Contacts of the helix formed by residues 924 - 942 (chain G) in PDB entry 1WQ1
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 PRO 924 (chain G).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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922G PRO 4.6 0.7 - - - +
923G SER* 1.3 89.0 - - - +
925G ILE* 1.3 64.4 + - + +
927G ALA* 3.7 6.9 + - + +
928G ARG* 3.4 20.3 + - - +
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Residues in contact with ILE 925 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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824G SER 5.2 4.3 - - - +
825G LYS* 3.5 28.9 - - + +
826G GLN 4.2 5.2 - - - +
827G SER* 3.5 39.5 - - - +
828G CYS 4.7 0.4 - - - +
836G GLU* 5.5 8.1 - - - +
923G SER* 3.2 7.7 + - - +
924G PRO* 1.3 76.6 - - + +
926G ALA* 1.3 68.0 + - - +
928G ARG* 3.2 9.5 + - + +
929G THR* 3.0 27.7 + - - +
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Residues in contact with ALA 926 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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821G ILE* 4.3 18.1 - - + +
822G MET* 4.3 21.1 - - + +
824G SER 5.7 1.5 + - - +
922G PRO* 4.1 7.4 - - + -
923G SER* 3.2 29.5 + - - +
925G ILE* 1.3 79.7 - - - +
927G ALA* 1.3 62.5 + - - +
929G THR* 3.0 8.2 + - - -
930G LEU* 3.0 30.3 + - - +
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Residues in contact with ALA 927 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
922G PRO* 4.0 16.1 - - + +
923G SER 2.8 19.5 + - - +
924G PRO* 3.8 8.7 - - + +
926G ALA* 1.3 72.7 - - - +
928G ARG* 1.3 61.9 + - - +
930G LEU* 3.7 9.2 + - - +
931G ILE* 3.5 27.9 + - + +
70R GLN* 5.2 15.3 - - - +
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Residues in contact with ARG 928 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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828G CYS 6.3 1.1 - - - +
829G GLU* 2.9 31.8 + - + +
831G SER* 2.8 31.1 + - - -
834G LYS* 4.0 29.2 - - - +
924G PRO 3.4 10.8 + - - +
925G ILE* 3.2 11.1 + - - +
926G ALA 3.1 0.6 - - - -
927G ALA* 1.3 78.0 - - - +
929G THR* 1.3 65.1 + - - +
931G ILE* 3.2 30.1 + - - +
932G LEU* 3.0 41.4 + - + +
935G LYS* 5.2 4.6 - - - +
952G TYR* 4.4 10.9 - - - -
37R GLU* 5.1 6.1 + - - -
39R SER* 5.0 8.3 + - - -
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Residues in contact with THR 929 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
821G ILE* 4.0 21.3 - - + -
826G GLN 4.8 1.4 + - - -
828G CYS* 3.4 42.6 + - + +
848G LEU* 4.0 0.9 - - + -
851G ILE* 4.4 7.2 - - + -
925G ILE* 3.0 18.7 + - - +
926G ALA* 3.0 7.9 + - - -
928G ARG* 1.3 74.8 - - - +
930G LEU* 1.3 52.6 + - - +
932G LEU* 2.9 10.7 + - - +
933G VAL* 2.6 53.7 + - + +
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Residues in contact with LEU 930 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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818G ILE* 4.9 9.0 - - + -
821G ILE* 4.2 23.1 - - + -
822G MET* 3.8 31.0 - - + -
909G ILE* 3.3 37.1 - - + +
910G LEU* 3.3 22.1 - - + +
912G PRO* 4.6 3.4 - - + -
922G PRO* 4.2 14.4 - - + -
926G ALA 3.0 20.0 + - - +
927G ALA* 3.8 9.2 - - - +
929G THR* 1.3 78.0 - - - +
931G ILE* 1.3 56.1 + - - +
933G VAL* 4.4 2.7 - - - -
934G ALA* 2.9 31.2 + - - +
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Residues in contact with ILE 931 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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910G LEU* 3.5 23.1 - - + -
927G ALA* 3.5 17.6 + - + +
928G ARG* 3.2 28.1 + - - +
929G THR 3.2 0.6 - - - -
930G LEU* 1.3 73.5 - - - +
932G LEU* 1.3 59.0 + - - +
933G VAL 3.1 0.2 + - - -
934G ALA* 3.2 0.3 + - - +
935G LYS* 2.7 61.1 + - + +
36R ILE* 5.0 1.3 - - + -
37R GLU* 3.9 38.6 - - + +
67R MET* 6.3 3.6 - - - -
70R GLN* 6.1 0.9 - - - +
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Residues in contact with LEU 932 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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828G CYS* 3.6 33.2 - - + +
829G GLU* 4.2 6.7 - - - +
830G LEU* 4.7 4.5 - - + +
831G SER* 5.4 0.2 - - - +
848G LEU* 4.3 20.5 - - + +
928G ARG* 3.0 56.6 + - + +
929G THR* 2.9 10.1 + - - +
931G ILE* 1.3 76.3 - - - +
933G VAL* 1.3 58.3 + - - +
935G LYS* 3.9 9.2 - - + +
936G SER* 2.9 27.9 + - - -
952G TYR* 4.8 2.5 - - + -
953G MET* 3.9 31.2 - - + +
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Residues in contact with VAL 933 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
821G ILE* 4.4 16.6 - - + -
848G LEU* 3.8 13.9 - - + -
851G ILE* 4.7 7.4 - - + -
852G LEU* 3.9 14.6 - - + -
855G LEU* 3.6 30.5 - - + -
909G ILE* 4.4 11.0 - - + -
929G THR* 2.6 43.2 + - + +
930G LEU* 3.9 4.9 - - - +
932G LEU* 1.3 72.4 - - - +
934G ALA* 1.3 61.7 + - - +
935G LYS 3.3 0.2 - - - -
936G SER* 3.2 3.1 + - - -
937G VAL* 2.9 34.2 + - + +
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Residues in contact with ALA 934 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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906G CYS* 3.6 17.0 - - + +
909G ILE* 3.7 27.8 - - + -
910G LEU* 3.8 19.7 - - + -
930G LEU 2.9 20.5 + - - +
933G VAL* 1.3 73.5 - - - +
935G LYS* 1.3 60.1 + - - +
937G VAL* 4.4 1.8 - - - -
938G GLN* 2.9 30.1 + - - +
36R ILE* 4.0 5.8 - - + +
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Residues in contact with LYS 935 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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928G ARG* 5.2 3.8 - - - +
931G ILE* 2.7 47.0 + - + +
932G LEU* 3.9 13.4 - - + +
934G ALA* 1.3 72.5 - - - +
936G SER* 1.3 61.3 + - - +
938G GLN* 3.1 4.2 + - - +
939G ASN* 3.0 27.7 + - - +
946G PHE* 4.4 6.5 - - + -
950G GLU* 2.9 39.9 + - - -
952G TYR* 4.2 5.7 - - - -
953G MET* 4.0 24.6 - - + -
36R ILE* 4.1 20.8 - - + +
37R GLU 3.4 23.6 + - - +
38R ASP* 4.0 6.7 - - - +
39R SER* 5.7 0.2 + - - -
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Residues in contact with SER 936 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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848G LEU* 4.8 1.2 - - - +
852G LEU* 3.7 25.5 - - - +
932G LEU 2.9 16.9 + - - -
933G VAL 3.2 8.6 + - - -
935G LYS* 1.3 76.9 - - - +
937G VAL* 1.3 63.1 + - - +
939G ASN* 3.2 13.2 + - - +
940G LEU* 3.2 13.8 + - - +
946G PHE* 3.8 15.5 - - - -
953G MET* 4.2 3.6 - - - +
956G VAL* 3.5 24.2 - - - +
959G PHE* 4.9 7.6 - - - -
960G ILE* 5.0 2.1 - - - +
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Residues in contact with VAL 937 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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852G LEU* 4.5 5.8 - - + -
855G LEU* 4.0 26.9 - - + -
856G VAL* 4.8 9.6 - - + -
859G ILE* 4.5 8.5 - - + -
901G PHE* 3.4 34.8 - - + -
905G ILE* 4.6 2.9 - - + -
906G CYS* 4.2 9.4 - - - -
909G ILE* 4.2 7.0 - - + -
933G VAL* 2.9 24.0 + - + +
934G ALA* 3.9 4.9 - - - +
935G LYS 3.4 0.2 - - - -
936G SER* 1.3 75.6 - - - +
938G GLN* 1.3 57.2 + - - +
940G LEU* 3.4 9.3 + - + +
941G ALA* 2.9 27.0 + - - +
959G PHE* 5.5 1.8 - - - -
967G MET* 4.6 2.6 - - + +
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Residues in contact with GLN 938 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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897G SER* 4.6 1.4 + - - -
901G PHE* 4.0 2.3 - - - +
902G LEU* 3.6 39.3 + - + +
906G CYS* 3.3 18.6 - - - +
934G ALA 2.9 18.8 + - - +
935G LYS* 3.1 5.1 + - - +
937G VAL* 1.3 74.2 - - - +
939G ASN* 1.3 66.6 + - - +
941G ALA* 3.3 7.1 + - - +
942G ASN* 2.8 71.2 + - - +
34R PRO* 3.8 17.0 + - - +
36R ILE* 3.8 19.7 - - + -
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Residues in contact with ASN 939 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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935G LYS 3.0 12.1 + - - +
936G SER 3.5 8.5 - - - +
938G GLN* 1.3 79.8 - - - +
940G LEU* 1.3 52.0 + - - +
942G ASN* 3.2 1.4 + - - -
943G LEU 2.8 28.8 + - - -
944G VAL* 2.8 43.6 + - - +
945G GLU 3.8 1.7 - - - +
946G PHE* 3.1 43.5 + - + -
960G ILE* 3.9 9.2 - - + -
33R ASP* 4.3 15.2 + - - -
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Residues in contact with LEU 940 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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856G VAL* 4.3 11.9 - - + -
860G PHE* 4.3 2.0 - - + -
936G SER 3.2 8.7 + - - +
937G VAL* 3.6 9.9 - - + +
939G ASN* 1.3 78.7 - - - +
941G ALA* 1.3 57.9 + - - +
943G LEU* 2.9 29.7 + - + +
959G PHE* 3.6 33.9 - - + -
960G ILE* 3.8 41.1 - - + +
963G ASN* 4.0 12.8 - - + +
964G LYS* 3.9 19.7 - - - +
967G MET* 3.6 25.0 - - + +
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Residues in contact with ALA 941 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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894G ARG* 5.3 1.9 - - - +
897G SER* 2.7 36.5 + - - +
901G PHE* 3.5 32.8 - - + -
937G VAL 2.9 18.3 + - - +
938G GLN* 3.6 10.8 - - - +
939G ASN 3.3 0.2 - - - -
940G LEU* 1.3 76.1 - - - +
942G ASN* 1.3 58.4 + - - +
943G LEU* 4.7 1.4 - - - +
967G MET* 3.7 14.1 - - + +
971G LEU* 4.0 8.0 - - - +
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Residues in contact with ASN 942 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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894G ARG* 4.7 19.7 + - - +
897G SER* 3.9 7.3 + - - -
898G GLY* 6.0 0.4 - - - -
938G GLN* 2.8 46.8 + - - +
941G ALA* 1.3 79.9 - - - +
943G LEU* 1.3 74.5 + - - +
944G VAL* 3.5 20.1 - - + +
32R TYR* 3.9 22.7 - - + +
33R ASP* 3.4 15.1 - - - +
34R PRO* 3.7 22.1 - - - +
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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
------------------------------------------------------------
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