Contacts of the strand formed by residues 143 - 153 (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 MET 143 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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141C ALA* 4.1 20.0 + - - +
142C SER* 1.3 94.7 + - - +
144C VAL* 1.3 60.1 + - - +
145C THR 4.2 1.1 + - - -
190C THR* 3.4 33.7 - - + +
191C VAL* 3.5 17.5 - - - +
192C PRO* 4.2 11.7 - - + -
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Residues in contact with VAL 144 (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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134C PRO* 3.9 16.6 - - + -
140C ALA* 5.7 10.5 - - + -
141C ALA 5.8 0.2 - - - +
142C SER 4.3 0.2 - - - -
143C MET* 1.3 73.5 - - - +
145C THR* 1.3 62.6 + - - +
146C LEU* 3.8 23.9 + - + -
189C VAL 3.7 0.5 - - - +
190C THR* 3.6 1.4 - - - -
191C VAL* 2.8 58.2 + - + +
192C PRO 4.0 1.3 - - - +
193C SER* 4.0 19.3 - - - -
196C TRP* 3.9 23.1 - - + +
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Residues in contact with THR 145 (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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134C PRO* 3.8 7.8 - - - +
143C MET 4.2 1.4 + - - -
144C VAL* 1.3 72.2 - - - +
146C LEU* 1.3 79.3 + - - +
188C SER* 4.4 7.6 - - - -
189C VAL 3.5 7.4 - - - +
190C THR* 3.0 21.3 + - - +
113D THR* 5.4 7.3 + - - +
115D SER* 3.6 21.8 + - - +
117D PHE* 3.3 29.1 - - + -
134D PHE* 3.9 14.6 - - + -
136D ASN* 4.6 8.9 + - - +
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Residues in contact with LEU 146 (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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132C LEU 3.7 7.0 - - - +
134C PRO* 3.7 24.7 - - + -
144C VAL* 3.8 17.5 - - + +
145C THR* 1.3 91.2 - - - +
147C GLY* 1.3 60.7 + - - +
188C SER* 3.5 3.5 - - - -
189C VAL* 2.8 40.1 + - + +
191C VAL* 4.6 5.2 - - + -
196C TRP* 3.9 31.9 - - + +
201C VAL* 3.6 35.7 - - + -
218C ILE* 4.2 16.4 - - + -
117D PHE* 4.2 2.9 - - - -
134D PHE* 3.6 2.1 - - - -
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Residues in contact with GLY 147 (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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132C LEU* 2.9 38.0 + - - -
146C LEU* 1.3 81.4 - - - +
148C CYS* 1.3 61.3 + - - -
162C TRP* 3.6 5.6 - - - -
187C SER 3.2 12.6 - - - -
218C ILE* 3.0 15.9 - - - +
134D PHE* 4.1 6.5 - - - -
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Residues in contact with CYS 148 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129C VAL* 4.1 10.8 - - + -
130C TYR 3.5 11.9 - - - -
132C LEU* 3.8 5.2 - - - +
147C GLY* 1.3 78.2 - - - -
149C LEU* 1.3 61.2 + - - +
150C VAL* 3.7 8.5 + - + +
160C VAL* 5.2 1.1 - - + -
162C TRP* 3.7 11.2 - - + -
186C SER* 3.2 5.5 - - - -
187C SER* 3.0 32.3 + - - +
203C CYS* 2.1 47.1 - - + -
216C LYS* 4.2 4.7 - - - -
218C ILE* 4.2 9.0 - - - -
134D PHE* 5.0 0.2 - - - -
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Residues in contact with LEU 149 (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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128C SER 3.4 2.3 - - - +
129C VAL* 3.3 4.9 - - - +
130C TYR* 2.7 58.0 + - + +
132C LEU* 4.0 13.8 - - + +
148C CYS* 1.3 71.0 - - - +
150C VAL* 1.3 61.2 + - - +
151C LYS* 4.0 24.7 - - + +
184C THR* 4.1 12.6 - - + -
185C LEU 4.0 6.3 - - - +
186C SER* 3.9 20.2 - - - -
123D GLN* 4.6 1.1 - - - +
130D SER* 3.7 32.8 - - - +
132D VAL* 3.9 18.2 - - + -
177D THR* 4.4 9.0 - - + +
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Residues in contact with VAL 150 (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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127C PRO* 3.7 24.7 - - + -
128C SER 3.6 3.6 - - - -
129C VAL* 4.5 4.7 - - + -
148C CYS* 4.2 8.1 - - + +
149C LEU* 1.3 74.8 - - - +
151C LYS* 1.3 61.6 + - - +
153C TYR* 3.7 18.3 - - + -
158C VAL* 4.3 9.4 - - + -
160C VAL* 4.5 4.9 - - + -
184C THR* 3.4 1.7 - - - -
185C LEU* 2.7 52.7 + - + +
205C VAL* 3.9 36.3 - - + -
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Residues in contact with LYS 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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128C SER* 2.8 38.7 + - - +
130C TYR* 3.8 31.9 - - + +
149C LEU* 4.0 14.5 - - + +
150C VAL* 1.3 77.1 - - - +
152C GLY* 1.3 67.4 + - - +
153C TYR* 3.6 2.9 + - - -
183C TYR 3.9 0.4 - - - -
184C THR* 3.2 28.5 + - + +
123D GLN* 4.1 9.4 - - + +
130D SER* 3.2 19.5 + - - -
177D THR* 5.5 1.4 - - - +
179D THR* 3.6 17.9 + - - +
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Residues in contact with GLY 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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125C THR* 3.4 12.6 - - - +
126C PRO 3.1 15.6 - - - +
151C LYS* 1.3 78.3 - - - +
153C TYR* 1.3 58.0 + - - -
182C LEU* 3.6 34.5 - - - +
183C TYR 2.9 11.5 + - - -
184C THR* 3.4 4.0 + - - -
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Residues in contact with TYR 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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125C THR 3.1 13.7 - - - +
127C PRO* 3.7 22.0 - - + -
150C VAL* 3.7 37.7 - - + -
152C GLY* 1.3 76.0 - - - +
154C PHE* 1.3 63.7 + - - +
155C PRO 3.6 11.0 - - - -
156C GLU* 3.4 18.6 + - - -
158C VAL* 3.5 27.1 - - + +
176C ALA* 3.1 25.8 - - - +
182C LEU* 3.8 2.9 - - - -
183C TYR* 2.9 68.0 + + + +
184C THR 4.3 0.7 - - - -
185C LEU* 3.6 4.5 - - - +
207C HIS* 3.5 17.9 - + - +
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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