Contacts of the helix formed by residues 1190 - 1207 (chain A) 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 A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1132A VAL* 3.2 22.1 - - - +
1164A ASP 3.7 20.2 - - - +
1165A PTR 3.8 11.4 - - + -
1182A GLU* 4.8 3.0 + - + +
1188A VAL* 4.1 13.0 - - + +
1189A PHE* 1.3 81.0 - - - +
1191A THR* 1.3 62.7 + - - +
1192A TYR* 3.0 44.1 + - + +
1193A SER* 3.0 19.6 + - - -
1194A ASP 3.4 3.3 + - - -
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Residues in contact with THR1191 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1127A ASN* 3.1 45.1 - - + +
1131A PHE 5.0 0.4 - - - +
1132A VAL* 4.6 0.6 - - + +
1160A ILE* 4.3 20.4 - - + -
1164A ASP 4.9 1.5 + - - +
1190A THR* 1.3 75.3 - - - +
1192A TYR* 1.3 77.2 + - - +
1194A ASP* 3.2 9.6 + - - +
1195A VAL* 3.0 30.7 + - - +
1259A PHE* 5.6 0.2 - - - -
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Residues in contact with TYR1192 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1182A GLU* 4.6 0.2 - - - +
1190A THR* 3.0 26.7 - - + +
1191A THR* 1.3 91.6 + - - +
1193A SER* 1.3 57.2 + - - +
1195A VAL* 3.0 12.3 + - + +
1196A TRP 2.9 22.3 + - - -
1253A PRO* 3.6 42.2 - - + +
1254A LYS* 4.5 24.7 - - + +
1256A ARG* 3.1 24.6 + - + +
1257A PRO 5.9 2.2 - - - -
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Residues in contact with SER1193 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1132A VAL* 4.7 0.9 - - - +
1180A SER* 3.5 27.3 + - - -
1182A GLU* 3.6 10.1 + - - -
1183A SER* 3.5 10.0 + - - -
1188A VAL 4.6 0.4 - - - -
1189A PHE* 3.5 15.7 - - - +
1190A THR* 3.0 29.9 + - - -
1191A THR 3.3 0.2 - - - -
1192A TYR* 1.3 75.3 - - - +
1194A ASP* 1.3 65.2 + - - +
1196A TRP* 3.5 3.9 + - - +
1197A SER* 3.3 23.0 + - - -
1256A ARG* 3.7 3.3 - - - +
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Residues in contact with ASP1194 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1123A MET* 3.3 28.8 - - + +
1127A ASN* 3.6 10.2 + - - -
1132A VAL* 3.4 16.2 - - - +
1133A HIS* 2.9 22.3 + - - +
1134A ARG* 3.1 25.8 + - - -
1135A ASP 4.7 0.5 + - - -
1136A LEU* 4.0 5.9 + - - +
1190A THR 3.4 3.7 + - - +
1191A THR* 3.2 12.0 + - - +
1192A TYR 3.1 0.6 - - - -
1193A SER* 1.3 77.2 + - - +
1195A VAL* 1.3 59.5 + - - +
1197A SER* 3.2 9.0 + - - +
1198A PHE* 3.0 22.9 + - - +
1259A PHE* 3.6 12.7 - - + -
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Residues in contact with VAL1195 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1191A THR* 3.0 17.7 + - - +
1192A TYR* 3.0 12.6 + - + +
1194A ASP* 1.3 73.3 - - - +
1196A TRP* 1.3 66.4 + - - +
1198A PHE* 3.2 3.6 + - - +
1199A GLY 3.1 16.8 + - - -
1248A CYS* 3.4 33.8 - - + +
1256A ARG* 3.9 9.9 - - + -
1257A PRO* 3.2 31.6 - - + +
1258A SER* 4.4 2.0 - - - -
1259A PHE* 3.7 34.5 - - + +
1262A ILE* 4.7 3.1 - - + -
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Residues in contact with TRP1196 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1177A ARG 5.6 0.6 + - - -
1178A TRP* 3.9 8.1 + - - +
1179A MET 3.3 13.2 + - - -
1180A SER* 3.7 25.8 - - - -
1181A PRO* 3.5 37.9 - - + -
1192A TYR 2.9 10.8 + - - +
1193A SER 3.5 10.1 - - - +
1195A VAL* 1.3 76.5 - - - +
1197A SER* 1.3 64.3 + - - +
1199A GLY 3.1 10.0 + - - -
1200A VAL* 3.3 15.3 + - + +
1213A TYR* 4.2 14.0 + - - -
1225A VAL* 3.8 16.8 - - + -
1229A GLY 4.7 1.3 - - - -
1230A LEU* 3.8 22.7 - - + -
1248A CYS 3.6 10.9 + - - -
1249A TRP* 3.2 65.4 + + + -
1250A GLN 3.9 4.5 - - - -
1251A TYR* 5.2 0.7 - + - -
1256A ARG* 3.5 12.8 - - - +
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Residues in contact with SER1197 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1134A ARG 5.5 4.2 + - - -
1135A ASP* 5.7 0.2 - - - -
1136A LEU* 3.5 33.8 + - - +
1178A TRP* 2.7 26.7 + - - +
1193A SER 3.3 10.4 + - - -
1194A ASP* 3.2 11.3 + - - -
1196A TRP* 1.3 75.8 - - - +
1198A PHE* 1.3 62.3 + - - +
1200A VAL* 2.8 22.9 + - - +
1201A VAL* 3.0 18.1 + - - +
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Residues in contact with PHE1198 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1116A ALA* 3.5 32.3 - - + -
1119A ILE* 3.8 28.5 - - + -
1120A ALA* 3.9 11.7 - - + -
1136A LEU* 3.7 10.4 - - + +
1194A ASP 3.0 6.9 + - - +
1195A VAL 3.2 8.7 + - - +
1197A SER* 1.3 74.6 - - - +
1199A GLY* 1.3 65.3 + - - +
1201A VAL* 3.1 9.6 + - + +
1202A LEU* 3.0 53.5 + - + +
1244A LEU* 5.1 1.3 - - + -
1248A CYS* 4.0 6.5 - - - -
1259A PHE* 3.6 26.0 - + + -
1262A ILE* 3.7 38.8 - - + -
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Residues in contact with GLY1199 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1195A VAL 3.1 6.7 + - - -
1196A TRP 3.1 9.9 + - - -
1198A PHE* 1.3 76.8 - - - +
1200A VAL* 1.3 61.7 + - - +
1202A LEU* 3.4 12.9 + - - +
1203A TRP 3.2 16.1 + - - -
1245A MET* 3.7 4.7 - - - +
1248A CYS* 3.8 19.1 - - - -
1249A TRP* 3.2 24.2 - - - -
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Residues in contact with VAL1200 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1177A ARG 3.9 18.2 - - - +
1178A TRP* 3.5 31.9 - - + +
1196A TRP* 3.3 28.7 + - + +
1197A SER* 2.8 12.4 + - - +
1199A GLY* 1.3 78.1 - - - +
1201A VAL* 1.3 54.7 + - - -
1203A TRP* 3.3 4.8 - - - +
1204A GLU* 3.0 23.6 + - - +
1212A PRO* 4.0 17.9 - - + -
1213A TYR* 5.1 2.9 - - - +
1231A LEU* 4.6 8.1 - - + -
1249A TRP* 3.7 20.2 - - + +
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Residues in contact with VAL1201 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1087A LEU* 5.4 2.0 - - + -
1119A ILE* 4.0 28.3 - - + -
1136A LEU* 3.9 15.9 - - + +
1137A ALA* 3.7 27.6 - - - -
1138A ALA* 4.3 7.6 - - + +
1141A CYS* 5.7 0.4 - - - -
1178A TRP* 4.8 0.7 - - + -
1197A SER 3.0 16.8 + - - +
1198A PHE* 3.1 17.7 + - + +
1200A VAL* 1.3 73.6 - - - +
1202A LEU* 1.3 63.9 + - - +
1204A GLU* 3.2 15.4 + - + +
1205A ILE* 2.9 38.0 + - + +
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Residues in contact with LEU1202 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1112A MET* 5.0 1.1 - - - +
1116A ALA* 3.9 29.4 - - + -
1198A PHE* 3.0 44.8 + - + +
1199A GLY* 3.4 11.4 - - - +
1200A VAL 3.3 0.2 - - - -
1201A VAL* 1.3 76.5 - - + +
1203A TRP* 1.3 62.6 + - - +
1205A ILE* 3.1 15.3 + - + +
1206A ALA* 3.0 19.2 + - - +
1241A LEU* 4.4 18.8 - - + +
1244A LEU* 4.1 25.8 - - + +
1245A MET* 3.6 32.2 - - + +
1248A CYS* 4.8 0.2 - - - -
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Residues in contact with TRP1203 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1199A GLY 3.2 9.1 + - - +
1200A VAL 3.3 11.4 - - - +
1202A LEU* 1.3 80.3 - - - +
1204A GLU* 1.3 61.3 + - + +
1206A ALA* 3.2 2.9 + - - +
1207A THR* 2.9 55.1 + - + +
1210A GLU* 3.2 35.2 - - + -
1211A GLN 3.5 19.3 - - - -
1212A PRO* 3.5 26.2 - - + -
1213A TYR 4.6 1.3 - - - -
1231A LEU* 3.7 31.1 - - + +
1232A ASP 3.3 22.4 + - - +
1234A PRO* 3.7 21.2 - - + +
1245A MET* 3.5 14.3 - - - +
1249A TRP* 4.1 10.5 - + + -
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Residues in contact with GLU1204 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1088A LYS* 4.0 15.9 + - - +
1091A LEU* 3.9 2.6 - - + +
1138A ALA* 3.2 38.2 + - + +
1139A ARG 4.9 0.5 + - - -
1178A TRP* 3.1 44.5 + - + +
1200A VAL 3.0 12.2 + - - +
1201A VAL* 3.4 17.5 - - - +
1202A LEU 3.2 0.2 - - - -
1203A TRP* 1.3 86.2 - - + +
1205A ILE* 1.3 56.6 - - - +
1207A THR* 3.1 6.7 + - - -
1208A LEU* 2.9 8.3 + - - -
1209A ALA* 2.6 34.7 + - - +
1210A GLU 4.3 9.3 - - - +
1212A PRO* 4.7 1.8 - - + -
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Residues in contact with ILE1205 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1087A LEU* 4.7 7.0 - - + -
1091A LEU* 3.9 23.3 - - + -
1107A PRO* 5.0 2.4 - - + +
1112A MET* 3.4 41.7 - - + +
1115A MET* 4.2 33.9 - - + -
1116A ALA* 5.0 1.8 - - - +
1119A ILE* 4.5 9.9 - - + -
1138A ALA* 6.1 0.2 - - + -
1201A VAL* 2.9 32.2 + - + +
1202A LEU* 3.1 20.2 + - + +
1204A GLU* 1.3 76.7 - - + +
1206A ALA* 1.3 61.0 + - - +
1207A THR 3.4 0.5 + - - -
1208A LEU* 3.4 20.3 + - - +
1241A LEU* 5.7 0.7 - - + -
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Residues in contact with ALA1206 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1112A MET* 3.4 17.9 - - + +
1202A LEU 3.0 15.9 + - - +
1203A TRP 3.2 4.5 + - - +
1205A ILE* 1.3 75.8 - - - +
1207A THR* 1.3 63.1 + - - +
1208A LEU* 3.4 1.5 - - - +
1234A PRO* 4.0 16.2 - - + +
1235A ASP 5.0 4.2 - - - +
1237A CYS* 3.8 32.2 - - + +
1238A PRO* 5.3 0.7 - - + -
1241A LEU* 4.9 0.7 - - + -
1245A MET* 4.1 3.6 - - + -
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Residues in contact with THR1207 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1095A ARG* 4.9 2.4 - - - -
1203A TRP* 2.9 50.0 + - + +
1204A GLU* 3.1 11.1 + - - -
1206A ALA* 1.3 80.0 - - - +
1208A LEU* 1.3 72.4 + - - +
1209A ALA 3.2 0.2 + - - -
1210A GLU* 3.3 51.7 + - - +
1234A 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