Contacts of the strand formed by residues 151 - 160 (chain S) in PDB entry 2IAN
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 151 (chain S).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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148S SER 3.5 15.3 + - - -
149S ASP* 3.1 24.8 + - - -
150S VAL* 1.3 78.8 - - - +
152S ILE* 1.3 61.2 - - - +
153S THR 4.0 1.1 - - - -
171S VAL 3.4 1.1 - - - +
172S ALA* 2.9 26.9 - - - +
173S TRP* 3.0 62.9 + + + +
174S SER* 5.1 2.0 - - - -
175S ASN* 5.2 10.7 + - - -
173T LEU* 4.2 17.7 - - + -
174T LYS 4.5 3.1 - - - -
175T GLU* 3.1 51.1 + - + +
176T GLN* 5.4 0.5 - - - +
177T PRO* 6.0 0.7 - - + -
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Residues in contact with ILE 152 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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142S VAL* 3.8 14.7 - - + +
143S SER 3.7 12.6 - - - +
144S GLN* 2.7 38.8 + - - +
145S SER* 3.6 36.3 - - - +
150S VAL* 4.1 8.3 - - + -
151S TYR* 1.3 76.1 - - - +
153S THR* 1.3 65.2 + - - +
154S ASP 3.6 0.3 + - - -
171S VAL 3.2 5.8 - - - +
172S ALA* 3.8 4.3 - - + -
184S ALA 3.6 21.3 - - - +
185S PHE* 3.5 33.2 - - + -
187S ASN* 6.2 2.9 - - + -
188S SER* 6.0 0.2 - - - +
173T LEU* 3.9 8.6 - - - +
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Residues in contact with THR 153 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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142S VAL* 4.3 1.6 - - - +
152S ILE* 1.3 76.4 - - - +
154S ASP* 1.3 63.0 + - - +
170S ALA* 3.6 18.5 - - - +
171S VAL* 2.8 36.6 + - - +
173S TRP* 3.7 26.2 - - + -
169T ASP* 3.3 30.7 - - + +
171T GLN 5.3 3.6 - - - +
173T LEU* 3.8 21.1 - - + +
186T LEU* 5.4 1.8 - - - -
187T SER* 3.8 6.1 + - - +
189T ARG* 4.5 1.2 + - - -
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Residues in contact with ASP 154 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142S VAL* 4.3 22.3 + - - +
144S GLN* 5.1 8.3 + - - +
152S ILE 3.6 3.6 + - - +
153S THR* 1.3 74.5 - - - +
155S LYS* 1.3 104.7 + - - +
156S CYS* 3.4 1.9 + - - +
169S SER 4.6 0.6 - - - +
170S ALA* 4.9 1.0 - - - -
169T ASP* 3.6 16.2 + - - +
170T PRO* 5.9 0.3 - - - +
171T GLN* 6.1 9.0 - - + +
189T ARG* 5.0 0.9 + - - -
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Residues in contact with LYS 155 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105S THR* 5.8 0.4 - - - +
107S ASN* 3.6 24.4 + - - +
136S PHE* 4.0 23.6 - - + -
138S SER* 3.9 15.9 + - - +
140S THR 3.4 24.7 - - - +
141S ASN* 4.5 7.2 - - - +
142S VAL* 4.5 13.6 - - + +
153S THR 4.0 1.2 + - - -
154S ASP* 1.3 94.2 + - - +
156S CYS* 1.3 61.2 + - - +
157S VAL* 6.1 0.7 - - + -
168S ASN* 4.6 16.9 - - + +
169S SER 3.1 18.2 - - - +
170S ALA* 4.5 2.8 - - - +
170T PRO* 6.0 0.2 - - - +
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Residues in contact with CYS 156 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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154S ASP 3.4 1.6 + - - +
155S LYS* 1.3 75.6 - - - +
157S VAL* 1.3 61.9 + - - +
158S LEU 4.2 0.2 + - - -
167S SER 3.9 0.7 - - - +
168S ASN* 3.6 2.0 - - - -
169S SER* 3.1 32.0 + - - +
167T CYS* 2.0 52.6 - - - +
168T THR 4.3 7.2 - - - +
169T ASP* 4.3 7.9 - - - +
170T PRO* 4.9 8.5 - - + -
189T ARG* 3.2 30.0 - - - +
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Residues in contact with VAL 157 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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78S THR* 4.5 24.4 + - + +
106S ILE 5.5 0.7 - - - +
107S ASN* 5.4 2.9 - - - +
108S PRO* 3.8 35.0 - - + -
155S LYS* 5.8 1.3 - - + -
156S CYS* 1.3 77.9 - - - +
158S LEU* 1.3 68.1 + - - +
159S ASP* 4.3 0.8 + - + -
166S LYS* 4.7 5.4 - - + -
167S SER 3.6 11.7 - - - +
168S ASN* 3.4 22.2 - - - +
166T VAL 4.5 1.6 - - - +
167T CYS* 3.1 13.6 - - - +
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Residues in contact with LEU 158 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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156S CYS 4.2 0.6 + - - -
157S VAL* 1.3 77.0 - - - +
159S ASP* 1.3 58.7 + - - +
160S MET* 4.9 4.7 - - + -
165S PHE 3.6 0.7 - - - +
166S LYS* 3.4 3.8 - - - -
167S SER* 3.0 59.1 + - - +
169S SER* 5.6 3.4 - - - +
138T THR* 5.1 1.6 - - + -
165T GLY* 3.5 26.9 - - - +
166T VAL 3.7 11.0 - - - +
167T CYS* 3.7 13.9 - - + -
189T ARG* 4.1 26.7 - - + +
191T ARG* 3.7 31.0 - - + +
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Residues in contact with ASP 159 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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157S VAL* 4.3 1.0 + - + -
158S LEU* 1.3 72.6 - - - +
160S MET* 1.3 58.8 + - - +
161S ARG* 3.1 37.8 + - + +
164S ASP* 4.9 3.6 - - - +
165S PHE 3.6 8.4 + - - +
166S LYS* 2.8 42.2 + - - +
164T SER* 3.8 0.9 + - - -
165T GLY* 2.7 28.8 + - - +
166T VAL 4.8 2.2 + - - -
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Residues in contact with MET 160 (chain S).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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158S LEU* 3.7 4.9 + - + -
159S ASP* 1.3 70.1 - - - +
161S ARG* 1.3 60.7 + - - +
162S SER* 3.4 2.5 - - - -
163S MET* 3.3 30.4 + - + +
164S ASP 3.1 4.2 + - - -
165S PHE* 2.6 64.5 + - + +
136T LYS* 4.1 16.8 - - + -
164T SER* 4.5 1.3 - - - -
165T GLY* 4.1 15.7 - - - +
191T ARG* 3.6 37.5 - - + +
192T VAL* 3.8 22.4 - - - -
193T SER* 4.1 4.0 - - - +
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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