Contacts of the helix formed by residues 315 - 333 (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 THR 315 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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80A PHE* 3.5 12.9 - - - -
237A HIS* 3.9 39.4 + - + +
313A ILE* 3.7 0.4 - - - +
314A GLN* 1.3 85.5 - - + +
316A ALA* 1.3 64.6 + - - +
317A GLU* 3.4 10.3 + - - +
318A GLN* 3.0 34.5 + - - +
319A TYR* 3.0 17.2 + - - +
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Residues in contact with ALA 316 (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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76A LEU 5.3 0.2 - - - +
77A GLU* 4.4 26.9 - - + +
80A PHE* 3.5 33.2 - - + -
81A LEU* 6.1 1.3 - - + -
315A THR* 1.3 73.1 - - - +
317A GLU* 1.3 57.8 + - - +
319A TYR* 3.2 3.2 + - - +
320A GLN* 2.8 34.7 + - - +
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Residues in contact with GLU 317 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
237A HIS 4.5 11.8 - - - +
238A GLN* 4.5 11.1 - - - +
239A THR* 3.9 18.9 + - + -
315A THR* 3.2 8.9 + - - +
316A ALA* 1.3 79.2 - - - +
318A GLN* 1.3 56.8 + - - +
320A GLN* 3.3 15.3 + - - +
321A PHE* 2.9 27.5 + - - +
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Residues in contact with GLN 318 (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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237A HIS* 3.8 10.5 - - - +
238A GLN 3.1 42.7 + - - +
239A THR* 4.0 9.2 - - + -
275A GLY* 4.2 13.5 - - - -
276A ARG* 4.5 4.9 - - - +
279A CYS* 3.5 30.2 - - - -
313A ILE* 3.8 5.2 - - + -
314A GLN* 2.9 30.8 + - - +
315A THR* 3.0 28.5 + - - +
317A GLU* 1.3 75.1 - - + +
319A TYR* 1.3 59.2 + - - +
321A PHE* 3.2 3.7 + - - +
322A LEU* 3.0 30.7 + - - +
436A PO4 5.2 0.2 + - - -
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Residues in contact with TYR 319 (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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76A LEU* 3.7 32.3 - - + -
79A GLU* 2.5 33.5 + - + +
80A PHE* 3.6 37.0 - + + -
83A ILE* 4.1 13.2 - - + -
298A ILE* 3.9 9.9 - - + -
299A LEU* 3.3 21.1 + - - +
302A VAL* 3.8 31.0 - - + -
313A ILE* 4.1 5.5 - - + +
315A THR 3.0 5.8 + - - +
316A ALA 3.2 8.0 + - - +
318A GLN* 1.3 78.1 - - - +
320A GLN* 1.3 59.9 + - - +
322A LEU* 3.3 17.2 + - + +
323A HIS* 2.9 37.7 + + - -
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Residues in contact with GLN 320 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73A PRO* 3.1 46.1 + - - +
76A LEU* 3.9 25.7 - - + +
77A GLU* 3.8 18.7 + - - +
316A ALA* 2.8 21.0 + - - +
317A GLU* 3.7 14.5 + - - +
319A TYR* 1.3 76.2 - - - +
321A PHE* 1.3 63.8 + - - +
323A HIS* 3.1 11.3 + - - +
324A HIS* 3.1 19.6 + - - +
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Residues in contact with PHE 321 (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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234A TRP* 5.9 1.3 - + - -
239A THR* 3.5 22.7 - - + -
240A PRO* 3.6 43.1 - - + -
241A GLU 5.1 0.9 - - - -
242A SER* 3.6 34.5 - - - -
243A ALA* 3.6 7.2 - - + -
246A LEU* 4.1 11.4 - - + -
279A CYS* 6.4 2.7 - - + -
317A GLU 2.9 17.5 + - - +
318A GLN* 3.2 6.7 + - - +
320A GLN* 1.3 74.9 - - - +
322A LEU* 1.3 61.2 + - + +
324A HIS* 3.2 19.9 + + + +
325A THR* 2.8 57.9 + - - -
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Residues in contact with LEU 322 (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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246A LEU* 6.0 0.2 - - + -
279A CYS* 3.5 21.8 - - + +
282A ALA* 3.9 16.8 - - + -
283A THR* 3.3 28.7 - - - +
298A ILE* 4.0 23.6 - - + -
302A VAL* 4.1 4.0 - - + -
313A ILE* 3.2 29.2 - - + -
318A GLN 3.0 16.2 + - - +
319A TYR* 3.4 14.1 - - + +
320A GLN 3.2 0.2 - - - -
321A PHE* 1.3 80.0 - - + +
323A HIS* 1.3 58.6 + - - +
325A THR* 3.5 4.4 + - - -
326A LEU* 3.0 41.3 + - + +
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Residues in contact with HIS 323 (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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59A HIS* 6.1 0.2 + - - -
61A LEU* 3.8 21.3 - - + +
66A LEU* 3.8 10.3 - - + +
70A PRO* 5.6 4.9 - - + -
71A PRO* 4.5 6.7 - - + +
76A LEU* 3.5 42.8 - - + +
79A GLU* 4.6 3.2 + - - -
298A ILE* 3.5 47.4 - - + +
299A LEU 5.6 0.2 + - - -
319A TYR* 2.9 37.8 + + - -
320A GLN 3.1 8.6 + - - +
322A LEU* 1.3 76.9 - - - +
324A HIS* 1.3 58.7 + - - +
327A ALA* 3.0 30.5 + - - +
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Residues in contact with HIS 324 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
242A SER* 5.7 2.2 - - - -
243A ALA* 3.8 24.8 + - + +
320A GLN 3.1 11.2 + - - +
321A PHE* 3.4 27.5 - + + +
323A HIS* 1.3 74.5 - - - +
325A THR* 1.3 66.4 + - - +
327A ALA* 3.3 7.7 + - - +
328A LEU* 3.0 36.6 + - + +
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Residues in contact with THR 325 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
243A ALA* 3.4 17.8 - - + +
246A LEU* 4.2 8.3 - - + +
247A LEU* 3.7 21.7 - - + +
283A THR* 3.6 31.2 - - + -
321A PHE* 2.8 49.6 + - - -
322A LEU* 3.8 6.7 - - - -
324A HIS* 1.3 74.3 - - - +
326A LEU* 1.3 60.4 + - - +
328A LEU* 3.2 4.7 + - - +
329A TYR* 2.9 25.6 + - - +
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Residues in contact with LEU 326 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66A LEU* 3.7 15.5 - - + -
282A ALA 4.8 5.2 - - - +
283A THR* 3.6 20.6 - - + +
286A GLY* 3.7 17.5 - - - +
287A CYS* 3.5 39.5 - - - +
290A LEU* 3.5 10.3 - - + +
296A VAL* 4.2 4.7 - - + -
298A ILE* 3.7 29.6 - - + -
301A ILE* 5.4 0.2 - - + -
322A LEU* 3.0 27.1 + - + +
323A HIS 4.2 1.6 - - - +
325A THR* 1.3 77.9 - - - +
327A ALA* 1.3 59.0 + - - +
329A TYR* 3.7 1.1 - - - +
330A ALA* 2.9 30.0 + - - +
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Residues in contact with ALA 327 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66A LEU* 3.7 31.8 - - + +
67A GLN* 3.8 15.7 + - + +
323A HIS 3.0 18.3 + - - +
324A HIS* 3.5 8.1 - - - +
326A LEU* 1.3 75.4 - - - +
328A LEU* 1.3 63.3 + - - +
330A ALA* 3.4 12.0 + - - +
331A GLY* 3.5 8.3 + - - -
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Residues in contact with LEU 328 (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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243A ALA* 3.7 26.5 - - + +
244A GLY* 4.1 12.1 - - - +
247A LEU* 4.1 14.1 - - + -
324A HIS* 3.0 26.7 + - + +
325A THR 3.3 8.5 - - - +
326A LEU 3.2 0.2 - - - -
327A ALA* 1.3 74.7 - - - +
329A TYR* 1.3 65.3 + - - +
331A GLY* 3.2 11.8 + - - -
332A GLN* 3.7 15.3 + - - +
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Residues in contact with TYR 329 (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* 4.0 22.6 - - + +
250A VAL* 6.4 0.9 - - + -
287A CYS* 3.4 56.2 + - + +
290A LEU* 4.1 10.3 - - + -
291A LYS* 3.9 24.1 - - - +
325A THR 2.9 13.7 + - - +
326A LEU* 3.3 7.4 + - - +
328A LEU* 1.3 75.7 - - - +
330A ALA* 1.3 64.9 + - - +
332A GLN* 2.9 41.8 + - + +
333A LEU* 3.6 30.5 + - + +
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Residues in contact with ALA 330 (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* 3.0 50.3 + - + -
66A LEU* 4.5 4.3 - - + -
67A GLN* 3.8 13.0 - - + -
290A LEU* 4.4 8.5 - - + -
326A LEU 2.9 17.0 + - - +
327A ALA* 3.5 8.7 - - - +
329A TYR* 1.3 77.5 - - - +
331A GLY* 1.3 59.7 + - - +
333A LEU* 3.1 20.3 + - - +
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Residues in contact with GLY 331 (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* 4.3 4.5 + - - -
67A GLN* 3.7 16.5 - - - +
327A ALA 3.5 4.4 + - - -
328A LEU 3.2 8.9 + - - -
329A TYR 3.1 1.2 - - - -
330A ALA* 1.3 78.4 - - - +
332A GLN* 1.3 60.9 + - - +
333A LEU 3.5 5.0 + - - +
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Residues in contact with GLN 332 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
247A LEU* 3.9 26.6 - - - +
328A LEU* 4.0 11.4 + - - +
329A TYR* 2.9 35.7 + - + +
331A GLY* 1.3 77.1 - - - +
333A LEU* 1.3 63.7 + - + +
334A PRO* 3.8 3.5 - - - +
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Residues in contact with LEU 333 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63A ARG* 3.2 31.2 + - - +
290A LEU* 3.7 40.8 - - + +
291A LYS* 4.0 21.5 - - + +
329A TYR* 3.9 36.8 - - + +
330A ALA* 3.1 19.1 + - - +
331A GLY 4.1 2.6 - - - +
332A GLN* 1.3 80.6 - - - +
334A PRO* 1.3 79.4 - - + +
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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
------------------------------------------------------------
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