Contacts of the helix formed by residues 1190 - 1207 (chain C) in PDB entry 2ZM3
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 THR1190 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1132C VAL* 3.5 17.0 - - - +
1160C ILE* 6.2 0.9 - - - -
1164C ASP 3.9 12.3 - - - +
1165C PTR 3.7 20.0 - - + -
1182C GLU* 4.6 3.4 + - + +
1188C VAL* 4.5 11.4 - - + -
1189C PHE* 1.3 81.4 - - - +
1191C THR* 1.3 64.6 + - - +
1192C TYR* 3.0 41.9 + - + +
1193C SER* 2.9 20.9 + - - -
1194C ASP 3.2 5.5 + - - -
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Residues in contact with THR1191 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1127C ASN* 2.9 48.8 - - + +
1131C PHE 5.0 2.9 - - - +
1132C VAL* 5.1 1.8 - - + +
1160C ILE* 6.0 5.6 - - + -
1164C ASP 5.2 2.6 + - - +
1190C THR* 1.3 74.5 - - - +
1192C TYR* 1.3 79.0 + - - +
1194C ASP* 3.1 7.0 + - - +
1195C VAL* 3.0 27.8 + - - +
1258C SER* 6.1 1.7 - - - -
1259C PHE* 5.2 1.1 - - - -
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Residues in contact with TYR1192 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1182C GLU* 4.5 0.4 - - - +
1190C THR* 3.0 26.2 + - + +
1191C THR* 1.3 91.1 + - - +
1193C SER* 1.3 56.0 + - - +
1195C VAL* 3.3 10.6 + - + +
1196C TRP 3.2 15.6 + - - -
1253C PRO* 3.7 45.3 - - + +
1254C LYS* 4.2 27.9 - - + +
1256C ARG* 3.0 23.0 + - + +
1257C PRO 5.9 2.7 - - - -
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Residues in contact with SER1193 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1180C SER* 3.4 28.8 + - - -
1182C GLU* 3.6 6.9 + - - -
1183C SER* 3.8 8.2 + - - -
1188C VAL 4.7 0.2 - - - -
1189C PHE* 3.5 14.1 - - - +
1190C THR* 2.9 33.0 + - - -
1192C TYR* 1.3 75.6 - - - +
1194C ASP* 1.3 66.4 + - - +
1195C VAL 3.1 1.8 - - - -
1196C TRP* 3.4 3.3 + - - +
1197C SER* 3.2 24.6 + - - -
1256C ARG* 3.8 6.7 - - - +
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Residues in contact with ASP1194 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1123C MET* 3.3 26.6 - - + +
1127C ASN* 3.4 12.9 + - - -
1132C VAL* 3.5 12.6 - - - +
1133C HIS* 2.9 23.1 + - - +
1134C ARG* 3.0 27.1 + - - -
1135C ASP 4.8 0.2 + - - -
1136C LEU* 3.6 9.3 - - - +
1190C THR 3.2 5.5 + - - +
1191C THR* 3.1 12.4 + - - +
1193C SER* 1.3 77.7 + - - +
1195C VAL* 1.3 57.0 + - - +
1197C SER* 3.5 5.3 + - - -
1198C PHE* 3.0 24.8 + - - +
1259C PHE* 3.6 10.7 - - + -
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Residues in contact with VAL1195 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1191C THR* 3.0 20.9 + - - +
1192C TYR* 3.4 11.4 - - + +
1193C SER 3.1 0.4 - - - -
1194C ASP* 1.3 76.2 - - - +
1196C TRP* 1.3 65.8 + - - +
1198C PHE* 3.0 4.6 + - + +
1199C GLY 2.9 18.0 + - - -
1248C CYS* 3.6 32.7 - - + +
1256C ARG* 4.3 6.7 - - + -
1257C PRO* 3.5 28.7 - - + +
1258C SER* 4.6 2.2 - - - -
1259C PHE* 3.7 32.8 - - + +
1262C ILE* 4.4 5.4 - - + -
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Residues in contact with TRP1196 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1177C ARG 5.4 0.6 + - - -
1178C TRP 3.7 11.0 + - - -
1179C MET 3.3 14.1 + - - -
1180C SER* 3.7 20.2 - - - -
1181C PRO* 3.5 31.6 - - + -
1192C TYR 3.2 6.7 + - - -
1193C SER 3.4 8.0 + - - +
1195C VAL* 1.3 76.8 - - - +
1197C SER* 1.3 63.4 + - - +
1199C GLY 3.1 9.9 + - - -
1200C VAL* 3.2 13.9 + - + +
1213C TYR* 4.0 15.2 + - - -
1225C VAL* 3.6 24.4 - - + +
1229C GLY 4.5 2.2 - - - -
1230C LEU* 3.7 21.5 - - + -
1248C CYS 3.5 12.7 + - - -
1249C TRP* 3.2 60.9 + + + -
1250C GLN 4.4 2.2 - - - -
1251C TYR* 5.4 1.3 - + - -
1256C ARG* 3.8 22.0 - - - +
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Residues in contact with SER1197 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1134C ARG 5.5 3.6 + - - -
1136C LEU* 3.4 31.3 + - - +
1178C TRP* 2.6 28.2 + - - +
1179C MET* 4.8 0.9 - - - -
1180C SER 5.2 0.2 + - - -
1193C SER 3.2 11.2 + - - -
1194C ASP* 3.7 9.6 - - - -
1195C VAL 3.2 0.6 - - - -
1196C TRP* 1.3 75.6 - - - +
1198C PHE* 1.3 66.1 + - - +
1200C VAL* 2.9 17.3 + - - +
1201C VAL* 3.0 18.4 + - - +
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Residues in contact with PHE1198 (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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1116C ALA* 3.4 39.7 - - + -
1119C ILE* 4.0 20.9 - - + -
1120C ALA* 3.8 19.7 - - + -
1136C LEU* 3.7 10.0 - - + +
1194C ASP 3.0 14.1 + - - +
1195C VAL 3.0 8.9 + - - +
1197C SER* 1.3 76.4 - - - +
1199C GLY* 1.3 64.3 + - - +
1201C VAL* 3.2 12.9 + - + +
1202C LEU* 3.0 40.3 + - + +
1244C LEU* 5.6 1.3 - - + -
1248C CYS* 4.0 7.2 - - - -
1259C PHE* 3.7 18.8 - + + -
1262C ILE* 3.8 38.1 - - + -
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Residues in contact with GLY1199 (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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1195C VAL 2.9 10.5 + - - -
1196C TRP 3.1 7.3 + - - -
1198C PHE* 1.3 78.4 - - - +
1200C VAL* 1.3 58.3 + - - +
1202C LEU* 3.5 10.0 - - - +
1203C TRP 3.3 13.5 + - - -
1245C MET* 3.8 5.0 - - - +
1248C CYS* 3.8 17.9 - - - -
1249C TRP* 3.1 29.0 - - - -
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Residues in contact with VAL1200 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1177C ARG 3.9 18.6 - - - +
1178C TRP* 3.5 31.0 - - + +
1196C TRP* 3.2 29.8 + - + +
1197C SER* 2.9 11.3 + - - +
1199C GLY* 1.3 76.1 - - - +
1201C VAL* 1.3 58.7 + - - +
1203C TRP* 3.2 5.2 + - - +
1204C GLU* 2.9 24.7 + - - +
1212C PRO* 3.9 17.7 - - + -
1213C TYR* 5.1 2.7 - - - +
1231C LEU* 4.4 11.0 - - + -
1249C TRP* 3.9 16.2 - - + +
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Residues in contact with VAL1201 (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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1087C LEU* 5.5 1.6 - - + -
1119C ILE* 4.2 26.2 - - + -
1136C LEU* 4.1 8.5 - - + +
1137C ALA* 3.7 33.2 - - - +
1138C ALA* 4.3 7.6 - - + +
1141C CYS* 5.8 0.9 - - - -
1178C TRP* 4.8 0.7 - - + -
1197C SER 3.0 18.3 + - - +
1198C PHE* 3.2 19.7 + - + +
1200C VAL* 1.3 71.2 - - - +
1202C LEU* 1.3 66.8 + - + +
1204C GLU* 3.1 16.0 + - + +
1205C ILE* 2.8 39.3 + - + +
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Residues in contact with LEU1202 (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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1112C MET 5.3 0.2 - - - +
1116C ALA* 3.6 30.3 - - + -
1198C PHE* 3.0 38.0 + - + +
1199C GLY* 3.5 11.7 - - - +
1201C VAL* 1.3 77.5 - - + +
1203C TRP* 1.3 63.0 + - - +
1205C ILE* 3.0 26.0 + - + +
1206C ALA* 3.0 14.9 + - - +
1241C LEU* 4.0 26.6 - - + +
1244C LEU* 3.8 34.3 - - + -
1245C MET* 3.7 18.0 - - + +
1248C CYS* 5.2 0.7 - - - -
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Residues in contact with TRP1203 (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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1199C GLY 3.3 9.4 + - - +
1200C VAL 3.2 11.8 + - - +
1202C LEU* 1.3 80.3 - - - +
1204C GLU* 1.3 66.6 + - - +
1206C ALA* 3.2 2.3 + - - +
1207C THR* 3.0 50.0 + - + +
1210C GLU* 3.4 33.4 - - + -
1211C GLN 3.5 17.3 - - - -
1212C PRO* 3.5 26.9 - - + -
1213C TYR 4.6 1.1 - - - -
1231C LEU* 3.7 37.9 - - + +
1232C ASP 3.0 25.1 + - - -
1234C PRO* 3.5 22.7 - - + +
1245C MET* 3.6 19.2 - - - +
1249C TRP* 4.2 1.3 - + + -
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Residues in contact with GLU1204 (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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1088C LYS* 4.6 13.3 + - - +
1091C LEU* 3.8 3.8 - - + +
1137C ALA* 5.0 0.2 - - - +
1138C ALA* 3.1 40.0 + - + +
1139C ARG 4.8 0.3 + - - -
1178C TRP* 3.0 43.0 + - + +
1200C VAL* 2.9 14.6 + - + +
1201C VAL* 3.1 19.1 + - - +
1203C TRP* 1.3 81.4 - - + +
1205C ILE* 1.3 57.7 + - - +
1207C THR* 3.2 7.1 + - - -
1208C LEU* 3.0 8.0 + - - -
1209C ALA* 2.7 36.3 + - - +
1210C GLU 4.5 13.6 - - - +
1212C PRO* 4.8 0.9 - - + -
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Residues in contact with ILE1205 (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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1087C LEU* 4.7 7.2 - - + -
1091C LEU* 3.9 21.5 - - + -
1107C PRO* 5.2 0.2 - - + -
1112C MET* 3.3 46.0 - - + +
1115C MET* 4.2 33.4 - - + -
1116C ALA 4.9 1.6 - - - +
1119C ILE* 4.5 10.5 - - + -
1201C VAL* 2.8 29.0 + - + +
1202C LEU* 3.0 26.0 + - + +
1204C GLU* 1.3 77.0 - - - +
1206C ALA* 1.3 60.0 - - - +
1207C THR 3.4 0.5 + - - -
1208C LEU* 3.4 16.8 + - - +
1241C LEU* 5.6 1.8 - - + -
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Residues in contact with ALA1206 (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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1112C MET* 3.9 16.1 - - + +
1202C LEU 3.0 13.7 + - - +
1203C TRP 3.2 0.9 + - - +
1205C ILE* 1.3 75.2 - - - +
1207C THR* 1.3 60.7 + - - +
1208C LEU* 3.4 2.1 + - - +
1234C PRO* 3.8 29.9 - - + +
1235C ASP 4.9 5.2 - - - +
1237C CYS* 4.0 22.1 - - + -
1238C PRO* 5.1 0.9 - - + -
1241C LEU* 4.9 7.0 - - + -
1245C MET* 4.2 3.6 - - + -
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Residues in contact with THR1207 (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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1095C ARG* 4.3 2.1 + - - -
1203C TRP* 3.0 50.2 + - + +
1204C GLU* 3.2 8.5 + - - -
1205C ILE 3.2 0.2 - - - -
1206C ALA* 1.3 79.2 - - - +
1208C LEU* 1.3 69.9 + - - +
1209C ALA 3.2 0.2 + - - -
1210C GLU* 3.1 52.2 + - - +
1234C PRO* 3.8 17.0 - - + -
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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) + - + + + + + -
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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