Contacts of the strand formed by residues 164 - 181 (chain B) in PDB entry 3AA6
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 THR 164 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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158B GLU* 4.7 0.2 - - - -
159B LYS* 3.4 34.8 + - + +
161B SER* 4.3 3.3 + - - -
162B GLY 3.6 1.6 - - - -
163B ARG* 1.3 88.1 + - - +
165B ALA* 1.3 72.5 + - - +
200B ASP* 4.5 13.9 - - + +
201B GLU 3.4 20.7 + - - +
202B THR* 4.4 4.7 + - - -
203B VAL* 3.8 4.4 - - - +
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Residues in contact with ALA 165 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156B VAL* 3.9 7.0 - - + -
157B GLN 3.3 15.0 - - - +
158B GLU* 4.6 2.9 - - - -
159B LYS* 4.4 2.5 - - - +
164B THR* 1.3 76.5 - - - +
166B HIS* 1.3 61.6 + - - +
167B TYR* 3.6 14.5 - - + -
200B ASP* 3.5 5.9 - - - +
201B GLU 3.0 31.7 + - - +
203B VAL* 3.6 17.9 - - + +
209B HIS* 3.8 14.1 - - + -
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Residues in contact with HIS 166 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
155B GLU 3.5 1.4 - - - +
156B VAL* 3.3 5.5 - - - +
157B GLN* 2.8 44.2 + - + +
159B LYS* 3.9 12.3 - - - +
165B ALA* 1.3 74.0 - - - +
167B TYR* 1.3 63.9 + - - +
168B LYS* 4.8 4.3 - - + -
198B GLU* 2.8 46.8 + - + +
199B LYS* 3.7 15.1 + - - -
200B ASP* 2.9 30.2 + - - +
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Residues in contact with TYR 167 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154B VAL* 4.4 4.0 - - + -
155B GLU 3.4 4.3 - - - -
156B VAL* 3.8 28.3 - - + -
165B ALA* 3.6 24.5 - - + -
166B HIS* 1.3 75.6 - - - +
168B LYS* 1.3 61.0 + - - +
197B MET 4.2 0.2 - - - +
198B GLU* 3.2 5.4 - - - +
199B LYS 2.8 41.2 + - - +
201B GLU* 3.5 32.8 - - + -
203B VAL* 3.6 1.9 - - - +
209B HIS* 2.6 30.7 + - - -
212B ASN* 2.8 27.4 + - + +
213B ILE* 3.8 27.6 - - + -
216B LEU* 3.6 26.3 - - + +
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Residues in contact with LYS 168 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153B VAL 3.5 2.3 - - - +
154B VAL* 3.3 4.5 - - - +
155B GLU* 3.0 55.4 + - + +
166B HIS* 4.8 3.3 - - + -
167B TYR* 1.3 74.2 - - - +
169B LEU* 1.3 62.1 + - - +
170B THR* 4.7 2.6 + - - +
196B GLN* 3.9 34.0 + - + +
197B MET 3.4 9.6 - - - +
198B GLU* 3.4 35.5 + - + +
492C ASN* 4.0 29.3 + - - +
494C PRO* 5.7 2.4 - - + +
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Residues in contact with LEU 169 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152B HIS* 3.9 20.4 - - + -
153B VAL 3.4 18.2 - - - +
154B VAL* 4.3 13.2 - - + +
167B TYR 4.2 0.4 - - - -
168B LYS* 1.3 75.4 - - - +
170B THR* 1.3 61.8 + - - +
171B SER* 3.3 24.5 - - - +
195B ARG 3.9 0.2 - - - +
196B GLN* 3.1 6.3 - - - +
197B MET* 2.7 44.8 + - - +
216B LEU* 3.5 44.2 - - + +
217B VAL* 3.9 11.2 - - + +
220B MET* 3.8 16.3 - - + +
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Residues in contact with THR 170 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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151B ILE 3.7 2.6 - - - +
153B VAL* 2.8 37.1 + - - +
168B LYS* 4.7 4.9 + - - +
169B LEU* 1.3 72.4 - - - +
171B SER* 1.3 62.4 + - - +
172B THR* 4.2 0.4 + - - +
194B THR* 3.9 22.7 - - + -
195B ARG 3.5 5.2 - - - +
196B GLN* 2.6 31.3 + - - +
489C LEU* 4.1 12.1 - - + +
490C THR* 4.7 0.9 - - + +
493C ARG* 3.8 37.9 + - + +
494C PRO* 5.7 1.4 - - - +
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Residues in contact with SER 171 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151B ILE 3.3 4.7 - - - -
152B HIS* 2.8 32.8 + - - -
169B LEU* 3.3 16.0 - - - +
170B THR* 1.3 73.2 - - - +
172B THR* 1.3 62.3 + - - +
193B LEU 3.9 0.7 - - - +
194B THR* 3.1 3.3 - - - -
195B ARG 2.9 34.1 + - - +
220B MET* 3.3 30.3 - - - +
224B ILE* 3.9 7.5 - - - +
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Residues in contact with THR 172 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44B ASP* 2.7 37.3 + - + +
149B ASP 3.9 0.3 - - - +
150B SER* 3.6 0.3 - - - -
151B ILE* 2.8 46.0 + - + +
152B HIS* 5.4 0.2 - - - -
170B THR 4.2 0.9 + - - -
171B SER* 1.3 73.4 - - - +
173B VAL* 1.3 71.2 + - - +
174B MET* 4.3 9.6 + - + -
192B SER* 3.9 21.8 - - - +
193B LEU 3.2 7.4 - - - +
194B THR* 2.8 25.7 + - - +
490C THR* 4.1 1.9 - - - +
493C ARG* 4.3 3.3 + - - +
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Residues in contact with VAL 173 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148B TRP* 3.5 29.4 - - + -
149B ASP 3.2 5.4 - - - +
150B SER* 4.0 15.7 - - - +
152B HIS* 4.9 4.5 - - + -
172B THR* 1.3 79.7 - - - +
174B MET* 1.3 70.7 + - - +
175B LEU 4.2 0.2 + - - -
192B SER* 3.1 3.6 - - - -
193B LEU 3.0 31.1 + - - -
221B GLU* 4.7 7.0 - - + -
224B ILE* 3.6 36.1 - - + +
228B LEU* 3.4 28.5 - - + +
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Residues in contact with MET 174 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21B ILE* 4.2 9.6 - - + -
44B ASP* 3.3 38.1 - - + +
45B GLN 3.5 20.4 - - - +
46B PRO* 3.8 21.5 - - - -
147B CYS 3.8 0.2 - - - +
148B TRP* 3.4 5.5 - - - -
149B ASP* 2.8 42.9 + - + +
151B ILE* 4.2 6.7 - - + -
172B THR* 4.3 7.0 - - + -
173B VAL* 1.3 78.1 - - - +
175B LEU* 1.3 61.4 + - - +
176B TRP* 3.4 31.0 - - + +
191B GLY 3.2 8.5 - - - +
192B SER* 3.7 14.8 - - - +
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Residues in contact with LEU 175 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
255A PHE* 3.7 33.2 - - + -
258A LEU* 3.6 31.6 - - + -
147B CYS 3.5 3.8 - - - +
148B TRP* 4.5 6.3 - - + -
173B VAL* 4.2 1.0 + - + -
174B MET* 1.3 75.3 - - - +
176B TRP* 1.3 64.4 + - - +
177B LEU* 4.3 14.1 - - + -
190B GLY* 3.3 3.5 - - - -
191B GLY 2.9 18.0 + - - -
192B SER* 4.9 0.2 - - - +
228B LEU* 4.2 19.3 - - + -
232B TYR* 2.8 64.1 + - + +
233B PHE* 4.8 0.7 - - + -
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Residues in contact with TRP 176 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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18B PRO* 3.3 38.8 - - + -
19B GLN* 4.2 5.4 - - - -
21B ILE* 3.9 13.0 - - + -
46B PRO* 4.1 17.0 - - + +
135B LYS* 5.1 0.7 - - - -
145B LYS 4.4 0.4 - - - -
146B GLY* 3.2 5.7 - - - -
147B CYS* 2.9 51.5 + - + +
149B ASP* 3.0 27.5 + - - -
174B MET* 3.4 31.3 - - + +
175B LEU* 1.3 77.3 - - - +
177B LEU* 1.3 65.7 + - - +
188B ASN* 5.1 5.4 - - - -
189B LEU 3.8 2.7 - - - -
190B GLY* 3.6 9.9 - - - -
191B GLY* 3.4 29.2 - - - -
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Residues in contact with LEU 177 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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250A MET* 3.9 24.0 - - + +
254A THR* 3.5 36.8 - - + -
255A PHE* 4.9 3.1 - - - +
258A LEU* 4.9 0.7 - - + -
144B ILE* 4.4 3.8 - - + -
145B LYS 3.3 7.0 - - - +
146B GLY* 4.3 1.8 - - - -
175B LEU* 4.3 15.7 - - + -
176B TRP* 1.3 78.2 - - - +
178B GLN* 1.3 62.8 + - - +
187B MET 4.0 0.2 - - - +
188B ASN* 3.4 5.8 + - - +
189B LEU* 2.8 42.2 + - + +
232B TYR* 4.0 19.7 - - + -
233B PHE* 3.6 34.5 - - + -
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Residues in contact with GLN 178 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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250A MET* 4.2 3.3 - - - +
144B ILE* 3.4 3.0 - - - +
145B LYS* 2.9 69.7 + - + +
177B LEU* 1.3 76.3 - - - +
179B THR* 1.3 68.3 + - - +
186B THR* 5.5 6.8 - - + +
187B MET 3.2 9.2 - - - +
188B ASN* 3.6 27.6 + - + +
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Residues in contact with THR 179 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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246A ASN* 3.5 34.5 - - + +
250A MET* 4.0 15.3 - - + -
143B LYS* 3.0 20.4 + - - +
144B ILE* 4.1 11.2 - - + -
145B LYS* 5.7 0.7 - - - -
178B GLN* 1.3 78.5 - - - +
180B ASN* 1.3 66.8 + - - +
181B LYS* 3.5 21.3 - - + +
184B SER* 4.5 2.0 - - - +
186B THR* 3.3 5.5 - - - +
187B MET* 2.8 37.0 + - + +
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Residues in contact with ASN 180 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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143B LYS* 4.6 6.4 + - - +
179B THR* 1.3 78.5 + - - +
181B LYS* 1.3 69.5 + - - +
185B GLY* 3.3 18.1 - - - -
186B THR* 3.6 18.6 + - + +
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Residues in contact with LYS 181 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
246A ASN* 3.5 24.1 + - - +
249A THR* 5.0 10.7 + - - +
142B LYS* 3.2 35.3 + - - +
143B LYS* 4.5 7.9 - - + -
144B ILE* 4.8 2.8 - - - +
179B THR* 3.5 17.5 - - - +
180B ASN* 1.3 81.0 + - - +
182B THR* 1.3 60.9 + - - +
183B GLY* 3.2 4.5 - - - +
184B SER* 3.7 11.0 + - - +
185B GLY* 2.8 33.9 + - - -
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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