Contacts of the helix formed by residues 1190 - 1207 (chain K) in PDB entry 3F5P
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 K).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1132K VAL* 3.4 19.5 - - - +
1164K ASP 3.4 22.4 - - - +
1165K PTR 3.7 10.8 - - + -
1182K GLU* 4.8 3.9 + - + +
1188K VAL* 4.0 13.0 - - + +
1189K PHE* 1.3 79.5 - - - +
1191K THR* 1.3 63.7 + - - +
1192K TYR* 3.0 40.1 + - + +
1193K SER* 2.7 22.9 + - - -
1194K ASP 3.2 4.5 + - - -
1253K PRO* 5.3 0.3 - - - +
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Residues in contact with THR1191 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1127K ASN* 2.8 45.1 + - + +
1130K LYS* 6.4 0.4 - - + +
1132K VAL* 4.8 0.4 - - + -
1160K ILE* 4.2 20.6 - - + -
1164K ASP* 5.8 1.8 - - + +
1190K THR* 1.3 78.2 - - - +
1192K TYR* 1.3 74.9 + - - +
1194K ASP* 3.1 9.8 + - - +
1195K VAL* 2.9 33.5 + - - +
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Residues in contact with TYR1192 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1182K GLU* 4.5 0.2 - - - +
1190K THR* 3.0 22.4 + - + +
1191K THR* 1.3 90.0 + - - +
1193K SER* 1.3 60.2 + - - +
1195K VAL* 3.1 12.5 + - + +
1196K TRP 3.1 13.5 + - - -
1253K PRO* 3.6 46.7 - - + +
1254K LYS* 4.1 30.6 - - + +
1256K ARG* 3.1 23.7 + - + +
1257K PRO 5.8 1.8 - - - -
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Residues in contact with SER1193 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1132K VAL* 4.4 1.7 - - - +
1134K ARG* 5.5 0.3 - - - -
1178K TRP 5.1 0.2 - - - +
1180K SER* 3.2 29.3 + - - -
1182K GLU* 3.8 7.5 + - - -
1183K SER* 3.5 11.0 - - - -
1188K VAL 4.6 0.9 - - - -
1189K PHE* 3.6 12.8 - - - +
1190K THR* 2.7 37.2 + - - -
1192K TYR* 1.3 76.3 - - - +
1194K ASP* 1.3 64.3 + - - +
1196K TRP* 3.4 3.8 + - - +
1197K SER* 3.2 24.3 + - - -
1256K ARG* 4.0 2.2 - - - +
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Residues in contact with ASP1194 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1123K MET* 3.3 26.6 - - + +
1127K ASN* 3.8 7.3 + - - -
1132K VAL* 3.5 15.5 - - - +
1133K HIS* 2.7 25.5 + - - +
1134K ARG* 2.8 29.5 + - - -
1136K LEU* 4.0 5.8 + - - +
1190K THR 3.2 2.2 + - - +
1191K THR* 3.1 12.4 + - - +
1193K SER* 1.3 83.1 + - - +
1195K VAL* 1.3 61.8 + - - +
1197K SER* 3.4 7.6 + - - -
1198K PHE* 3.0 20.8 + - - +
1259K PHE* 3.8 9.4 - - + -
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Residues in contact with VAL1195 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1191K THR* 2.9 23.1 + - - +
1192K TYR* 3.1 12.1 + - + +
1194K ASP* 1.3 72.9 - - - +
1196K TRP* 1.3 68.5 + - - +
1198K PHE* 3.0 14.1 + - - +
1199K GLY 3.0 9.5 + - - -
1248K CYS* 3.7 32.0 - - + +
1256K ARG* 4.3 5.4 - - + -
1257K PRO* 3.5 33.4 - - + +
1258K SER* 4.8 1.3 - - - -
1259K PHE* 3.8 30.3 - - + +
1262K ILE* 4.4 5.2 - - + -
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Residues in contact with TRP1196 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1177K ARG 4.9 1.0 + - - -
1178K TRP 3.6 18.8 + - - -
1179K MET 3.3 13.8 + - - -
1180K SER* 3.7 22.0 - - - -
1181K PRO* 3.6 27.4 - - + -
1192K TYR 3.1 3.6 + - - -
1193K SER 3.4 9.6 - - - +
1195K VAL* 1.3 76.6 - - - +
1197K SER* 1.3 62.5 + - - +
1199K GLY* 2.8 20.4 + - - -
1200K VAL* 3.2 18.9 + - + +
1213K TYR* 4.2 14.3 + - - -
1225K VAL* 3.8 22.2 - - + -
1229K GLY 4.6 2.7 - - - -
1230K LEU* 4.3 12.1 - - + -
1248K CYS 3.6 12.0 + - - -
1249K TRP* 3.0 65.2 + + + -
1250K GLN 4.8 0.4 - - - -
1251K TYR* 5.1 1.6 - + - -
1256K ARG* 3.8 17.9 - - - +
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Residues in contact with SER1197 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1134K ARG 4.7 9.9 + - - -
1136K LEU* 3.5 29.4 - - - -
1178K TRP* 2.9 27.5 + - - +
1179K MET* 5.1 0.2 - - - -
1180K SER 5.4 0.5 + - - -
1193K SER 3.2 12.2 + - - -
1194K ASP* 3.7 9.8 - - - -
1195K VAL 3.2 0.2 - - - -
1196K TRP* 1.3 79.3 - - - +
1198K PHE* 1.3 56.2 + - - +
1200K VAL* 2.8 26.7 + - - +
1201K VAL* 3.0 16.7 + - - +
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Residues in contact with PHE1198 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1116K ALA* 3.5 31.0 - - + -
1119K ILE* 3.7 29.6 - - + -
1120K ALA* 3.8 14.1 - - + -
1136K LEU* 3.5 15.9 - - + +
1194K ASP 3.0 10.3 + - - +
1195K VAL 3.0 9.8 + - - +
1197K SER* 1.3 75.1 - - - +
1199K GLY* 1.3 57.7 + - - +
1201K VAL* 3.1 9.1 + - + +
1202K LEU* 3.0 55.7 + - + +
1244K LEU* 4.9 0.2 - - + -
1248K CYS* 3.9 8.3 - - - -
1259K PHE* 3.8 17.7 - + + -
1262K ILE* 3.7 37.5 - - + -
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Residues in contact with GLY1199 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1195K VAL 3.0 5.5 + - - -
1196K TRP 2.8 10.1 + - - -
1198K PHE* 1.3 73.9 - - - +
1200K VAL* 1.3 65.4 + - - +
1202K LEU* 3.3 11.1 + - - +
1203K TRP 3.1 15.6 + - - -
1245K MET* 3.7 4.3 - - - +
1248K CYS* 3.9 20.0 - - - -
1249K TRP* 3.4 23.4 - - - -
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Residues in contact with VAL1200 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1177K ARG 4.0 16.2 - - - +
1178K TRP* 3.3 37.0 - - + +
1196K TRP* 3.2 22.7 + - + +
1197K SER* 2.8 10.7 + - - +
1199K GLY* 1.3 77.9 - - - +
1201K VAL* 1.3 56.9 + - - +
1203K TRP* 3.1 4.6 + - + +
1204K GLU* 2.8 25.3 + - + +
1212K PRO* 4.0 21.1 - - + -
1213K TYR* 5.1 0.9 - - - +
1231K LEU* 4.4 12.8 - - + -
1249K TRP* 4.0 15.5 - - - +
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Residues in contact with VAL1201 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1087K LEU* 5.0 2.6 - - + +
1119K ILE* 3.9 33.4 - - + -
1136K LEU* 3.9 18.4 - - + +
1137K ALA* 3.9 15.9 - - - -
1138K ALA* 4.0 8.7 - - - +
1141K CYS* 5.3 1.1 - - - -
1178K TRP* 4.8 0.7 - - + -
1197K SER 3.0 17.9 - - - +
1198K PHE* 3.1 18.3 + - + +
1200K VAL* 1.3 71.8 - - - +
1202K LEU* 1.3 62.3 + - + +
1204K GLU* 3.6 18.2 - - - +
1205K ILE* 3.1 30.9 + - + +
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Residues in contact with LEU1202 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1116K ALA* 3.5 32.5 - - + -
1198K PHE* 3.0 43.9 + - + +
1199K GLY* 3.4 10.3 - - - +
1201K VAL* 1.3 77.9 - - + +
1203K TRP* 1.3 58.5 + - - +
1205K ILE* 3.0 15.5 + - + +
1206K ALA* 2.8 29.3 + - - +
1241K LEU* 4.3 16.3 - - + +
1244K LEU* 3.8 31.9 - - + -
1245K MET* 3.6 24.8 - - + +
1248K CYS* 4.9 0.9 - - - -
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Residues in contact with TRP1203 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1199K GLY 3.1 9.2 + - - +
1200K VAL* 3.1 15.0 + - - +
1202K LEU* 1.3 79.3 - - - +
1204K GLU* 1.3 60.3 + - - +
1206K ALA* 3.3 2.3 + - - +
1207K THR* 2.9 59.9 + - + +
1210K GLU* 3.5 36.6 - - + -
1211K GLN 3.8 15.5 - - - -
1212K PRO* 3.8 21.3 - - + -
1213K TYR 4.7 1.6 - - - -
1214K GLN* 5.8 0.4 - - + -
1231K LEU* 3.4 35.7 - - + +
1232K ASP 3.1 26.2 + - - -
1234K PRO* 3.9 13.1 - - + +
1242K PHE* 5.3 0.4 - + - -
1245K MET* 3.6 14.7 - - - +
1249K TRP* 3.8 10.8 - + + -
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Residues in contact with GLU1204 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1088K LYS* 4.3 15.8 + - - +
1091K LEU* 3.3 2.3 - - + +
1138K ALA* 2.8 46.9 + - + +
1139K ARG 4.8 0.5 + - - -
1178K TRP* 3.0 38.9 + - + -
1200K VAL* 2.8 21.4 + - + +
1201K VAL* 3.6 13.4 - - - +
1202K LEU 3.1 0.2 - - - -
1203K TRP* 1.3 78.5 - - + +
1205K ILE* 1.3 63.5 + - - +
1207K THR* 3.8 5.6 - - - -
1208K LEU 3.0 2.8 + - - -
1209K ALA* 2.5 37.3 + - - +
1210K GLU 4.6 13.1 - - - +
1212K PRO* 4.8 0.7 - - + -
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Residues in contact with ILE1205 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1087K LEU* 4.2 10.1 - - + -
1091K LEU* 3.5 24.0 - - + -
1107K PRO* 4.9 3.4 - - + +
1112K MET* 3.5 38.1 - - + +
1115K MET* 4.4 26.2 - - + -
1116K ALA 5.0 1.8 - - - +
1119K ILE* 4.2 24.7 - - + -
1201K VAL* 3.1 21.4 + - + +
1202K LEU* 3.0 20.9 + - + +
1204K GLU* 1.3 75.5 - - - +
1206K ALA* 1.3 64.3 + - - +
1208K LEU* 3.1 21.3 + - - +
1241K LEU* 5.3 1.3 - - + -
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Residues in contact with ALA1206 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1112K MET* 3.1 19.7 - - + +
1202K LEU 2.8 13.0 + - - +
1203K TRP 3.5 8.7 - - - +
1204K GLU 3.2 0.2 - - - -
1205K ILE* 1.3 78.8 - - - +
1207K THR* 1.3 58.3 + - - +
1208K LEU* 3.3 6.9 + - - +
1234K PRO* 3.8 25.6 - - + +
1235K ASP 5.2 4.0 - - - +
1237K CYS* 3.9 18.1 - - + -
1245K MET* 4.1 4.0 - - + -
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Residues in contact with THR1207 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1095K ARG* 3.4 17.3 + - - -
1203K TRP* 2.9 46.3 + - + +
1204K GLU 3.4 2.6 + - - -
1206K ALA* 1.3 75.1 - - - +
1208K LEU* 1.3 68.9 + - - +
1209K ALA 3.4 0.3 + - - -
1210K GLU* 3.1 40.7 + - - +
1234K PRO* 3.7 25.4 - - + -
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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