.1 - - + -
698A LEU* 3.9 10.3 - - + -
706A LEU* 3.6 26.7 - - + -
714A ALA* 3.0 21.2 + - + +
715A LEU 3.8 4.5 - - - +
716A ASP 3.2 0.2 - - - -
717A ALA* 1.3 76.1 - - + +
719A LYS* 1.3 63.3 + - - +
721A LEU* 3.2 31.7 - - + +
706B LEU* 4.6 11.4 - - + -
709B LEU* 3.6 27.7 - - + +
718B VAL* 5.1 5.8 - - + -
721B LEU* 6.3 1.6 - - + -
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Residues in contact with LYS 719 (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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687A GLN* 4.9 1.8 + - - +
692A ASP* 3.1 35.5 + - - +
694A ALA* 4.1 17.4 - - + +
695A LEU* 3.5 33.0 - - + +
715A LEU* 3.2 17.2 + - + +
716A ASP* 3.2 22.4 + - - +
718A VAL* 1.3 77.3 - - - +
720A LYS* 1.3 68.0 + - + +
721A LEU 3.1 9.7 + - - +
14G T 3.3 14.6 - - - +
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Residues in contact with LYS 720 (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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716A ASP* 3.1 31.2 - - - +
717A ALA* 3.2 13.1 + - - +
719A LYS* 1.3 82.1 - - + +
721A LEU* 1.3 60.4 + - + +
13G C 3.5 21.9 - - - +
14G T 3.5 46.0 + - + +
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Residues in contact with LEU 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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694A ALA* 4.9 3.1 - - - +
717A ALA* 3.4 17.5 - - + +
718A VAL* 3.2 33.2 + - + +
719A LYS 3.1 2.1 - - - +
720A LYS* 1.3 80.8 - - + +
709B LEU* 3.5 31.3 - - + +
710B GLY* 4.1 11.4 - - - +
713B PRO* 4.2 25.8 - - + +
714B ALA* 3.6 32.1 - - + -
717B ALA* 4.7 11.2 - - + -
13G C 5.0 16.8 - - + +
14G T 2.8 39.4 - - - +
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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