Contacts of the strand formed by residues 207 - 217 (chain E) in PDB entry 6UWZ
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 GLN 207 (chain E).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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147E ARG* 3.5 15.6 - - - +
151E TYR 5.6 0.4 + - - -
152E ASN 4.1 1.8 + - - -
153E ALA* 3.6 23.0 - - + +
156E VAL* 2.7 34.6 + - - +
157E ASN* 3.8 5.7 - - - +
158E LEU* 3.4 32.6 + - + +
193E LYS* 2.9 30.9 + - - +
194E ASN 3.5 5.2 - - - +
195E TYR* 4.3 11.3 - - + -
204E THR 4.7 3.1 - - - +
205E ASP* 4.2 6.3 - - - -
206E PHE* 1.3 81.1 - - + +
208E GLU* 1.3 64.3 + - - +
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Residues in contact with GLU 208 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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145E VAL* 3.2 15.3 - - + +
146E PHE 3.4 12.3 - - - +
147E ARG* 2.2 46.6 + - - +
158E LEU* 4.4 2.9 - - - +
193E LYS* 3.8 2.2 - - - +
194E ASN* 2.9 49.9 + - + +
196E ASN* 3.7 18.2 + - - +
207E GLN* 1.3 78.0 - - - +
209E ILE* 1.3 63.5 + - - +
210E ILE* 3.6 23.3 + - + +
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Residues in contact with ILE 209 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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33E LEU* 3.6 32.1 - - + -
144E LEU 3.7 1.4 - - - +
145E VAL 3.7 0.2 - - - -
146E PHE* 2.7 46.2 + - - +
158E LEU* 4.0 24.2 - - + +
159E GLN* 4.2 9.0 - - - +
160E LEU* 3.6 23.8 - - + -
192E LYS 3.9 4.5 - - - +
193E LYS* 3.8 33.4 - - + -
208E GLU* 1.3 72.3 - - - +
210E ILE* 1.3 61.7 + - - +
211E PHE* 3.5 24.7 - - + -
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Residues in contact with ILE 210 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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143E SER* 3.9 15.5 - - - -
144E LEU 3.3 9.0 - - - +
145E VAL* 4.0 15.3 - - + -
191E ALA* 3.1 6.6 - - - +
192E LYS* 3.0 35.7 + - + +
194E ASN* 3.8 23.1 - - + +
208E GLU* 3.6 32.1 - - + +
209E ILE* 1.3 77.5 - - - +
211E PHE* 1.3 64.9 + - - +
212E PHE* 3.5 31.5 - - + -
2L NAG 4.2 14.6 - - + +
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Residues in contact with PHE 211 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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33E LEU* 4.3 11.2 - - + -
34E LYS* 4.5 4.9 - - - -
35E LEU* 3.6 46.7 - - + -
143E SER* 3.5 0.9 - - - -
144E LEU* 2.7 44.2 + - + +
146E PHE* 3.7 32.5 - + - -
160E LEU* 4.0 11.0 - - + -
168E VAL 5.5 0.4 - - - -
170E TRP 4.7 5.8 - - - -
171E ILE* 3.7 25.4 - - + -
190E PRO 3.5 2.5 - - - -
191E ALA* 3.3 26.9 - - + -
209E ILE* 3.5 26.2 - - + -
210E ILE* 1.3 74.1 - - - +
212E PHE* 1.3 62.1 + - - +
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Residues in contact with PHE 212 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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141E ASN* 3.8 16.6 - - - +
142E CYS 3.6 2.9 - - - -
143E SER* 4.0 12.8 - - - -
171E ILE* 3.4 9.7 - - - +
189E ARG* 3.3 22.3 - - - -
190E PRO* 2.8 32.7 + - + -
192E LYS* 3.9 13.9 - - + -
210E ILE* 3.5 30.7 - - + -
211E PHE* 1.3 74.5 - - - +
213E LEU* 1.3 62.0 + - - +
214E ILE* 4.0 10.5 - - + -
480E PHE* 3.6 28.5 - + - -
1L NAG 3.3 32.8 - - - -
2L NAG 3.8 21.5 - - + -
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Residues in contact with LEU 213 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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37E LEU* 4.1 33.2 - - + -
40E LEU* 4.5 10.5 - - + -
50E LEU* 3.9 23.1 - - + -
52E THR* 4.5 1.6 - - + -
140E GLN 3.4 3.3 - - - +
142E CYS* 2.7 40.6 + - + +
144E LEU* 4.2 13.5 - - + -
171E ILE* 3.9 17.9 - - + -
173E ILE* 5.2 0.4 - - + -
186E ILE* 3.9 28.0 - - + -
188E HIS 3.9 1.1 - - - -
189E ARG* 4.5 4.3 - - + -
212E PHE* 1.3 78.6 - - - +
214E ILE* 1.3 63.4 + - - +
215E ILE* 3.6 11.0 + - + +
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Residues in contact with ILE 214 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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139E TRP* 3.7 15.5 - - + -
140E GLN 3.2 3.4 - - - -
141E ASN* 3.9 31.2 - - + +
186E ILE* 3.9 0.2 - - - -
187E ARG* 3.0 25.1 + - - +
188E HIS* 3.3 34.0 + - + +
190E PRO* 4.1 7.9 - - + -
212E PHE* 4.0 17.5 - - + -
213E LEU* 1.3 68.6 - - - +
215E ILE* 1.3 62.8 + - - +
475E VAL* 3.2 37.0 - - + -
479E PRO* 4.8 2.9 - - + -
1L NAG 4.0 19.1 - - - +
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Residues in contact with ILE 215 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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40E LEU* 4.1 12.3 - - + -
43E LEU* 3.7 23.1 - - + -
50E LEU* 4.6 12.3 - - + -
139E TRP* 3.1 5.7 - - - -
140E GLN* 2.8 48.9 + - + +
142E CYS* 4.4 7.9 - - + -
184E TRP* 3.5 35.3 - - + -
185E THR 3.1 12.8 - - - +
186E ILE* 4.0 20.9 - - + -
213E LEU* 4.0 15.3 - - + +
214E ILE* 1.3 79.2 - - - +
216E GLN* 1.3 58.7 + - - +
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Residues in contact with GLN 216 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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137E PHE* 4.1 8.5 + - - +
138E ASP 3.4 24.7 + - - -
139E TRP* 3.5 5.5 - - - +
184E TRP* 3.9 1.6 - - - -
185E THR* 2.7 39.7 + - - -
187E ARG* 3.4 39.0 - - - +
215E ILE* 1.3 72.3 - - - +
217E ARG* 1.3 73.1 + - - +
473E ASN 3.8 15.0 + - - -
474E GLN* 4.1 3.4 - - - +
475E VAL* 2.8 40.6 + - + +
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Residues in contact with ARG 217 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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45E GLU* 2.7 34.4 + - - +
130E ILE* 4.9 1.4 - - - +
135E PHE* 3.3 25.3 - - - -
136E PRO* 3.2 27.4 + - - +
137E PHE* 5.9 0.2 - - - -
138E ASP* 2.5 59.1 + - - +
140E GLN* 4.6 0.6 + - - -
183E GLU* 3.3 37.7 + - + +
184E TRP* 3.3 31.8 - - + -
216E GLN* 1.3 87.9 + - - +
218E LYS* 1.3 68.2 + - - +
219E PRO* 3.3 12.3 - - - +
222E TYR* 4.4 6.9 + - - -
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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
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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