Contacts of the helix formed by residues 310 - 330 (chain B) in PDB entry 2BAW
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 PHE 310 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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290A VAL* 4.2 10.1 - - + -
293A VAL* 4.6 0.7 - - + -
294A ARG* 3.2 65.3 - - + -
466A HIS* 5.0 6.7 - + - -
468A LEU* 3.5 28.9 - - + -
921A B7G 3.6 20.4 - - + -
308B SER 3.8 1.3 + - - -
309B LEU* 1.3 74.8 - - - +
311B LEU* 1.3 66.8 + - - +
312B ASN* 3.2 18.4 - - - +
313B ASP* 2.9 17.8 + - + +
314B GLN 3.1 9.0 + - - -
401B MET* 4.0 21.1 - - + +
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Residues in contact with LEU 311 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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297A THR* 4.4 8.8 - - + +
301A LYS* 4.6 10.8 - - + -
306A PHE* 5.0 1.1 - - + -
311A LEU* 3.8 12.3 - - + -
314A GLN* 3.8 36.8 - - + +
315A VAL* 3.6 18.2 - - + -
318A LEU* 3.9 21.1 - - + -
921A B7G 3.6 19.1 - - + +
301B LYS* 3.8 13.9 - - - +
309B LEU 3.6 1.8 + - - -
310B PHE* 1.3 71.6 - - - +
312B ASN* 1.3 57.7 + - - +
314B GLN* 3.1 31.9 + - - +
315B VAL* 2.9 30.8 + - - +
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Residues in contact with ASN 312 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
315A VAL* 3.7 11.3 - - + +
468A LEU* 3.5 12.5 - - - +
471A GLU* 3.8 20.0 + - - +
921A B7G 3.2 45.7 + - + +
310B PHE* 3.2 25.1 - - - +
311B LEU* 1.3 73.5 - - - +
313B ASP* 1.3 57.8 + - - +
315B VAL 3.4 0.5 + - - -
316B THR* 3.1 29.9 + - - -
401B MET* 3.6 32.6 - - - +
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Residues in contact with ASP 313 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
309B LEU* 4.4 17.2 - - + +
310B PHE 2.9 12.2 + - - +
312B ASN* 1.3 77.4 + - - +
314B GLN* 1.3 66.3 + - - +
315B VAL 3.1 1.6 - - - -
316B THR* 3.5 4.0 + - - -
317B LEU* 3.1 31.7 + - - +
399B GLY 4.5 1.7 - - - +
400B LEU* 3.5 18.4 - - + +
401B MET* 2.9 41.8 + - - +
402B ASN* 2.9 32.6 + - - +
406B VAL* 5.3 0.4 - - - +
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Residues in contact with GLN 314 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
301A LYS* 5.5 1.6 - - - +
311A LEU* 3.9 9.0 - - + +
301B LYS* 2.8 30.1 + - - +
306B PHE* 3.5 52.4 + - + +
307B SER* 3.2 20.9 + - - +
309B LEU* 2.7 26.4 + - + +
310B PHE 3.1 9.0 + - - +
311B LEU* 3.1 24.4 + - - +
313B ASP* 1.3 76.5 - - - +
315B VAL* 1.3 57.8 + - - +
317B LEU* 3.6 0.6 + - - -
318B LEU* 3.2 33.9 + - - +
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Residues in contact with VAL 315 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
311A LEU* 3.4 49.1 - - + +
312A ASN* 4.0 0.9 - - + +
315A VAL* 3.6 8.5 - - + -
920A B7G 3.7 46.1 - - + +
921A B7G 4.0 10.3 - - - +
311B LEU 2.9 18.3 + - - +
312B ASN 3.7 4.3 - - - +
314B GLN* 1.3 75.6 - - - +
316B THR* 1.3 56.3 + - - +
318B LEU* 3.2 4.9 + - - +
319B LYS* 2.8 34.3 + - + +
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Residues in contact with THR 316 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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921A B7G 3.0 19.9 + - - -
312B ASN 3.1 12.0 + - - -
313B ASP* 3.7 9.7 + - - -
315B VAL* 1.3 77.0 - - - +
317B LEU* 1.3 62.8 + - - +
319B LYS* 3.2 8.1 + - - -
320B TYR* 3.2 34.2 + - + +
397B ARG* 4.1 15.5 - - + -
398B PRO 3.5 24.4 + - - +
399B GLY 4.4 8.7 + - - -
400B LEU* 4.2 18.8 - - + +
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Residues in contact with LEU 317 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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306B PHE* 3.7 25.4 - - + -
309B LEU* 4.0 20.9 - - + -
313B ASP 3.1 20.1 + - - +
314B GLN 3.8 4.7 - - - +
316B THR* 1.3 76.1 - - - +
318B LEU* 1.3 58.2 + - - +
320B TYR 4.0 0.3 - - - -
321B GLY* 3.1 26.9 + - - -
392B ILE* 3.4 30.7 - - + +
393B LEU* 4.2 4.9 - - + -
394B CYS 3.4 26.5 - - - +
397B ARG* 4.0 12.4 + - + -
400B LEU* 4.1 12.3 - - + -
406B VAL* 4.0 17.7 - - + -
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Residues in contact with LEU 318 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
311A LEU* 3.7 24.5 - - + -
920A B7G 4.2 16.6 - - + -
296B LEU 4.1 8.7 - - - +
297B THR* 3.9 36.3 - - + +
300B ALA* 4.3 8.3 - - + -
306B PHE* 4.0 14.1 - - + -
314B GLN 3.2 21.7 + - - +
315B VAL 3.8 3.6 - - - +
317B LEU* 1.3 74.0 - - - +
319B LYS* 1.3 67.6 + - - +
321B GLY* 4.4 0.4 - - - +
322B VAL* 2.9 52.5 + - + +
392B ILE* 4.3 13.5 - - + -
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Residues in contact with LYS 319 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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920A B7G 3.0 54.0 + - + +
315B VAL* 2.8 17.8 + - + +
316B THR* 3.4 9.6 - - - +
318B LEU* 1.3 79.0 - - - +
320B TYR* 1.3 90.7 + - + +
322B VAL* 4.3 3.5 - - - +
323B HIS* 4.9 1.2 + - - -
471B GLU 3.8 4.0 - - - -
472B ILE* 3.3 53.5 - - - +
475B ASP* 2.5 35.7 + - - -
476B MET* 3.9 1.7 - - - +
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Residues in contact with TYR 320 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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316B THR* 3.2 26.3 + - + +
319B LYS* 1.3 109.7 + - + +
321B GLY* 1.3 58.3 + - - +
323B HIS 5.5 0.7 - - - -
324B GLU* 3.8 8.5 + - - +
397B ARG* 3.2 44.4 + - + +
398B PRO* 3.6 54.0 + - + +
446B VAL* 5.4 4.7 - - - +
475B ASP* 4.0 12.6 + - + +
476B MET* 3.8 39.7 - - + +
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Residues in contact with GLY 321 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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317B LEU 3.1 18.5 + - - -
318B LEU 3.1 0.2 + - - -
320B TYR* 1.3 80.8 - - - +
322B VAL* 1.3 66.1 + - - +
323B HIS 3.4 2.2 - - - -
324B GLU* 3.2 7.9 + - - +
325B ALA* 3.2 17.9 + - - +
391B ILE* 3.6 10.4 - - - +
392B ILE* 4.9 6.5 - - - -
397B ARG* 3.7 14.6 - - - -
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Residues in contact with VAL 322 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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920A B7G 5.6 0.2 - - + -
293B VAL* 3.8 37.9 - - + -
296B LEU* 3.6 22.6 - - + +
318B LEU* 2.9 50.4 + - + +
319B LYS 4.3 1.3 - - - +
320B TYR 4.0 0.2 - - - -
321B GLY* 1.3 76.2 - - - +
323B HIS* 1.3 61.1 + - + +
325B ALA* 3.2 4.6 + - - +
326B ILE* 2.7 40.2 + - + +
392B ILE* 5.6 1.3 - - + -
472B ILE* 3.9 21.3 - - + -
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Residues in contact with HIS 323 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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289B THR* 3.6 16.7 - - + +
293B VAL* 5.6 0.2 - - + -
319B LYS 4.9 1.2 + - - -
320B TYR 5.5 0.6 - - - -
321B GLY 3.4 0.6 - - - -
322B VAL* 1.3 79.2 - - + +
324B GLU* 1.3 60.6 + - - +
326B ILE* 4.1 6.5 - - + -
327B PHE* 2.8 54.1 + + + -
446B VAL* 3.8 23.6 - - + +
449B HIS* 4.9 0.4 - + + -
469B LEU* 4.0 3.9 - - + +
472B ILE* 3.7 39.0 - - + +
473B TYR* 2.7 40.7 + + - -
476B MET* 5.5 0.6 - - - +
478B VCA 3.2 22.4 + - - -
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Residues in contact with GLU 324 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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320B TYR 3.8 7.2 + - - +
321B GLY 3.2 8.5 + - - +
323B HIS* 1.3 76.8 - - - +
325B ALA* 1.3 57.2 + - - +
328B ALA* 3.1 24.8 + - - +
391B ILE* 3.8 18.2 - - + +
397B ARG* 2.8 45.3 + - - -
439B MET* 4.7 5.2 - - - +
442B LEU* 3.4 32.9 - - + +
443B ARG* 3.5 29.6 + - - +
446B VAL* 3.6 23.7 - - + +
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Residues in contact with ALA 325 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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296B LEU* 3.9 17.0 - - + -
321B GLY 3.2 10.2 + - - +
322B VAL* 3.6 7.6 - - - +
324B GLU* 1.3 77.8 - - - +
326B ILE* 1.3 63.4 + - - +
328B ALA 3.5 0.3 + - - -
329B MET* 3.1 31.0 + - - +
388B ILE* 3.8 30.3 - - + +
391B ILE* 3.8 14.3 - - + +
392B ILE* 4.7 3.6 - - + -
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Residues in contact with ILE 326 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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289B THR* 3.8 47.8 - - + +
292B THR* 3.8 19.1 - - + +
293B VAL* 4.0 12.1 - - + -
296B LEU* 3.8 12.8 - - + -
322B VAL* 2.7 31.6 + - + +
323B HIS* 3.7 9.9 - - + +
325B ALA* 1.3 72.4 - - - +
327B PHE* 1.3 72.3 + - + +
329B MET* 3.2 8.3 + - - +
330B LEU* 3.0 33.6 + - + +
478B VCA 5.8 4.0 - - + -
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Residues in contact with PHE 327 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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289B THR* 6.0 1.1 - - - -
323B HIS* 2.8 44.1 + + + +
326B ILE* 1.3 85.6 - - + +
328B ALA* 1.3 60.9 + - - +
330B LEU* 3.8 17.9 - - + +
331B ALA 4.2 2.6 + - - -
367B LYS* 3.5 37.2 - - + +
370B PHE* 3.8 14.7 - - - -
371B ALA* 5.6 0.7 - - - +
442B LEU* 3.8 15.9 - - + -
445B LEU* 3.5 33.4 - - + -
446B VAL* 3.8 14.8 - - + -
449B HIS* 3.8 30.5 - + + -
478B VCA 4.0 17.0 - - + -
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Residues in contact with ALA 328 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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324B GLU 3.1 18.3 + - - +
325B ALA 3.8 4.9 - - - +
326B ILE 3.2 0.2 - - - -
327B PHE* 1.3 77.7 - - - +
329B MET* 1.3 62.4 + - - +
330B LEU 3.2 0.7 + - - -
331B ALA* 3.4 20.6 + - - +
332B SER* 4.5 1.0 + - - -
370B PHE* 4.3 5.8 - - - -
374B PHE* 4.0 12.8 - - + -
384B LEU* 5.4 3.4 - - + +
387B PHE* 4.1 12.8 - - + -
388B ILE* 3.9 16.4 - - + -
391B ILE* 4.3 0.7 - - + -
442B LEU* 3.7 20.8 - - + +
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Residues in contact with MET 329 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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222B TYR* 4.8 10.8 - - + +
226B PHE* 4.1 29.4 - - + -
292B THR* 3.8 25.4 - - + -
296B LEU* 3.8 25.8 - - + -
325B ALA* 3.1 29.7 + - + +
326B ILE* 3.9 3.8 - - - +
328B ALA* 1.3 70.6 - - - +
330B LEU* 1.3 64.9 + - - +
331B ALA 3.1 2.7 - - - -
332B SER* 3.1 28.9 + - - +
333B ILE* 4.1 4.0 + - - +
384B LEU* 5.4 5.6 - - + -
388B ILE* 3.8 23.6 - - + -
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Residues in contact with LEU 330 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
326B ILE* 3.0 19.6 + - + +
327B PHE* 3.8 18.8 - - + +
328B ALA 3.2 0.6 - - - -
329B MET* 1.3 77.3 - - - +
331B ALA* 1.3 60.9 + - - +
333B ILE* 3.2 29.6 + - + +
334B VAL* 3.1 25.9 - - + +
339B LEU* 3.7 29.6 - - + -
367B LYS* 4.2 23.1 - - + +
371B ALA* 4.8 2.7 - - + -
478B VCA 3.8 38.1 - - + -
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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