Contacts of the strand formed by residues 149 - 159 (chain C) in PDB entry 5I74
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 GLY 149 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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144C GLN* 3.0 37.1 + - - +
145C LEU* 3.7 5.6 - - - +
147C SER* 3.6 1.8 - - - -
148C GLY* 1.3 77.7 - - - +
150C ALA* 1.3 64.1 + - - +
201C LEU 4.0 3.6 - - - -
202C THR* 4.5 1.1 - - - -
203C LYS* 4.0 11.1 - - - +
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Residues in contact with ALA 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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140C PRO* 3.6 16.6 - - + -
144C GLN* 3.6 5.4 - - - +
145C LEU* 4.0 4.0 - - + -
149C GLY* 1.3 75.5 - - - +
151C SER* 1.3 65.7 + - - +
152C VAL* 6.0 0.2 - - - -
200C THR* 4.5 0.2 - - - +
201C LEU* 2.6 42.2 + - - +
202C THR 4.5 0.7 - - - +
203C LYS* 4.3 1.5 - - - +
206C TYR* 3.5 43.3 - - + -
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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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149B LEU* 5.3 1.6 - - - +
166B LEU* 4.8 14.0 - - - +
139C PRO 4.1 0.7 - - - -
140C PRO* 3.2 28.9 - - - +
144C GLN* 3.2 24.0 + - - +
150C ALA* 1.3 76.6 + - - +
152C VAL* 1.3 61.8 + - - +
153C VAL* 3.9 9.8 + - - +
198C THR* 4.8 6.3 - - - -
199C LEU 3.2 11.7 - - - -
200C THR* 3.5 24.8 + - - +
201C LEU* 5.9 0.2 - - - -
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Residues in contact with VAL 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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137C ILE* 3.7 9.4 - - + -
138C PHE 3.5 4.7 - - - +
140C PRO* 4.2 9.6 - - + -
150C ALA 6.0 0.2 - - - -
151C SER* 1.3 75.0 - - - +
153C VAL* 1.3 64.3 + - - +
168C TRP* 3.3 28.0 - - + -
198C THR* 4.6 0.5 - - - +
199C LEU* 2.9 36.7 + - + +
201C LEU* 6.1 1.1 - - + -
206C TYR* 4.5 2.2 - - + -
212C TYR* 3.8 42.4 - - + -
229C PHE* 3.6 31.6 - - + -
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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
----------------------------------------------------------
149B LEU* 3.9 29.6 - - + -
166B LEU* 5.4 4.9 - - + -
136C SER 4.4 0.2 - - - -
137C ILE* 3.1 12.0 - - - +
138C PHE* 2.9 41.5 + - + +
151C SER* 4.1 15.7 - - - +
152C VAL* 1.3 77.5 - - - +
154C CYS* 1.3 63.2 + - - +
155C PHE* 3.5 40.8 - - + -
168C TRP* 3.9 1.8 - - - -
196C SER* 5.6 0.2 - - - -
197C SER 4.0 6.5 - - - +
198C THR* 4.9 13.2 - - + +
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Residues in contact with CYS 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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135C VAL* 3.5 21.1 - - - -
136C SER 3.7 2.7 - - - -
153C VAL* 1.3 72.6 - - - +
155C PHE* 1.3 66.0 + - - +
156C LEU* 3.7 9.4 - - - +
166C VAL* 5.3 3.8 - - - -
168C TRP* 3.4 20.0 - - + -
196C SER* 3.7 0.2 - - - -
197C SER* 2.9 42.1 + - - +
214C CYS* 2.0 50.0 - - - -
215C GLU 4.9 1.8 - - - -
216C ALA* 6.3 0.7 - - - -
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Residues in contact with PHE 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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149B LEU* 4.4 13.5 - - + -
162B THR* 4.9 3.6 - - + -
163B LEU 4.9 2.7 - - - -
164B GLY* 5.0 2.5 - - - -
191B PHE* 3.4 31.2 - + - -
203B SER* 4.2 9.4 - - - -
204B SER 4.3 9.0 - - - -
205B SER* 3.6 27.6 - - - -
134C THR 3.2 1.9 - - - +
135C VAL* 2.9 10.4 - - - +
136C SER* 2.9 39.6 + - - +
138C PHE* 3.6 26.9 - + + -
153C VAL* 3.5 22.9 - - + -
154C CYS* 1.3 78.5 - - - +
156C LEU* 1.3 60.7 + - - +
157C ASN* 4.4 12.3 - - - +
195C MET 4.1 0.2 - - - -
196C SER* 3.6 18.2 - - - -
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Residues in contact with LEU 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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133C PRO* 4.7 3.1 - - + -
134C THR 3.5 4.9 - - - -
135C VAL* 4.3 9.9 - - + -
154C CYS* 3.7 19.3 - - - +
155C PHE* 1.3 78.3 - - - +
157C ASN* 1.3 64.0 + - - +
159C PHE* 3.8 9.6 - - + -
164C ILE* 3.6 30.7 - - + -
166C VAL* 3.8 19.5 - - + -
194C SER* 3.4 2.3 - - - -
195C MET* 2.9 67.9 + - + +
197C SER* 4.3 9.0 - - - +
216C ALA* 3.6 18.6 - - + -
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Residues in contact with ASN 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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162B THR* 4.1 26.3 + - - +
189B HIS* 4.5 12.1 - - - +
191B PHE* 4.0 16.5 - - - -
205B SER* 4.5 6.3 + - - -
207B THR* 4.7 6.6 + - - +
133C PRO* 3.4 1.7 - - - +
134C THR* 2.9 46.8 + - - +
136C SER* 5.5 3.2 + - - -
155C PHE* 4.4 10.5 - - - +
156C LEU* 1.3 84.5 + - - +
158C ASN* 1.3 81.8 + - - +
159C PHE* 3.7 1.8 - - - -
194C SER* 3.9 9.1 - - - +
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Residues in contact with ASN 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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189B HIS* 3.6 20.8 + - - -
207B THR* 5.6 1.6 + - - -
131C ALA* 3.6 8.5 - - + +
132C ALA 3.1 18.9 - - - +
134C THR* 5.4 4.2 + - - +
157C ASN* 1.3 88.9 - - - +
159C PHE* 1.3 57.7 + - - +
189C LYS* 5.7 1.2 - - - +
190C ASP* 3.2 26.0 + - - +
192C THR* 3.3 21.7 + - + +
193C TYR 3.4 8.3 + - - -
194C SER* 3.5 3.4 + - - -
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Residues in contact with PHE 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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131C ALA* 3.5 17.5 - - - +
133C PRO* 3.5 34.1 - - + -
156C LEU* 3.4 32.8 - - + -
157C ASN 4.0 2.7 - - - -
158C ASN* 1.3 75.3 - - - +
160C TYR* 1.3 63.2 + - - +
161C PRO 3.4 22.2 - - - -
162C LYS 4.0 5.2 - - - -
164C ILE* 3.7 18.2 - - + -
183C TRP* 4.6 2.7 - + - -
192C THR* 3.5 3.7 - - - -
193C TYR* 2.9 49.7 + - + +
194C SER* 4.1 1.8 - - - -
195C MET* 3.6 30.1 - - + -
218C HIS* 3.8 11.7 - + - +
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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