Contacts of the helix formed by residues 1190 - 1207 (chain H) 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 H).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1132H VAL* 3.3 14.8 - - - +
1164H ASP 3.4 23.8 - - - +
1165H PTR 3.5 11.4 - - + -
1182H GLU* 4.5 5.4 + - - +
1188H VAL* 4.0 13.1 + - + +
1189H PHE* 1.3 79.9 - - - +
1191H THR* 1.3 67.1 + - - +
1192H TYR* 2.9 28.7 + - + +
1193H SER* 2.7 34.1 + - - -
1194H ASP 3.1 5.4 + - - -
1253H PRO* 5.1 0.2 - - - +
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Residues in contact with THR1191 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1127H ASN* 3.1 40.8 + - + +
1130H LYS* 6.4 0.9 - - + -
1132H VAL* 4.1 2.1 - - - +
1160H ILE* 4.2 21.2 - - + +
1164H ASP* 5.1 6.7 + - + +
1190H THR* 1.3 73.1 - - - +
1192H TYR* 1.3 76.5 + - + +
1194H ASP* 3.3 8.7 + - - +
1195H VAL* 3.1 26.9 + - - +
1258H SER* 6.0 1.7 - - - -
1259H PHE* 5.8 0.2 - - - -
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Residues in contact with TYR1192 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1164H ASP 5.9 0.4 - - - -
1190H THR* 2.9 27.1 - - + +
1191H THR* 1.3 89.7 + - + +
1193H SER* 1.3 61.7 + - - +
1195H VAL* 3.1 10.7 + - + +
1196H TRP 3.1 13.2 + - - -
1253H PRO* 3.2 48.7 - - + +
1254H LYS* 4.3 32.6 - - + +
1256H ARG* 2.9 23.4 + - + +
1257H PRO 5.8 2.7 - - - -
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Residues in contact with SER1193 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1132H VAL* 4.5 1.4 - - - +
1180H SER* 3.5 10.8 + - - -
1182H GLU* 4.2 2.9 + - - -
1183H SER* 3.4 23.6 - - - -
1188H VAL 4.6 0.7 - - - -
1189H PHE* 3.5 13.4 - - - +
1190H THR* 2.7 38.3 + - - -
1192H TYR* 1.3 74.7 - - - +
1194H ASP* 1.3 65.7 + - - +
1196H TRP* 3.3 5.5 + - - +
1197H SER* 3.1 24.1 + - - -
1256H ARG* 3.7 8.4 - - - +
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Residues in contact with ASP1194 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1123H MET* 3.4 26.7 - - + +
1127H ASN* 3.5 9.6 + - - -
1132H VAL* 3.5 17.3 - - - +
1133H HIS* 2.8 23.4 + - - +
1134H ARG* 2.9 30.1 + - - -
1136H LEU* 4.2 4.7 - - - +
1190H THR 3.1 6.2 + - - +
1191H THR* 3.4 11.2 - - - +
1192H TYR 3.2 0.2 - - - -
1193H SER* 1.3 79.8 + - - +
1195H VAL* 1.3 56.1 + - - +
1197H SER* 3.1 8.5 + - - +
1198H PHE* 2.9 26.3 + - - +
1259H PHE* 3.8 8.6 - - + -
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Residues in contact with VAL1195 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1191H THR* 3.1 16.9 + - - +
1192H TYR* 3.1 10.3 + - + +
1194H ASP* 1.3 74.0 - - - +
1196H TRP* 1.3 67.1 + - - +
1198H PHE* 3.0 6.1 + - - +
1199H GLY 3.0 18.0 + - - -
1248H CYS* 3.7 33.7 - - + +
1256H ARG* 4.2 9.2 - - + -
1257H PRO* 3.4 28.7 - - + +
1258H SER* 4.5 1.8 - - - -
1259H PHE* 3.7 34.8 - - + +
1262H ILE* 4.4 4.5 - - + -
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Residues in contact with TRP1196 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1177H ARG 5.2 0.8 + - - -
1178H TRP 3.4 18.8 + - - -
1179H MET 3.4 10.5 + - - -
1180H SER* 3.7 15.7 - - - -
1181H PRO* 3.4 32.3 - - + -
1192H TYR 3.1 6.1 + - - -
1193H SER 3.4 9.2 - - - +
1195H VAL* 1.3 75.9 - - - +
1197H SER* 1.3 65.2 + - - +
1199H GLY 3.0 10.6 + - - -
1200H VAL* 3.3 19.4 + - + +
1213H TYR* 4.1 14.6 + - - -
1225H VAL* 3.8 22.7 - - + -
1229H GLY 4.6 3.1 - - - -
1230H LEU* 4.3 12.3 - - + -
1248H CYS 3.4 12.5 + - - -
1249H TRP* 3.4 60.2 + + + -
1250H GLN 4.4 0.9 - - - -
1251H TYR* 5.3 0.7 - + - -
1256H ARG* 3.6 25.6 - - - +
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Residues in contact with SER1197 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1134H ARG 4.6 11.4 + - - -
1136H LEU* 3.5 31.2 + - - +
1178H TRP* 2.9 25.4 + - - +
1179H MET* 5.1 0.3 - - - -
1193H SER 3.1 10.8 + - - -
1194H ASP* 3.1 10.2 + - - -
1196H TRP* 1.3 75.1 - - - +
1198H PHE* 1.3 67.0 + - - +
1200H VAL* 3.0 16.4 + - - +
1201H VAL* 3.0 18.3 + - - +
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Residues in contact with PHE1198 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1116H ALA* 3.6 28.9 - - + -
1119H ILE* 3.8 28.0 - - + -
1120H ALA* 3.9 12.3 - - + -
1136H LEU* 3.6 11.0 - - + +
1194H ASP 2.9 12.2 + - - +
1195H VAL 3.1 8.3 - - - +
1197H SER* 1.3 73.6 - - - +
1199H GLY* 1.3 63.2 + - - +
1201H VAL* 3.0 9.8 + - + +
1202H LEU* 2.9 53.9 + - + +
1248H CYS* 3.7 18.4 - - - -
1259H PHE* 3.7 20.2 - + + -
1262H ILE* 3.7 34.3 - - + -
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Residues in contact with GLY1199 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1195H VAL 3.0 10.3 + - - -
1196H TRP 3.0 5.7 + - - -
1198H PHE* 1.3 76.5 - - - +
1200H VAL* 1.3 57.2 + - - +
1202H LEU* 3.3 11.7 + - - +
1203H TRP 3.0 22.0 + - - -
1245H MET* 3.9 4.9 - - - +
1248H CYS* 3.8 19.3 - - - -
1249H TRP* 3.3 22.4 - - - -
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Residues in contact with VAL1200 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1177H ARG 4.1 13.0 - - - +
1178H TRP* 3.5 29.2 - - + +
1196H TRP* 3.3 29.3 + - + +
1197H SER* 3.0 9.2 + - - +
1199H GLY* 1.3 78.5 - - - +
1201H VAL* 1.3 57.2 + - - +
1203H TRP* 3.1 3.9 + - - +
1204H GLU* 2.7 24.5 + - + +
1212H PRO* 3.9 24.5 - - + -
1213H TYR* 4.8 3.1 - - - +
1231H LEU* 4.5 9.4 - - + -
1249H TRP* 3.8 20.0 - - + +
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Residues in contact with VAL1201 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1087H LEU* 5.3 0.4 - - + -
1119H ILE* 4.1 28.0 - - + -
1136H LEU* 4.0 8.1 - - + +
1137H ALA* 3.6 33.0 - - - +
1138H ALA* 4.0 9.6 - - + +
1141H CYS* 5.5 0.7 - - - -
1178H TRP* 4.6 0.9 - - + -
1197H SER 3.1 18.6 - - - +
1198H PHE* 3.0 15.6 + - + +
1200H VAL* 1.3 73.3 - - - +
1202H LEU* 1.3 65.6 + - + +
1204H GLU* 3.3 16.9 - - + +
1205H ILE* 2.8 37.3 + - + +
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Residues in contact with LEU1202 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1112H MET* 5.2 0.7 - - + +
1116H ALA* 3.5 33.0 - - + -
1198H PHE* 2.9 48.1 + - + +
1199H GLY* 3.3 13.0 - - - +
1201H VAL* 1.3 77.8 - - + +
1203H TRP* 1.3 56.9 + - - +
1205H ILE* 3.2 15.5 + - + +
1206H ALA* 2.9 29.6 + - - +
1241H LEU* 4.3 16.6 - - + +
1244H LEU* 4.1 22.0 - - + -
1245H MET* 3.5 23.5 - - + +
1248H CYS* 4.9 1.8 - - - -
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Residues in contact with TRP1203 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1199H GLY 3.0 12.9 + - - +
1200H VAL 3.2 11.7 - - - +
1202H LEU* 1.3 75.9 - - - +
1204H GLU* 1.3 66.5 + - - +
1206H ALA* 3.2 2.1 + - - +
1207H THR* 3.2 51.3 + - + +
1210H GLU* 3.7 33.9 - - + -
1211H GLN 3.9 15.0 - - - -
1212H PRO* 3.7 19.7 - - + -
1213H TYR 4.7 0.9 - - - -
1231H LEU* 3.5 41.0 - - + +
1232H ASP 3.1 26.2 + - - -
1234H PRO* 3.9 17.4 - - + +
1242H PHE* 5.2 0.2 - + - -
1245H MET* 3.5 15.4 - - - +
1249H TRP* 3.9 12.8 - + + -
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Residues in contact with GLU1204 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1088H LYS* 4.5 13.2 + - - +
1091H LEU* 4.1 2.2 - - + +
1138H ALA* 3.1 40.1 + - + +
1139H ARG* 4.9 1.2 + - - +
1178H TRP* 3.0 41.4 + - - +
1200H VAL 2.7 15.7 + - - +
1201H VAL* 3.3 15.4 - - - +
1203H TRP* 1.3 81.8 - - + +
1205H ILE* 1.3 62.1 + - - +
1207H THR* 3.2 4.0 + - - -
1208H LEU 3.1 3.5 + - - -
1209H ALA* 2.7 34.2 + - - +
1210H GLU 4.3 15.5 - - - +
1212H PRO* 4.7 4.5 - - + -
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Residues in contact with ILE1205 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1087H LEU* 4.5 7.4 - - + -
1091H LEU* 3.8 24.9 - - + +
1107H PRO* 4.1 2.4 - - + +
1112H MET* 3.1 42.4 - - + +
1115H MET* 4.0 37.0 - - + -
1116H ALA 4.7 2.0 - - - +
1119H ILE* 4.4 16.8 - - + -
1201H VAL* 2.8 26.8 + - + +
1202H LEU* 3.5 22.0 - - + +
1204H GLU* 1.3 71.2 - - - +
1206H ALA* 1.3 62.6 + - - +
1207H THR 3.2 1.6 + - - -
1208H LEU* 3.3 19.9 + - - +
1241H LEU* 5.2 1.1 - - + -
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Residues in contact with ALA1206 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1106H PRO* 3.6 18.3 - - - +
1112H MET* 2.8 18.8 - - + -
1202H LEU 2.9 15.8 + - - +
1203H TRP 3.2 6.2 + - - +
1205H ILE* 1.3 77.1 - - - +
1207H THR* 1.3 58.6 + - - +
1208H LEU 3.5 0.2 - - - -
1234H PRO* 3.9 13.0 - - + +
1235H ASP 5.2 2.8 - - - +
1236H ASN 5.7 0.2 - - - -
1237H CYS* 3.9 19.8 - - + +
1241H LEU* 4.1 1.6 - - + -
1245H MET* 3.8 17.5 - - + -
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Residues in contact with THR1207 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1095H ARG* 3.9 12.0 + - - -
1203H TRP* 3.2 40.6 + - + +
1204H GLU 3.2 2.3 + - - -
1205H ILE 3.2 0.2 - - - -
1206H ALA* 1.3 75.0 - - - +
1208H LEU* 1.3 73.5 + - - +
1210H GLU* 3.1 40.8 + - - +
1234H PRO* 3.5 31.9 - - + -
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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
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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