Contacts of the helix formed by residues 274 - 294 (chain A) in PDB entry 1ZC0
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 ILE 274 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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87A PHE* 3.8 25.4 - - + -
107A ILE* 3.8 25.4 - - + -
270A CYS* 3.8 0.6 - - - -
272A ALA* 4.2 6.7 - - + -
273A GLY* 1.3 85.7 - - - +
275A GLY* 1.3 67.7 + - - +
277A THR* 3.2 5.5 + - - -
278A GLY 3.1 9.9 + - - -
309A ARG* 3.4 20.0 - - + +
310A GLY 3.4 17.0 - - - +
311A GLY 3.7 21.3 - - - +
312A MET* 3.3 6.8 - - - +
313A ILE 2.9 21.0 + - - -
314A GLN* 3.5 23.1 - - + +
436A PO4 3.1 7.1 + - - +
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Residues in contact with GLY 275 (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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274A ILE* 1.3 74.7 - - - +
276A ARG* 1.3 60.1 + - - +
278A GLY* 3.7 0.2 - - - -
279A CYS* 3.0 34.6 + - - -
313A ILE* 4.0 2.1 - - - -
314A GLN* 3.5 36.1 - - - -
318A GLN* 4.2 5.2 - - - -
436A PO4 2.6 16.2 + - - -
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Residues in contact with ARG 276 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
173A LEU* 3.4 18.6 - - + +
174A THR* 3.8 10.3 - - - +
178A GLU* 2.8 22.4 + - - -
234A TRP* 2.9 69.9 + - + +
235A PRO 3.8 6.7 - - - +
236A ASP* 3.5 21.4 - - - +
270A CYS* 3.9 15.8 - - + +
271A SER* 3.3 26.5 + - - +
275A GLY* 1.3 70.4 - - - +
277A THR* 1.3 66.5 - - - +
279A CYS* 3.2 2.3 + - - +
280A PHE* 2.9 19.8 + - - +
318A GLN* 4.5 6.5 - - - +
436A PO4 2.8 43.3 + - - +
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Residues in contact with THR 277 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146A ALA* 4.6 6.7 - - - -
173A LEU* 3.8 6.9 - - + +
268A VAL* 3.8 16.4 - - + +
269A HIS* 3.5 16.6 - - - +
270A CYS* 3.1 39.0 - - + +
273A GLY* 2.7 32.9 + - - +
274A ILE* 3.2 2.9 + - - -
276A ARG* 1.3 77.4 - - - +
278A GLY* 1.3 64.1 + - - +
280A PHE* 3.3 2.3 + - - +
281A ILE* 3.0 30.8 + - - +
312A MET* 3.9 4.2 - - - -
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Residues in contact with GLY 278 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
274A ILE 3.1 17.4 + - - -
275A GLY 3.7 0.2 - - - -
277A THR* 1.3 83.1 + - - +
279A CYS* 1.3 57.7 + - - +
281A ILE* 4.8 0.2 - - - -
282A ALA* 2.8 33.1 + - - +
305A LEU* 3.7 3.8 - - - +
312A MET* 3.8 20.2 - - - -
313A ILE* 3.7 14.4 - - - -
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Residues in contact with CYS 279 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
234A TRP* 3.5 29.4 - - + -
246A LEU* 5.7 1.3 - - + -
275A GLY 3.0 19.3 + - - -
276A ARG 3.2 2.0 + - - +
278A GLY* 1.3 74.0 - - - +
280A PHE* 1.3 55.2 + - - +
283A THR* 2.7 38.8 + - - +
313A ILE* 3.9 17.4 - - - +
318A GLN* 3.5 44.9 - - - -
321A PHE* 6.4 2.2 - - + -
322A LEU* 3.5 7.6 - - + +
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Residues in contact with PHE 280 (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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144A TYR* 4.8 9.9 - + - -
171A VAL* 4.4 9.2 - - + -
173A LEU* 3.8 13.5 - - + -
234A TRP* 4.0 7.4 - - + -
246A LEU* 4.0 10.3 - - + -
249A LEU* 3.7 38.4 - - + -
250A VAL* 3.9 20.4 - - + -
253A VAL* 3.7 29.6 - - + -
266A ILE* 5.5 0.7 - - + -
268A VAL* 3.9 33.0 - - + -
276A ARG 2.9 16.3 + - - +
277A THR 3.7 2.7 - - - +
279A CYS* 1.3 77.3 - - - +
281A ILE* 1.3 70.6 + - + +
283A THR* 3.2 7.0 + - - -
284A ARG* 3.1 26.4 + - + +
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Residues in contact with ILE 281 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134A ILE* 4.2 8.5 - - + -
144A TYR* 3.7 51.8 - - + -
146A ALA* 4.4 6.1 - - + -
268A VAL* 4.1 13.9 - - + -
277A THR 3.0 21.1 + - - +
278A GLY* 4.1 2.2 - - - +
280A PHE* 1.3 87.2 - - + +
282A ALA* 1.3 62.9 + - - +
284A ARG* 3.1 5.9 + - - +
285A ILE* 3.0 43.9 + - + +
305A LEU* 3.7 15.9 - - + -
312A MET* 4.1 17.9 - - + -
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Residues in contact with ALA 282 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
278A GLY 2.8 22.3 + - - +
281A ILE* 1.3 73.6 - - - +
283A THR* 1.3 58.6 + - - +
285A ILE* 3.9 0.7 - - - +
286A GLY* 2.9 27.5 + - - -
301A ILE* 3.8 29.3 - - + +
302A VAL* 4.8 0.9 - - + -
305A LEU* 3.8 9.1 - - + +
313A ILE* 3.9 3.4 - - + -
322A LEU* 3.9 29.8 - - + -
326A LEU* 4.8 2.6 - - - +
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Residues in contact with THR 283 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
246A LEU* 3.7 19.6 - - + +
247A LEU* 4.2 8.7 - - + -
250A VAL* 4.0 18.6 - - + -
279A CYS 2.7 23.0 + - - -
280A PHE* 3.5 5.4 - - - -
281A ILE 3.2 0.2 - - - -
282A ALA* 1.3 76.1 - - - +
284A ARG* 1.3 57.4 + - - +
286A GLY 3.3 0.3 + - - -
287A CYS* 2.9 36.3 + - - -
322A LEU* 3.3 15.3 - - - +
325A THR* 3.6 29.2 - - + +
326A LEU* 3.6 9.9 - - + +
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Residues in contact with ARG 284 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143A VAL* 4.1 8.7 - - - +
144A TYR* 2.8 47.0 + - + +
250A VAL* 4.1 26.0 - - + +
253A VAL* 4.1 22.6 - - - +
254A GLU* 2.9 48.6 + - - +
266A ILE* 3.9 13.3 - - - +
280A PHE* 3.1 19.0 + - + +
281A ILE* 3.1 7.8 + - - +
283A THR* 1.3 75.3 - - - +
285A ILE* 1.3 62.3 + - - +
287A CYS* 3.2 4.3 + - - +
288A GLN* 3.0 41.5 + - - +
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Residues in contact with ILE 285 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135A ARG 3.7 19.1 - - - +
136A GLY* 4.0 7.6 - - - +
137A TYR* 4.1 26.0 - - - +
138A ASP 5.5 0.2 - - - +
144A TYR* 4.3 7.2 - - - +
281A ILE* 3.0 39.9 + - + +
282A ALA 3.9 2.7 - - - +
284A ARG* 1.3 74.8 - - - +
286A GLY* 1.3 58.4 + - - +
288A GLN* 3.2 12.7 + - - +
289A GLN* 2.9 36.8 + - + +
301A ILE* 3.8 28.5 - - + -
305A LEU* 4.4 9.9 - - + -
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Residues in contact with GLY 286 (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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282A ALA 2.9 18.1 + - - -
283A THR 3.7 1.3 - - - -
285A ILE* 1.3 74.2 - - - +
287A CYS* 1.3 59.6 + - - +
289A GLN* 3.3 2.1 + - - +
290A LEU* 2.9 33.6 + - - +
296A VAL* 3.7 10.6 - - - +
301A ILE* 3.6 17.0 - - - +
326A LEU* 3.7 13.0 - - - -
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Residues in contact with CYS 287 (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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247A LEU* 3.8 16.2 - - - -
250A VAL* 4.7 12.3 - - + -
254A GLU* 5.8 1.8 - - - +
283A THR* 2.9 24.5 + - - -
284A ARG* 3.4 9.9 - - - +
286A GLY* 1.3 74.8 - - - +
288A GLN* 1.3 59.2 + - + +
290A LEU 3.3 0.7 + - - -
291A LYS* 2.9 28.5 + - - +
326A LEU* 3.5 11.6 - - - +
329A TYR* 3.4 55.8 - - + +
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Residues in contact with GLN 288 (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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137A TYR* 3.4 39.3 + - + +
144A TYR* 4.1 3.1 + - - -
254A GLU* 4.0 13.6 + - - +
284A ARG* 3.0 48.2 + - - +
285A ILE* 3.4 22.0 - - - +
287A CYS* 1.3 78.1 - - + +
289A GLN* 1.3 56.6 + - - +
291A LYS* 3.9 5.0 - - - +
292A ALA* 3.0 33.1 + - - +
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Residues in contact with GLN 289 (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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137A TYR* 3.7 23.6 - - + -
138A ASP 5.6 1.8 - - - +
285A ILE* 2.9 23.3 + - - +
286A GLY 3.6 7.0 - - - +
288A GLN* 1.3 76.2 - - - +
290A LEU* 1.3 57.3 + - - +
293A ARG* 2.8 49.3 + - - +
295A GLU 3.3 15.9 - - - +
296A VAL* 3.4 5.1 - - + +
297A ASP* 3.1 31.9 + - - +
301A ILE* 3.5 29.0 - - - +
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Residues in contact with LEU 290 (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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63A ARG* 4.4 19.3 - - + -
66A LEU* 3.8 17.0 - - + -
286A GLY 2.9 20.1 + - - +
287A CYS 3.3 3.6 + - - +
289A GLN* 1.3 75.9 - - - +
291A LYS* 1.3 60.4 + - - +
294A GLY* 2.9 30.0 + - - +
295A GLU* 3.8 26.2 - - - +
296A VAL* 3.9 14.4 - - + -
326A LEU* 3.5 34.5 - - + +
329A TYR* 4.1 14.1 - - + -
330A ALA* 4.4 4.3 - - + -
333A LEU* 3.7 18.2 - - + +
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Residues in contact with LYS 291 (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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287A CYS 2.9 18.7 + - - +
288A GLN* 3.9 5.2 - - - +
290A LEU* 1.3 80.0 - - - +
292A ALA* 1.3 61.8 + - - +
294A GLY 4.7 0.5 + - - -
329A TYR* 3.9 19.1 - - - +
333A LEU* 4.0 21.1 - - + +
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Residues in contact with ALA 292 (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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137A TYR* 3.4 29.6 - - + +
288A GLN 3.0 15.7 + - - +
291A LYS* 1.3 80.0 - - - +
293A ARG* 1.3 62.3 + - + +
294A GLY 3.8 0.2 - - - -
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Residues in contact with ARG 293 (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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137A TYR* 3.0 46.4 + - - +
138A ASP* 3.6 26.7 + - - +
289A GLN* 2.8 41.3 + - - +
292A ALA* 1.3 78.8 - - + +
294A GLY* 1.3 61.5 + - - +
295A GLU* 3.2 21.8 + - + +
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Residues in contact with GLY 294 (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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62A THR* 4.0 2.6 - - - +
63A ARG* 3.1 36.2 + - - +
290A LEU* 2.9 22.6 + - - -
291A LYS 4.6 0.4 + - - -
292A ALA 3.8 0.4 - - - -
293A ARG* 1.3 79.1 - - - +
295A GLU* 1.3 58.3 + - - +
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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