Contacts of the helix formed by residues 946 - 970 (chain C) 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 PRO 946 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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944C PRO 4.5 1.1 - - - +
945C ALA* 1.3 92.4 - - + +
947C PRO* 1.3 65.3 - - + +
948C GLU* 3.1 24.2 - - - +
949C GLU* 2.8 45.0 + - - +
950C TYR* 3.4 11.8 + - + -
1008C VAL* 5.7 1.1 - - + -
1013C GLN* 5.7 3.4 - - - +
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Residues in contact with PRO 947 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
946C PRO* 1.3 90.0 - - + +
948C GLU* 1.3 60.1 + - + +
949C GLU 3.0 4.3 + - - -
950C TYR* 2.9 39.9 - - + +
951C VAL* 3.0 27.8 - - - +
1005C GLN* 4.3 19.1 - - + +
1008C VAL* 4.0 31.0 - - + -
1013C GLN* 5.3 0.2 - - - +
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Residues in contact with GLU 948 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
946C PRO* 2.9 21.9 + - + +
947C PRO* 1.3 79.9 - - + +
949C GLU* 1.3 74.4 + - + +
952C PRO* 4.2 11.5 - - - +
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Residues in contact with GLU 949 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
941C LYS* 5.2 6.2 + - - +
945C ALA* 3.1 34.7 - - + +
946C PRO* 2.8 20.4 + - - +
948C GLU* 1.3 93.5 - - + +
950C TYR* 1.3 58.8 + - - +
952C PRO* 3.4 12.1 - - - +
953C MET* 3.0 30.7 + - + +
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Residues in contact with TYR 950 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
942C ILE* 3.4 37.9 - - + -
945C ALA* 3.6 26.0 - - + -
946C PRO* 3.4 10.2 + - + -
947C PRO* 2.9 39.2 - - + +
949C GLU* 1.3 75.3 - - - +
951C VAL* 1.3 81.3 + - + +
952C PRO* 3.0 2.7 - - - -
953C MET* 2.9 11.7 + - + +
954C VAL* 2.8 27.2 + - - +
1001C MET* 4.4 5.6 - - + -
1004C ALA* 3.4 32.5 + - + +
1005C GLN* 4.2 15.0 - - + -
1008C VAL* 4.5 2.9 - - - +
1013C GLN* 4.6 4.3 + - - +
1017C LYS* 3.9 16.8 - - + -
1020C MET* 4.1 12.1 - - + -
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Residues in contact with VAL 951 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
947C PRO 3.0 24.7 + - - +
950C TYR* 1.3 86.2 - - + +
952C PRO* 1.4 63.3 - - + +
954C VAL* 3.6 0.3 - - - +
955C LYS* 3.2 15.6 + - - +
1001C MET* 3.9 13.7 - - + -
1005C GLN* 3.8 32.1 - - - +
12F LEU* 3.6 37.2 - - + +
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Residues in contact with PRO 952 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
948C GLU 4.2 11.7 - - - +
949C GLU* 3.4 18.2 - - - +
950C TYR 3.2 2.7 - - - -
951C VAL* 1.4 91.0 - - + +
953C MET* 1.3 56.4 + - - +
954C VAL 2.5 17.5 + - - -
955C LYS* 2.5 21.3 + - + -
956C GLU* 2.6 21.9 + - + +
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Residues in contact with MET 953 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
934C ALA 4.6 1.6 - - - +
937C GLU* 4.5 8.5 - - + +
938C MET* 3.2 46.2 - - + +
941C LYS* 3.6 41.3 - - + -
942C ILE* 3.8 16.8 - - - +
945C ALA* 4.3 2.2 - - + -
949C GLU* 3.0 38.3 + - + +
950C TYR* 2.9 17.2 + - + +
952C PRO* 1.3 79.6 - - - +
954C VAL* 1.3 56.5 + - - +
956C GLU* 3.6 11.5 - - - +
957C VAL* 3.5 16.1 + - - +
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Residues in contact with VAL 954 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
938C MET* 3.3 24.2 - - + -
950C TYR 2.8 16.1 + - - +
951C VAL 3.6 4.9 - - - +
952C PRO 2.5 4.2 + - - -
953C MET* 1.3 72.2 - - - +
955C LYS* 1.3 67.2 + - - +
956C GLU 2.9 1.3 - - - -
957C VAL* 2.9 6.9 + - - +
958C GLY* 2.8 19.9 + - - -
994C LEU* 5.5 2.5 - - + -
997C LEU* 4.2 20.9 - - + -
998C ILE* 4.7 9.9 - - + -
1001C MET* 3.9 18.8 - - + -
1020C MET* 4.1 16.2 - - + -
12F LEU* 3.7 23.6 - - + -
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Residues in contact with LYS 955 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
951C VAL 3.2 10.9 + - - +
952C PRO* 2.5 16.1 + - + +
954C VAL* 1.3 75.0 - - - +
956C GLU* 1.3 55.2 + - - +
958C GLY* 3.3 1.6 + - - -
959C LEU* 2.9 67.6 + - + +
962C ARG* 6.1 0.6 - - - +
9F LEU* 3.2 33.8 + - + +
12F LEU* 3.2 43.1 - - + +
13F ASN* 3.2 29.7 + - - +
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Residues in contact with GLU 956 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
934C ALA* 4.4 16.2 - - + +
937C GLU* 5.4 7.3 - - - +
952C PRO* 2.6 22.6 + - + +
953C MET* 3.6 11.2 - - - +
955C LYS* 1.3 69.2 - - - +
957C VAL* 1.3 58.7 + - - +
959C LEU* 2.7 37.5 + - + +
960C ALA* 2.9 13.8 + - - +
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Residues in contact with VAL 957 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
931C LEU* 3.4 11.5 - - + +
934C ALA* 3.3 42.3 - - + +
935C VAL* 3.8 13.2 - - + +
938C MET* 4.2 9.4 - - + -
953C MET 3.5 9.8 + - - +
954C VAL* 2.9 12.9 + - - +
956C GLU* 1.3 75.6 - - - +
958C GLY* 1.3 61.6 + - - +
960C ALA* 3.5 0.8 + - - -
961C LEU* 3.2 18.2 + - - +
994C LEU* 4.2 3.8 - - + -
997C LEU* 4.1 13.7 - - + -
1027C LEU* 3.3 32.3 - - + -
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Residues in contact with GLY 958 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
954C VAL 2.8 12.9 + - - -
955C LYS* 3.6 5.6 - - - -
956C GLU 3.0 0.2 - - - -
957C VAL* 1.3 77.0 - - - +
959C LEU* 1.3 62.1 + - - +
961C LEU* 3.8 5.1 - - - +
962C ARG* 3.3 16.1 + - - +
994C LEU* 4.0 23.5 - - - +
5F LEU* 5.2 1.2 - - - +
9F LEU* 3.4 23.5 - - - +
12F LEU* 5.4 2.0 - - - -
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Residues in contact with LEU 959 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
955C LYS* 2.9 51.7 + - + +
956C GLU* 2.7 28.8 + - + +
958C GLY* 1.3 69.6 - - - +
960C ALA* 1.3 63.0 + - - +
961C LEU 2.9 5.6 + - - -
962C ARG* 2.9 32.7 + - - +
963C THR* 3.1 15.4 + - - -
9F LEU* 4.7 3.1 - - + -
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Residues in contact with ALA 960 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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927C ASN* 4.6 3.6 - - - +
930C GLY 4.6 2.5 - - - +
931C LEU* 4.0 30.4 - - + +
934C ALA* 4.4 11.0 - - + -
956C GLU 2.9 9.5 + - - +
957C VAL 3.7 9.6 - - - +
959C LEU* 1.3 76.9 - - - +
961C LEU* 1.3 57.8 + - - +
963C THR* 3.8 8.4 - - - -
964C LEU* 3.4 20.1 + - - +
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Residues in contact with LEU 961 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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931C LEU* 3.8 26.7 - - + -
957C VAL 3.2 15.8 + - - +
958C GLY* 3.8 5.2 - - - +
959C LEU 2.9 0.8 - - - -
960C ALA* 1.3 76.0 - - - +
962C ARG* 1.3 66.6 + - - +
963C THR 3.1 1.8 - - - -
964C LEU* 3.3 4.9 + - + +
965C LEU* 2.8 37.6 + - + +
990C LEU* 3.9 39.7 - - + +
994C LEU* 3.9 38.6 - - + -
1027C LEU* 4.3 6.3 - - + -
5F LEU* 4.2 10.1 - - + -
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Residues in contact with ARG 962 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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955C LYS* 6.1 0.6 - - - +
958C GLY 3.3 11.8 + - - +
959C LEU* 2.9 23.3 + - - +
961C LEU* 1.3 78.2 - - - +
963C THR* 1.3 64.5 + - - +
965C LEU* 3.3 2.9 + - - +
966C ALA* 3.0 22.7 + - + +
2F LEU* 5.2 14.6 - - + +
5F LEU* 3.9 20.8 - - + +
6F ASP* 3.1 28.7 + - - +
9F LEU* 3.9 18.5 - - + +
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Residues in contact with THR 963 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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923C LYS* 5.0 6.3 - - - +
927C ASN* 3.2 31.6 - - - +
959C LEU 3.1 9.7 + - - -
960C ALA* 3.8 12.1 - - - -
962C ARG* 1.3 76.1 - - - +
964C LEU* 1.3 58.1 + - - +
966C ALA* 2.7 29.0 + - + +
967C THR* 2.9 13.9 + - - +
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Residues in contact with LEU 964 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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924C VAL* 4.0 10.3 - - + +
927C ASN* 3.6 34.3 - - + +
928C VAL* 3.9 32.8 - - + -
931C LEU* 4.3 16.4 - - + -
960C ALA 3.4 11.4 + - - +
961C LEU* 3.3 8.8 + - + +
963C THR* 1.3 78.7 - - - +
965C LEU* 1.3 58.9 + - - +
967C THR* 3.5 0.9 + - - -
968C VAL* 2.9 44.6 + - + +
990C LEU* 4.1 16.2 - - + -
1031C ALA* 4.5 2.7 - - + -
1034C LEU* 4.0 17.3 - - + -
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Residues in contact with LEU 965 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
961C LEU* 2.8 34.0 + - + +
962C ARG* 3.6 5.4 - - - +
964C LEU* 1.3 77.7 - - - +
966C ALA* 1.3 58.6 + - - +
968C VAL* 3.3 1.1 + - + -
969C ASP* 2.9 34.3 + - - +
987C GLN* 3.3 54.9 + - + +
990C LEU* 4.6 9.4 - - + -
991C ASN* 3.5 32.3 - - - +
1034C LEU* 5.2 2.5 - - + -
2F LEU* 5.0 7.9 - - + -
5F LEU* 3.8 18.4 - - + -
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Residues in contact with ALA 966 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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962C ARG* 3.0 13.7 + - + +
963C THR* 2.7 18.1 + - + +
965C LEU* 1.3 68.4 - - - +
967C THR* 1.3 59.0 + - - +
969C ASP* 2.5 34.6 + - - +
970C GLU* 2.9 18.8 + - + +
2F LEU* 5.8 7.3 - - + +
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Residues in contact with THR 967 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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923C LYS* 3.8 41.9 + - + +
924C VAL* 3.9 15.3 - - + -
927C ASN* 2.7 32.1 + - - +
963C THR* 2.9 7.7 + - - +
964C LEU 3.8 4.3 - - - +
966C ALA* 1.3 76.0 - - - +
968C VAL* 1.3 61.4 + - - +
970C GLU* 3.4 17.0 + - - +
971C THR* 2.7 32.2 + - - +
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Residues in contact with VAL 968 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
924C VAL* 4.3 6.1 - - + -
964C LEU* 2.9 31.9 + - + +
965C LEU* 3.6 5.2 - - - +
966C ALA 3.0 0.2 - - - -
967C THR* 1.3 74.6 - - - +
969C ASP* 1.3 59.4 + - - +
971C THR* 3.1 5.7 + - - -
972C ILE* 2.6 43.9 + - + +
983C ILE* 3.8 17.7 - - + -
987C GLN* 3.6 24.2 - - + +
1034C LEU* 3.7 25.6 - - + -
1038C ILE* 4.0 17.0 - - + -
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Residues in contact with ASP 969 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
965C LEU* 2.9 18.6 + - - +
966C ALA* 2.5 21.3 + - - +
968C VAL* 1.3 73.1 - - - +
970C GLU* 1.3 59.4 - - + +
971C THR 2.8 6.1 + - - -
972C ILE* 3.3 13.5 + - - +
973C PRO* 3.1 20.1 - - - +
987C GLN* 3.3 18.9 + - - +
2F LEU* 4.8 11.3 - - - +
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Residues in contact with GLU 970 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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923C LYS* 6.2 0.2 - - - -
966C ALA* 2.9 13.4 + - - +
967C THR* 3.9 23.6 + - - +
969C ASP* 1.3 75.9 - - + +
971C THR* 1.3 58.8 + - - +
973C PRO* 3.8 12.1 - - - +
974C LEU* 5.5 2.9 - - - +
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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