Contacts of the helix formed by residues 1216 - 1229 (chain C) in PDB entry 3O2X
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 LEU1216 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1126C THR* 5.1 0.2 - - + -
1129C MET* 3.9 26.9 - - + -
1134C VAL* 4.3 15.7 - - + -
1137C ALA* 4.0 16.2 - - + -
1138C PHE* 4.1 27.6 - - + -
1167C PHE* 4.2 12.6 - - + -
1201C PHE* 3.9 23.6 - - + -
1207C TRP* 3.7 29.8 - - + -
1208C THR 3.1 14.9 + - - +
1214C TYR 3.3 3.2 + - - -
1215C ASN* 1.3 68.0 - - - +
1217C PHE* 1.3 70.1 + - - +
1220C ALA* 2.8 27.6 + - - +
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Residues in contact with PHE1217 (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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1137C ALA* 3.7 25.2 - - + +
1140C LYS* 3.5 51.8 - - + -
1141C ALA* 3.6 27.3 - - - +
1144C VAL* 3.8 17.9 - - + -
1208C THR 4.8 0.4 + - - -
1215C ASN* 3.3 14.4 + - - +
1216C LEU* 1.3 79.3 - - - +
1218C LEU* 1.3 74.8 + - + +
1220C ALA* 3.5 2.6 - - - +
1221C ALA* 2.8 29.4 + - + +
1246C TYR* 5.8 4.0 - + - -
1252C PHE* 3.9 35.9 - + + -
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Residues in contact with LEU1218 (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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1215C ASN* 3.1 17.5 + - + +
1217C PHE* 1.3 84.0 - - + +
1219C VAL* 1.3 67.3 + - - +
1221C ALA* 3.3 4.0 + - - +
1222C HIS* 3.1 20.3 + - - +
1239C LEU* 3.9 5.0 - - + +
1244C TYR* 4.0 18.2 - - + -
1246C TYR* 3.5 30.3 - - + -
1252C PHE* 3.8 20.2 - - + -
1801C 3O2 3.5 64.2 - - + +
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Residues in contact with VAL1219 (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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1185C LEU* 4.1 11.9 - - + -
1186C ALA* 3.7 29.8 - - + -
1201C PHE* 3.9 6.5 - - + -
1207C TRP* 3.7 24.5 - - + -
1214C TYR* 4.7 0.9 - - + -
1215C ASN 3.2 15.9 + - - +
1216C LEU 4.1 0.9 - - - +
1218C LEU* 1.3 75.5 - - - +
1220C ALA* 1.3 57.5 + - - +
1222C HIS* 3.2 4.9 + - - +
1223C GLU* 2.8 32.0 + - + +
1244C TYR* 3.7 27.1 - - + -
1801C 3O2 4.0 21.1 - - + -
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Residues in contact with ALA1220 (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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1138C PHE* 3.7 34.3 - - + -
1141C ALA* 3.7 11.4 - - + -
1201C PHE* 3.8 14.3 - - + -
1216C LEU 2.8 20.6 + - - +
1217C PHE* 3.5 4.9 - - - +
1219C VAL* 1.3 77.9 - - - +
1221C ALA* 1.3 52.7 + - - +
1223C GLU* 3.1 0.7 + - - -
1224C PHE* 2.7 42.1 + - + -
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Residues in contact with ALA1221 (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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1141C ALA* 3.5 22.2 - - + +
1144C VAL* 4.4 11.9 - - + -
1145C TRP* 2.8 31.7 + - - +
1217C PHE* 2.8 24.8 + - + +
1218C LEU* 3.3 8.5 + - - +
1220C ALA* 1.3 72.1 - - - +
1222C HIS* 1.3 61.9 + - - +
1224C PHE* 4.7 0.2 - - - -
1225C GLY 3.2 5.5 + - - -
1239C LEU* 3.7 19.7 - - + -
1252C PHE* 5.1 1.1 - - + -
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Residues in contact with HIS1222 (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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1218C LEU 3.1 12.4 + - - +
1219C VAL 3.3 7.4 - - - +
1221C ALA* 1.3 74.1 - - - +
1223C GLU* 1.3 82.1 + - - +
1225C GLY 3.1 10.0 + - - -
1226C HIS* 3.1 3.5 + - - -
1232C HIS* 3.6 13.0 - + - -
1239C LEU* 2.8 30.8 + - + +
1240C MET* 3.3 36.1 - - + +
1241C PHE 3.6 18.8 - - - -
1801C 3O2 3.2 28.0 + + - +
1999C ZN 2.0 37.9 - - - -
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Residues in contact with GLU1223 (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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1186C ALA* 3.5 29.1 - - + +
1187C HIS* 3.0 27.1 - - - +
1188C ALA* 3.1 12.0 + - + +
1199C ALA* 4.5 5.4 - - + -
1201C PHE* 4.1 16.6 - - + -
1219C VAL* 2.8 22.3 + - + +
1220C ALA 3.6 3.8 - - - +
1222C HIS* 1.3 83.3 - - - +
1224C PHE* 1.3 56.9 + - + +
1226C HIS* 2.9 11.9 + - - +
1227C SER* 2.9 27.5 + - - -
1801C 3O2 2.6 37.3 + - - -
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Residues in contact with PHE1224 (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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1138C PHE* 3.6 26.2 - + - -
1141C ALA* 3.6 27.6 - - + -
1142C PHE* 3.3 60.3 - + + -
1145C TRP* 3.9 17.5 - - + +
1163C ILE* 4.7 1.3 - - + -
1165C ILE* 3.6 15.0 - - + -
1199C ALA* 4.0 17.0 - - + -
1201C PHE* 4.6 5.2 - + - -
1220C ALA* 2.7 26.1 + - + +
1223C GLU* 1.3 70.8 - - - +
1225C GLY* 1.3 64.7 + - - +
1226C HIS 3.3 0.2 - - - -
1227C SER* 3.3 16.0 + - - -
1228C LEU* 3.0 31.6 + - + +
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Residues in contact with GLY1225 (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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1145C TRP* 3.6 23.7 - - - +
1221C ALA 3.2 7.3 + - - -
1222C HIS 3.1 10.6 + - - -
1224C PHE* 1.3 76.7 - - - +
1226C HIS* 1.3 54.8 + - - +
1228C LEU* 3.3 5.0 + - - +
1229C GLY 3.1 6.1 + - - -
1230C LEU* 2.8 40.7 + - - +
1240C MET* 3.9 6.1 - - - -
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Residues in contact with HIS1226 (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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1188C ALA* 3.9 22.7 - - + +
1189C PHE 4.2 2.5 - - - -
1190C PRO* 3.6 16.2 - - - +
1222C HIS* 3.1 12.4 + + - -
1223C GLU* 2.9 20.4 + - - +
1225C GLY* 1.3 76.7 - - - +
1227C SER* 1.3 61.8 + - - +
1229C GLY* 3.0 13.5 + - - -
1230C LEU 2.8 25.3 + - - +
1231C ASP* 4.2 8.6 - - - -
1232C HIS* 3.1 19.6 + + - -
1240C MET* 3.3 16.7 - - + +
1801C 3O2 3.4 8.7 - - - -
1999C ZN 2.1 36.4 - - - -
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Residues in contact with SER1227 (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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1113C TRP* 2.8 31.8 + - - -
1163C ILE* 4.2 15.3 - - - -
1188C ALA* 3.7 7.6 - - - +
1189C PHE 3.6 11.6 + - - -
1191C PRO* 3.3 9.6 - - - +
1197C GLY* 2.8 26.0 + - - -
1199C ALA* 4.2 1.2 - - - +
1223C GLU 2.9 13.8 + - - -
1224C PHE* 3.3 23.9 + - - -
1226C HIS* 1.3 74.7 - - - +
1228C LEU* 1.3 51.6 + - - +
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Residues in contact with LEU1228 (chain C).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1111C LEU 4.3 0.9 - - - +
1113C TRP* 3.9 17.5 - - + +
1118C LEU* 4.0 1.8 - - + -
1142C PHE* 5.8 0.2 - - + -
1145C TRP* 3.6 42.6 - - + -
1151C LEU* 3.7 28.7 - - + -
1153C PHE* 3.8 24.0 - - + -
1163C ILE* 4.7 4.0 - - + -
1191C PRO* 3.3 9.3 - - - +
1224C PHE* 3.0 19.6 + - + +
1225C GLY 3.7 4.7 - - - +
1227C SER* 1.3 75.5 - - - +
1229C GLY* 1.3 57.4 + - - +
1230C LEU 3.8 0.2 - - - -
1262C ILE* 4.0 15.7 - - + -
1265C LEU* 3.7 3.7 - - - +
1266C TYR* 2.6 32.3 + - + -
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Residues in contact with GLY1229 (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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1111C LEU* 3.7 12.8 - - - +
1190C PRO* 5.3 2.5 - - - -
1191C PRO* 3.4 17.4 - - - +
1226C HIS 3.0 8.4 + - - -
1228C LEU* 1.3 79.0 - - - +
1230C LEU* 1.3 64.1 + - - +
1231C ASP* 3.7 1.4 + - - +
1265C LEU* 3.6 16.2 - - - +
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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