Contacts of the strand formed by residues 187 - 205 (chain A) in PDB entry 1SNG
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 187 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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183A ARG* 4.1 5.8 - - - -
184A THR* 2.6 46.0 + - - -
185A PRO 3.2 2.8 + - - -
186A ARG* 1.3 77.8 - - - +
188A PRO* 1.3 77.5 - - - +
189A LYS* 4.0 0.4 - - - +
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Residues in contact with PRO 188 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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181A THR* 3.6 22.2 - - + -
182A PHE 3.4 7.6 - - - +
183A ARG* 3.9 18.3 - - - -
186A ARG 5.0 0.7 - - - +
187A GLY* 1.3 85.1 - - - +
189A LYS* 1.3 63.5 + - - +
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Residues in contact with LYS 189 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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180A GLY 3.5 0.2 - - - +
181A THR* 3.5 3.2 - - - -
182A PHE* 2.8 33.2 + - - +
184A THR* 3.8 31.4 - - + +
186A ARG* 5.3 5.8 - - + +
187A GLY 4.0 0.9 - - - +
188A PRO* 1.3 81.6 - - - +
190A ARG* 1.3 65.3 + - - +
191A VAL* 3.5 10.1 + - + +
360A ASP* 5.7 0.7 - - - +
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Residues in contact with ARG 190 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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179A ALA* 3.4 35.3 + - + +
180A GLY* 3.2 12.3 - - - -
181A THR* 3.3 35.6 + - - +
189A LYS* 1.3 73.6 - - - +
191A VAL* 1.3 63.6 - - - +
192A PRO* 4.9 0.2 - - - +
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Residues in contact with VAL 191 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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179A ALA* 4.1 4.0 - - - -
180A GLY 2.8 30.2 + - - +
182A PHE* 3.8 19.1 - - + -
184A THR* 5.6 2.0 - - + -
189A LYS* 4.1 15.3 - - + +
190A ARG* 1.3 79.2 - - - +
192A PRO* 1.3 78.1 - - + +
193A PHE* 3.3 25.8 - - + -
257A PRO* 4.6 10.1 - - + -
361A PRO* 4.6 20.6 - - + +
363A ASP* 6.1 0.7 - - + -
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Residues in contact with PRO 192 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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177A THR* 3.9 19.3 - - + -
178A ARG* 3.7 9.9 - - - +
179A ALA* 4.3 1.8 - - + -
190A ARG 4.9 0.2 - - - +
191A VAL* 1.3 86.5 - - + +
193A PHE* 1.3 61.2 + - - +
257A PRO* 3.4 6.8 - - - +
258A ARG* 3.2 38.6 + - - +
363A ASP* 3.4 34.5 - - + +
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Residues in contact with PHE 193 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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177A THR* 3.2 4.3 - - - -
178A ARG 2.8 36.9 + - - +
180A GLY* 3.5 28.7 - - - -
181A THR 3.6 16.6 - - - -
182A PHE* 4.1 4.9 - + - -
191A VAL* 3.3 35.9 - - + -
192A PRO* 1.3 72.7 - - - +
194A MET* 1.3 59.8 + - - +
195A HIS* 3.2 22.1 + - + +
255A ALA* 3.8 26.7 - - + -
256A LEU 3.7 2.0 - - - -
257A PRO* 3.7 12.8 - - + -
337A SER* 4.5 3.8 - - - -
338A VAL 3.2 33.4 - - - -
339A ASP* 4.0 9.2 - - + -
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Residues in contact with MET 194 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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172A PHE* 3.5 37.1 - - + -
177A THR* 3.7 19.5 - - + +
193A PHE* 1.3 74.8 - - - +
195A HIS* 1.3 59.5 + - - +
254A LEU 3.6 0.9 - - - +
255A ALA* 3.3 6.4 - - - -
256A LEU* 2.7 58.8 + - + +
257A PRO 4.1 4.5 - - - +
258A ARG* 4.1 13.5 - - + -
307A VAL* 4.0 13.7 - - + -
308A ASP* 3.3 37.9 - - - +
309A GLU* 3.4 16.8 - - - +
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Residues in contact with HIS 195 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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172A PHE* 3.7 11.9 - - - +
173A GLU* 4.5 5.3 + - - +
176A LEU* 3.3 45.1 + - + +
177A THR* 4.8 0.4 + - - -
178A ARG* 3.3 53.6 + - + +
179A ALA 5.8 0.2 - - - -
193A PHE* 3.2 36.1 + - + +
194A MET* 1.3 73.5 - - - +
196A ARG* 1.3 62.5 + - - +
253A GLU* 5.5 9.9 - - + -
254A LEU 3.4 6.3 - - - -
255A ALA* 3.8 24.3 - - + +
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Residues in contact with ARG 196 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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168A TRP* 5.0 2.8 - - - +
170A THR* 3.1 37.5 + - + +
171A PRO 5.6 1.9 + - - +
172A PHE* 3.3 32.1 - - + -
176A LEU* 5.9 1.6 - - - -
195A HIS* 1.3 75.4 - - - +
197A THR* 1.3 60.0 + - - +
198A LYS* 4.1 17.6 - - + +
200A MET* 3.4 39.2 - - - +
213A LEU* 3.2 29.3 - - - +
214A HIS 5.4 1.4 + - - +
252A VAL 3.5 1.4 - - - +
253A GLU* 3.7 0.8 - - - +
254A LEU* 2.8 44.6 + - + -
503A SO4 3.6 23.8 + - - -
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Residues in contact with THR 197 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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196A ARG* 1.3 73.4 + - - +
198A LYS* 1.3 64.7 + - - +
251A SER* 4.2 9.0 - - - +
252A VAL 3.3 9.2 - - - +
253A GLU* 3.7 19.9 - - - +
333A THR* 4.2 22.4 - - + +
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Residues in contact with LYS 198 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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170A THR* 3.5 38.3 + - + +
196A ARG* 4.0 24.6 - - + +
197A THR* 1.3 78.3 - - - +
199A THR* 1.3 76.9 + - - +
200A MET* 3.2 11.7 + - + +
251A SER* 4.4 3.6 - - - -
252A VAL 3.1 25.5 + - - -
503A SO4 3.1 27.4 + - - +
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Residues in contact with THR 199 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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198A LYS* 1.3 88.2 - - - +
200A MET* 1.3 61.6 + - - +
249A SER* 3.0 30.5 - - - +
250A THR* 3.3 20.9 - - - +
251A SER* 4.1 7.7 - - - +
503A SO4 4.3 8.0 + - - -
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Residues in contact with MET 200 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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196A ARG* 3.4 43.1 - - - +
198A LYS 3.2 22.2 - - - +
199A THR* 1.3 79.0 - - - +
201A PRO* 1.3 84.9 - - + +
202A TYR 3.3 0.5 + - - -
211A VAL* 3.9 23.6 - - - -
212A THR 3.8 9.6 - - - +
213A LEU* 4.8 1.6 - - - -
214A HIS* 5.6 2.0 - - + +
249A SER* 4.2 4.3 - - - -
250A THR* 2.9 30.9 + - - +
252A VAL* 3.8 37.0 - - + +
254A LEU* 4.3 9.9 - - + -
503A SO4 5.8 1.1 - - - +
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Residues in contact with PRO 201 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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200A MET* 1.3 89.7 - - + +
202A TYR* 1.3 58.2 + - - +
210A MET* 6.3 0.7 - - - -
211A VAL* 3.2 8.9 - - - +
212A THR* 3.1 54.0 + - + +
214A HIS* 3.7 28.5 - - + +
247A SER* 4.2 17.7 - - - -
248A ALA 3.6 10.5 - - - +
249A SER* 4.5 1.5 - - - -
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Residues in contact with TYR 202 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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201A PRO* 1.3 75.8 - - - +
203A ALA* 1.3 69.6 + - - +
204A THR* 3.1 25.5 - - + +
209A ARG* 3.1 42.4 + - + -
210A MET 3.3 13.9 - - - -
211A VAL* 3.9 12.1 - - + -
246A ARG 3.8 1.9 - - - +
247A SER* 3.5 1.9 - - - -
248A ALA* 3.0 30.0 + - - +
250A THR* 3.6 34.5 + - + +
252A VAL* 4.0 13.9 - - + -
334A ILE* 3.9 18.5 - - + +
336A PHE* 3.9 10.8 - + - -
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Residues in contact with ALA 203 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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202A TYR* 1.3 81.8 - - - +
204A THR* 1.3 65.6 + - - +
209A ARG* 3.4 2.8 - - - -
210A MET* 2.9 35.9 + - + +
243A LEU* 3.0 42.2 - - + +
246A ARG* 3.7 15.5 - - + +
247A SER* 3.7 6.3 + - - +
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Residues in contact with THR 204 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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202A TYR* 3.1 33.6 - - + +
203A ALA* 1.3 77.5 - - - +
205A ALA* 1.3 56.0 + - - +
207A GLY* 6.0 1.1 - - - -
208A TRP 3.2 11.7 - - - +
209A ARG* 4.1 9.0 - - + -
243A LEU* 3.8 2.2 - - - -
246A ARG* 2.7 47.0 + - - +
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Residues in contact with ALA 205 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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204A THR* 1.3 77.3 - - - +
206A ARG* 1.3 65.9 + - + +
207A GLY 3.1 1.3 - - - -
208A TRP* 2.8 38.0 + - - +
239A LEU* 3.7 11.8 - - + +
242A ALA* 4.2 18.8 - - + -
243A LEU* 3.6 23.0 - - + +
246A ARG* 4.4 8.5 - - - +
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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