Contacts of the strand formed by residues 143 - 150 (chain G) in PDB entry 3BXB
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 SER 143 (chain G).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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63G NRQ 2.5 30.7 + - - -
141G GLU 4.6 0.9 - - - -
142G ALA* 1.3 77.2 - - - +
144G THR* 1.3 62.5 + - - +
158G SER* 4.2 1.6 - - - -
159G ASP 3.9 10.5 - - - -
160G MET* 3.8 22.4 - - - -
196G ASP* 3.4 2.3 - - - +
197G ARG* 2.6 53.6 + - - -
146H MET* 5.4 0.9 - - - -
194H TYR* 4.5 6.3 - - - -
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Residues in contact with THR 144 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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143G SER* 1.3 77.3 - - - +
145G GLU* 1.3 72.9 + - - +
157G ARG 4.1 0.3 - - - +
158G SER* 2.8 22.6 + - - -
159G ASP 4.5 3.4 + - - +
194G TYR* 4.3 9.4 - - + -
195G VAL 3.2 6.7 - - - +
196G ASP* 2.6 27.1 + - - +
197G ARG* 3.8 0.4 - - - -
220G ARG* 3.8 12.1 - - - +
144H THR* 3.8 25.8 - - - +
194H TYR* 4.6 6.9 - - - -
220H ARG* 3.1 13.9 + - - -
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Residues in contact with GLU 145 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67G LYS* 2.9 20.4 + - - -
92G ARG* 5.1 1.5 + - - -
144G THR* 1.3 77.3 - - - +
146G MET* 1.3 65.8 + - - +
147G LEU* 3.9 16.0 - - + +
156G GLY* 4.1 5.5 - - - -
157G ARG 3.3 14.8 - - - +
158G SER* 4.1 4.0 - - - -
176G THR* 4.3 3.5 + - - -
178G TYR* 2.5 34.9 + - - -
193G TYR 3.7 0.2 - - - +
194G TYR* 3.2 6.8 - - - +
195G VAL* 2.8 37.5 + - + +
197G ARG* 2.8 36.7 + - - +
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Residues in contact with MET 146 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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144G THR* 6.1 0.2 - - + -
145G GLU* 1.3 72.9 - - - +
147G LEU* 1.3 64.4 + - - +
148G TYR* 4.3 7.0 + - + -
156G GLY* 3.4 2.3 - - - -
157G ARG* 2.9 43.9 + - + +
192G VAL* 4.1 14.1 - - + -
193G TYR 3.5 4.5 - - - -
194G TYR* 3.7 29.2 - - + -
141H GLU* 4.9 0.2 - - - -
142H ALA 4.2 9.9 - - - +
143H SER* 5.6 0.4 - - - -
159H ASP* 3.8 28.3 - - + +
160H MET 3.8 8.5 - - - +
161H ALA* 3.8 41.7 - - + +
171H ILE* 4.7 7.6 - - + -
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Residues in contact with LEU 147 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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67G LYS* 5.1 2.5 - - - -
80G PHE* 4.3 7.2 - - + -
145G GLU* 3.9 23.1 - - + +
146G MET* 1.3 79.3 - - - +
148G TYR* 1.3 61.4 + - - +
154G LEU* 3.6 27.6 - - + -
155G GLU 3.3 9.4 - - - +
156G GLY* 4.5 0.2 - - - -
178G TYR* 3.8 24.7 - - + -
191G GLY 4.0 2.3 - - - +
192G VAL* 3.2 5.5 - - - +
193G TYR* 2.9 66.7 + - + +
195G VAL* 3.8 28.9 - - + -
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Residues in contact with TYR 148 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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146G MET* 4.3 11.2 - - + -
147G LEU* 1.3 78.5 - - - +
149G PRO* 1.4 87.1 - - + +
150G ALA* 4.7 1.6 - - + -
154G LEU* 3.5 7.0 - - - -
155G GLU* 2.7 81.5 + - + +
156G GLY* 4.1 0.4 - - - -
157G ARG* 3.0 32.4 + - + -
192G VAL* 4.0 17.3 - - + -
97H GLU* 4.7 0.2 + - - -
161H ALA* 5.4 1.3 - - + -
169H HIS* 4.1 23.3 - - + +
171H ILE* 3.3 37.0 - - + +
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Residues in contact with PRO 149 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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148G TYR* 1.4 97.7 - - + +
150G ALA* 1.3 65.6 + - - +
153G GLY 3.5 7.2 - - - +
154G LEU* 4.6 7.1 - - + -
189G MET* 4.8 12.8 - - + -
190G PRO* 3.7 22.7 - - + +
191G GLY* 4.4 4.3 - - - -
192G VAL* 4.2 17.5 - - + +
168H GLY* 6.0 1.9 - - - -
169H HIS* 4.9 10.9 + - + -
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Residues in contact with ALA 150 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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148G TYR* 4.7 3.6 - - + -
149G PRO* 1.3 77.5 - - - +
151G ASP* 1.3 73.5 + - - +
152G GLY 3.3 2.3 - - - +
153G GLY* 2.7 31.1 + - - +
154G LEU 4.9 0.7 - - - +
155G GLU* 3.6 41.0 - - + +
177G THR* 5.8 2.8 - - - +
189G MET* 5.2 0.2 - - - +
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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