Contacts of the helix formed by residues 149 - 165 (chain G) in PDB entry 2DSQ
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 GLU 149 (chain G).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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150G PRO* 1.4 77.6 - - - +
151G CYS 3.3 2.2 - - - -
152G ARG* 2.7 49.7 + - + +
153G ILE* 3.3 26.2 + - + +
184G ASN 3.1 25.5 - - - +
185G GLY* 3.5 14.7 - - - +
186G PHE* 4.3 17.2 - - + -
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Residues in contact with PRO 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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149G GLU* 1.4 87.1 - - - +
151G CYS* 1.3 57.8 + - - +
153G ILE* 3.3 9.5 + - + +
154G GLU* 2.9 26.0 + - - +
186G PHE* 3.5 20.9 - - + -
187G TYR* 3.5 21.1 + - + +
209G TRP 3.2 26.5 - - - +
210G ASN* 4.7 4.7 - - - +
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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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150G PRO* 1.3 75.6 - - - +
152G ARG* 1.3 55.6 + - - +
154G GLU* 3.2 2.4 + - - +
155G LEU* 2.6 36.7 + - - +
179G PRO* 3.9 8.3 - - - -
180G ASN 3.9 0.2 - - - -
181G CYS* 2.0 56.0 - - - -
185G GLY 3.2 12.4 + - - +
186G PHE 3.6 12.8 - - - -
187G TYR* 3.3 39.5 - - + -
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Residues in contact with ARG 152 (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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149G GLU* 2.7 38.9 + - + +
151G CYS* 1.3 77.3 - - - +
153G ILE* 1.3 62.0 + - + +
155G LEU* 3.3 3.6 + - - +
156G TYR* 2.9 74.3 + - + -
181G CYS* 3.7 1.0 - - - -
183G LYS 4.2 5.1 + - - -
184G ASN 5.1 0.2 + - - -
185G GLY* 3.2 8.4 + - - +
45I ASP* 4.1 2.2 + - - -
49I PHE* 3.4 63.2 - - + +
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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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149G GLU* 3.3 34.2 + - + +
150G PRO* 3.3 9.8 + - + +
151G CYS 3.3 0.6 - - - -
152G ARG* 1.3 81.1 - - + +
154G GLU* 1.3 68.4 + - - +
155G LEU 3.1 0.3 + - - -
156G TYR* 3.2 13.6 + - + +
157G ARG* 3.1 58.1 + - + +
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Residues in contact with GLU 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 PRO 2.9 11.6 + - - +
151G CYS* 3.6 2.7 - - - +
153G ILE* 1.3 75.8 - - - +
155G LEU* 1.3 60.3 + - - +
157G ARG* 3.4 6.5 + - - +
158G VAL* 3.0 35.6 + - + +
177G TYR* 4.2 14.0 + - - -
179G PRO* 4.1 16.5 - - + +
187G TYR* 2.5 42.6 + - + +
210G ASN 5.3 0.5 - - - +
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Residues in contact with LEU 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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151G CYS 2.6 21.9 + - - +
152G ARG 3.4 5.2 - - - +
154G GLU* 1.3 69.6 - - - +
156G TYR* 1.3 72.4 + - + +
158G VAL* 3.1 13.0 + - - +
159G VAL* 3.3 15.0 + - + +
178G LEU* 3.6 25.1 - - + -
179G PRO* 3.6 33.8 - - + +
181G CYS* 4.0 6.1 - - - -
6I CYS* 4.8 1.1 - - + -
44I VAL* 3.6 29.2 - - + -
48I CYS* 3.8 10.3 - - - -
49I PHE* 3.5 35.9 - - + -
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Residues in contact with TYR 156 (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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152G ARG* 2.9 65.3 + - + -
153G ILE* 3.2 10.7 + - + +
155G LEU* 1.3 79.8 - - + +
157G ARG* 1.3 61.8 + - + +
158G VAL 3.0 5.8 + - - -
159G VAL* 3.5 5.1 + - + +
160G GLU* 3.2 31.3 + - - +
44I VAL* 6.3 1.3 - - + -
45I ASP* 2.5 39.6 + - + -
49I PHE* 4.8 4.7 - + - -
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Residues in contact with ARG 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* 3.1 43.2 + - + +
154G GLU* 3.6 7.1 - - - +
155G LEU 3.3 0.2 - - - -
156G TYR* 1.3 77.0 - - + +
158G VAL* 1.3 60.8 + - - +
160G GLU* 4.3 16.4 - - - +
161G SER* 3.7 17.5 - - - -
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Residues in contact with VAL 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 GLU* 3.0 26.9 - - + +
155G LEU 3.4 8.5 - - - +
156G TYR 3.0 0.6 - - - -
157G ARG* 1.3 82.4 - - - +
159G VAL* 1.3 59.6 + - - +
160G GLU 3.3 0.9 - - - -
161G SER* 3.4 6.9 + - - -
162G LEU* 2.7 44.1 + - + +
177G TYR* 3.5 26.0 - - + +
178G LEU* 3.8 19.1 - - + -
179G PRO* 4.3 12.8 - - + -
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Residues in contact with VAL 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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155G LEU 3.3 12.0 + - - +
156G TYR* 4.2 7.0 - - + +
158G VAL* 1.3 72.1 - - - +
160G GLU* 1.3 57.8 - - - +
162G LEU* 3.1 7.2 + - - +
163G ALA* 2.7 36.3 + - + +
178G LEU* 4.1 15.5 - - + -
25I PHE* 4.0 32.1 - - + +
26I ASN* 4.0 14.4 - - - +
44I VAL* 4.1 33.4 - - + -
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Residues in contact with GLU 160 (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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156G TYR* 3.2 23.5 + - - +
157G ARG* 4.3 15.8 - - - +
159G VAL* 1.3 76.9 - - - +
161G SER* 1.3 64.0 + - - +
163G ALA* 3.2 8.3 + - - +
164G LYS* 3.2 20.3 + - - +
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Residues in contact with SER 161 (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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157G ARG 3.7 16.9 + - - -
158G VAL* 3.4 10.8 + - - -
159G VAL 3.4 0.4 - - - -
160G GLU* 1.3 78.8 - - - +
162G LEU* 1.3 61.7 + - - +
164G LYS* 3.3 19.5 - - - +
165G ALA* 3.8 6.4 + - - +
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Residues in contact with LEU 162 (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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4B ILE* 4.2 25.6 - - + +
158G VAL* 2.7 29.8 + - + +
159G VAL* 3.1 10.9 + - - +
161G SER* 1.3 73.9 - - - +
163G ALA* 1.3 59.8 + - - +
164G LYS 3.1 12.3 + - - +
165G ALA 4.0 9.2 - - - -
174G SER* 5.4 5.6 - - - +
176G PHE* 3.7 42.6 - - + -
177G TYR 5.5 0.2 - - - +
178G LEU* 5.5 1.6 - - + -
25I PHE* 4.4 18.4 - - + -
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Residues in contact with ALA 163 (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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159G VAL* 2.7 22.3 + - + +
160G GLU* 3.2 7.2 + - - +
162G LEU* 1.3 68.4 - - - +
164G LYS* 1.3 65.9 + - - +
25I PHE* 6.1 3.3 - - + -
26I ASN* 5.2 9.4 - - - +
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Residues in contact with LYS 164 (chain G).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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160G GLU 3.2 10.2 + - - +
161G SER* 3.3 14.8 - - - +
162G LEU 3.1 0.8 - - - +
163G ALA* 1.3 84.6 - - - +
165G ALA* 1.3 77.9 + - + +
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Residues in contact with ALA 165 (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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161G SER 3.8 6.9 + - - +
162G LEU 4.0 10.8 - - - -
164G LYS* 1.3 88.7 - - + +
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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