Contacts of the helix formed by residues 1190 - 1207 (chain B) 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 B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1132B VAL* 3.3 17.7 - - - +
1164B ASP 3.7 11.0 - - - +
1165B PTR 3.7 20.0 - - + -
1182B GLU* 4.7 3.4 + - + +
1188B VAL* 4.1 12.3 - - + -
1189B PHE* 1.3 78.8 - - - +
1191B THR* 1.3 62.3 + - - +
1192B TYR* 2.9 42.1 + - + +
1193B SER* 2.8 23.0 + - - -
1194B ASP* 3.4 5.9 + - - +
1253B PRO* 5.4 0.3 - - - +
1254B LYS* 6.0 0.7 - - - +
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Residues in contact with THR1191 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1127B ASN* 2.9 45.2 + - - +
1132B VAL* 3.8 3.7 - - - +
1160B ILE* 5.0 3.7 - - + +
1164B ASP 4.7 2.4 + - - +
1190B THR* 1.3 77.0 - - - +
1192B TYR* 1.3 89.4 + - + +
1194B ASP* 3.3 5.3 + - - +
1195B VAL* 3.1 25.4 + - + +
1258B SER* 6.0 5.3 - - - -
1259B PHE* 4.2 8.1 + - - -
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Residues in contact with TYR1192 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1182B GLU* 4.4 0.2 - - - +
1190B THR* 2.9 28.4 + - + +
1191B THR* 1.3 95.2 - - + +
1193B SER* 1.3 56.1 + - - +
1195B VAL* 3.4 10.4 + - + +
1196B TRP 3.1 16.6 + - - -
1253B PRO* 3.7 40.8 - - + +
1254B LYS* 3.2 49.5 - - + +
1256B ARG* 3.1 29.9 + - + +
1257B PRO 5.4 4.9 - - - -
1258B SER* 6.4 1.6 - - - -
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Residues in contact with SER1193 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1134B ARG* 5.9 0.2 - - - -
1180B SER* 3.7 23.2 + - - -
1182B GLU* 3.9 9.8 + - - -
1183B SER* 3.7 11.4 - - - -
1188B VAL 4.5 0.9 - - - -
1189B PHE* 3.4 14.1 - - - +
1190B THR* 2.8 35.1 + - - -
1192B TYR* 1.3 76.0 - - - +
1194B ASP* 1.3 67.5 + - - +
1195B VAL 3.2 0.4 - - - -
1196B TRP* 3.2 10.7 + - - +
1197B SER* 3.2 18.5 + - - -
1256B ARG* 4.0 3.6 - - - +
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Residues in contact with ASP1194 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1123B MET* 3.3 27.1 - - + +
1127B ASN* 4.1 5.9 + - - +
1131B PHE 4.5 0.2 - - - +
1132B VAL* 3.6 8.5 - - - +
1133B HIS* 2.8 26.2 + - - +
1134B ARG* 2.8 29.2 + - - +
1135B ASP 4.5 0.3 + - - -
1136B LEU* 3.6 12.4 + - - +
1190B THR 3.4 7.7 + - - +
1191B THR* 3.3 10.6 + - - +
1193B SER* 1.3 83.0 + - - +
1195B VAL* 1.3 57.5 + - - +
1197B SER* 3.3 9.1 + - - -
1198B PHE* 3.0 22.5 + - - +
1259B PHE* 3.8 6.7 - - + -
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Residues in contact with VAL1195 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1191B THR* 3.1 18.6 + - + +
1192B TYR* 3.5 11.4 - - + +
1194B ASP* 1.3 75.0 - - - +
1196B TRP* 1.3 64.1 + - - +
1198B PHE* 3.2 4.6 + - + +
1199B GLY 3.2 15.9 + - - -
1248B CYS* 3.4 31.6 - - + +
1256B ARG* 4.4 4.0 - - + -
1257B PRO* 3.5 33.2 - - + +
1258B SER* 4.6 1.6 - - - -
1259B PHE* 3.5 35.7 - - + +
1262B ILE* 4.4 6.5 - - + -
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Residues in contact with TRP1196 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1177B ARG 5.2 0.8 + - - -
1178B TRP 3.7 10.5 + - - -
1179B MET 3.5 10.5 + - - -
1180B SER* 3.6 25.4 - - - -
1181B PRO* 3.4 35.2 - - + -
1192B TYR 3.1 6.7 + - - -
1193B SER 3.2 9.8 + - - +
1195B VAL* 1.3 76.2 - - - +
1197B SER* 1.3 59.4 + - - +
1199B GLY 3.0 15.1 + - - -
1200B VAL* 3.3 14.4 + - + +
1213B TYR* 4.0 15.0 + - - -
1225B VAL* 3.7 22.2 - - + -
1229B GLY 4.5 2.5 - - - -
1230B LEU* 4.0 13.7 - - + -
1248B CYS 3.7 13.4 + - - -
1249B TRP* 3.3 67.2 + + + -
1250B GLN 4.2 2.9 - - - -
1251B TYR* 5.2 0.9 - + - -
1256B ARG* 3.8 15.9 - - - +
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Residues in contact with SER1197 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1134B ARG 5.6 3.6 + - - -
1136B LEU* 3.5 33.3 + - - +
1178B TRP* 2.7 27.6 + - - +
1193B SER 3.2 12.8 + - - -
1194B ASP* 3.6 10.1 + - - -
1195B VAL 3.2 0.2 - - - -
1196B TRP* 1.3 76.6 - - - +
1198B PHE* 1.3 60.1 + - - +
1200B VAL* 3.0 10.2 + - - +
1201B VAL* 2.9 29.3 + - - +
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Residues in contact with PHE1198 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1116B ALA* 3.5 31.4 - - + -
1119B ILE* 3.7 30.7 - - + -
1120B ALA* 3.7 14.1 - - + -
1136B LEU* 3.5 11.2 - - + +
1194B ASP 3.0 13.0 + - - +
1195B VAL 3.3 8.3 - - - +
1197B SER* 1.3 77.4 - - - +
1199B GLY* 1.3 61.8 + - - +
1201B VAL* 3.2 7.4 + - + +
1202B LEU* 3.0 52.5 + - + +
1244B LEU* 4.9 0.2 - - + -
1248B CYS* 4.0 8.3 - - - -
1259B PHE* 3.7 17.3 - + + -
1262B ILE* 3.9 37.7 - - + -
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Residues in contact with GLY1199 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1195B VAL 3.2 5.9 + - - -
1196B TRP 3.0 5.4 + - - -
1198B PHE* 1.3 77.9 - - - +
1200B VAL* 1.3 62.2 + - - +
1202B LEU* 3.2 12.4 + - - +
1203B TRP 3.1 17.7 + - - -
1245B MET* 4.1 3.5 - - - +
1248B CYS* 3.9 16.8 - - - -
1249B TRP* 3.3 29.1 - - - -
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Residues in contact with VAL1200 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1177B ARG 3.8 18.6 - - - +
1178B TRP* 3.5 27.8 - - + +
1196B TRP* 3.3 31.4 + - + +
1197B SER* 3.0 9.3 + - - +
1199B GLY* 1.3 76.4 - - - +
1201B VAL* 1.3 57.6 + - - +
1203B TRP* 3.3 4.2 + - + +
1204B GLU* 2.8 26.8 + - + +
1212B PRO* 3.9 21.5 - - + -
1213B TYR* 5.1 3.1 - - - +
1231B LEU* 4.4 8.3 - - + -
1249B TRP* 3.9 16.6 - - + +
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Residues in contact with VAL1201 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1087B LEU* 4.6 8.1 - - + -
1119B ILE* 3.9 29.4 - - + -
1136B LEU* 3.9 17.0 - - + +
1137B ALA* 3.6 32.5 - - - -
1138B ALA* 3.9 7.6 - - + +
1141B CYS* 5.1 1.6 - - - -
1178B TRP* 4.7 0.4 - - + -
1197B SER 2.9 17.4 + - - +
1198B PHE* 3.5 11.2 - - + +
1199B GLY 3.2 0.2 - - - -
1200B VAL* 1.3 74.2 - - - +
1202B LEU* 1.3 66.5 + - + +
1204B GLU* 3.1 10.5 + - - +
1205B ILE* 3.0 29.9 + - + +
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Residues in contact with LEU1202 (chain B).
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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1112B MET 5.3 0.4 - - - +
1116B ALA* 3.5 32.5 - - + -
1119B ILE* 6.4 0.2 - - + -
1198B PHE* 3.0 37.4 + - + +
1199B GLY* 3.2 10.3 + - - +
1201B VAL* 1.3 75.1 - - + +
1203B TRP* 1.3 63.6 + - - +
1205B ILE* 3.0 25.8 + - + +
1206B ALA* 3.0 12.8 + - - +
1241B LEU* 4.1 19.6 - - + +
1244B LEU* 3.9 33.0 - - + -
1245B MET* 3.9 27.9 - - + +
1248B CYS* 4.9 1.1 - - - -
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Residues in contact with TRP1203 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1199B GLY 3.1 9.8 + - - +
1200B VAL 3.4 10.5 - - - +
1202B LEU* 1.3 79.5 - - - +
1204B GLU* 1.3 68.3 + - - +
1206B ALA* 3.0 3.0 + - - +
1207B THR* 3.0 51.2 + - + +
1210B GLU* 3.3 35.2 - - + -
1211B GLN 3.8 14.4 - - - -
1212B PRO* 3.6 19.1 - - + -
1213B TYR 4.7 1.3 - - - -
1214B GLN 5.8 0.2 - - - -
1231B LEU* 3.6 35.8 - - + +
1232B ASP* 2.9 29.1 + - + -
1234B PRO* 3.8 15.5 - - + +
1245B MET* 3.6 24.1 - - - +
1249B TRP* 4.0 6.7 - + + -
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Residues in contact with GLU1204 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1088B LYS* 4.3 15.1 - - - +
1091B LEU* 3.8 4.0 - - + +
1138B ALA* 3.0 41.0 + - + +
1139B ARG 4.9 0.3 + - - -
1178B TRP* 2.9 43.6 + - + +
1200B VAL 2.8 14.8 + - - +
1201B VAL* 3.1 16.0 + - - +
1203B TRP* 1.3 82.5 - - + +
1205B ILE* 1.3 58.4 + - - +
1207B THR* 3.2 6.9 + - - -
1208B LEU* 3.0 7.3 + - - -
1209B ALA* 2.7 34.5 + - - +
1210B GLU 4.6 9.5 - - - +
1212B PRO* 4.7 3.1 - - + +
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Residues in contact with ILE1205 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1087B LEU* 4.6 3.1 - - + -
1091B LEU* 3.8 24.2 - - + -
1107B PRO* 3.6 17.2 - - + +
1112B MET* 3.5 32.8 - - + +
1115B MET* 3.9 38.6 - - + -
1116B ALA 5.1 1.8 - - - +
1119B ILE* 4.6 7.4 - - + -
1201B VAL* 3.2 30.3 - - + +
1202B LEU* 3.0 22.1 + - + +
1204B GLU* 1.3 78.1 - - - +
1206B ALA* 1.3 61.3 + - - +
1208B LEU* 3.2 11.8 + - - +
1241B LEU* 5.7 0.4 - - + -
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Residues in contact with ALA1206 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1105B ALA 5.2 0.7 - - - -
1106B PRO* 3.7 24.1 - - + +
1112B MET* 3.2 22.3 - - + +
1202B LEU 3.0 10.1 + - - +
1203B TRP 3.0 6.7 + - - +
1205B ILE* 1.3 75.8 - - - +
1207B THR* 1.3 60.3 + - - +
1234B PRO* 3.8 26.9 - - + +
1236B ASN 6.0 0.2 - - - -
1237B CYS* 4.1 19.2 - - + +
1245B MET* 4.1 4.7 - - + -
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Residues in contact with THR1207 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1095B ARG* 4.8 3.6 - - - -
1203B TRP* 3.0 53.2 + - + +
1204B GLU* 3.2 7.6 + - - -
1206B ALA* 1.3 80.1 - - - +
1208B LEU* 1.3 71.3 + - - +
1210B GLU* 3.3 50.7 + - - +
1234B PRO* 3.8 17.7 - - + -
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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