Contacts of the helix formed by residues 144 - 159 (chain G) in PDB entry 2ZHX
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 GLY 144 (chain G).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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24G GLN* 2.6 34.2 + - - -
27G HIS* 5.4 2.7 - - - -
28G MET* 3.5 11.3 - - - +
142G GLY 3.0 7.9 + - - -
143G LYS* 1.3 78.9 - - - +
145G TRP* 1.3 61.4 + - - +
146G GLU* 3.4 4.2 + - - -
147G ALA* 3.8 6.2 + - - +
148G VAL* 4.1 3.5 - - - +
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Residues in contact with TRP 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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25G VAL* 5.1 6.7 - - + -
28G MET* 3.5 50.9 - - + +
32G LEU* 4.5 9.0 - - + +
49G VAL* 3.7 20.2 - - + -
50G LEU* 3.8 22.9 - - + -
128G ARG 3.8 2.7 - - - +
129G VAL* 3.8 30.5 - - + -
130G LEU* 3.6 39.3 - - + +
131G THR* 2.8 33.0 + - + +
140G HIS* 4.7 8.5 + - + +
143G LYS 3.6 2.6 - - - +
144G GLY* 1.3 74.9 - - - +
146G GLU* 1.3 68.5 + - - +
148G VAL* 3.1 31.3 + - + +
149G THR* 3.2 13.7 + - - +
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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
----------------------------------------------------------
128G ARG* 4.2 21.8 - - + +
129G VAL* 3.3 23.3 - - + +
141G ARG* 3.7 8.1 + - - +
142G GLY* 2.7 43.3 + - - -
144G GLY* 3.4 1.2 + - - -
145G TRP* 1.3 81.2 + - - +
147G ALA* 1.3 54.3 + - - +
148G VAL 3.1 0.2 + - - -
149G THR* 3.2 7.4 + - - -
150G GLU* 2.7 52.3 + - - +
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Residues in contact with ALA 147 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21G VAL* 3.7 7.6 - - + +
24G GLN* 3.6 32.8 - - + +
144G GLY* 3.8 2.3 + - - -
145G TRP 3.3 0.4 - - - -
146G GLU* 1.3 80.0 - - - +
148G VAL* 1.3 60.5 + - - +
150G GLU* 3.7 8.3 - - - +
151G CYS* 3.2 22.7 + - - +
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Residues in contact with VAL 148 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18G LEU* 4.1 11.4 - - + +
21G VAL* 4.2 20.0 - - + -
24G GLN* 4.2 11.9 - - + +
25G VAL* 4.2 28.0 - - + +
50G LEU* 5.6 1.6 - - + -
53G PHE* 4.8 13.0 - - + -
130G LEU* 5.0 2.0 - - + -
144G GLY 4.1 9.4 - - - +
145G TRP* 3.1 37.9 + - + +
146G GLU 3.1 0.6 - - - -
147G ALA* 1.3 75.8 - - - +
149G THR* 1.3 67.5 + - - +
151G CYS* 3.0 6.9 + - - +
152G ALA* 2.9 19.8 + - - +
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Residues in contact with THR 149 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53G PHE* 5.1 0.7 - - + -
126G LEU* 3.5 22.2 - - + +
127G ASN 3.3 18.4 - - - +
128G ARG* 2.6 43.0 + - - +
130G LEU* 4.0 18.2 - - + -
145G TRP 3.2 4.9 + - - +
146G GLU* 3.2 9.0 + - - -
148G VAL* 1.3 78.4 - - - +
150G GLU* 1.3 66.6 + - - +
152G ALA* 3.1 10.9 + - - +
153G ILE* 3.0 28.3 + - - +
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Residues in contact with GLU 150 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128G ARG* 4.5 18.1 + - - +
146G GLU* 2.7 38.8 + - - +
147G ALA* 3.7 8.5 + - - +
149G THR* 1.3 72.4 + - - +
151G CYS* 1.3 64.1 + - - +
153G ILE* 2.9 18.3 + - - +
154G ARG* 3.0 36.6 + - - +
175G LEU* 5.7 0.7 - - + -
178G MET* 3.8 34.8 - - + +
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Residues in contact with CYS 151 (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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17G ALA 3.8 20.0 - - - -
18G LEU* 4.3 2.5 - - - -
20G PRO* 4.2 16.2 - - - -
21G VAL* 3.5 31.6 - - + -
147G ALA 3.2 11.4 + - - +
148G VAL 3.0 10.6 + - - +
150G GLU* 1.3 77.4 - - - +
152G ALA* 1.3 62.8 + - - +
154G ARG* 3.8 9.8 - - - +
155G ALA* 2.9 26.4 + - - +
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Residues in contact with ALA 152 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14G TRP* 3.9 14.9 - - + -
18G LEU* 4.0 7.1 - - + +
53G PHE* 3.7 34.1 - - + -
124G LEU* 5.6 0.7 - - + -
126G LEU* 4.3 8.3 - - + -
148G VAL 2.9 11.7 + - - +
149G THR* 3.1 12.8 + - - +
151G CYS* 1.3 76.7 - - - +
153G ILE* 1.3 65.8 + - - +
155G ALA* 3.3 4.9 + - - +
156G LEU* 3.2 22.3 + - - +
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Residues in contact with ILE 153 (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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63G LEU* 3.9 27.8 - - + -
65G VAL* 5.0 2.2 - - + -
124G LEU* 6.4 0.2 - - + -
126G LEU* 3.7 22.4 - - + -
128G ARG* 5.1 3.8 - - + -
149G THR 3.2 16.6 - - - +
150G GLU* 2.9 9.6 + - - +
152G ALA* 1.3 74.7 - - - +
154G ARG* 1.3 63.8 + - - +
156G LEU* 2.8 22.5 + - + +
157G ALA* 3.0 10.8 + - - +
163G LEU* 5.7 1.8 - - + -
175G LEU* 3.3 36.1 - - + +
178G MET* 4.5 11.2 - - + -
179G LEU* 4.7 24.9 - - + -
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Residues in contact with ARG 154 (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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150G GLU* 3.0 40.1 + - - +
151G CYS* 3.9 11.0 - - - +
153G ILE* 1.3 75.5 - - - +
155G ALA* 1.3 62.3 + - - +
157G ALA* 3.1 11.2 + - - +
158G ALA* 3.0 23.3 + - - +
178G MET* 3.6 48.2 + - + +
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Residues in contact with ALA 155 (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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17G ALA* 3.7 38.1 - - + +
57G PHE* 3.6 8.6 - - + -
151G CYS* 2.9 19.6 + - - +
152G ALA* 3.4 7.0 - - - +
154G ARG* 1.3 75.4 - - - +
156G LEU* 1.3 63.6 + - - +
158G ALA* 3.2 21.2 + - - +
159G ARG* 3.5 10.9 + - - +
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Residues in contact with LEU 156 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14G TRP* 4.4 3.8 - - + -
57G PHE* 3.7 19.2 - - + +
60G VAL* 3.8 23.1 - - + -
63G LEU* 4.5 12.1 - - + -
124G LEU* 3.8 24.9 - - + -
152G ALA 3.2 10.1 + - - +
153G ILE* 2.8 13.2 + - - +
155G ALA* 1.3 79.1 - - - +
157G ALA* 1.3 62.6 + - - +
159G ARG* 3.2 61.6 + - - +
161G ALA 4.9 0.5 - - - +
163G LEU* 4.0 27.1 - - + +
183G ASN* 4.7 2.9 + - - -
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Residues in contact with ALA 157 (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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153G ILE 3.0 10.3 + - - +
154G ARG* 3.1 13.2 + - - +
156G LEU* 1.3 76.5 - - - +
158G ALA* 1.3 59.6 + - - +
159G ARG 3.4 0.7 + - - -
163G LEU* 4.3 1.2 - - + +
178G MET 4.6 2.2 - - - +
179G LEU* 4.1 24.2 - - + -
180G ALA* 4.6 8.5 - - + +
183G ASN* 3.3 25.1 + - - +
184G CYS* 3.6 21.7 - - - -
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Residues in contact with ALA 158 (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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154G ARG 3.0 10.9 + - - +
155G ALA* 3.4 15.0 - - - +
156G LEU 3.1 0.6 - - - -
157G ALA* 1.3 74.2 - - - +
159G ARG* 1.3 64.2 + - - +
160G ALA 3.8 0.3 + - - -
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Residues in contact with ARG 159 (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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57G PHE* 2.8 72.0 + - + -
58G ASP* 3.8 11.4 + - - +
60G VAL 2.7 33.9 + - - +
155G ALA 3.5 1.8 - - - +
156G LEU* 3.2 33.3 + - - +
157G ALA 3.7 0.9 - - - +
158G ALA* 1.3 80.9 - - - +
160G ALA* 1.3 64.6 + - - +
161G ALA* 3.2 20.6 + - + +
162G PRO 3.9 15.6 + - - -
163G LEU* 4.0 15.0 - - - +
183G ASN* 3.6 18.7 + - - +
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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