Contacts of the helix formed by residues 182 - 198 (chain B) in PDB entry 1SA0
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 VAL 182 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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101B ASN 3.6 8.5 - - - +
102B ASN* 5.2 1.1 - - + -
180B THR* 3.5 21.1 - - + -
181B VAL* 1.3 78.1 - - - +
183B GLU* 1.3 54.2 + - - +
184B PRO* 3.2 4.6 - - - +
185B TYR* 2.6 41.9 + - + +
186B ASN* 3.4 18.1 + - - +
398B MET* 5.1 2.9 - - - -
404B PHE* 4.2 32.8 - - + -
407B TRP* 5.1 2.2 - - + -
408B TYR* 3.4 27.1 - - + +
257C THR* 4.5 13.2 - - + +
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Residues in contact with GLU 183 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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142B GLY* 4.1 13.7 - - - -
143B GLY 4.2 6.1 - - - +
173B PRO* 3.5 23.2 - - + +
174B SER 3.5 5.2 - - - +
178B SER* 3.0 26.7 - - - -
179B ASP 3.3 2.4 + - - -
180B THR* 2.7 44.0 + - - +
181B VAL 3.4 0.6 - - - -
182B VAL* 1.3 75.6 - - - +
184B PRO* 1.3 61.8 - - + +
186B ASN* 3.0 11.8 + - - +
187B ALA* 2.6 37.8 + - - +
602B GDP 3.2 22.9 + - + +
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Residues in contact with PRO 184 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
180B THR 5.0 0.4 - - - +
181B VAL 3.7 4.0 - - - +
182B VAL 3.3 6.1 - - - +
183B GLU* 1.3 92.3 - - + +
185B TYR* 1.3 53.6 + - + +
187B ALA* 3.9 6.4 - - + +
188B THR* 2.4 37.2 + - - -
391B ILE* 4.4 5.8 - - + +
394B GLN* 4.0 42.8 - - + +
395B PHE* 3.4 7.9 - - - +
398B MET* 3.3 32.1 - - + -
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Residues in contact with TYR 185 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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182B VAL* 2.6 22.8 + - + +
184B PRO* 1.3 72.7 - - + +
186B ASN* 1.3 64.7 + - - +
188B THR* 4.0 1.2 - - - -
189B LEU* 3.1 32.1 + - - +
395B PHE* 3.9 22.1 - + - -
398B MET* 3.6 31.6 - - + -
399B PHE* 3.5 19.6 + - + +
403B ALA* 3.2 35.4 + - + +
404B PHE* 4.5 3.8 - - + -
405B LEU* 3.9 26.3 - - + +
408B TYR* 3.4 28.5 - + + +
418B PHE* 3.2 29.8 - + + -
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Residues in contact with ASN 186 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101B ASN 3.6 6.7 + - - -
103B TRP* 2.8 33.9 + - - +
141B LEU 3.2 5.8 - - - +
143B GLY* 3.1 49.3 + - - +
147B SER* 3.9 1.9 + - - +
180B THR* 5.7 0.2 - - - -
182B VAL* 3.4 23.0 + - - +
183B GLU* 3.0 8.7 + - - +
185B TYR* 1.3 81.6 - - - +
187B ALA* 1.3 55.6 + - - +
189B LEU* 3.4 2.9 + - - +
190B SER* 2.7 32.2 + - - -
408B TYR* 3.2 14.2 + - - -
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Residues in contact with ALA 187 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141B LEU* 3.2 18.7 + - + +
172B VAL* 5.5 1.6 - - + -
173B PRO* 4.2 21.8 - - + -
183B GLU 2.6 22.5 + - - +
184B PRO* 3.9 5.8 - - + +
186B ASN* 1.3 70.1 - - - +
188B THR* 1.3 67.3 + - - +
190B SER* 3.0 5.2 + - - -
191B VAL* 2.9 28.9 + - + +
391B ILE* 4.4 16.2 - - + -
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Residues in contact with THR 188 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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184B PRO 2.4 24.2 + - - -
185B TYR 4.0 0.2 - - - -
187B ALA* 1.3 77.3 - - - +
189B LEU* 1.3 62.8 + - - +
190B SER 3.3 1.0 + - - -
191B VAL* 3.5 5.0 + - - +
192B HIS* 3.4 21.8 + - - +
391B ILE* 3.4 17.0 - - + +
392B SER* 5.7 1.3 - - - -
395B PHE* 3.1 35.3 - - + +
421B ALA* 4.4 4.0 - - + +
422B GLU* 4.4 20.6 - - + +
425B MET* 4.0 24.1 - - + +
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Residues in contact with LEU 189 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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103B TRP* 3.7 61.5 - - + -
185B TYR 3.1 20.3 + - - +
186B ASN 3.7 5.6 - - - +
187B ALA 3.1 0.2 - - - -
188B THR* 1.3 80.6 - - - +
190B SER* 1.3 58.4 + - - +
192B HIS* 4.2 6.9 - - + +
193B GLN* 4.0 10.4 + - - +
395B PHE* 5.9 1.3 - - + -
408B TYR* 4.9 2.9 - - + -
413B MET* 3.9 27.6 - - + -
417B GLU* 4.4 17.5 - - + +
418B PHE* 3.9 23.8 - - + -
421B ALA* 4.6 11.9 - - + -
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Residues in contact with SER 190 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103B TRP* 3.5 2.5 + - - +
141B LEU* 3.5 21.8 + - - -
147B SER* 3.1 21.0 + - - -
151B THR* 3.6 25.1 - - - -
186B ASN 2.7 17.3 + - - -
187B ALA 3.0 5.3 + - - -
189B LEU* 1.3 73.7 - - - +
191B VAL* 1.3 59.9 + - - +
192B HIS 3.0 1.8 - - - -
193B GLN* 2.6 24.8 + - - +
194B LEU* 2.7 14.7 + - - +
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Residues in contact with VAL 191 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141B LEU* 4.3 17.2 - - + +
172B VAL* 5.6 3.4 - - + -
187B ALA* 2.9 21.6 + - + +
188B THR 3.8 5.4 - - - +
190B SER* 1.3 75.3 - - - +
192B HIS* 1.3 63.1 + - - +
194B LEU* 3.1 10.6 + - + +
195B VAL* 2.9 25.6 + - + +
267B PHE* 4.7 2.7 - - + -
388B PHE* 3.9 22.9 - - + -
391B ILE* 4.9 3.8 - - + -
425B MET* 3.3 46.7 - - + -
428B LEU* 4.7 8.5 - - + -
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Residues in contact with HIS 192 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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188B THR 3.4 13.2 + - - +
189B LEU* 4.2 7.9 - - + +
191B VAL* 1.3 83.2 - - - +
193B GLN* 1.3 72.5 + - - +
195B VAL* 3.4 11.8 + - - +
196B GLU* 3.4 23.5 + - + +
417B GLU 5.6 0.9 - - - -
420B GLU* 4.3 13.2 + - + +
421B ALA* 3.8 37.2 - - + +
424B ASN* 3.5 37.0 + - + -
425B MET* 5.5 2.0 - - + +
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Residues in contact with GLN 193 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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103B TRP* 3.4 30.5 - - - -
107B HIS* 3.4 21.6 + - - -
151B THR* 3.6 35.4 - - + +
154B ILE* 5.4 0.9 - - + -
155B SER* 4.3 8.4 + - - +
189B LEU 4.0 5.2 + - - +
190B SER 2.6 14.8 + - - +
192B HIS* 1.3 82.9 + - - +
194B LEU* 1.3 64.1 + - - +
196B GLU* 3.0 16.7 + - - +
197B ASN* 3.2 27.6 + - - +
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Residues in contact with LEU 194 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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139B HIS* 4.3 13.2 - - - +
141B LEU* 4.0 28.3 - - + -
151B THR* 4.8 7.4 - - + -
154B ILE* 4.2 11.4 - - + -
168B THR* 4.0 15.7 - - + +
170B SER* 3.8 17.0 - - - +
190B SER 2.7 18.8 + - - +
191B VAL* 3.6 9.2 - - + +
193B GLN* 1.3 72.4 - - - +
195B VAL* 1.3 57.9 + - - +
196B GLU 2.9 1.2 + - - -
198B THR* 3.3 32.6 + - + +
201B THR* 4.0 12.3 - - + +
265B LEU* 2.5 26.0 - - + +
267B PHE* 4.1 15.0 - - + -
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Residues in contact with VAL 195 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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191B VAL* 2.9 14.0 + - + +
192B HIS* 3.5 13.2 - - - +
194B LEU* 1.3 76.2 - - - +
196B GLU* 1.3 71.7 + - - +
198B THR 4.5 0.9 - - - +
263B PRO 5.5 0.3 - - - +
264B ARG* 3.8 39.1 - - + +
265B LEU* 3.4 23.1 + - - +
267B PHE* 3.8 20.6 - - + -
424B ASN* 3.8 13.7 - - - +
428B LEU* 3.9 30.7 - - + -
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Residues in contact with GLU 196 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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158B ARG* 4.1 9.7 + - - -
192B HIS* 3.4 25.7 + - + +
193B GLN* 3.0 10.5 + - - +
194B LEU 2.9 1.0 + - - -
195B VAL* 1.3 87.2 - - + +
197B ASN* 1.3 69.7 + - - +
198B THR 3.7 1.4 + - - +
264B ARG* 3.8 8.9 + - - -
424B ASN* 3.3 24.8 + - - -
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Residues in contact with ASN 197 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154B ILE* 3.9 18.8 - - + +
155B SER* 3.4 26.8 + - - -
158B ARG* 3.6 38.1 + - + +
166B MET* 3.6 17.2 - - - +
193B GLN* 3.2 33.2 + - - +
196B GLU* 1.3 87.1 - - - +
198B THR* 1.3 65.6 + - - +
72E LEU* 4.2 16.0 - - - +
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Residues in contact with THR 198 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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154B ILE* 3.3 25.8 - - + -
158B ARG* 4.0 4.1 + - - +
166B MET* 3.6 18.2 - - + -
168B THR* 4.4 5.2 - - + -
194B LEU* 3.3 28.1 + - + +
195B VAL 4.5 1.6 - - - +
196B GLU 3.7 1.0 - - - +
197B ASN* 1.3 81.6 - - - +
199B ASP* 1.3 62.9 + - - +
200B GLU 3.9 1.4 + - - -
201B THR* 3.3 10.9 + - - +
265B LEU* 2.8 47.8 - - - +
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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
------------------------------------------------------------
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