Contacts of the helix formed by residues 1143 - 1165 (chain C) in PDB entry 6PUO
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 ARG1143 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1139C GLN 4.0 6.3 + - - +
1140C GLN* 3.1 50.0 + - - +
1141C LYS 3.2 4.0 - - - +
1142C GLN* 1.3 80.9 - - - +
1144C PRO* 1.3 74.1 - - + +
1145C GLU* 4.4 10.1 - - + +
1146C GLN* 3.4 27.0 + - + +
1147C LYS* 3.1 20.0 + - - +
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Residues in contact with PRO1144 (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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1145B GLU* 5.9 8.3 - - + -
1148B ILE* 5.3 11.3 - - + +
1142C GLN 4.0 4.3 - - - +
1143C ARG* 1.3 85.1 - - + +
1145C GLU* 1.3 60.7 + - + +
1147C LYS* 3.1 10.7 + - + +
1148C ILE* 2.9 39.4 + - + +
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Residues in contact with GLU1145 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1143C ARG* 3.3 8.5 - - + +
1144C PRO* 1.3 79.9 - - + +
1146C GLN* 1.3 58.2 + - - +
1148C ILE* 3.3 11.8 + - - +
1149C GLU* 3.0 27.3 + - - +
1144D PRO* 5.9 9.0 - - + -
1147D LYS* 5.6 1.2 - - - +
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Residues in contact with GLN1146 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1140C GLN 4.4 9.2 - - - +
1141C LYS* 3.9 24.5 - - - +
1143C ARG* 3.4 33.9 + - + +
1144C PRO 3.3 0.4 - - - -
1145C GLU* 1.3 78.9 - - - +
1147C LYS* 1.3 58.7 + - - +
1149C GLU* 3.3 9.2 + - + +
1150C ASP* 2.9 37.3 + - - +
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Residues in contact with LYS1147 (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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1145B GLU 5.6 0.9 - - - +
1148B ILE* 4.2 17.3 - - + +
1149B GLU* 4.7 19.5 - - + +
1152B SER* 4.8 8.5 + - - +
1141C LYS* 4.6 10.5 + - - +
1142C GLN* 4.0 29.2 + - - +
1143C ARG 3.1 14.9 + - - +
1144C PRO* 3.1 12.3 + - + +
1146C GLN* 1.3 77.0 + - - +
1148C ILE* 1.3 59.0 + - - +
1150C ASP* 3.4 5.4 + - + +
1151C ILE* 2.9 47.3 + - + +
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Residues in contact with ILE1148 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1148B ILE* 4.4 29.6 - - + -
1144C PRO* 2.9 24.4 + - + +
1145C GLU* 3.7 8.5 - - - +
1147C LYS* 1.3 75.9 - - - +
1149C GLU* 1.3 58.4 + - - +
1151C ILE* 3.3 8.6 + - + +
1152C SER* 2.9 28.6 + - - -
1144D PRO* 5.3 11.9 - - + +
1147D LYS* 4.2 17.5 - - + -
1148D ILE* 4.5 26.7 - - + -
1151D ILE* 3.9 21.2 - - + +
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Residues in contact with GLU1149 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1145C GLU 3.0 16.7 + - - +
1146C GLN* 3.6 13.0 - - + +
1147C LYS 3.3 0.2 - - - -
1148C ILE* 1.3 77.0 - - - +
1150C ASP* 1.3 57.1 + - - +
1152C SER* 3.3 6.3 + - - -
1153C ASN* 2.9 40.9 + - - +
1147D LYS* 4.7 13.2 - - + +
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Residues in contact with ASP1150 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1146C GLN* 2.9 29.3 + - - +
1147C LYS* 3.8 6.3 - - - +
1149C GLU* 1.3 75.9 - - - +
1151C ILE* 1.3 58.3 + - + +
1153C ASN* 3.3 9.4 + - - +
1154C LYS* 3.0 36.4 + - - +
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Residues in contact with ILE1151 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1148B ILE* 3.9 26.7 - - + +
1151B ILE* 5.1 13.7 - - + -
1152B SER* 3.6 39.5 - - - +
1155B VAL* 5.4 11.3 - - + +
1147C LYS* 2.9 29.5 + - + +
1148C ILE* 3.3 8.9 + - + +
1150C ASP* 1.3 75.9 - - + +
1152C SER* 1.3 63.5 + - - +
1154C LYS* 3.4 15.9 + - - +
1155C VAL* 3.4 15.2 + - + +
1151D ILE* 5.1 15.0 - - + -
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Residues in contact with SER1152 (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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1148C ILE 2.9 16.1 + - - -
1149C GLU* 3.7 7.4 - - - -
1150C ASP 3.3 0.2 - - - -
1151C ILE* 1.3 74.4 - - - +
1153C ASN* 1.3 69.9 + - - +
1155C VAL* 3.3 20.6 - - - +
1156C ASP* 3.4 11.7 + - - +
1147D LYS* 4.8 11.2 + - - +
1151D ILE* 3.7 29.3 - - - +
1154D LYS* 4.5 9.2 + - - -
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Residues in contact with ASN1153 (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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1149C GLU* 2.9 29.8 + - - +
1150C ASP* 3.3 8.1 + - - +
1152C SER* 1.3 80.0 + - - +
1154C LYS* 1.3 63.0 + - - +
1155C VAL 3.5 0.3 + - - -
1156C ASP* 3.6 21.7 + - - +
1157C ALA* 4.1 4.7 + - - +
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Residues in contact with LYS1154 (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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1152B SER* 4.4 12.3 + - - -
1155B VAL* 3.7 19.2 - - + +
1156B ASP* 2.4 42.2 + - - +
1159B VAL* 4.0 20.8 - - + +
1150C ASP* 3.0 20.9 + - - +
1151C ILE* 3.8 8.1 - - - +
1152C SER 3.2 0.4 - - - -
1153C ASN* 1.3 80.1 - - - +
1155C VAL* 1.3 62.2 + - - +
1156C ASP 3.3 0.9 + - - -
1157C ALA* 3.5 14.5 + - + +
1158C MET* 3.7 11.0 - - - +
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Residues in contact with VAL1155 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1155B VAL* 5.4 9.2 - - + -
1151C ILE* 3.4 11.0 + - + +
1152C SER* 3.3 18.4 - - - +
1154C LYS* 1.3 77.2 - - - +
1156C ASP* 1.3 61.3 + - - +
1157C ALA 3.3 0.2 - - - -
1158C MET* 3.2 13.7 + - + +
1159C VAL* 2.9 27.9 + - + +
1151D ILE* 5.4 12.3 - - + +
1154D LYS* 3.7 26.9 - - + +
1155D VAL* 5.4 11.7 - - + -
1158D MET* 4.0 21.1 - - - -
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Residues in contact with ASP1156 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1152C SER* 3.4 14.5 + - - +
1153C ASN* 3.8 14.9 - - - +
1154C LYS 3.2 0.8 - - - -
1155C VAL* 1.3 75.5 - - - +
1157C ALA* 1.3 60.4 + - - +
1159C VAL* 3.2 8.5 + - - +
1160C ASP* 2.9 29.8 + - - +
1154D LYS* 2.4 38.6 + - - +
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Residues in contact with ALA1157 (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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1159B VAL* 6.2 2.2 - - + -
1153C ASN 4.1 3.9 + - - +
1154C LYS* 3.5 12.4 + - + +
1155C VAL 3.3 0.6 - - - -
1156C ASP* 1.3 79.2 - - - +
1158C MET* 1.3 57.4 + - + +
1160C ASP* 3.4 5.4 + - - +
1161C LEU* 2.9 35.3 + - + +
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Residues in contact with MET1158 (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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1162A LEU* 5.6 0.9 - - + -
1155B VAL* 4.0 21.1 - - - -
1158B MET* 3.8 44.0 - - + +
1159B VAL* 3.7 25.6 - - + -
1162B LEU* 4.0 26.9 - - + +
1154C LYS 3.7 14.6 - - - +
1155C VAL* 3.2 12.7 + - - +
1157C ALA* 1.3 74.6 - - + +
1159C VAL* 1.3 60.9 + - - +
1161C LEU* 3.9 1.1 - - - +
1162C LEU* 2.9 32.4 + - - +
1158D MET* 3.8 21.8 - - + +
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Residues in contact with VAL1159 (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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1155C VAL* 2.9 18.7 + - + +
1156C ASP* 3.2 11.4 + - - +
1158C MET* 1.3 77.0 - - - +
1160C ASP* 1.3 58.1 + - - +
1162C LEU* 3.8 2.1 - - - +
1163C ASP* 2.9 32.3 + - + +
1154D LYS* 4.0 28.3 - - + +
1157D ALA* 6.2 2.0 - - + -
1158D MET* 3.7 28.7 - - + -
1161D LEU* 5.6 0.5 - - - +
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Residues in contact with ASP1160 (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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1156C ASP 2.9 16.1 + - - +
1157C ALA* 3.9 6.1 - - - +
1159C VAL* 1.3 79.6 - - + +
1161C LEU* 1.3 58.2 + - - +
1163C ASP* 4.0 4.4 - - - +
1164C LEU* 2.9 33.8 + - - +
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Residues in contact with LEU1161 (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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1159B VAL 5.6 0.4 - - - +
1162B LEU* 3.7 53.2 - - + +
1163B ASP* 4.5 11.4 - - + +
1157C ALA* 2.9 21.0 + - + +
1158C MET* 5.4 0.4 - - - -
1160C ASP* 1.3 77.2 - - - +
1162C LEU* 1.3 60.8 + - - +
1164C LEU* 4.4 3.0 - - - +
1165C ASP* 3.7 22.9 + - + +
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Residues in contact with LEU1162 (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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1158A MET* 5.6 0.9 - - + -
1162B LEU* 4.5 22.2 - - + +
1158C MET 2.9 18.3 + - - +
1159C VAL* 3.9 3.1 - - - +
1161C LEU* 1.3 77.6 - - - +
1163C ASP* 1.3 61.9 + - - +
1165C ASP* 4.3 8.7 + - - +
1158D MET* 4.0 33.4 - - + +
1161D LEU* 3.7 48.6 - - + +
1162D LEU* 4.5 21.5 - - + +
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Residues in contact with ASP1163 (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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1159C VAL* 2.9 22.6 + - + +
1160C ASP* 3.4 4.7 + - - +
1162C LEU* 1.3 79.4 - - - +
1164C LEU* 1.3 62.9 + - - +
1165C ASP 4.7 1.9 - - - -
1161D LEU* 4.6 12.1 - - + -
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Residues in contact with LEU1164 (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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422C GLY 5.6 2.4 - - - +
1160C ASP 2.9 17.6 + - - +
1161C LEU* 3.8 4.2 + - - +
1162C LEU 3.4 0.2 - - - -
1163C ASP* 1.3 78.3 - - - +
1165C ASP* 1.3 66.3 + - - +
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Residues in contact with ASP1165 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1161C LEU* 3.7 18.4 + - + +
1162C LEU* 4.3 6.7 + - - +
1163C ASP 3.5 3.3 - - - -
1164C LEU* 1.3 83.3 - - - +
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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