Contacts of the strand formed by residues 182 - 192 (chain C) in PDB entry 4KJQ
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 LEU 182 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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125C THR* 3.8 29.6 - - + +
152C GLY* 3.6 38.4 - - - +
153C TYR 3.8 7.0 - - - +
154C PHE* 4.4 1.6 - - + -
177C VAL 3.6 0.7 - - - +
178C LEU* 3.2 8.5 - - - +
179C GLN* 2.7 40.0 + - - +
180C ALA 4.1 7.2 - - - +
181C ALA* 1.3 93.3 - - - +
183C TYR* 1.3 59.7 + - - +
184C THR* 5.3 1.1 + - - +
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Residues in contact with TYR 183 (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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118C THR* 5.6 5.2 - - + +
152C GLY 2.9 20.1 + - - -
153C TYR* 2.9 47.5 + + + +
154C PHE* 3.6 39.2 - + - -
155C PRO* 4.3 0.9 - - + -
156C GLU* 3.8 40.5 - - + +
176C ALA* 3.9 15.0 - - + -
177C VAL 3.2 14.6 - - - -
178C LEU* 3.5 32.3 - - + +
182C LEU* 1.3 72.7 - - - +
184C THR* 1.3 62.3 + - - +
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Residues in contact with THR 184 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149C LEU* 4.1 17.5 - - + -
150C VAL 3.4 11.4 - - - +
151C LYS* 3.2 36.8 + - + +
152C GLY* 3.4 3.8 + - - -
153C TYR* 4.7 0.2 - - - -
175C PRO 4.3 0.9 - - - +
176C ALA* 3.2 2.5 - - - -
177C VAL* 2.8 47.1 + - + +
182C LEU* 4.2 0.9 + - - +
183C TYR* 1.3 76.5 + - - +
185C LEU* 1.3 66.6 + - - +
159D LEU* 6.2 1.1 - - - -
177D THR* 6.0 4.5 - - + +
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Residues in contact with LEU 185 (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 LEU* 3.9 2.2 - - - +
150C VAL* 2.7 61.1 + - + +
153C TYR* 3.6 14.3 - - - +
156C GLU* 5.4 1.6 - - - +
158C VAL* 3.6 24.7 - - + +
160C VAL* 4.1 16.4 - - + -
173C THR* 4.3 10.5 - - + -
174C PHE* 3.4 24.7 - - - +
175C PRO* 4.3 2.2 - - + +
176C ALA* 3.7 12.3 - - + +
184C THR* 1.3 80.2 - - - +
186C SER* 1.3 69.3 + - - +
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Residues in contact with SER 186 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132C LEU* 5.0 0.7 - - - -
148C CYS 3.2 11.4 - - - -
149C LEU* 3.9 18.0 - - - +
173C THR* 3.8 2.4 - - - +
174C PHE* 3.1 33.3 + - - +
185C LEU* 1.3 79.3 - - - +
187C SER* 1.3 60.8 + - - +
132D VAL* 4.5 5.0 - - - +
134D PHE* 3.8 23.1 - - - -
175D SER* 3.7 20.8 + - - -
177D THR* 4.9 2.4 + - - -
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Residues in contact with SER 187 (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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147C GLY* 3.2 0.9 - - - -
148C CYS* 3.0 31.9 + - - -
160C VAL* 3.8 26.2 - - - +
162C TRP* 3.2 30.1 + - - -
171C VAL* 3.9 1.4 - - - +
172C HIS 3.0 8.1 + - - -
173C THR* 2.7 26.3 + - - -
186C SER* 1.3 76.7 - - - +
188C SER* 1.3 56.1 + - - +
134D PHE* 4.2 2.7 - - - -
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Residues in contact with SER 188 (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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145C THR* 4.4 2.4 - - - +
146C LEU 3.5 6.3 - - - -
170C GLY 5.0 1.4 + - - -
171C VAL* 3.4 5.5 - - - +
172C HIS* 2.8 47.6 + - - +
174C PHE* 4.1 6.7 - - - -
187C SER* 1.3 73.7 - - - +
189C VAL* 1.3 61.5 + - - +
190C THR* 5.3 0.3 + - - -
134D PHE* 3.4 34.8 - - - -
136D ASN* 3.0 25.8 + - - -
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Residues in contact with VAL 189 (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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144C VAL 3.7 1.0 - - - +
145C THR* 3.5 1.9 - - - -
146C LEU* 2.8 47.3 + - + +
162C TRP* 3.5 43.3 - - + +
167C LEU* 4.2 22.4 - - + -
169C ALA 4.5 1.3 - - - +
170C GLY 3.4 4.9 - - - +
171C VAL* 3.7 22.2 - - + -
187C SER 4.0 0.2 + - - -
188C SER* 1.3 75.9 - - - +
190C THR* 1.3 72.0 + - - +
191C VAL* 4.0 2.4 + - + +
201C VAL* 4.4 9.0 - - + -
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Residues in contact with THR 190 (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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143C MET* 3.4 45.3 - - + +
144C VAL 3.6 7.9 - - - +
145C THR* 3.0 21.0 + - - +
167C LEU* 5.8 0.3 - - - +
169C ALA 4.4 6.9 - - - +
170C GLY* 3.0 21.3 + - - +
188C SER* 5.3 0.5 + - - -
189C VAL* 1.3 76.5 - - - +
191C VAL* 1.3 68.9 + - - +
192C PRO* 4.7 0.5 - - - +
136D ASN* 4.8 7.1 + - - +
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Residues in contact with VAL 191 (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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143C MET* 3.5 7.6 - - - -
144C VAL* 2.8 50.9 + - + +
146C LEU* 4.6 10.8 - - + -
167C LEU* 4.0 35.2 - - + -
189C VAL* 4.5 7.4 - - + +
190C THR* 1.3 82.1 - - - +
192C PRO* 1.3 78.0 - - + +
195C SER* 4.3 7.9 - - - +
196C TRP* 4.1 17.9 - - + -
201C VAL* 4.9 7.4 - - + -
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Residues in contact with PRO 192 (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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142C SER 3.9 4.9 - - - +
143C MET* 4.2 14.8 - - + -
144C VAL* 4.0 1.9 - - - +
167C LEU* 6.4 0.4 - - + -
190C THR 4.7 0.9 - - - +
191C VAL* 1.3 90.8 - - + +
193C SER* 1.3 61.3 + - - +
194C SER* 4.0 12.6 - - - +
195C SER* 2.9 36.5 + - - +
196C TRP 3.7 3.8 + - - -
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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