Contacts of the strand formed by residues 147 - 154 (chain A) in PDB entry 1SLL
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 ARG 147 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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139A ASN* 2.9 33.0 + - + +
144A ASN* 3.0 45.8 + - + +
145A GLN 3.4 1.4 - - - -
146A ASP* 1.3 80.3 - - - +
148A HIS* 1.3 63.0 + - - +
164A ARG 3.3 6.1 - - - -
165A ASN* 2.8 60.6 + - - +
166A THR* 3.4 26.1 + - + +
169A VAL* 5.0 3.6 - - - +
227A ILE* 3.7 10.8 - - + -
228A THR* 3.6 28.5 + - - +
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Residues in contact with HIS 148 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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137A VAL 3.5 13.0 - - - +
138A GLY* 3.9 5.2 - - - -
139A ASN 4.7 0.6 + - - +
145A GLN 2.9 30.7 + - - -
146A ASP* 3.8 7.1 - - - -
147A ARG* 1.3 78.1 + - - +
149A PHE* 1.3 60.3 + - - +
150A HIS* 4.1 20.8 + + - -
162A GLU* 3.6 1.7 + - - +
164A ARG* 2.8 51.9 + - + +
227A ILE* 3.6 9.4 - - - +
238A THR* 3.7 30.1 - - + +
239A LYS 5.0 4.0 + - - +
240A ARG* 3.5 21.0 + - - +
246A TYR* 4.4 7.9 + - - -
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Residues in contact with PHE 149 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119A ILE* 4.3 8.1 - - + -
135A PHE* 4.1 22.9 - + - -
136A SER* 3.1 5.2 - - - -
137A VAL 2.8 36.4 + - - +
148A HIS* 1.3 76.8 - - - +
150A HIS* 1.3 73.0 + - - +
151A ILE* 3.7 24.5 - - + -
161A ILE* 4.2 13.7 - - + -
162A GLU 3.2 12.1 - - - -
163A LEU* 3.9 21.5 - - + -
195A LEU* 3.3 34.1 - - + -
223A PHE* 4.0 10.3 - + - -
224A ILE* 4.1 23.3 - - + -
227A ILE* 3.9 12.6 - - + -
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Residues in contact with HIS 150 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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131A ILE* 4.9 1.4 - - - +
133A SER* 2.8 26.5 - - - +
135A PHE 3.2 13.0 - - - +
136A SER* 3.5 1.8 - - - -
148A HIS* 4.1 8.5 - - - -
149A PHE* 1.3 80.5 - - - +
151A ILE* 1.3 61.6 - - - +
152A TYR* 3.2 34.1 - + + +
161A ILE* 3.1 26.7 - - - +
162A GLU* 2.9 58.6 + - + +
238A THR* 3.4 20.2 - - + +
246A TYR* 3.6 20.5 - + - -
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Residues in contact with ILE 151 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119A ILE* 3.7 37.0 - - + -
121A LEU* 4.4 7.6 - - + -
133A SER* 3.6 2.6 - - - -
134A LEU* 2.8 40.6 + - + +
135A PHE* 3.0 15.8 + - + +
149A PHE* 3.7 24.5 - - + -
150A HIS* 1.3 72.5 - - - +
152A TYR* 1.3 64.2 + - - +
159A ILE* 4.9 2.9 - - + -
160A GLY 3.4 10.3 - - - +
161A ILE* 3.8 10.3 - - + -
193A VAL* 4.7 11.9 - - + -
194A ALA 5.5 0.4 - - - -
195A LEU* 3.9 17.0 - - + +
206A LEU* 4.7 10.3 - - + -
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Residues in contact with TYR 152 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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131A ILE* 3.9 18.2 - - + -
132A GLN 3.2 17.9 - - - +
134A LEU* 4.1 2.5 - - - +
150A HIS* 3.2 33.4 - + + +
151A ILE* 1.3 74.8 - - - +
153A ILE* 1.3 75.8 + - - +
154A THR* 4.0 18.4 - - + -
159A ILE* 3.3 11.8 - - - +
160A GLY* 2.9 59.0 + - - -
161A ILE* 3.5 13.7 + - - -
162A GLU* 4.0 14.2 - - + +
174A LEU 4.6 0.2 + - - -
175A ASP* 3.8 22.2 - - - +
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Residues in contact with ILE 153 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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123A TYR* 3.5 32.1 - - + +
125A SER* 4.0 29.2 - - - +
131A ILE* 3.6 2.4 - - - -
132A GLN* 2.8 54.4 + - + +
134A LEU* 3.6 29.4 - - + -
152A TYR* 1.3 81.8 - - - +
154A THR* 1.3 73.4 + - - +
155A ASN* 5.8 0.4 - - - -
158A GLY 3.2 13.2 - - - +
159A ILE* 4.1 11.9 - - + -
180A VAL* 4.2 5.4 - - + -
248A PHE* 4.8 0.2 - - + -
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Residues in contact with THR 154 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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129A ASN 4.9 0.7 - - - -
130A GLY 3.1 13.0 - - - +
131A ILE* 4.6 9.2 - - + -
132A GLN* 5.2 0.7 - - - -
152A TYR* 4.0 21.1 - - + -
153A ILE* 1.3 91.0 - - - +
155A ASN* 1.3 61.2 + - - +
156A SER* 2.9 22.7 + - - -
157A GLY* 3.1 12.5 + - - -
158A GLY* 2.9 36.0 + - - +
180A VAL* 5.2 0.3 - - - +
709A MET* 4.4 2.8 - - - +
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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