Contacts of the helix formed by residues 150 - 161 (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 PRO 150 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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148C ASP 4.5 2.0 - - - +
149C THR* 1.3 86.8 - - - +
151C SER* 1.3 60.9 + - - +
152C SER* 3.1 11.9 - - - +
153C VAL* 3.0 45.3 + - + +
154C ILE* 3.7 4.7 + - - +
304C ARG* 5.1 2.2 - - - +
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Residues in contact with SER 151 (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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149C THR 3.5 3.7 + - - -
150C PRO* 1.3 70.0 - - - +
152C SER* 1.3 59.0 + - - +
154C ILE* 3.3 12.9 + - - +
155C TYR* 2.9 28.9 + - - +
304C ARG* 4.4 13.1 + - - +
305C LEU* 4.0 22.9 - - - +
308C PHE* 3.3 38.0 - - - +
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Residues in contact with SER 152 (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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150C PRO* 4.0 13.0 - - - +
151C SER* 1.3 79.6 + - - +
153C VAL* 1.3 58.5 + - - +
155C TYR* 3.8 1.7 - - - +
156C HIS* 2.9 30.7 + - - +
308C PHE* 3.7 26.2 - - - -
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Residues in contact with VAL 153 (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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62C TRP* 4.4 14.6 - - + -
66C ASN* 4.8 11.0 - - + +
67C ILE* 4.3 24.9 - - + -
149C THR* 5.4 5.4 - - - -
150C PRO* 3.0 34.8 + - + +
152C SER* 1.3 79.2 - - - +
154C ILE* 1.3 60.9 + - + +
156C HIS* 3.3 5.9 + - - +
157C LEU* 2.9 27.5 + - - +
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Residues in contact with ILE 154 (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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67C ILE* 6.4 2.5 - - + -
143C VAL* 6.4 0.4 - - + -
145C VAL* 5.2 15.3 - - + -
149C THR* 3.4 27.8 - - - +
150C PRO 4.0 5.2 - - - +
151C SER* 3.3 15.8 + - - +
153C VAL* 1.3 78.3 - - + +
155C TYR* 1.3 59.0 + - - +
157C LEU* 3.2 14.5 + - + +
158C MET* 2.9 37.3 + - + +
285C ILE* 4.1 28.3 - - + -
301C LEU* 4.3 24.9 - - + -
305C LEU* 4.5 16.2 - - + -
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Residues in contact with TYR 155 (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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151C SER 2.9 17.9 + - - +
152C SER 3.8 2.9 - - - +
154C ILE* 1.3 78.5 - - - +
156C HIS* 1.3 58.8 + - - +
158C MET* 3.3 13.6 + - + +
159C THR* 3.0 51.1 + - + +
166C VAL* 3.4 37.1 - - + +
167C PRO* 4.7 2.3 - - + +
204C TRP* 4.3 15.3 - + - -
305C LEU* 5.1 1.7 - - + +
308C PHE* 3.7 26.0 - + + -
309C ILE* 4.1 27.4 - - + -
312C GLN* 4.1 26.8 - - + +
323C ILE* 4.9 1.0 - - - +
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Residues in contact with HIS 156 (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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62C TRP* 3.5 38.7 - + - -
152C SER 2.9 18.8 + - - +
153C VAL* 3.7 5.4 - - - +
155C TYR* 1.3 78.2 - - - +
157C LEU* 1.3 61.7 + - - +
159C THR* 3.7 4.7 - - - -
160C GLN* 3.1 50.2 + - + +
161C HIS* 4.5 8.5 - + - -
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Residues in contact with LEU 157 (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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62C TRP* 4.3 14.6 - - + -
63C ILE* 4.4 17.5 - - + -
67C ILE* 4.3 19.5 - - + -
143C VAL* 4.4 21.8 - - + -
153C VAL 2.9 13.7 + - - +
154C ILE* 3.5 19.7 - - + +
155C TYR 3.2 0.2 - - - -
156C HIS* 1.3 82.2 + - - +
158C MET* 1.3 65.2 + - + +
161C HIS* 3.1 45.4 + - + +
162C TRP* 3.2 33.9 + - + +
285C ILE* 6.3 0.7 - - + -
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Residues in contact with MET 158 (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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154C ILE* 2.9 31.3 + - + +
155C TYR* 3.9 12.1 - - + +
157C LEU* 1.3 79.2 - - + +
159C THR* 1.3 62.0 + - - +
162C TRP* 3.9 29.4 - - + +
163C GLY 3.7 3.8 + - - -
164C LEU* 3.2 33.3 + - + +
204C TRP* 3.7 36.8 - - + -
239C ILE* 4.6 18.6 - - + -
285C ILE* 4.4 17.7 - - + -
305C LEU* 4.8 9.2 - - + -
309C ILE* 4.3 13.9 - - + -
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Residues in contact with THR 159 (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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155C TYR* 3.0 52.5 + - + +
156C HIS* 3.4 7.6 + - - -
158C MET* 1.3 80.5 - - + +
160C GLN* 1.3 91.1 + - - +
163C GLY* 3.5 2.9 - - - -
164C LEU 3.4 32.7 + - - +
165C ASP 5.4 0.7 - - - -
166C VAL* 4.8 9.9 - - + -
204C TRP* 5.2 4.3 - - + -
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Residues in contact with GLN 160 (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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156C HIS* 3.1 41.1 + - + +
159C THR* 1.3 108.8 + - - +
161C HIS* 1.3 83.9 + - + +
163C GLY* 3.5 7.1 + - - -
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Residues in contact with HIS 161 (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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58C SER* 5.5 7.7 + - - -
59C LEU* 3.7 35.6 - - + +
62C TRP* 3.2 63.0 - + + +
63C ILE* 5.1 0.2 - - + -
141C LYS* 5.3 1.6 + - - -
156C HIS* 4.5 8.7 - + - -
157C LEU* 3.1 19.5 + - + +
160C GLN* 1.3 92.7 - - + +
162C TRP* 1.3 67.7 + - - +
163C GLY* 3.4 0.7 + - - -
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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