Contacts of the helix formed by residues 944 - 969 (chain C) in PDB entry 1SO2
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 VAL 944 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
678C ASN* 2.7 36.3 + - + +
943C LYS* 1.3 71.5 - - - +
945C ARG* 1.3 58.2 + - + +
946C ASP* 3.9 19.5 - - + +
947C LEU* 2.8 46.0 + - + +
948C HIS 3.0 8.8 + - - -
1064C HIS* 3.6 19.8 - - + +
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Residues in contact with ARG 945 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
943C LYS 3.5 2.0 + - - -
944C VAL* 1.3 73.9 - - + +
946C ASP* 1.3 73.6 + - - +
947C LEU 3.1 0.2 + - - -
948C HIS* 3.2 3.0 + - - +
949C LEU* 2.8 62.5 + - + +
1064C HIS* 4.9 1.2 + - - -
1068C ASN* 3.5 19.6 + - - +
1071C ILE* 3.6 31.1 - - + +
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Residues in contact with ASP 946 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
682C PHE* 5.7 0.3 - - - -
944C VAL* 3.1 22.1 + - + +
945C ARG* 1.3 92.4 + - - +
947C LEU* 1.3 60.8 + - + +
949C LEU* 4.5 5.9 - - - +
950C LYS* 3.6 22.9 + - - +
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Residues in contact with LEU 947 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
678C ASN* 3.7 47.1 - - + +
679C PHE 4.2 13.9 - - - +
680C PRO* 4.8 4.9 - - + -
681C ILE* 4.5 6.5 - - + +
682C PHE* 4.0 28.5 - - + -
940C GLY 4.9 0.2 - - - -
943C LYS* 3.9 21.5 - - + +
944C VAL* 2.8 14.8 + - + +
946C ASP* 1.3 77.0 - - + +
948C HIS* 1.3 67.6 + - - +
950C LYS* 3.1 13.4 + - - +
951C TRP* 3.2 28.2 + - + +
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Residues in contact with HIS 948 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
463C 666 3.1 13.7 + - - +
940C GLY* 3.2 23.7 + - - +
941C PRO* 3.6 16.4 - - + +
944C VAL 3.0 8.2 + - - +
945C ARG 3.6 6.3 - - - +
947C LEU* 1.3 78.6 - - - +
949C LEU* 1.3 68.1 + - + +
951C TRP 3.4 1.0 + - - -
952C THR* 2.9 44.9 + - - -
988C GLN* 3.5 13.0 - - - -
992C ILE* 5.1 2.0 - - + -
1068C ASN* 3.5 40.1 - - + +
1071C ILE* 4.4 4.7 - - + -
1072C TRP* 3.1 31.0 + + - -
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Residues in contact with LEU 949 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
945C ARG* 2.8 60.0 + - + +
946C ASP* 4.5 6.3 - - - +
948C HIS* 1.3 78.1 - - + +
950C LYS* 1.3 65.8 + - - +
952C THR* 3.8 4.8 - - + +
953C GLU* 3.1 23.9 + - - +
1071C ILE* 4.8 7.0 - - + -
1072C TRP* 3.6 35.7 - - + -
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Residues in contact with LYS 950 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
682C PHE* 3.5 48.8 - - + -
946C ASP 3.6 14.2 + - - +
947C LEU 3.1 10.2 + - - +
949C LEU* 1.3 79.5 - - - +
951C TRP* 1.3 62.4 + - - +
953C GLU* 3.4 27.2 + - - +
954C GLY* 3.2 16.3 + - - -
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Residues in contact with TRP 951 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
463C 666 3.8 23.3 - - + +
681C ILE* 4.3 4.2 - - + +
682C PHE* 3.5 31.1 - + - -
735C PRO 5.5 4.0 - - - -
736C TYR* 3.7 30.7 - + + -
738C ASN* 4.9 1.8 - - - -
740C ILE* 3.5 29.4 - - + -
741C HIS* 3.7 34.3 - - + -
744C ASP* 3.9 35.6 + - + -
939C ASN* 5.1 2.8 - - - +
940C GLY* 4.4 14.1 - - - -
943C LYS* 5.3 1.7 - - + +
947C LEU* 3.2 33.5 + - + +
948C HIS 4.0 1.3 - - - +
950C LYS* 1.3 73.4 - - - +
952C THR* 1.3 66.1 + - - +
953C GLU 3.1 1.8 - - - -
954C GLY* 3.1 10.4 + - - +
955C ILE* 3.1 15.9 + - - +
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Residues in contact with THR 952 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
463C 666 3.3 3.9 + - - -
948C HIS* 2.9 32.1 + - - -
949C LEU* 3.8 9.2 - - + -
950C LYS 3.4 0.2 - - - -
951C TRP* 1.3 75.7 - - - +
953C GLU* 1.3 65.0 + - - +
955C ILE* 3.1 22.2 - - - +
956C VAL* 3.1 11.7 + - + +
984C LEU* 3.6 31.9 - - + -
988C GLN* 2.7 30.1 + - + +
1072C TRP* 4.4 9.2 - - + -
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Residues in contact with GLU 953 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
949C LEU 3.1 12.1 + - - +
950C LYS* 3.4 30.4 + - - +
951C TRP 3.1 0.2 - - - -
952C THR* 1.3 82.9 - - - +
954C GLY* 1.3 61.6 + - - +
956C VAL* 3.2 8.8 - - + +
957C ASN* 3.1 47.9 + - - +
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Residues in contact with GLY 954 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
735C PRO* 3.6 31.7 - - - +
736C TYR* 3.6 10.7 - - - +
950C LYS 3.2 8.3 + - - -
951C TRP* 3.1 8.9 + - - -
953C GLU* 1.3 81.1 - - - +
955C ILE* 1.3 56.2 + - - +
957C ASN* 4.8 1.1 - - - -
958C GLU* 3.1 25.5 + - - +
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Residues in contact with ILE 955 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
463C 666 3.9 43.1 - - + +
736C TYR* 3.4 34.8 - - + -
737C HIS* 4.3 11.2 - - + -
951C TRP 3.1 10.9 + - - +
952C THR* 3.1 21.3 - - - +
954C GLY* 1.3 74.2 - - - +
956C VAL* 1.3 64.2 + - + +
958C GLU* 4.6 3.8 - - + +
959C PHE* 2.9 59.4 + - + -
987C LEU* 5.0 2.0 - - + -
988C GLN* 4.9 2.9 - - - +
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Residues in contact with VAL 956 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
952C THR* 3.1 16.3 + - + +
953C GLU* 3.2 18.8 - - + +
955C ILE* 1.3 74.1 - - + +
957C ASN* 1.3 78.7 + - - +
959C PHE* 3.3 9.3 + - - +
960C TYR* 3.0 44.9 + - + +
976C PHE 5.8 0.4 - - - +
984C LEU* 3.7 36.1 - - + -
987C LEU* 4.0 17.5 - - + -
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Residues in contact with ASN 957 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
735C PRO* 3.9 16.2 - - + +
953C GLU* 3.1 41.9 + - - +
954C GLY* 3.7 5.2 - - - +
956C VAL* 1.3 89.4 - - - +
958C GLU* 1.3 63.1 + - - +
960C TYR* 3.0 25.4 + - - +
961C GLU* 3.2 14.6 + - - +
979C ARG* 4.8 1.6 + - - -
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Residues in contact with GLU 958 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
734C ILE* 3.2 10.3 - - + +
735C PRO* 3.4 20.1 - - + +
736C TYR* 3.0 29.5 + - + -
737C HIS* 2.5 43.1 + - - -
825C HIS* 3.9 0.3 - - - -
827C GLY* 3.4 39.5 - - - +
828C ARG* 5.6 0.7 - - - +
954C GLY 3.1 11.5 + - - +
955C ILE* 4.0 7.5 - - + +
957C ASN* 1.3 78.5 - - - +
959C PHE* 1.3 64.7 + - + +
961C GLU* 3.2 18.5 + - - +
962C GLN* 3.3 10.7 + - - +
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Residues in contact with PHE 959 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
463C 666 3.8 63.5 - + + -
737C HIS* 6.0 0.2 - + - -
829C THR* 4.9 6.1 - - + -
955C ILE* 2.9 43.9 + - + +
956C VAL* 3.5 7.0 - - - +
957C ASN 3.2 0.2 - - - -
958C GLU* 1.3 80.3 - - + +
960C TYR* 1.3 57.8 + - - +
962C GLN* 3.2 7.3 + - - +
963C GLY 3.0 20.8 + - - -
976C PHE* 4.1 24.0 - - + +
977C MET* 3.3 36.5 - - + +
987C LEU* 3.9 24.7 - - + -
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Residues in contact with TYR 960 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
956C VAL* 3.0 34.7 + - + +
957C ASN* 3.0 15.9 + - - +
959C PHE* 1.3 71.4 - - - +
961C GLU* 1.3 59.6 + - - +
962C GLN 3.1 1.8 - - - -
963C GLY* 3.1 0.9 + - - -
964C ASP* 2.9 33.6 + - - +
976C PHE 3.6 19.7 - - - -
977C MET 3.7 17.4 - - - +
978C ASP 3.7 13.5 - - - -
979C ARG* 2.9 56.9 + - + +
982C PRO* 3.3 25.9 - - + +
983C GLN 4.8 1.4 + - - -
984C LEU* 5.3 6.8 + - - +
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Residues in contact with GLU 961 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
734C ILE* 5.3 3.2 - - - +
735C PRO* 3.3 37.9 - - - +
828C ARG* 3.8 18.7 + - - +
957C ASN* 3.2 9.4 + - - +
958C GLU* 3.2 13.1 + - - +
960C TYR* 1.3 76.8 - - - +
962C GLN* 1.3 60.9 + - - +
964C ASP* 3.5 10.3 + - - +
965C GLU* 3.3 21.3 + - - +
979C ARG* 3.8 5.1 - - - +
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Residues in contact with GLN 962 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
827C GLY 4.1 2.0 - - - +
828C ARG* 3.2 32.4 - - + +
829C THR* 3.0 44.3 + - - +
832C PHE* 3.9 13.3 - - + +
958C GLU 3.3 6.7 + - - +
959C PHE* 3.2 12.1 + - + +
960C TYR 3.1 0.6 - - - -
961C GLU* 1.3 78.4 - - - +
963C GLY* 1.3 55.3 + - - +
965C GLU* 3.4 2.4 + - - +
966C GLU* 2.7 63.9 + - + +
974C SER* 4.0 2.4 + - - -
977C MET* 3.5 26.1 - - - +
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Residues in contact with GLY 963 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
959C PHE 3.0 10.7 + - - -
960C TYR 3.1 0.8 + - - -
962C GLN* 1.3 72.6 - - - +
964C ASP* 1.3 70.2 + - - +
966C GLU* 3.3 17.2 + - - +
967C ALA* 3.0 15.8 + - - +
973C ILE* 3.5 14.9 - - - +
977C MET* 3.2 25.8 - - - -
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Residues in contact with ASP 964 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
960C TYR 2.9 15.3 + - - +
961C GLU* 3.6 11.8 - - - +
963C GLY* 1.3 74.9 - - - +
965C GLU* 1.3 55.2 + - - +
967C ALA* 2.7 28.9 + - - +
968C ASN* 2.9 24.6 + - - +
977C MET 5.4 0.2 - - - +
979C ARG* 3.0 43.8 + - - +
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Residues in contact with GLU 965 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
828C ARG* 2.7 27.3 + - - +
832C PHE* 3.4 33.3 - - + -
961C GLU 3.3 10.9 + - - +
962C GLN 3.8 4.9 - - - +
964C ASP* 1.3 77.5 - - - +
966C GLU* 1.3 62.7 + - - +
968C ASN* 3.2 12.0 + - + +
969C LEU* 3.1 42.1 + - + +
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Residues in contact with GLU 966 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
832C PHE* 3.7 22.0 - - + +
962C GLN* 2.7 49.0 + - + +
963C GLY* 3.5 14.1 - - - +
965C GLU* 1.3 73.5 - - - +
967C ALA* 1.3 59.0 + - - +
969C LEU* 3.5 2.3 + - - +
971C LEU* 2.8 44.2 + - + +
972C PRO 4.0 13.1 - - - +
973C ILE* 3.6 4.6 - - - -
974C SER* 2.5 50.0 + - - -
977C MET* 4.2 1.4 - - - +
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Residues in contact with ALA 967 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
963C GLY 3.0 5.9 + - - +
964C ASP* 2.7 17.3 + - - +
966C GLU* 1.3 68.5 - - - +
968C ASN* 1.3 57.5 + - - +
969C LEU 2.9 5.2 - - - -
970C GLY* 2.9 19.4 + - - -
971C LEU 3.9 3.4 - - - -
973C ILE* 3.3 28.7 - - + +
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Residues in contact with ASN 968 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
964C ASP* 2.9 36.5 + - - +
965C GLU* 3.2 10.8 + - - +
967C ALA* 1.3 76.1 - - - +
969C LEU* 1.3 65.7 + - + +
970C GLY 3.4 0.4 - - - -
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Residues in contact with LEU 969 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
832C PHE* 4.2 1.1 - - + -
836C THR* 4.2 15.3 - - + -
965C GLU* 3.1 43.0 + - + +
966C GLU 3.8 0.9 - - - +
967C ALA 2.9 1.6 - - - -
968C ASN* 1.3 85.8 - - + +
970C GLY* 1.3 62.1 + - - +
971C LEU* 3.0 34.6 + - + +
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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) + - + + + + + -
------------------------------------------------------------
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