Contacts of the helix formed by residues 195 - 216 (chain A) in PDB entry 2R5T
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 LEU 195 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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193A CYS* 4.3 1.7 + - - +
194A PHE* 1.3 76.5 - - - +
196A GLU* 1.3 66.6 + - - +
197A PRO* 3.4 11.2 - - + -
198A ARG* 3.2 10.3 + - + +
199A ALA* 3.0 19.3 + - - +
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Residues in contact with GLU 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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194A PHE 3.9 0.2 + - - -
195A LEU* 1.3 71.8 - - - +
197A PRO* 1.3 65.2 - - + +
199A ALA* 3.8 4.8 - - - +
200A ARG* 2.7 41.1 + - - +
291A LEU* 3.8 20.0 - - + -
319A ASN 4.4 1.9 - - - +
320A ILE* 3.3 13.0 - - + +
321A THR* 2.6 58.2 + - + +
324A ALA* 3.9 8.1 - - - -
354A PHE* 3.5 20.7 - - + -
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Residues in contact with PRO 197 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
195A LEU* 3.6 11.4 - - + -
196A GLU* 1.3 91.9 - - + +
198A ARG* 1.3 59.2 + - - +
200A ARG* 3.6 26.6 + - - +
201A PHE* 3.1 23.6 + - - +
371A PRO* 4.9 1.9 - - - +
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Residues in contact with ARG 198 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187A HIS* 4.3 4.2 - - - +
191A GLU* 2.5 44.5 + - - -
194A PHE* 3.7 32.4 - - + +
195A LEU* 3.2 16.4 + - + +
196A GLU 3.2 0.2 - - - -
197A PRO* 1.3 76.4 - - - +
199A ALA* 1.3 64.8 - - - +
201A PHE* 3.2 13.5 + - - +
202A TYR* 2.9 46.4 + - + -
371A PRO* 3.8 30.4 - - + +
372A PHE* 3.3 36.1 - - - +
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Residues in contact with ALA 199 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
194A PHE* 4.1 4.2 - - + +
195A LEU 3.0 16.7 + - - +
196A GLU* 3.8 2.9 - - - +
198A ARG* 1.3 75.7 - - - +
200A ARG* 1.3 57.4 + - - +
202A TYR 3.3 1.4 + - - -
203A ALA* 2.8 32.7 + - - +
287A LEU* 3.8 14.6 - - + -
290A MET* 3.5 26.7 - - + +
291A LEU* 3.8 24.9 - - + -
354A PHE* 5.2 0.4 - - + -
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Residues in contact with ARG 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 GLU* 2.7 26.4 + - - +
197A PRO* 3.6 37.1 + - - +
199A ALA* 1.3 73.4 - - - +
201A PHE* 1.3 55.0 + - - +
203A ALA* 4.4 0.9 - - - -
204A ALA* 2.8 33.1 + - - +
354A PHE* 3.2 59.6 + - + +
355A PHE* 3.6 18.7 - - + +
357A LEU* 4.4 29.1 - - - +
358A ILE* 4.0 24.0 - - + +
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Residues in contact with PHE 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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197A PRO 3.1 13.8 + - - +
198A ARG 3.2 8.5 + - - +
200A ARG* 1.3 76.3 - - - +
202A TYR* 1.3 70.8 + + - +
204A ALA* 3.3 5.9 + - - +
205A GLU* 3.0 67.8 + - - +
234A GLY 3.8 14.6 - - - -
235A HIS* 3.7 11.9 - + - -
358A ILE* 4.6 7.8 - - + +
363A LEU* 4.2 9.6 - - + +
368A ILE* 3.6 39.0 - - + -
370A PRO* 3.7 13.9 - - + -
371A PRO* 3.4 30.3 - - + -
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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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184A LEU* 3.7 15.3 - - + -
194A PHE* 3.6 29.2 - + - -
198A ARG* 2.9 60.0 + - + -
199A ALA 3.8 3.6 - - - +
201A PHE* 1.3 90.7 - + - +
203A ALA* 1.3 66.5 + - - +
205A GLU* 3.3 2.8 + - - +
206A ILE* 3.0 31.0 + - + +
230A LEU* 3.7 24.9 - - + +
234A GLY 3.9 8.8 + - - -
236A ILE* 3.8 27.8 - - + +
290A MET* 3.9 12.6 - - + -
371A PRO* 4.8 2.7 - - + -
372A PHE* 3.6 13.3 + - - +
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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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199A ALA 2.8 18.4 + - - +
200A ARG* 3.9 2.2 - - - +
202A TYR* 1.3 76.6 - - - +
204A ALA* 1.3 57.6 + - - +
206A ILE* 3.4 2.6 + - - -
207A ALA* 2.8 30.7 + - - +
283A LEU* 3.6 19.2 - - + +
286A VAL* 6.0 0.4 - - + -
287A LEU* 4.3 17.0 - - + -
290A MET* 4.1 14.1 - - + +
355A PHE* 3.9 21.1 - - + -
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Residues in contact with ALA 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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200A ARG 2.8 22.3 + - - +
201A PHE 3.6 4.0 - - - +
203A ALA* 1.3 74.3 - - - +
205A GLU* 1.3 58.0 + - - +
207A ALA* 3.3 0.4 + - - -
208A SER* 2.9 26.0 + - - -
355A PHE* 3.7 9.3 - - + -
358A ILE* 3.9 17.0 - - + -
360A TRP* 3.3 29.9 - - + -
363A LEU* 3.6 17.7 - - + -
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Residues in contact with GLU 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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158A PHE* 3.2 39.8 - - + -
201A PHE* 3.0 44.7 + - - +
202A TYR 3.3 3.8 + - - +
204A ALA* 1.3 74.8 - - - +
206A ILE* 1.3 61.3 + - - +
208A SER* 2.7 24.3 + - - -
209A ALA* 3.3 5.5 + - - +
235A HIS* 2.8 25.2 + - - -
236A ILE* 2.8 42.1 + - + +
363A LEU* 3.7 15.8 - - + +
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Residues in contact with ILE 206 (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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184A LEU* 4.9 1.3 - - + -
202A TYR* 3.0 23.9 + - + +
203A ALA* 3.8 6.1 - - - +
205A GLU* 1.3 75.0 - - - +
207A ALA* 1.3 64.9 + - - +
209A ALA* 3.1 8.4 + - - +
210A LEU* 3.0 33.6 + - + +
223A LEU* 3.8 26.5 - - + -
228A ILE* 4.0 24.0 - - + -
236A ILE* 3.8 23.8 - - + -
238A LEU* 4.3 12.8 - - + -
283A LEU* 4.0 8.5 - - + -
286A VAL* 4.1 24.7 - - + -
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Residues in contact with ALA 207 (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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203A ALA 2.8 18.6 + - - +
204A ALA* 3.3 5.4 + - - +
206A ILE* 1.3 76.7 - - - +
208A SER* 1.3 56.8 + - - +
210A LEU* 3.3 2.8 + - - +
211A GLY 2.9 25.5 + - - -
280A TRP* 3.9 9.9 - - + -
283A LEU* 3.9 22.2 - - + +
346A PHE* 3.5 15.4 - - + -
349A ILE* 4.0 18.4 - - + -
355A PHE* 5.1 0.7 - - + -
360A TRP* 4.2 4.7 - - + -
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Residues in contact with SER 208 (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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156A HIS* 3.8 5.5 + - - -
158A PHE* 3.2 20.8 - - - -
204A ALA 2.9 13.8 + - - -
205A GLU 2.7 19.4 + - - -
207A ALA* 1.3 75.5 - - - +
209A ALA* 1.3 62.1 + - - +
211A GLY* 3.5 0.5 + - - -
212A TYR* 3.0 25.1 + - - +
346A PHE* 4.0 12.6 - - - -
360A TRP* 4.2 7.4 - - - -
363A LEU* 4.5 0.9 - - - -
364A ILE* 3.8 31.0 - - - +
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Residues in contact with ALA 209 (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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156A HIS* 3.6 27.5 - - + -
158A PHE* 4.3 6.3 - - + -
159A LEU* 4.1 12.0 - - + +
205A GLU 3.3 6.5 + - - +
206A ILE 3.1 9.0 + - - +
208A SER* 1.3 79.5 + - - +
210A LEU* 1.3 62.9 + - - +
212A TYR* 3.4 2.8 + - - +
213A LEU* 3.1 30.0 + - - +
238A LEU* 4.1 22.2 - - + -
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Residues in contact with LEU 210 (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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206A ILE* 3.0 37.5 + - + +
207A ALA* 3.7 5.6 - - - +
209A ALA* 1.3 77.6 - - - +
211A GLY* 1.3 61.8 + - - +
213A LEU* 3.3 5.9 + - + +
214A HIS* 3.0 36.9 + - - +
220A TYR* 3.7 39.5 - - + -
223A LEU* 4.6 9.6 - - + -
238A LEU* 4.8 5.4 - - + -
279A ASP* 3.7 31.4 - - + +
280A TRP* 3.9 22.4 - - + -
283A LEU* 4.4 7.2 - - + -
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Residues in contact with GLY 211 (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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207A ALA 2.9 13.4 + - - -
208A SER 3.9 1.1 - - - -
210A LEU* 1.3 75.3 - - - +
212A TYR* 1.3 62.3 + - - +
214A HIS* 3.4 3.5 + - - +
215A SER* 3.1 21.8 + - - -
280A TRP* 3.8 3.9 - - - -
345A ASP* 4.2 6.4 - - - +
346A PHE* 3.6 36.0 - - - +
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Residues in contact with TYR 212 (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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154A VAL* 3.7 12.9 - - + +
155A LYS 3.6 22.8 + - - -
156A HIS* 3.4 32.3 - + + +
208A SER 3.0 17.7 + - - +
209A ALA 3.7 2.9 - - - +
211A GLY* 1.3 77.4 - - - +
213A LEU* 1.3 64.6 + - + +
215A SER* 2.6 32.8 + - - -
216A LEU* 3.4 38.2 + - + +
346A PHE* 5.5 0.2 - - - -
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Residues in contact with LEU 213 (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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154A VAL* 3.8 35.2 - - + -
159A LEU* 3.9 24.0 - - + -
209A ALA 3.1 24.1 + - - +
210A LEU* 3.3 7.2 + - + +
212A TYR* 1.3 76.1 - - + +
214A HIS* 1.3 62.9 + - + +
216A LEU* 3.0 12.5 + - - -
218A ILE* 2.9 56.3 + - + +
220A TYR* 3.9 34.5 - - + +
279A ASP* 5.8 0.2 - - - +
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Residues in contact with HIS 214 (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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210A LEU 3.0 20.9 + - - +
211A GLY 3.8 1.6 - - - +
213A LEU* 1.3 76.7 - - + +
215A SER* 1.3 56.6 + - - +
217A ASN* 2.9 19.7 + - - +
218A ILE 3.2 18.2 - - - +
219A VAL* 4.2 1.6 - - - -
276A ARG* 3.3 43.0 + - + +
279A ASP* 2.6 33.0 + - + +
280A TRP* 3.5 24.8 - + - -
345A ASP* 2.8 37.9 + - - +
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Residues in contact with SER 215 (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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211A GLY 3.1 14.4 + - - -
212A TYR* 2.6 31.3 + - - -
214A HIS* 1.3 75.3 - - - +
216A LEU* 1.3 66.8 + - - +
217A ASN 3.3 0.6 + - - -
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Residues in contact with LEU 216 (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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152A LYS* 5.2 1.6 + - - -
154A VAL* 4.0 21.3 - - + -
212A TYR* 3.6 47.8 - - + +
213A LEU* 3.0 8.3 + - - +
215A SER* 1.3 84.8 + - - +
217A ASN* 1.3 68.5 + - - +
218A ILE* 3.3 17.4 + - + +
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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