Contacts of the helix formed by residues 269 - 288 (chain K) 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 K).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1482E EDO 4.6 0.2 + - - -
267K HIS* 3.3 13.8 + - - -
268K ASP* 1.3 73.1 - - - +
270K LEU* 1.3 82.9 + - + +
273K GLY* 2.8 30.5 + - - -
274K PHE* 3.5 34.2 + + - -
277K ASN* 3.4 26.2 - - + +
293K ILE* 3.1 21.5 - - + -
294K HIS 3.3 8.7 + - - -
295K ARG* 3.8 12.3 - - + -
311K PHE* 4.1 9.5 - - - -
314K LEU* 2.9 35.1 + - - +
318K LEU* 3.5 27.3 - - + +
326K LEU* 3.7 19.3 - - + +
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Residues in contact with LEU 270 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
274E PHE* 5.7 0.2 - - - -
1482E EDO 3.0 47.2 + - - +
117K PHE* 5.9 0.2 - - + -
268K ASP 3.2 0.6 - - - -
269K TYR* 1.3 117.5 - - + +
271K THR* 1.3 64.5 + - - +
273K GLY 3.7 3.3 + - - -
274K PHE* 4.1 16.2 - - + -
294K HIS 4.7 0.2 + - - -
295K ARG 3.9 6.3 - - - +
296K ALA 3.5 11.5 + - - +
297K MET* 3.9 11.2 - - + -
298K HIS* 3.7 39.3 - - + +
301K ILE* 4.8 5.4 - - + -
314K LEU* 4.4 16.4 - - + -
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Residues in contact with THR 271 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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114E THR* 2.8 29.7 + - - +
117E PHE* 4.3 7.0 - - + -
118E THR* 2.9 42.5 + - - +
274E PHE* 3.9 16.6 + - - +
268K ASP* 3.1 21.5 - - - +
270K LEU* 1.3 75.5 - - - +
272K GLY* 1.3 63.5 + - - +
296K ALA* 3.7 18.6 + - + +
297K MET* 3.8 24.0 - - + -
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Residues in contact with GLY 272 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114E THR* 3.7 6.6 - - - +
273E GLY* 3.8 1.7 - - - -
274E PHE 3.6 3.8 + - - -
275E THR* 3.2 46.1 + - - -
276E ALA 4.3 0.5 + - - -
267K HIS* 4.0 13.2 - - - -
268K ASP 2.8 15.7 + - - -
271K THR* 1.3 77.3 + - - +
273K GLY* 1.3 62.8 + - - +
276K ALA* 4.0 2.5 - - - +
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Residues in contact with GLY 273 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
272E GLY 3.8 0.4 - - - -
273E GLY* 3.8 16.6 - - - -
1482E EDO 4.3 3.8 - - - -
267K HIS* 4.0 0.5 + - - -
269K TYR 2.8 22.3 + - - -
270K LEU 4.0 7.2 - - - -
271K THR 3.5 0.8 - - - -
272K GLY* 1.3 77.7 - - - +
274K PHE* 1.3 61.6 + - - -
275K THR 3.4 2.7 - - - -
276K ALA 3.4 2.4 + - - -
277K ASN* 2.8 28.9 + - - +
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Residues in contact with PHE 274 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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245E GLY 4.4 0.4 - - - -
271E THR* 3.9 14.0 + - - +
272E GLY 3.6 3.6 + - - -
297E MET* 6.1 0.2 - - - -
1482E EDO 4.5 10.3 - - - -
113K VAL* 3.6 24.5 - - + -
114K THR* 3.5 22.4 - - - +
117K PHE* 3.9 29.6 - + + -
269K TYR* 3.5 39.0 + + - -
270K LEU* 4.1 14.6 - - + -
273K GLY* 1.3 69.2 - - - -
275K THR* 1.3 59.4 + - - +
277K ASN* 4.2 3.1 - - + -
278K THR* 2.6 38.4 + - - +
314K LEU* 5.0 1.3 - - + -
317K ALA* 3.7 27.8 - - + -
321K SER* 3.8 15.2 + - - -
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Residues in contact with THR 275 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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244E ALA 2.8 24.6 + - - +
245E GLY 3.5 7.4 - - - -
246E THR* 3.3 32.5 - - - +
247E CYS* 3.4 6.9 + - - +
250E MET* 4.7 7.0 - - + -
267E HIS* 4.9 1.1 - - + -
272E GLY* 3.1 24.0 + - - -
276E ALA* 3.8 20.0 - - + -
114K THR* 3.1 8.7 + - - -
274K PHE* 1.3 76.7 - - - +
276K ALA* 1.3 62.6 + - - +
278K THR 3.6 0.2 + - - -
279K SER* 3.3 23.4 + - - -
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Residues in contact with ALA 276 (chain K).
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* 3.8 11.6 - - - -
272E GLY 4.3 0.8 + - - -
275E THR* 3.8 37.7 - - + -
276E ALA* 4.4 1.9 - - - +
247K CYS* 4.0 6.1 - - - -
250K MET* 3.5 19.2 - - - +
267K HIS* 4.3 4.3 - - - +
272K GLY 4.0 3.1 - - - +
273K GLY 3.4 7.9 + - - +
274K PHE 3.4 0.2 - - - -
275K THR* 1.3 77.8 - - - +
277K ASN* 1.3 64.8 + - - +
279K SER* 3.4 4.5 + - - -
280K LEU* 3.0 18.5 + - - +
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Residues in contact with ASN 277 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
267K HIS* 2.8 35.1 + - + +
269K TYR* 3.4 17.2 - - + +
273K GLY 2.8 18.3 + - - +
274K PHE* 3.8 6.3 - - + +
276K ALA* 1.3 78.4 - - - +
278K THR* 1.3 57.6 + - - +
280K LEU* 3.2 3.6 + - - +
281K ALA* 2.8 26.7 + - - +
291K LEU* 4.4 2.4 - - - +
293K ILE* 3.2 24.9 - - - +
318K LEU* 3.7 5.7 - - - +
321K SER* 3.0 18.9 + - - +
322K GLY 3.1 19.6 + - - +
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Residues in contact with THR 278 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
245E GLY 3.1 25.3 + - - +
246E THR* 3.8 13.0 - - + -
111K GLY 4.3 15.0 + - - +
113K VAL* 5.4 4.5 + - - +
148K PHE* 6.0 0.9 - - + -
149K VAL* 6.4 1.1 - - + -
274K PHE* 2.6 20.6 + - - +
277K ASN* 1.3 74.7 - - - +
279K SER* 1.3 62.6 + - - +
281K ALA* 3.3 2.6 + - - +
282K ILE* 3.0 37.0 + - + +
320K MET 5.7 0.4 - - - +
321K SER* 2.8 36.5 + - - +
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Residues in contact with SER 279 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
246E THR* 3.4 5.4 - - - +
247E CYS* 2.8 31.1 + - - +
248E GLU* 2.7 30.5 + - - +
250K MET* 4.6 0.4 - - - -
251K MET* 3.8 18.9 - - - +
275K THR 3.3 4.2 + - - -
276K ALA 3.5 9.0 - - - -
278K THR* 1.3 77.6 - - - +
280K LEU* 1.3 58.1 + - - +
282K ILE* 3.2 9.4 + - - +
283K TYR* 3.0 27.0 + - - +
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Residues in contact with LEU 280 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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242K ALA* 4.3 7.6 - - + -
250K MET* 3.9 25.8 - - + -
251K MET* 4.1 11.1 - - - +
254K ALA* 3.8 29.4 - - + -
265K ILE* 3.9 15.5 - - + -
267K HIS* 3.6 35.4 - - + +
276K ALA 3.0 16.7 + - - +
277K ASN* 3.6 5.4 - - - +
279K SER* 1.3 76.2 - - - +
281K ALA* 1.3 58.7 + - - +
283K TYR* 3.2 4.8 + - + +
284K CYS* 2.9 29.1 + - - -
291K LEU* 3.7 16.8 - - + -
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Residues in contact with ALA 281 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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149K VAL* 5.6 1.1 - - + +
150K GLY 4.5 4.9 - - - +
152K PRO* 3.5 15.9 - - + +
277K ASN 2.8 19.7 + - - +
278K THR 3.3 2.2 + - - +
280K LEU* 1.3 72.9 - - - +
282K ILE* 1.3 58.5 + - + +
284K CYS 3.3 0.7 + - - -
285K ARG* 2.9 27.0 + - - +
291K LEU* 3.8 11.8 - - + +
321K SER 3.6 21.5 - - - +
322K GLY* 3.8 22.9 - - - +
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Residues in contact with ILE 282 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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246E THR* 3.8 24.9 - - + -
248E GLU* 5.8 2.7 - - - +
149K VAL* 4.2 32.8 - - + -
278K THR* 3.0 25.1 + - + +
279K SER* 3.2 8.9 + - - +
281K ALA* 1.3 74.8 - - + +
283K TYR* 1.3 64.5 + - - +
285K ARG* 3.4 7.5 + - + +
286K ASP* 3.0 38.8 + - - +
321K SER 6.0 0.2 - - - +
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Residues in contact with TYR 283 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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251K MET* 4.3 23.3 - - + -
254K ALA* 3.8 31.2 - - + -
255K VAL* 3.4 33.4 - - + +
258K LYS* 3.3 25.2 - - + +
279K SER 3.0 13.7 + - - +
280K LEU* 3.2 10.1 + - + +
282K ILE* 1.3 76.0 - - - +
284K CYS* 1.3 62.5 + - - +
286K ASP* 3.1 4.0 + - + -
287K ASN* 3.0 61.5 + - + +
289K LEU* 4.1 12.3 - - + -
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Residues in contact with CYS 284 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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152K PRO* 3.8 12.6 - - + -
153K HIS* 3.7 0.7 + - - -
265K ILE* 3.7 31.6 - - - -
280K LEU* 2.9 20.5 + - - +
281K ALA 3.6 4.9 - - - +
283K TYR* 1.3 79.9 - - - +
285K ARG* 1.3 53.4 + - - +
288K GLY* 2.8 31.2 + - - -
289K LEU* 3.0 43.1 + - - +
291K LEU* 3.9 17.9 - - + -
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Residues in contact with ARG 285 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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149K VAL* 3.3 40.8 + - + +
151K HYP 2.8 24.5 + - - -
152K PRO* 2.8 31.9 + - + +
153K HIS* 4.8 4.6 - - - -
281K ALA 2.9 14.4 + - - +
282K ILE* 3.5 11.2 - - + +
284K CYS* 1.3 76.1 - - - +
286K ASP* 1.3 72.4 + - - +
287K ASN 3.3 0.7 + - - -
288K GLY* 3.7 5.9 + - - -
372K PRO* 5.0 6.9 - - - +
213R ARG* 3.7 48.4 - - - +
214R TRP* 6.4 0.7 - - - +
215R ARG* 3.7 17.2 - - - +
216R ASP* 6.0 1.8 - - - -
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Residues in contact with ASP 286 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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282K ILE* 3.0 34.2 + - - +
283K TYR* 3.1 6.4 + - - +
285K ARG* 1.3 85.8 - - - +
287K ASN* 1.3 71.0 + - - +
214R TRP* 5.2 10.7 + - - -
215R ARG* 3.1 18.1 + - - +
252R LYS* 3.4 35.7 + - - -
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Residues in contact with ASN 287 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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258K LYS* 2.8 39.2 + - + +
283K TYR* 3.0 67.2 + - + +
284K CYS* 5.2 0.2 - - - -
286K ASP* 1.3 87.9 - - - +
288K GLY* 1.3 65.1 + - - +
289K LEU* 3.4 5.5 + - + +
65P CYS* 4.0 13.9 - - - +
215R ARG* 3.5 21.1 + - - +
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Residues in contact with GLY 288 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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153K HIS* 3.7 19.1 - - - -
161K LYS* 4.1 6.1 + - - -
284K CYS 2.8 9.3 + - - -
285K ARG 3.7 3.7 + - - -
286K ASP 3.7 1.2 - - - -
287K ASN* 1.3 80.2 - - - +
289K LEU* 1.3 56.7 + - - -
65P CYS* 3.6 14.9 - - - +
66P LEU* 3.5 19.1 - - - +
215R ARG* 3.5 17.2 - - - +
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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