Contacts of the helix formed by residues 269 - 288 (chain E) in PDB entry 1UW9
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 TYR 269 (chain E).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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267E HIS* 3.3 14.0 + - - -
268E ASP* 1.3 73.3 - - - +
270E LEU* 1.3 83.7 + - + +
273E GLY* 2.9 29.3 + - - -
274E PHE* 3.5 34.3 + + - -
277E ASN* 3.4 26.5 - - + +
293E ILE* 3.2 22.0 - - + -
294E HIS 3.3 9.4 + - - -
295E ARG* 3.8 12.1 - - + -
311E PHE* 4.1 8.8 - - - -
314E LEU* 2.9 35.6 + - - +
318E LEU* 3.6 27.4 - - + +
326E LEU* 3.8 18.7 - - + +
1482E EDO 4.6 0.3 + - - -
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Residues in contact with LEU 270 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117E PHE* 5.9 0.2 - - + -
268E ASP 3.3 0.8 - - - -
269E TYR* 1.3 115.0 - - + +
271E THR* 1.3 65.9 + - - +
272E GLY 3.4 0.2 - - - -
273E GLY* 3.7 2.8 + - - -
274E PHE* 4.1 18.4 - - + -
294E HIS 4.7 0.4 + - - -
295E ARG 3.9 6.1 - - - +
296E ALA 3.5 10.7 + - - +
297E MET* 4.0 10.5 - - + -
298E HIS* 3.7 39.9 - - + +
301E ILE* 4.8 5.8 - - + -
314E LEU* 4.4 16.6 - - + -
1482E EDO 2.7 43.9 + - - +
297K MET* 6.5 0.2 - - + -
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Residues in contact with THR 271 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
268E ASP* 3.1 22.6 + - - +
270E LEU* 1.3 75.0 - - - +
272E GLY* 1.3 62.5 + - - +
296E ALA* 3.8 19.4 + - + +
297E MET* 3.9 22.0 - - + -
114K THR* 2.8 29.9 + - - +
117K PHE* 4.3 8.1 - - + -
118K THR* 2.8 42.6 + - - +
274K PHE* 3.9 16.9 + - - +
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Residues in contact with GLY 272 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
267E HIS* 4.0 12.8 - - - -
268E ASP 2.8 15.4 + - - -
271E THR* 1.3 79.1 + - - +
273E GLY* 1.3 60.0 + - - +
276E ALA* 4.0 2.3 - - - +
114K THR* 3.7 7.3 - - - +
273K GLY* 3.8 1.6 - - - -
274K PHE 3.6 3.7 + - - -
275K THR* 3.1 46.3 + - - -
276K ALA 4.3 0.3 + - - -
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Residues in contact with GLY 273 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
267E HIS* 4.0 0.3 + - - -
268E ASP 4.0 0.2 + - - -
269E TYR 2.9 20.6 + - - -
270E LEU 4.0 6.7 - - - -
271E THR 3.5 1.2 - - - -
272E GLY* 1.3 79.3 - - - +
274E PHE* 1.3 55.1 + - - -
275E THR 3.4 3.1 - - - -
276E ALA* 3.5 2.7 + - - +
277E ASN* 2.8 34.1 + - - +
1482E EDO 4.3 3.6 - - - -
272K GLY 3.8 0.4 - - - -
273K GLY* 3.8 16.8 - - - -
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Residues in contact with PHE 274 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113E VAL* 3.6 26.0 - - + -
114E THR* 3.4 21.1 - - - +
117E PHE* 3.9 29.6 - + + -
269E TYR* 3.5 37.4 + + - -
270E LEU* 4.1 15.3 - - + -
273E GLY* 1.3 69.0 - - - -
275E THR* 1.3 59.5 + - - +
277E ASN* 3.7 3.8 - - + +
278E THR* 2.7 39.2 + - - +
314E LEU* 5.0 1.3 - - + -
317E ALA* 3.7 28.7 - - + -
321E SER* 4.0 14.6 - - - -
1482E EDO 4.8 9.4 + - - -
245K GLY 4.4 0.4 - - - -
271K THR* 3.9 13.8 + - - +
272K GLY 3.6 3.2 + - - -
297K MET* 6.1 0.9 - - - -
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Residues in contact with THR 275 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114E THR* 3.1 9.2 + - - -
274E PHE* 1.3 77.9 - - - +
276E ALA* 1.3 63.1 + - - +
278E THR 3.5 0.2 + - - -
279E SER* 3.3 22.7 + - - -
244K ALA 2.7 24.0 + - - +
245K GLY 3.5 11.3 - - - +
246K THR 3.3 30.7 - - - +
247K CYS* 3.3 5.8 - - - +
250K MET* 4.7 7.4 - - + -
267K HIS* 5.0 1.1 - - + -
272K GLY* 3.2 22.7 + - - -
276K ALA* 3.8 19.3 - - + -
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Residues in contact with ALA 276 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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247E CYS* 4.1 5.6 - - - -
250E MET* 3.5 19.4 - - - +
267E HIS* 4.2 4.3 - - - +
272E GLY 4.0 3.4 - - - +
273E GLY 3.5 8.3 + - - +
274E PHE 3.4 0.4 - - - -
275E THR* 1.3 77.9 - - - +
277E ASN* 1.3 62.3 + - - +
279E SER* 3.3 4.0 + - - -
280E LEU* 2.9 19.6 + - - +
247K CYS* 3.8 12.0 - - - -
272K GLY 4.3 1.0 + - - -
275K THR* 3.8 36.6 - - + -
276K ALA* 4.4 2.1 - - - +
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Residues in contact with ASN 277 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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267E HIS* 2.8 34.8 + - + +
269E TYR* 3.4 16.8 - - + +
273E GLY 2.8 21.9 + - - +
274E PHE* 3.7 6.7 - - + +
275E THR 3.3 0.2 - - - -
276E ALA* 1.3 74.3 - - - +
278E THR* 1.3 57.8 + - - +
280E LEU* 3.2 2.6 + - - +
281E ALA* 2.9 26.9 + - - +
291E LEU* 4.4 2.5 - - - +
293E ILE* 3.2 24.0 - - - +
318E LEU* 3.6 6.2 - - - +
321E SER* 3.0 17.5 + - - +
322E GLY 3.0 21.1 - - - +
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Residues in contact with THR 278 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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111E GLY 4.4 14.1 + - - +
113E VAL* 5.4 5.0 + - - +
148E PHE* 6.0 1.8 - - + -
149E VAL* 6.3 1.3 - - + -
274E PHE* 2.7 20.4 + - - +
277E ASN* 1.3 71.9 - - - +
279E SER* 1.3 65.0 + - - +
281E ALA* 3.3 2.8 + - - +
282E ILE* 3.1 32.8 + - + +
320E MET 5.6 0.7 - - - +
321E SER* 2.8 34.4 + - - +
245K GLY 3.2 24.5 + - - +
246K THR* 3.8 13.5 - - + -
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Residues in contact with SER 279 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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250E MET* 4.5 1.3 - - - -
251E MET* 3.8 19.3 - - - +
275E THR 3.3 4.0 + - - -
276E ALA* 3.5 9.0 - - - -
278E THR* 1.3 78.4 - - - +
280E LEU* 1.3 56.6 + - - +
282E ILE* 3.3 9.1 + - - +
283E TYR* 3.0 26.7 + - - +
246K THR* 3.4 4.3 - - - +
247K CYS* 2.8 30.3 + - - +
248K GLU* 2.6 30.2 + - - +
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Residues in contact with LEU 280 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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242E ALA* 4.2 8.1 - - + -
250E MET* 3.9 25.6 - - + -
251E MET* 4.1 10.1 - - - +
254E ALA* 3.7 29.8 - - + -
265E ILE* 3.9 15.3 - - + -
267E HIS* 3.6 36.1 - - + +
276E ALA 2.9 17.6 + - - +
277E ASN* 3.2 5.6 + - - +
279E SER* 1.3 77.3 - - - +
281E ALA* 1.3 56.9 + - - +
283E TYR* 3.1 5.3 + - + +
284E CYS* 2.8 33.6 + - - -
291E LEU* 3.7 16.6 - - + -
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Residues in contact with ALA 281 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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149E VAL* 5.8 0.9 - - + -
150E GLY 4.5 4.7 - - - +
152E PRO* 3.5 16.6 - - + +
277E ASN 2.9 16.9 + - - +
278E THR 3.7 1.8 - - - +
280E LEU* 1.3 74.8 - - - +
282E ILE* 1.3 59.0 + - + +
284E CYS* 3.3 0.7 + - - -
285E ARG* 2.9 27.2 + - - +
291E LEU* 3.7 13.4 - - + +
321E SER 3.6 21.1 - - - +
322E GLY* 3.8 21.8 - - - +
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Residues in contact with ILE 282 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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149E VAL* 4.2 33.9 - - + -
278E THR* 3.1 26.0 + - + +
279E SER* 3.6 8.7 - - - +
280E LEU 3.2 0.2 - - - -
281E ALA* 1.3 73.2 - - + +
283E TYR* 1.3 66.9 + - - +
285E ARG* 3.3 7.2 + - + +
286E ASP* 3.0 38.1 + - - +
246K THR* 3.8 25.1 - - + -
248K GLU* 5.8 3.4 - - - +
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Residues in contact with TYR 283 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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251E MET* 4.2 23.3 - - + -
254E ALA* 3.8 31.0 - - + -
255E VAL* 3.4 33.7 - - + +
258E LYS* 3.3 25.3 - - - +
279E SER 3.0 14.1 + - - +
280E LEU* 3.5 9.2 - - + +
282E ILE* 1.3 75.8 - - - +
284E CYS* 1.3 62.7 + - - +
286E ASP* 3.1 4.3 + - - -
287E ASN* 2.9 64.0 + - + +
289E LEU* 4.1 12.8 - - + -
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Residues in contact with CYS 284 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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152E PRO* 3.9 13.2 - - + -
153E HIS* 3.7 1.2 + - - -
265E ILE* 3.6 31.0 - - - -
280E LEU* 2.8 23.0 + - - +
281E ALA 3.5 5.4 - - - +
282E ILE 3.3 0.2 - - - -
283E TYR* 1.3 79.2 - - - +
285E ARG* 1.3 57.7 + - - +
287E ASN* 5.2 0.2 - - - -
288E GLY* 2.9 27.2 + - - -
289E LEU* 3.0 42.6 + - - +
291E LEU* 3.9 16.6 - - + -
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Residues in contact with ARG 285 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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213B ARG* 3.7 48.8 - - - +
215B ARG* 3.8 16.4 - - - +
216B ASP* 6.0 1.6 - - - -
149E VAL* 3.4 40.1 + - + +
151E HYP 2.8 23.8 + - - -
152E PRO* 2.8 30.8 + - + +
153E HIS* 4.7 4.7 - - - -
281E ALA 2.9 13.6 + - - +
282E ILE* 3.6 11.7 - - + +
283E TYR 3.3 0.2 - - - -
284E CYS* 1.3 76.7 - - - +
286E ASP* 1.3 72.7 + - - +
287E ASN 3.4 1.0 + - - -
288E GLY* 3.6 5.7 + - - -
372E PRO* 5.0 7.3 - - - +
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Residues in contact with ASP 286 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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214B TRP* 5.3 10.7 + - - -
215B ARG* 3.1 18.6 + - - +
252B LYS* 3.5 35.0 + - - -
282E ILE* 3.0 33.0 + - - +
283E TYR* 3.1 5.5 + - - +
285E ARG* 1.3 86.6 - - - +
287E ASN* 1.3 69.4 + - - +
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Residues in contact with ASN 287 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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215B ARG* 3.5 21.2 + - - +
258E LYS* 2.9 38.0 + - + +
283E TYR* 2.9 66.9 + - + +
284E CYS* 4.7 0.7 - - - +
286E ASP* 1.3 87.9 - - - +
288E GLY* 1.3 64.0 + - - +
289E LEU* 3.4 5.5 + - + +
63F VAL* 6.0 0.2 - - - -
65F CYS* 4.0 14.9 - - - +
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Residues in contact with GLY 288 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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215B ARG* 3.6 17.4 - - - +
153E HIS* 3.7 18.4 - - - -
161E LYS* 4.0 5.8 + - - -
284E CYS 2.9 9.7 + - - -
285E ARG 3.6 4.3 + - - -
287E ASN* 1.3 79.6 - - - +
289E LEU* 1.3 57.4 + - - -
65F CYS* 3.7 14.0 - - - +
66F LEU* 3.4 21.3 - - - +
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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
------------------------------------------------------------
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