Contacts of the strand formed by residues 186 - 195 (chain C) in PDB entry 3UAJ
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 TYR 186 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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90C THR* 5.7 2.1 - - - +
120C ILE* 3.7 24.1 - - - +
154C ASP 3.1 23.2 + - - -
155C TYR* 2.8 52.7 + - + +
156C PHE* 3.6 26.7 - + - -
157C PRO* 4.3 1.1 - - + -
158C GLU* 3.8 42.7 - - + +
178C ALA* 4.0 14.1 - - + -
179C VAL 3.5 1.8 - - - -
180C LEU* 3.7 39.6 - - + +
181C GLN* 3.8 1.1 - - - -
185C LEU* 1.3 72.4 - - - +
187C SER* 1.3 59.8 + - - +
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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
----------------------------------------------------------
151C LEU* 5.1 5.5 - - - +
152C VAL 3.5 4.3 + - - -
153C LYS* 4.0 15.3 - - - +
155C TYR* 4.5 0.2 - - - -
177C PRO 4.5 0.7 - - - +
178C ALA* 3.5 3.3 - - - -
179C VAL* 3.0 46.4 + - - +
181C GLN* 3.7 27.6 + - - +
186C TYR* 1.3 72.8 - - - +
188C LEU* 1.3 62.4 + - - +
161D GLN* 4.8 1.3 - - - -
179D THR* 5.0 14.4 + - - +
181D THR* 5.8 0.9 - - - +
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Residues in contact with LEU 188 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151C LEU* 3.6 6.3 - - - +
152C VAL* 2.7 54.5 + - + +
155C TYR* 3.4 24.2 - - - +
158C GLU* 4.8 2.0 - - - +
160C VAL* 3.8 11.7 - - + +
162C VAL* 3.9 21.5 - - + -
175C THR* 3.9 26.7 - - + -
176C PHE 3.4 20.4 - - - +
177C PRO* 4.7 2.2 - - + -
178C ALA* 3.7 15.7 - - + +
187C SER* 1.3 72.9 + - - +
189C SER* 1.3 71.6 + - - +
190C SER 4.7 0.4 - - - +
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Residues in contact with SER 189 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134C LEU* 4.8 8.7 - - - -
150C CYS 3.5 8.7 - - - -
151C LEU* 4.7 13.5 - - - -
175C THR* 3.9 0.3 - - - -
176C PHE* 3.0 37.3 + - - +
188C LEU* 1.3 80.7 - - - +
190C SER* 1.3 60.1 + - - +
191C VAL* 4.9 4.5 - - - -
177D SER* 3.1 28.5 + - - -
179D THR* 5.2 5.5 + - - -
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Residues in contact with SER 190 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149C GLY* 3.2 3.3 - - - -
150C CYS* 3.1 30.9 + - - -
152C VAL* 5.9 0.2 - - - -
162C VAL* 3.8 23.9 - - - +
164C TRP* 3.2 26.5 + - - -
173C VAL* 4.0 3.5 - - - +
174C HIS 3.4 4.3 - - - -
175C THR* 2.9 29.5 + - - -
188C LEU* 4.7 2.0 - - - +
189C SER* 1.3 73.1 - - - +
191C VAL* 1.3 61.7 + - - +
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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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134C LEU* 4.7 10.5 - - + -
147C ALA* 4.1 3.6 - - + -
148C LEU 3.4 26.5 - - - +
149C GLY* 4.0 5.2 - - - +
164C TRP* 5.0 0.9 - - - -
172C GLY 3.4 3.3 - - - +
173C VAL* 4.6 0.4 - - - -
174C HIS* 2.8 39.7 + - + +
176C PHE* 3.9 13.9 - - + -
189C SER* 4.9 3.4 - - - -
190C SER* 1.3 79.4 - - - +
192C VAL* 1.3 61.8 + - - +
193C THR* 5.7 0.2 - - - -
119D PHE* 4.2 9.0 - - + -
136D LEU* 3.9 46.0 - - + -
177D SER* 5.6 1.8 - - - -
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Residues in contact with VAL 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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146C ALA 4.0 0.2 - - - +
147C ALA* 3.5 4.4 - - - +
148C LEU* 2.9 57.5 + - + +
164C TRP* 4.1 15.7 - - + -
169C LEU* 3.8 32.8 - - + -
171C SER 3.8 8.3 - - - +
172C GLY 3.4 18.2 - - - +
173C VAL* 3.8 15.5 - - + -
190C SER 4.4 0.2 + - - -
191C VAL* 1.3 74.8 - - - +
193C THR* 1.3 69.3 + - - +
194C VAL* 3.9 8.6 + - + -
204C TYR* 5.1 0.2 - - + -
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Residues in contact with THR 193 (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* 4.0 27.4 - - + +
146C ALA 4.0 7.4 - - - +
147C ALA* 4.7 7.8 - - + +
171C SER 4.3 7.4 - - - +
172C GLY* 3.4 16.9 + - - -
174C HIS* 5.7 0.2 - - - -
191C VAL* 5.7 0.5 - - - +
192C VAL* 1.3 76.9 - - - +
194C VAL* 1.3 66.4 + - - +
117D PHE* 6.1 4.7 - - + -
136D LEU* 5.5 0.5 - - - +
138D ASN* 3.0 33.3 + - - +
139D ASN* 6.0 0.2 - - - -
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Residues in contact with VAL 194 (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* 3.5 5.7 - - - -
146C ALA* 2.8 38.0 + - - +
148C LEU* 3.8 28.5 - - + -
169C LEU* 4.5 10.5 - - + -
171C SER 5.4 0.4 - - - +
192C VAL* 4.3 15.7 - - + +
193C THR* 1.3 78.4 - - - +
195C PRO* 1.4 76.3 - - + +
199C LEU* 4.8 3.6 - - + -
204C TYR* 3.5 41.7 - - + +
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Residues in contact with PRO 195 (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 GLY 3.8 9.2 - - - +
145C THR* 3.9 13.0 - - + -
146C ALA 4.4 0.2 - - - -
194C VAL* 1.4 91.2 - - + +
196C SER* 1.4 64.3 + - - +
197C SER* 4.0 12.3 - - - +
198C SER* 3.3 36.7 + - - +
199C LEU* 3.8 8.0 + - - +
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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