Contacts of the helix formed by residues 325 - 346 (chain C) in PDB entry 1CX2
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 ASP 325 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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245C ARG* 3.5 9.9 + - - -
247C PHE* 3.1 34.0 + - - +
248C LYS* 2.7 32.5 + - - +
249C ASP* 4.1 6.1 - - - +
250C GLY* 2.8 37.1 + - - +
324C GLY* 1.3 70.5 - - - +
326C GLU* 1.3 68.0 + - - +
328C LEU* 3.1 0.7 + - - +
329C PHE* 2.9 21.5 + - - +
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Residues in contact with GLU 326 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
238C LEU* 5.7 1.4 - - - +
242C HIS* 4.7 7.6 - - - -
245C ARG* 3.5 32.7 + - - +
247C PHE* 5.8 1.6 - - + -
324C GLY 3.3 1.0 - - - -
325C ASP* 1.3 80.7 + - - +
327C GLN* 1.3 61.7 + - - +
329C PHE* 3.9 0.4 - - - +
330C GLN* 2.9 40.3 + - - +
134D TYR* 3.4 19.9 + - - -
136D TYR* 3.6 11.0 + - - +
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Residues in contact with GLN 327 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
323C TRP* 3.1 57.4 + - + +
324C GLY* 3.0 17.1 + - - +
326C GLU* 1.3 76.3 - - - +
328C LEU* 1.3 57.6 + - - +
330C GLN* 3.2 2.1 + - - +
331C THR* 2.8 40.4 + - - +
48D MET* 3.4 15.9 - - - +
136D TYR* 2.8 50.0 + - + +
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Residues in contact with LEU 328 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
249C ASP* 3.4 31.2 - - - +
250C GLY* 3.6 13.5 - - - -
313C CYS* 3.9 3.6 - - - +
316C LEU* 3.3 34.0 - - + +
317C LYS* 3.6 30.1 - - + +
320C HIS 5.2 0.4 - - - +
323C TRP* 3.5 34.3 - - + +
324C GLY 3.1 15.0 + - - +
325C ASP 3.1 2.3 + - - +
327C GLN* 1.3 77.2 - - - +
329C PHE* 1.3 57.7 + - - +
331C THR* 3.9 1.5 - - - -
332C SER* 2.8 35.7 + - - -
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Residues in contact with PHE 329 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
234C TYR* 3.8 32.1 - + + -
241C GLN* 2.8 43.3 - - + -
245C ARG* 3.2 47.6 - - + +
250C GLY* 3.5 24.7 - - - +
252C LEU* 4.4 6.7 - - + -
309C HIS* 3.8 8.9 - + - -
325C ASP 2.9 15.9 + - - +
326C GLU 3.9 2.9 - - - +
328C LEU* 1.3 77.0 - - - +
330C GLN* 1.3 81.4 + - + +
332C SER* 3.3 3.1 + - - -
333C LYS* 3.2 30.6 + - + +
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Residues in contact with GLN 330 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
238C LEU* 6.0 1.8 - - - +
241C GLN* 4.2 6.7 - - - +
326C GLU* 2.9 41.6 + - - +
327C GLN 3.8 2.7 - - - +
329C PHE* 1.3 100.2 - - + +
331C THR* 1.3 59.6 + - - +
333C LYS* 4.1 6.1 + - - +
334C LEU* 3.5 25.3 + - - +
134D TYR* 3.7 13.0 + - + -
136D TYR* 4.4 7.0 - - + -
138D SER* 3.3 31.6 + - - -
139D TRP* 3.5 10.2 + - - +
140D GLU* 3.4 29.4 + - - +
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Residues in contact with THR 331 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
316C LEU* 3.8 16.8 - - + -
323C TRP* 3.5 14.0 - - + -
327C GLN* 2.8 27.9 + - - +
330C GLN* 1.3 76.4 - - - +
332C SER* 1.3 68.2 + - - +
334C LEU* 3.2 10.8 + - - +
335C ILE* 3.1 17.4 + - + +
549C THR 4.1 3.4 - - - +
550C PHE* 3.2 15.7 - - - +
551C GLY* 3.2 36.6 - - - +
136D TYR* 5.3 3.3 - - - +
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Residues in contact with SER 332 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
234C TYR* 4.1 1.3 - - - -
309C HIS* 3.2 27.8 - - - -
312C VAL* 3.8 11.8 - - - +
313C CYS* 3.4 22.0 + - - -
316C LEU* 3.5 16.3 - - - +
328C LEU 2.8 22.4 + - - -
329C PHE 3.3 0.4 + - - -
331C THR* 1.3 75.3 - - - +
333C LYS* 1.3 56.0 + - - +
335C ILE* 2.6 25.8 + - - +
336C LEU* 2.9 14.8 + - - +
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Residues in contact with LYS 333 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
229C ASP* 3.2 28.7 + - - -
230C LEU* 4.7 1.0 + - - -
231C ASN* 4.8 3.8 - - - +
234C TYR* 3.2 59.4 + - + +
235C GLY 5.5 1.8 + - - -
241C GLN* 5.9 3.0 - - - +
329C PHE* 3.2 23.1 + - + +
330C GLN* 4.4 7.6 - - - +
331C THR 3.5 0.2 - - - -
332C SER* 1.3 76.6 - - - +
334C LEU* 1.3 58.2 + - - +
336C LEU* 4.0 1.6 - - - +
337C ILE* 2.8 40.8 + - + +
139D TRP* 3.9 37.1 - - + +
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Residues in contact with LEU 334 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
330C GLN 3.5 16.1 + - - +
331C THR* 3.2 10.9 + - - +
332C SER 2.7 4.4 + - - -
333C LYS* 1.3 75.3 - - - +
335C ILE* 1.3 65.6 + - - +
337C ILE* 3.3 5.9 + - + +
338C GLY* 2.9 19.4 + - - -
539C ILE* 3.9 25.6 - - + +
544C TYR* 5.1 6.3 - - + -
549C THR* 3.2 35.9 - - + +
550C PHE* 3.7 17.3 - - + -
137D LYS* 4.6 0.7 - - + -
138D SER 4.0 21.5 - - - +
139D TRP* 4.2 33.2 - - + +
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Residues in contact with ILE 335 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
312C VAL* 4.0 27.1 - - + -
316C LEU* 4.0 10.8 - - + -
331C THR 3.1 8.3 + - - +
332C SER 2.6 13.6 + - - +
334C LEU* 1.3 70.7 - - - +
336C LEU* 1.3 50.2 + - - +
338C GLY* 2.6 22.9 + - - -
339C GLU* 2.8 19.3 + - - +
550C PHE* 3.2 42.2 - - + +
555C GLY* 3.2 19.1 - - - -
558C ILE* 3.6 24.5 - - + -
559C ILE* 3.4 22.2 - - + +
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Residues in contact with LEU 336 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
230C LEU* 4.7 7.6 - - + -
233C ILE* 4.1 24.0 - - + -
234C TYR* 3.4 22.9 - - + +
305C TRP* 4.3 12.5 - - + +
308C GLU* 3.9 11.0 - - + -
309C HIS* 4.0 24.5 - - + +
312C VAL* 3.6 24.9 - - + -
332C SER 2.9 16.2 + - - +
333C LYS 4.0 4.0 - - - +
335C ILE* 1.3 73.1 - - - +
337C ILE* 1.3 53.7 + - - +
339C GLU* 2.9 26.7 + - - +
340C THR* 2.7 38.8 + - - -
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Residues in contact with ILE 337 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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228C VAL* 3.7 24.0 - - + +
229C ASP 4.2 10.1 - - - +
230C LEU* 3.5 21.8 - - + -
333C LYS* 2.8 34.7 + - + +
334C LEU* 3.5 8.3 - - + +
336C LEU* 1.3 77.2 - - - +
338C GLY* 1.3 63.9 + - - +
340C THR* 3.2 7.6 + - - -
341C ILE* 3.0 35.7 + - + +
537C ASN* 4.4 7.6 - - - +
539C ILE* 4.3 13.9 - - + -
139D TRP* 3.9 27.8 - - + -
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Residues in contact with GLY 338 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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334C LEU 2.9 7.6 + - - -
335C ILE 2.6 15.1 + - - -
337C ILE* 1.3 74.4 - - - +
339C GLU* 1.3 59.3 + - - -
341C ILE* 3.3 0.9 + - - -
342C LYS 3.3 13.9 + - - -
361C PHE* 3.6 5.8 - - - -
539C ILE* 3.5 20.2 - - - -
559C ILE* 3.4 32.4 - - - +
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Residues in contact with GLU 339 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
305C TRP* 4.8 8.0 - - + -
308C GLU* 2.9 29.8 - - - +
311C ARG* 5.2 0.2 + - - -
312C VAL* 4.3 0.7 - - - +
335C ILE* 2.8 15.0 + - - +
336C LEU* 2.9 38.1 + - - +
338C GLY* 1.3 72.8 - - - +
340C THR* 1.3 60.5 + - - +
342C LYS* 2.8 19.8 + - - +
343C ILE* 2.9 21.4 + - + +
558C ILE* 3.6 30.1 - - + +
559C ILE* 3.8 5.8 - - - +
562C ALA* 3.8 26.0 - - + +
567C LEU* 4.8 3.2 - - - +
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Residues in contact with THR 340 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201C PHE* 5.5 1.3 - - + -
205C PHE* 3.8 32.5 - - + -
228C VAL* 4.2 11.0 - - + -
230C LEU* 3.5 20.6 - - + +
232C HIS* 5.9 1.1 - - - +
305C TRP* 3.5 27.7 - - + -
336C LEU 2.7 19.0 + - - -
337C ILE* 3.4 11.2 - - - -
339C GLU* 1.3 73.5 - - - +
341C ILE* 1.3 62.3 + - - +
343C ILE* 4.0 3.1 - - - +
344C VAL* 2.9 27.7 + - + +
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Residues in contact with ILE 341 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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205C PHE* 6.3 0.2 - - - -
228C VAL* 4.6 12.1 - - + -
337C ILE* 3.0 29.8 + - + +
338C GLY 3.8 1.6 - - - +
339C GLU 3.2 0.4 - - - -
340C THR* 1.3 75.5 - - - +
342C LYS* 1.3 63.7 + - - +
344C VAL* 3.8 4.3 + - - +
345C ILE* 3.3 22.9 + - + +
361C PHE* 3.2 36.4 - - + -
534C LEU* 3.5 47.1 - - + +
535C MET* 4.8 0.4 - - - -
537C ASN* 4.3 17.0 - - - +
539C ILE* 4.5 5.2 - - + -
540C CYS* 3.7 13.9 - - - -
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Residues in contact with LYS 342 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
338C GLY 3.3 5.8 + - - +
339C GLU 2.8 9.8 + - - +
341C ILE* 1.3 73.9 - - - +
343C ILE* 1.3 58.0 + - - +
345C ILE 2.9 2.1 + - - -
346C GLU* 2.7 65.7 + - + +
360C LYS* 6.2 0.4 - - - +
361C PHE* 3.7 30.7 + - + -
559C ILE 3.5 15.5 - - - +
560C ASN* 3.1 51.9 + - - +
561C THR* 3.8 2.2 - - - +
562C ALA* 3.6 24.7 - - + +
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Residues in contact with ILE 343 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201C PHE* 3.7 25.1 - - + -
305C TRP* 4.3 11.4 - - + -
339C GLU* 2.9 20.1 + - + +
340C THR* 4.0 3.4 - - - +
342C LYS* 1.3 74.5 - - - +
344C VAL* 1.3 59.8 + - - +
345C ILE 2.8 1.9 + - - -
346C GLU* 4.9 0.2 - - - -
347C ASP* 2.8 48.3 + - + +
348C TYR 3.1 6.1 + - - -
562C ALA* 4.3 3.6 - - + -
563C SER* 3.5 41.7 - - - +
564C ILE* 3.7 14.6 - - + +
567C LEU* 4.1 23.6 - - + -
580C PHE* 4.2 3.1 - - + -
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Residues in contact with VAL 344 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201C PHE* 3.6 28.7 - - + -
205C PHE* 3.2 52.3 - - + -
340C THR* 2.9 20.3 + - + +
341C ILE* 4.4 3.1 - - - +
343C ILE* 1.3 73.6 - - - +
345C ILE* 1.3 56.4 + - - +
348C TYR* 3.7 16.8 - - + +
349C VAL* 2.8 24.8 + - + +
530C SER* 5.6 1.8 - - - +
534C LEU* 4.1 20.6 - - + -
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Residues in contact with ILE 345 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113C MET* 4.5 9.9 - - + -
117C LEU* 5.5 2.0 - - + -
341C ILE* 3.3 24.2 + - + +
342C LYS 2.9 3.5 + - - +
343C ILE 2.8 1.2 + - - -
344C VAL* 1.3 74.6 - - - +
346C GLU* 1.3 63.0 + - - +
347C ASP 3.3 0.9 - - - -
349C VAL* 3.5 8.5 - - + +
350C GLN* 3.0 28.9 + - - +
359C LEU* 3.9 23.4 - - + +
360C LYS 4.2 4.9 - - - +
361C PHE* 4.1 28.0 - - + +
531C LEU* 3.8 18.6 - - + -
534C LEU* 3.2 33.7 - - + -
535C MET* 5.5 5.6 - - + -
701C S58 5.5 0.7 - - - -
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Residues in contact with GLU 346 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109C ARG* 3.3 10.5 + - - -
342C LYS* 2.7 58.6 + - + +
345C ILE* 1.3 72.2 - - - +
347C ASP* 1.3 64.9 + - - +
350C GLN* 3.1 21.3 + - - +
358C LYS* 4.8 4.7 - - - +
359C LEU* 2.6 30.6 - - - +
360C LYS* 3.8 3.7 - - - +
361C PHE* 3.7 23.5 + - + +
562C ALA 5.3 3.6 - - - +
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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) + - + + + + + -
------------------------------------------------------------
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