Contacts of the helix formed by residues 311 - 325 (chain H) in PDB entry 2POZ
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 SER 311 (chain H).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15H SER* 6.1 1.3 - - - -
20H PRO* 4.2 17.2 - - - +
22H LEU* 3.6 4.0 - - - +
36H GLU* 2.6 36.7 + - - -
310H GLY* 1.3 77.4 - - - +
312H SER* 1.3 65.4 + - - +
313H LEU* 3.3 8.8 + - - +
314H ILE* 3.2 14.6 - - - +
315H GLU* 3.6 6.1 + - - +
338H LYS* 6.2 0.4 - - - -
343H TYR* 5.7 6.5 - - - -
344H VAL 5.3 3.4 - - - -
346H VAL* 3.5 28.3 - - - +
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Residues in contact with SER 312 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
311H SER* 1.3 75.5 - - - +
313H LEU* 1.3 57.3 + - - +
315H GLU* 3.4 9.3 + - - +
316H THR* 2.8 34.0 + - - -
338H LYS* 4.2 9.0 + - - +
343H TYR* 3.1 18.2 + - - -
345H GLU* 2.7 29.8 + - - -
346H VAL* 3.9 3.3 - - - +
347H LEU* 3.8 14.6 - - - -
350H PRO* 3.6 14.1 - - - +
351H PRO* 4.1 6.0 - - - +
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Residues in contact with LEU 313 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22H LEU* 4.0 14.4 - - + -
34H ALA* 3.9 20.4 - - + -
35H GLY* 3.7 39.0 - - - +
36H GLU* 3.6 3.4 - - + +
98H GLN* 5.4 0.7 - - - +
311H SER* 3.1 12.4 + - - +
312H SER* 1.3 77.6 - - - +
314H ILE* 1.3 59.7 + - - +
316H THR* 3.1 3.5 + - - -
317H ALA* 2.8 31.6 + - + +
346H VAL* 3.7 11.7 - - + +
347H LEU* 3.9 11.6 - - + +
366H LEU* 4.6 13.7 - - + -
368H ALA* 3.9 26.0 - - + -
370H LEU* 4.2 8.5 - - + -
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Residues in contact with ILE 314 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36H GLU* 2.8 44.3 + - + +
38H GLY* 5.4 3.4 - - - +
98H GLN* 3.8 17.7 - - - +
280H ASP* 4.5 7.6 - - - +
281H ILE* 3.3 35.7 - - + -
282H GLY* 3.9 8.3 - - - +
308H VAL* 5.0 6.3 - - + -
309H CYS 4.6 6.1 - - - +
310H GLY* 3.8 20.0 - - - +
311H SER 3.2 14.6 - - - +
313H LEU* 1.3 74.1 - - - +
315H GLU* 1.3 61.9 + - + +
317H ALA* 3.7 4.0 - - - +
318H THR* 2.7 36.0 + - - +
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Residues in contact with GLU 315 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
308H VAL* 4.8 9.6 - - + -
311H SER 3.6 6.9 + - - +
312H SER* 3.4 10.0 + - - +
313H LEU 3.2 0.8 - - - -
314H ILE* 1.3 82.0 - - + +
316H THR* 1.3 65.1 + - - +
318H THR* 3.3 8.0 + - - -
319H LEU* 3.2 23.1 + - + +
331H HIS* 2.8 32.2 + - + +
332H GLU 3.7 6.0 - - - +
333H HIS* 2.8 36.2 + - - -
334H TYR 5.3 1.1 + - - -
338H LYS* 4.7 9.0 + - - -
351H PRO* 4.2 19.7 - - + +
358H PHE* 3.7 4.5 - - + -
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Residues in contact with THR 316 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
312H SER 2.8 22.3 + - - -
313H LEU 3.6 3.4 - - - -
315H GLU* 1.3 73.8 - - - +
317H ALA* 1.3 68.1 + - - +
319H LEU* 3.0 28.1 + - + +
320H GLN* 3.5 7.6 + - - +
347H LEU* 3.2 12.1 - - + +
349H ASN 5.8 2.5 - - - +
351H PRO* 3.2 21.6 - - + +
361H PRO* 4.4 15.0 - - + +
366H LEU 3.7 20.0 - - - +
367H GLY 4.1 12.1 - - - +
368H ALA* 4.4 7.4 - - + -
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Residues in contact with ALA 317 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98H GLN* 4.3 9.0 - - - +
281H ILE* 3.6 19.7 - - + -
287H LEU* 3.4 13.4 - - + +
313H LEU* 2.8 17.5 + - + +
314H ILE* 3.7 4.5 - - - +
316H THR* 1.3 76.6 - - - +
318H THR* 1.3 60.6 + - - +
320H GLN* 3.2 20.0 - - - +
366H LEU* 4.0 35.8 - - + +
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Residues in contact with THR 318 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
281H ILE* 3.6 25.6 - - + +
306H PRO* 3.9 14.1 - - + -
308H VAL* 2.9 32.4 - - + +
314H ILE* 2.7 23.9 + - - +
315H GLU 3.5 6.7 - - - -
316H THR 3.1 0.4 - - - -
317H ALA* 1.3 74.0 - - - +
319H LEU* 1.3 63.3 + - - +
320H GLN 3.1 0.7 - - - -
321H LEU* 3.2 5.4 + - + +
322H GLU* 3.0 48.6 + - + +
331H HIS* 4.3 3.1 - - + -
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Residues in contact with LEU 319 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124H VAL* 4.0 7.0 - - + -
315H GLU* 3.2 15.1 + - + +
316H THR* 3.0 14.4 + - + +
318H THR* 1.3 74.2 - - - +
320H GLN* 1.3 66.5 + - - +
322H GLU* 3.3 21.8 - - - +
323H ALA* 2.9 26.5 + - - +
331H HIS* 3.8 13.7 - - + +
351H PRO* 4.2 24.7 - - + -
358H PHE* 4.2 10.3 - - + -
359H GLU 3.9 11.0 - - - +
360H MSE 3.7 22.6 - - + +
361H PRO* 3.7 27.8 - - + -
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Residues in contact with GLN 320 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111H PRO* 3.9 2.4 - - - +
112H VAL* 3.1 30.7 + - + +
113H TYR* 3.2 49.8 + - - +
116H PHE* 5.5 2.2 - - + -
287H LEU* 4.6 7.0 - - + -
316H THR 3.5 5.6 + - - +
317H ALA 3.2 15.3 - - - +
319H LEU* 1.3 80.6 - - - +
321H LEU* 1.3 62.1 + - - +
323H ALA* 3.4 5.0 + - - +
324H ASN* 3.7 2.6 + - - +
361H PRO* 3.2 31.1 - - - +
363H GLY 5.1 0.2 + - - -
365H GLY 3.6 12.8 + - - -
366H LEU* 3.3 35.0 + - + -
367H GLY* 5.0 0.4 - - - -
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Residues in contact with LEU 321 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116H PHE* 5.3 8.1 - - + -
281H ILE* 4.1 11.9 - - + -
287H LEU* 3.8 26.9 - - + +
290H THR* 3.2 39.5 - - + -
291H LYS* 3.9 9.6 - - + +
294H CYS* 4.4 4.5 - - - -
306H PRO* 4.5 13.5 - - + -
317H ALA 3.8 0.2 + - - -
318H THR* 3.2 8.9 + - + +
320H GLN* 1.3 77.2 - - - +
322H GLU* 1.3 62.5 + - + +
324H ASN* 3.0 19.8 + - - +
325H ILE* 3.0 52.5 + - + +
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Residues in contact with GLU 322 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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121H ARG* 2.6 38.6 + - - -
124H VAL* 4.1 9.5 - - + +
306H PRO* 3.6 25.1 - - + +
318H THR* 3.0 23.2 + - + +
319H LEU* 3.2 17.7 + - - +
321H LEU* 1.3 79.2 - - + +
323H ALA* 1.3 53.4 + - - +
324H ASN 3.1 0.2 - - - -
325H ILE* 4.3 5.6 - - - -
328H PHE* 3.1 35.0 - - + -
331H HIS* 2.5 41.9 + - - +
360H MSE 4.5 1.8 - - - -
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Residues in contact with ALA 323 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113H TYR* 4.0 21.8 - - + -
119H LYS* 3.3 7.4 - - + +
120H ILE* 2.8 34.1 + - - +
121H ARG* 3.7 10.3 + - - +
319H LEU 2.9 15.7 + - - +
320H GLN 3.7 6.7 - - - +
321H LEU 3.1 0.2 - - - -
322H GLU* 1.3 78.4 - - - +
324H ASN* 1.3 56.2 + - - +
360H MSE 3.6 27.6 - - + -
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Residues in contact with ASN 324 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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69C GLU* 3.6 14.4 - - - +
113H TYR* 3.6 8.8 + - + -
116H PHE* 3.2 37.4 + - + +
118H GLY 2.6 27.2 + - - +
120H ILE* 2.9 20.8 - - - +
291H LYS* 2.9 31.8 + - - +
320H GLN 4.0 9.4 - - - +
321H LEU* 3.0 9.9 + - - +
323H ALA* 1.3 80.1 - - - +
325H ILE* 1.3 62.0 + - + +
326H THR 3.5 0.7 + - - -
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Residues in contact with ILE 325 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69C GLU* 5.4 0.9 - - - -
120H ILE* 3.5 1.4 - - - +
121H ARG* 2.9 28.4 + - - -
291H LYS* 4.8 11.7 - - + +
294H CYS* 4.0 17.5 - - + -
304H VAL* 3.8 34.5 - - + -
306H PRO* 4.7 0.4 - - + -
321H LEU* 3.0 51.1 + - + +
322H GLU* 4.3 2.9 - - - -
323H ALA 4.0 0.2 - - - -
324H ASN* 1.3 78.8 - - - +
326H THR* 1.3 62.1 + - - +
327H ASN* 4.1 7.4 - - - +
328H PHE* 3.8 29.5 + - + +
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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
------------------------------------------------------------
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