Contacts of the strand formed by residues 156 - 172 (chain A) in PDB entry 1S8B
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 156 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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106A LYS* 5.7 3.6 - - - +
133A LEU* 2.7 42.1 - - + +
135A ILE* 5.3 0.4 - - - +
143A ILE* 2.8 48.8 - - - +
144A SER 6.0 0.4 - - - +
146A PHE* 4.1 16.6 - - - +
148A LYS* 2.6 53.6 - - - +
154A PHE* 4.8 1.8 - - - +
155A ILE* 1.3 76.7 - - - +
157A ALA* 1.3 60.9 + - - +
158A HIS* 3.5 10.8 + - + +
166A ASN* 5.0 0.9 - - - -
169A PRO* 5.8 0.8 - - - +
180A THR* 5.3 0.2 - - - +
181A GLN 2.9 17.6 + - - +
182A TYR* 3.1 13.2 + - + -
183A CYS* 3.0 23.2 + - - +
184A TYR* 2.8 27.4 - - - +
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Residues in contact with ALA 157 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94A TYR* 5.1 9.6 - - + +
133A LEU 3.0 9.6 + - - +
134A SER* 3.4 12.2 + - - +
135A ILE 2.9 26.2 + - - +
154A PHE* 5.2 13.9 - - + +
156A ARG* 1.3 75.1 - - - +
158A HIS* 1.3 68.3 + - - +
159A THR* 3.8 11.7 - - + -
183A CYS* 3.2 16.8 - - + +
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Residues in contact with HIS 158 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135A ILE* 3.0 37.5 - - + +
143A ILE* 3.1 31.1 - - + +
156A ARG* 3.5 11.2 + - + +
157A ALA* 1.3 78.5 - - - +
159A THR* 1.3 60.7 + - - +
161A TYR* 2.7 52.6 - + + +
164A ILE* 4.8 4.0 - - + -
166A ASN* 4.0 2.5 - - + -
183A CYS 2.8 8.5 + - - +
184A TYR* 2.6 51.1 + + + -
185A SER* 3.1 17.3 + - - +
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Residues in contact with THR 159 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94A TYR* 5.5 4.5 - - - +
134A SER* 4.3 13.8 + - - +
135A ILE 2.7 8.9 + - - +
136A MET* 2.8 43.5 - - + +
137A ASP 2.9 16.8 + - - -
157A ALA* 4.5 12.3 - - + -
158A HIS* 1.3 74.7 - - - +
160A PRO* 1.3 83.5 - - - +
161A TYR 3.4 0.4 + - - -
185A SER* 4.4 1.6 - - - +
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Residues in contact with PRO 160 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136A MET* 5.4 4.0 - - + -
137A ASP* 3.0 31.9 - - + +
159A THR* 1.3 97.7 - - - +
161A TYR* 1.3 58.3 + - - +
185A SER* 3.1 24.6 - - - +
186A ILE* 2.9 24.6 - - + +
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Residues in contact with TYR 161 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135A ILE* 4.0 8.7 - - + -
138A ILE 3.2 22.0 - - - +
158A HIS* 2.7 65.3 - - + -
159A THR 4.6 1.3 - - - +
160A PRO* 1.3 76.6 - - - +
162A ILE* 1.3 59.5 + - - +
164A ILE* 2.8 28.7 - - + -
184A TYR* 2.5 30.9 - + - +
185A SER 3.3 14.1 - - - -
186A ILE* 2.4 38.5 - - + +
189A LEU* 2.8 45.8 - - + +
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Residues in contact with ILE 162 (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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138A ILE 3.1 5.1 + - - -
139A LEU* 3.0 42.7 - - + -
140A ASN 3.0 19.8 + - - -
161A TYR* 1.3 72.5 - - - +
163A ASN* 1.3 77.7 + - - +
164A ILE* 3.2 7.5 - - - +
186A ILE* 2.9 37.7 - - + -
187A GLN* 2.9 39.3 - - + +
189A LEU* 3.8 1.1 - - - -
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Residues in contact with ASN 163 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6A ASN* 4.3 3.8 - - - +
7A SER* 4.8 3.6 - - - -
8A VAL 3.4 16.1 - - - +
9A ASN* 3.6 8.5 - - - +
10A GLY 3.1 15.6 + - - -
12A PHE* 5.6 4.9 - - + -
139A LEU* 3.9 22.6 - - + +
140A ASN* 3.1 25.5 - - + +
141A ILE 3.2 0.2 + - - -
162A ILE* 1.3 82.7 - - - +
164A ILE* 1.3 58.2 + - - +
187A GLN* 3.1 3.8 + - - +
188A SER* 2.8 37.7 + - - -
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Residues in contact with ILE 164 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9A ASN* 3.3 9.8 - - - +
135A ILE* 3.7 10.8 - - + -
138A ILE 3.5 4.3 - - - +
141A ILE* 3.0 42.2 - - + +
142A LYS* 4.3 1.8 - - - -
143A ILE* 4.9 3.1 - - + +
158A HIS* 4.8 11.4 - - + -
161A TYR* 2.8 46.2 - - + -
162A ILE 3.2 15.0 - - - +
163A ASN* 1.3 76.1 - - - +
165A TYR* 1.3 77.5 + - - +
166A ASN* 4.6 1.1 - - + +
188A SER 3.1 0.4 + - - -
189A LEU* 2.9 18.4 - - + +
190A PHE 2.8 28.6 + - - -
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Residues in contact with TYR 165 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9A ASN* 2.7 27.8 - - - +
141A ILE 3.0 4.0 + - - -
142A LYS* 2.9 53.7 - - + +
143A ILE 3.0 4.7 + - - +
144A SER* 5.7 3.8 - - - -
164A ILE* 1.3 76.0 - - - +
166A ASN* 1.3 60.4 + - - +
167A CYS* 2.7 38.2 - - + +
190A PHE* 2.7 46.9 - + - -
192A GLY* 5.1 0.2 - - - -
193A ILE* 4.5 7.0 - - + +
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Residues in contact with ASN 166 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143A ILE* 2.9 36.6 - - + +
156A ARG* 4.7 1.0 + - - -
158A HIS* 4.5 1.3 - - + -
164A ILE* 4.6 1.8 - - + +
165A TYR* 1.3 74.5 - - - +
167A CYS* 1.3 80.8 + - - +
169A PRO* 3.8 8.1 - - - +
182A TYR* 2.9 22.5 - - - -
184A TYR* 2.6 38.1 + - + -
190A PHE 2.8 6.6 + - - +
191A LEU* 3.2 11.2 - - + +
192A GLY 3.0 13.9 + - - -
194A LEU* 3.5 11.7 - - - +
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Residues in contact with CYS 167 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143A ILE 3.1 3.3 + - - +
144A SER* 2.9 28.7 - - - -
165A TYR* 2.7 52.0 - - + -
166A ASN* 1.3 93.9 + - - +
168A GLU* 1.3 69.6 + - + +
169A PRO* 2.8 5.0 - - - +
192A GLY* 2.7 34.1 - - - +
193A ILE* 3.3 10.5 - - + -
194A LEU* 3.2 4.0 - - - -
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Residues in contact with GLU 168 (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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111A CYS* 4.9 1.0 - - - -
144A SER* 5.4 0.3 - - - -
145A HIS* 2.5 75.3 + - + +
146A PHE 3.6 0.5 + - - -
167A CYS* 1.3 70.3 - - + +
169A PRO* 1.3 64.9 - - - +
193A ILE* 2.9 36.1 - - + +
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Residues in contact with PRO 169 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144A SER* 5.3 1.6 - - - -
145A HIS 5.1 0.2 - - - +
146A PHE* 3.4 16.8 - - + +
147A LEU* 5.0 0.7 - - + -
148A LYS* 4.5 3.6 - - - +
156A ARG* 5.8 0.9 - - - +
166A ASN* 3.8 7.0 - - - +
167A CYS 2.8 9.0 - - - +
168A GLU* 1.3 98.0 - - - +
170A ALA* 1.3 59.4 + - - +
171A ASN 4.2 0.2 - - - -
182A TYR* 3.3 18.2 - - - +
193A ILE 3.0 13.3 - - - +
194A LEU* 2.9 34.7 - - + -
195A SER* 3.2 24.3 + - - -
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Residues in contact with ALA 170 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146A PHE 3.5 0.5 + - - +
147A LEU* 3.1 32.1 - - + +
148A LYS* 3.0 24.4 + - - +
169A PRO* 1.3 75.0 - - - +
171A ASN* 1.3 60.1 + - - +
172A PRO* 3.3 14.8 - - + +
182A TYR* 4.8 2.1 + - - -
195A SER* 3.6 11.7 - - - +
197A MET* 6.3 0.2 - - + -
218A ARG* 6.0 1.1 - - - +
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Residues in contact with ASN 171 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148A LYS* 3.1 9.5 - - - +
155A ILE* 2.8 53.5 - - + +
170A ALA* 1.3 73.3 - - - +
172A PRO* 1.3 67.9 - - - +
181A GLN* 2.5 44.0 + - - +
182A TYR* 3.2 24.0 - - + +
195A SER 2.9 13.3 + - - +
196A VAL* 3.3 3.2 - - + -
197A MET* 2.8 26.0 + - - +
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Residues in contact with PRO 172 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147A LEU* 5.7 1.3 - - + -
148A LYS 2.9 16.5 - - - +
149A MET* 2.7 53.6 - - + +
150A GLU 2.7 11.1 + - - -
170A ALA* 3.3 14.4 - - + +
171A ASN* 1.3 98.6 - - - +
173A SER* 1.3 61.2 + - - +
195A SER 5.5 0.2 - - - +
197A MET* 3.0 38.4 - - + -
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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
------------------------------------------------------------
Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
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