Contacts of the helix formed by residues 137 - 151 (chain G) in PDB entry 2POZ
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 137 (chain G).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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136G ASP* 1.3 88.7 - - + +
138G PRO* 1.3 76.5 - - - +
139G ASP* 3.6 8.2 + - - +
140G GLU* 3.0 40.6 + - - +
141G PHE* 3.1 21.7 + - - -
184G LEU* 5.1 1.8 - - - -
188G ARG* 4.8 0.2 - - - -
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Residues in contact with PRO 138 (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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137G THR* 1.3 87.8 - - - +
139G ASP* 1.3 57.0 + - - +
141G PHE* 3.2 3.5 + - + +
142G ALA 2.9 24.6 + - - -
184G LEU* 4.5 15.5 - - + -
187G ARG* 3.5 34.1 - - + +
188G ARG* 4.3 9.6 - - - +
191G ALA* 3.3 30.3 - - + +
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Residues in contact with ASP 139 (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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137G THR* 3.2 8.2 - - - +
138G PRO* 1.3 81.6 - - - +
140G GLU* 1.3 52.0 + - + +
142G ALA* 3.1 10.7 + - - +
143G ARG* 2.7 54.9 + - - +
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Residues in contact with GLU 140 (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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134G ALA 4.6 1.4 - - - +
135G ALA* 3.9 10.9 - - + +
136G ASP* 2.9 37.8 + - - +
137G THR* 3.0 37.4 + - + +
139G ASP* 1.3 76.9 - - + +
141G PHE* 1.3 62.6 + - - +
143G ARG* 3.4 15.5 + - + +
144G ALA* 3.0 23.0 + - - +
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Residues in contact with PHE 141 (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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131G TRP* 3.8 6.8 - + - -
132G TYR* 3.6 32.8 - + + -
135G ALA* 3.7 28.3 - - + -
136G ASP 3.8 1.6 - - - -
137G THR 3.1 21.7 + - - +
138G PRO* 3.5 7.9 - - + +
140G GLU* 1.3 74.2 - - - +
142G ALA* 1.3 67.3 + - - +
144G ALA* 3.1 16.2 + - - +
145G VAL* 3.4 12.0 + - - +
158G PHE* 4.2 21.3 - + + -
159G TYR 4.9 7.4 - - - -
188G ARG* 3.3 55.2 - - + +
192G VAL* 3.9 26.0 - - + -
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Residues in contact with ALA 142 (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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138G PRO 2.9 13.0 + - - +
139G ASP* 3.2 15.5 - - - +
141G PHE* 1.3 75.4 - - - +
143G ARG* 1.3 63.8 + - + +
144G ALA 3.1 0.2 + - - -
145G VAL* 3.0 27.1 - - - +
146G GLU* 4.7 1.0 - - - +
191G ALA* 4.0 22.3 - - + +
195G ALA* 3.6 16.5 - - + +
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Residues in contact with ARG 143 (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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139G ASP* 2.7 44.5 + - - +
140G GLU* 3.4 15.2 - - - +
142G ALA* 1.3 73.4 - - + +
144G ALA* 1.3 61.7 + - - +
145G VAL 3.3 0.7 + - - -
146G GLU* 3.1 41.1 + - - +
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Residues in contact with ALA 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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131G TRP* 3.6 34.2 - - + +
132G TYR* 4.2 11.2 - - - +
135G ALA* 5.0 0.4 - - + -
140G GLU 3.0 13.6 + - - +
141G PHE* 3.3 13.7 - - - +
142G ALA 3.1 0.4 - - - -
143G ARG* 1.3 75.1 - - - +
145G VAL* 1.3 62.4 + - - +
146G GLU 3.2 0.6 + - - -
147G ARG* 3.9 4.8 + - - +
148G PRO* 3.1 17.5 - - - +
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Residues in contact with VAL 145 (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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131G TRP* 3.8 19.3 - - + -
141G PHE 3.6 13.5 - - - +
142G ALA 3.0 18.2 - - - +
144G ALA* 1.3 76.2 - - - +
146G GLU* 1.3 75.2 + - + +
148G PRO* 3.0 20.8 - - - +
149G LEU* 3.1 25.8 - - + +
156G LEU* 4.1 7.4 - - + -
192G VAL* 4.0 25.6 - - + +
195G ALA* 3.3 30.7 - - + +
196G ALA* 4.1 0.7 - - + +
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Residues in contact with GLU 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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142G ALA 4.9 0.2 - - - +
143G ARG* 3.1 41.5 + - - +
144G ALA 3.2 0.2 - - - -
145G VAL* 1.3 85.2 - - + +
147G ARG* 1.3 65.3 - - - +
149G LEU* 3.2 5.4 + - - +
150G LYS* 2.8 52.6 + - - +
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Residues in contact with ARG 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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131G TRP* 4.8 11.3 + - - +
144G ALA 3.9 4.1 + - - +
146G GLU* 1.3 77.0 - - - +
148G PRO* 1.3 75.1 - - + +
150G LYS* 3.0 17.4 + - + +
151G GLU* 2.9 59.1 + - + +
335G PRO* 3.9 34.2 + - - +
336G ALA* 4.3 12.5 - - - +
339G ALA* 6.2 2.0 - - - +
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Residues in contact with PRO 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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128G ALA* 4.1 14.6 - - + -
131G TRP* 4.0 19.1 - - + +
144G ALA 3.1 17.0 - - - +
145G VAL* 3.0 26.2 - - - +
147G ARG* 1.3 88.0 - - + +
149G LEU* 1.3 59.4 + - - +
151G GLU* 3.1 23.0 + - - +
153G TYR* 3.2 26.5 + - + -
156G LEU* 3.6 30.1 - - + -
335G PRO* 6.0 0.4 - - + -
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Residues in contact with LEU 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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145G VAL* 3.1 26.4 + - + +
146G GLU* 3.2 5.5 + - - +
148G PRO* 1.3 73.2 - - - +
150G LYS* 1.3 66.8 + - + +
152G GLY* 3.1 13.3 + - - -
153G TYR 3.6 20.1 - - - +
156G LEU* 4.1 20.6 - - + -
195G ALA 4.5 2.0 - - - +
196G ALA* 3.7 38.1 - - + +
200G ILE* 3.7 23.3 - - + -
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Residues in contact with LYS 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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146G GLU* 2.8 60.1 + - - +
147G ARG* 3.3 13.0 - - - +
149G LEU* 1.3 76.4 - - + +
151G GLU* 1.3 59.9 + - + +
152G GLY* 2.9 6.8 + - - -
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Residues in contact with GLU 151 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147G ARG* 2.9 57.2 + - + +
148G PRO* 3.1 23.9 + - - +
150G LYS* 1.3 76.4 - - + +
152G GLY* 1.3 58.6 + - - +
153G TYR* 3.5 20.8 - - + -
335G PRO* 4.4 7.7 - - - +
353G ILE* 5.7 0.5 - - - +
355G SER* 3.8 15.6 + - - -
356G GLY 4.1 2.9 + - - -
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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