Contacts of the helix formed by residues 922 - 942 (chain A) in PDB entry 1OW8
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 ASP 922 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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917A LEU* 4.8 2.3 - - - +
918A ASP 4.5 4.8 + - - +
919A ARG* 2.9 44.9 + - - +
921A ASN* 1.3 74.0 - - - +
923A LYS* 1.3 58.0 + - - +
924A VAL 3.1 4.5 + - - -
925A TYR* 3.0 31.8 + - + +
926A GLU* 3.0 26.9 + - - +
1042A ARG* 2.8 42.8 + - - +
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Residues in contact with LYS 923 (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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921A ASN* 3.1 43.3 + - - +
922A ASP* 1.3 75.4 + - - +
924A VAL* 1.3 57.6 + - + +
926A GLU* 3.6 27.1 + - + +
927A ASN* 3.0 38.3 + - - +
967A THR* 3.9 20.4 - - + +
1042A ARG* 5.1 1.8 - - - +
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Residues in contact with VAL 924 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
922A ASP* 3.1 6.9 + - - +
923A LYS* 1.3 74.7 - - + +
925A TYR* 1.3 62.5 + - - +
927A ASN* 3.3 4.0 + - - +
928A VAL* 3.0 38.9 + - + +
964A LEU* 3.9 5.1 - - + +
967A THR* 3.9 14.8 - - + -
968A VAL* 4.5 14.1 - - + -
971A THR* 3.8 26.2 - - - +
1034A LEU* 5.8 0.7 - - + -
1035A LEU* 4.4 13.7 - - + +
1038A ILE* 4.1 32.1 - - + -
1042A ARG* 4.1 15.5 - - - +
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Residues in contact with TYR 925 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
919A ARG* 3.4 53.8 - - + +
922A ASP* 3.0 27.5 + - + -
924A VAL* 1.3 76.0 - - - +
926A GLU* 1.3 67.7 + - + +
928A VAL* 3.9 1.3 - - - +
929A THR* 2.9 47.5 + - + +
1035A LEU* 3.9 20.1 - - + +
2D LEU* 3.7 40.8 + - + -
4D GLU* 4.6 8.7 - - - +
5D LEU* 4.4 15.4 + - + +
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Residues in contact with GLU 926 (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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919A ARG 5.2 2.5 - - - +
920A SER 4.7 9.4 - - - +
921A ASN* 5.2 1.2 - - - -
922A ASP 3.0 18.9 + - - +
923A LYS* 3.6 33.4 + - + +
924A VAL 3.3 0.2 - - - -
925A TYR* 1.3 82.8 - - + +
927A ASN* 1.3 63.6 + - - +
929A THR* 3.6 5.5 + - - -
930A GLY* 3.3 15.8 + - - -
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Residues in contact with ASN 927 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
923A LYS* 3.0 26.2 + - - +
924A VAL 3.8 0.4 - - - +
925A TYR 3.1 0.4 - - - -
926A GLU* 1.3 81.4 - - - +
928A VAL* 1.3 62.2 + - - +
929A THR 3.2 0.9 - - - -
930A GLY* 3.2 2.6 + - - +
931A LEU* 2.9 27.0 + - - +
960A ALA* 4.6 6.0 - - - +
963A THR* 3.5 26.0 + - + +
964A LEU* 3.7 21.7 - - + +
967A THR* 2.7 36.4 + - - +
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Residues in contact with VAL 928 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
924A VAL* 3.0 21.4 + - + +
925A TYR* 3.9 6.1 - - - +
927A ASN* 1.3 72.5 - - - +
929A THR* 1.3 62.0 + - - +
931A LEU* 3.0 6.4 + - - +
932A VAL* 2.7 43.8 + - + +
964A LEU* 3.8 21.1 - - + +
1031A ALA* 4.0 27.4 - - + +
1032A LYS 4.6 1.8 - - - +
1034A LEU* 5.8 1.1 - - + -
1035A LEU* 4.1 16.8 - - + +
5D LEU* 4.0 28.7 - - + -
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Residues in contact with THR 929 (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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925A TYR* 2.9 36.3 + - + +
926A GLU* 3.7 7.9 - - - -
927A ASN 3.2 0.2 - - - -
928A VAL* 1.3 77.7 - - - +
930A GLY* 1.3 56.7 + - - +
932A VAL* 3.7 1.6 - - - +
933A LYS* 2.8 50.5 + - - +
5D LEU* 3.6 20.9 - - - +
8D LEU* 4.3 17.2 - - + +
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Residues in contact with GLY 930 (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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926A GLU 3.3 8.1 + - - -
927A ASN* 3.2 6.6 + - - -
928A VAL 3.0 0.4 - - - -
929A THR* 1.3 78.4 - - - +
931A LEU* 1.3 64.3 + - - +
933A LYS* 3.1 9.2 + - - +
934A ALA* 2.9 24.4 + - - +
960A ALA* 4.5 5.8 - - - +
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Residues in contact with LEU 931 (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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927A ASN 2.9 16.0 + - - +
928A VAL* 3.0 5.8 + - - +
930A GLY* 1.3 76.3 - - - +
932A VAL* 1.3 62.4 + - + +
934A ALA* 3.2 1.3 + - - +
935A VAL* 3.2 26.2 + - + +
957A VAL* 3.5 40.2 - - + +
960A ALA* 3.8 15.0 - - + +
961A LEU* 3.8 33.9 - - + +
964A LEU* 3.9 9.6 - - + -
990A LEU* 4.8 0.4 - - + -
1027A LEU* 4.5 11.9 - - + -
1028A ALA* 5.6 0.7 - - - -
1031A ALA* 3.8 27.1 - - + -
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Residues in contact with VAL 932 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
928A VAL* 2.7 36.5 + - + +
929A THR 3.9 3.1 - - - +
931A LEU* 1.3 70.0 - - - +
933A LYS* 1.3 64.3 + - - +
934A ALA 3.0 1.6 - - - -
935A VAL* 3.6 6.2 + - - +
936A ILE* 3.2 25.6 + - + +
1028A ALA* 4.2 25.1 - - + +
1031A ALA* 4.7 4.0 - - + -
1032A LYS* 5.2 0.9 - - + +
5D LEU* 4.3 11.2 - - + -
8D LEU* 3.9 28.0 - - + -
9D LEU* 4.3 19.3 - - + +
12D LEU* 4.7 6.1 - - + -
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Residues in contact with LYS 933 (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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929A THR* 2.8 42.0 + - + +
930A GLY* 3.1 8.7 + - - +
932A VAL* 1.3 74.0 - - - +
934A ALA* 1.3 58.1 + - - +
936A ILE* 3.4 10.3 + - + +
937A GLU* 3.0 27.4 + - - +
8D LEU* 4.3 23.8 - - + -
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Residues in contact with ALA 934 (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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930A GLY 2.9 16.1 + - - +
931A LEU* 3.3 9.4 - - - +
932A VAL 3.0 0.2 - - - -
933A LYS* 1.3 79.3 - - - +
935A VAL* 1.3 63.3 + - - +
937A GLU* 3.6 5.9 + - - +
938A MET* 3.3 17.3 + - - +
953A MET* 5.0 1.7 - - - +
956A GLU* 4.6 7.9 - - + +
957A VAL* 3.7 32.7 - - + +
960A ALA* 4.5 6.1 - - + -
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Residues in contact with VAL 935 (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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931A LEU* 3.2 20.2 + - + +
932A VAL 3.8 5.2 - - - +
934A ALA* 1.3 80.5 - - - +
936A ILE* 1.3 58.6 + - - +
938A MET* 3.4 5.5 + - - +
939A SER* 2.8 32.6 + - - +
957A VAL* 4.2 25.1 - - + -
1024A ALA* 3.5 43.5 - - + +
1027A LEU* 4.6 3.1 - - + -
1028A ALA* 4.0 19.1 - - + +
12D LEU* 3.9 19.1 - - + -
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Residues in contact with ILE 936 (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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932A VAL* 3.2 21.8 + - + +
933A LYS* 3.6 7.6 - - + +
934A ALA 3.2 0.4 - - - -
935A VAL* 1.3 77.0 - - - +
937A GLU* 1.3 68.7 + - - +
939A SER* 3.8 5.7 - - - -
940A SER* 2.9 29.3 + - - +
8D LEU* 3.8 41.5 - - + +
11D GLU* 3.8 26.0 - - + +
12D LEU* 3.7 22.9 - - + -
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Residues in contact with GLU 937 (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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933A LYS 3.0 16.6 + - - +
934A ALA* 3.6 6.6 + - - +
935A VAL 3.4 0.2 - - - -
936A ILE* 1.3 77.8 - - - +
938A MET* 1.3 63.3 + - - +
940A SER* 2.9 18.9 + - - +
941A LYS* 2.7 55.4 + - + +
953A MET* 4.7 11.3 - - + +
956A GLU* 3.9 18.1 - - - +
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Residues in contact with MET 938 (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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934A ALA 3.3 10.5 + - - +
935A VAL* 3.6 6.3 - - - +
936A ILE 3.1 0.4 - - - -
937A GLU* 1.3 80.5 - - - +
939A SER* 1.3 64.3 + - - +
941A LYS* 3.1 9.7 + - - +
942A ILE* 3.2 23.5 + - + +
953A MET* 3.5 43.8 - - + +
954A VAL* 3.9 16.6 - - + -
957A VAL* 3.9 22.4 - - + -
997A LEU* 3.9 15.5 - - + -
1020A MET* 4.1 17.5 - - - -
1021A LEU* 5.4 4.3 - - - -
1024A ALA* 3.5 32.1 - - + -
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Residues in contact with SER 939 (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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935A VAL* 2.8 26.4 + - - +
936A ILE* 3.8 3.8 - - - -
937A GLU 3.2 0.2 - - - -
938A MET* 1.3 79.3 - - - +
940A SER* 1.3 63.0 + - - +
941A LYS 3.2 1.0 + - - -
942A ILE* 3.7 13.7 + - - +
1021A LEU* 3.6 31.3 + - - +
1024A ALA* 4.3 7.1 - - - +
1025A HIS* 5.4 0.3 + - - +
12D LEU* 3.7 23.4 - - - +
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Residues in contact with SER 940 (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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936A ILE* 2.9 24.2 + - - +
937A GLU* 2.9 12.6 + - - +
939A SER* 1.3 78.9 - - - +
941A LYS* 1.3 62.1 + - - +
942A ILE 3.6 0.2 - - - -
944A PRO* 5.4 2.9 - - - +
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Residues in contact with LYS 941 (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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937A GLU* 2.7 58.0 + - + +
938A MET 3.1 0.6 + - - +
939A SER 3.1 0.8 - - - -
940A SER* 1.3 85.3 - - - +
942A ILE* 1.3 64.3 + - - +
943A GLN 3.5 1.9 + - - -
944A PRO* 3.9 12.2 - - - +
945A ALA* 3.3 16.0 - - + +
949A GLU* 6.0 1.8 - - - +
953A MET* 3.7 21.8 - - - -
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Residues in contact with ILE 942 (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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938A MET* 3.2 17.0 + - - +
939A SER 3.7 6.5 + - - +
940A SER 3.6 1.2 - - - -
941A LYS* 1.3 78.2 - - - +
943A GLN* 1.3 75.4 + - + +
945A ALA* 2.8 16.8 + - - +
950A TYR* 3.7 22.2 - - + -
953A MET* 4.0 8.3 - - + -
1017A LYS* 3.0 36.2 + - + +
1020A MET* 3.2 40.6 - - + -
1021A LEU* 3.6 36.1 - - + -
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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
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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