Contacts of the strand formed by residues 150 - 159 (chain C) in PDB entry 3SBW
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 GLU 150 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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143C VAL* 3.6 2.3 - - - +
144C VAL* 2.6 50.0 + - + +
145C ASP* 3.0 15.4 + - + +
148C THR* 3.3 14.9 + - - +
149C SER* 1.3 77.6 - - - +
151C HIS* 1.3 59.9 + - - +
198C ARG* 2.9 40.8 + - - +
199C ILE 3.4 20.9 - - - +
200C ASN* 3.8 10.8 + - - +
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Residues in contact with HIS 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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141C ILE* 4.0 17.7 - - + -
142C LEU 3.1 10.1 - - - +
143C VAL* 3.5 32.9 - - + +
144C VAL* 3.8 4.5 - - - +
149C SER* 3.0 40.1 + - - -
150C GLU* 1.3 75.8 - - - +
152C GLU* 1.3 59.6 + - - +
153C LEU* 3.6 20.0 - - + +
197C LEU 3.5 1.7 - - - +
198C ARG* 3.4 4.7 - - - +
199C ILE 2.8 33.0 + - - +
201C THR* 3.4 21.2 - - + +
202C THR* 5.9 0.2 - - - -
226C ILE* 3.9 18.7 - - + +
227C PRO* 5.2 5.1 + - + +
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Residues in contact with GLU 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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140C ARG* 3.6 17.4 + - - +
141C ILE* 3.5 3.1 - - - -
142C LEU* 2.8 49.9 + - + +
144C VAL* 3.5 17.1 - - + +
151C HIS* 1.3 72.2 - - - +
153C LEU* 1.3 61.4 + - - +
154C THR* 3.4 17.1 + - - +
196C THR* 3.3 30.5 - - + +
197C LEU 3.4 2.9 - - - -
198C ARG* 3.9 16.7 + - + +
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Residues in contact with LEU 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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140C ARG 3.4 4.7 - - - -
141C ILE* 4.7 6.5 - - + -
151C HIS* 3.6 28.5 - - + +
152C GLU* 1.3 78.9 - - - +
154C THR* 1.3 63.5 + - - +
167C TRP* 3.7 17.9 - - + -
195C SER 3.6 1.0 - - - +
196C THR* 3.2 4.9 - - - +
197C LEU* 2.8 60.4 + - + +
199C ILE* 4.7 5.8 - - + -
207C PHE* 3.8 37.7 - - + -
224C LEU* 4.0 13.5 - - + -
226C ILE* 4.1 13.7 - - + -
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Residues in contact with THR 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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138C ASN 5.5 0.4 - - - +
139C GLN* 3.2 6.7 - - - +
140C ARG* 2.8 54.3 + - + +
152C GLU* 3.4 19.2 + - - -
153C LEU* 1.3 77.3 + - - +
155C CYS* 1.3 74.4 + - - +
156C GLN* 4.7 4.7 - - + +
194C THR* 4.0 18.4 - - - +
195C SER 3.3 8.3 - - - +
196C THR* 3.9 10.7 + - - +
224C LEU* 3.9 1.8 - - - +
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Residues in contact with CYS 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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137C ILE* 4.4 5.4 - - + -
138C ASN 3.3 4.7 - - - +
139C GLN* 4.5 3.6 - - - -
154C THR* 1.3 79.9 - - - +
156C GLN* 1.3 60.7 + - - +
167C TRP* 3.6 14.8 - - + -
193C VAL 3.9 1.0 - - - +
194C THR* 3.5 1.6 - - - -
195C SER* 3.0 32.5 + - - -
209C CYS* 2.1 52.0 - - + -
211C PHE* 3.9 13.6 - - + -
224C LEU* 3.6 13.7 - - - -
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Residues in contact with GLN 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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136C LYS 3.6 1.0 - - - +
137C ILE* 3.5 1.0 - - - -
138C ASN* 2.8 65.0 + - + +
154C THR* 4.7 5.4 - - + +
155C CYS* 1.3 74.4 - - - +
157C ALA* 1.3 72.1 + - - +
158C GLU* 3.5 21.8 - - - +
192C ASN* 2.7 34.0 + - - +
193C VAL 3.3 3.6 - - - -
194C THR* 3.9 17.9 - - + +
211C PHE* 4.0 2.0 - - - -
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Residues in contact with ALA 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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134C TYR* 3.7 17.2 - - + -
136C LYS 3.4 16.8 - - - +
137C ILE* 4.0 12.8 - - + -
156C GLN* 1.3 87.0 - - - +
158C GLU* 1.3 57.5 + - - +
193C VAL* 2.8 39.8 + - - +
211C PHE* 3.8 19.4 - - + -
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Residues in contact with GLU 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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133C PRO 3.6 15.2 - - - +
134C TYR* 3.6 10.3 - - - -
135C ASN 5.0 0.5 + - - -
136C LYS* 4.6 3.4 + - - +
156C GLN* 3.5 19.1 - - - +
157C ALA* 1.3 74.6 - - - +
159C GLY* 1.3 59.2 + - - +
184C SER* 4.0 17.4 + - - -
190C LEU* 4.3 24.8 - - + +
191C PHE 3.1 9.2 - - - +
192C ASN* 3.6 21.9 - - - +
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Residues in contact with GLY 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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132C ALA* 3.4 15.9 - - - -
134C TYR* 3.5 15.4 - - - -
158C GLU* 1.3 76.1 - - - +
160C TYR* 1.3 61.5 + - - +
190C LEU* 3.5 13.5 - - - +
191C PHE* 2.9 35.3 + - - +
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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