Contacts of the helix formed by residues 452 - 480 (chain C) in PDB entry 2BG9
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 452 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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315C ARG* 4.9 1.6 - - - +
449C VAL* 2.7 54.7 - - + +
451C GLN* 1.3 77.6 - - - +
453C ILE* 1.3 67.4 + - - +
455C ARG* 2.7 33.2 - - - +
456C LEU* 2.9 40.2 + - + +
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Residues in contact with ILE 453 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
247C PHE 5.6 1.8 - - - +
250C PRO* 5.7 2.2 - - + -
251C ALA* 2.8 42.2 - - + +
449C VAL 5.1 0.4 - - - +
450C GLY* 2.9 26.0 + - - +
452C THR* 1.3 84.7 - - - +
454C ASP* 1.3 94.8 + - + +
456C LEU* 2.9 21.3 + - + +
457C SER* 3.1 16.1 + - - +
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Residues in contact with ASP 454 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
450C GLY 4.7 0.2 - - - +
451C GLN* 3.8 2.6 - - - +
453C ILE* 1.3 91.5 - - + +
455C ARG* 1.3 96.2 + - - +
456C LEU 3.1 0.3 + - - -
457C SER* 3.1 5.2 + - - +
458C MET* 2.4 45.5 + - + +
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Residues in contact with ARG 455 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
451C GLN* 2.3 42.5 + - - +
452C THR* 2.7 31.6 - - - +
454C ASP* 1.3 100.7 + - - +
456C LEU* 1.3 53.7 + - + +
458C MET* 3.8 5.6 - - - -
459C PHE* 2.5 63.7 + - + +
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Residues in contact with LEU 456 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
247C PHE* 4.1 14.4 - - + -
250C PRO* 6.3 3.1 - - + -
312C PHE* 2.7 49.4 - - + -
315C ARG* 4.6 8.1 - - - +
452C THR* 2.9 51.4 + - + +
453C ILE* 2.9 12.9 + - + +
455C ARG* 1.3 82.4 - - + +
457C SER* 1.3 63.4 + - - +
459C PHE* 3.0 3.4 + - - +
460C ILE* 2.9 29.8 + - - +
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Residues in contact with SER 457 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
247C PHE* 2.4 41.2 + - - +
248C TYR* 4.0 22.6 + - - -
453C ILE* 3.1 11.3 + - - +
454C ASP* 4.1 5.2 - - - -
456C LEU* 1.3 77.3 - - - +
458C MET* 1.3 50.2 + - - +
460C ILE* 3.7 10.0 - - - +
461C ILE* 2.7 42.0 + - - +
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Residues in contact with MET 458 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
454C ASP* 2.4 36.4 + - + +
455C ARG* 3.5 9.2 - - - +
457C SER* 1.3 65.4 - - - +
459C PHE* 1.3 71.8 + - + +
460C ILE 3.0 4.5 - - - -
461C ILE* 3.2 14.9 + - + +
462C THR* 2.6 55.5 + - + +
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Residues in contact with PHE 459 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
455C ARG* 2.5 55.9 + - + +
456C LEU* 3.3 6.7 - - - +
458C MET* 1.3 90.1 - - + +
460C ILE* 1.3 54.4 + - - +
462C THR* 4.0 9.6 - - + -
463C PRO* 2.7 32.3 - - - +
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Residues in contact with ILE 460 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
243C ALA 5.5 0.9 - - - +
244C ALA* 4.8 11.9 - - + +
247C PHE* 3.4 49.4 - - + -
248C TYR* 4.6 13.5 - - + +
305C ASN* 4.8 11.4 - - - +
308C ILE* 6.3 0.4 - - + -
312C PHE* 6.0 1.8 - - + -
456C LEU* 2.9 23.8 + - - +
457C SER* 3.7 11.0 - - - +
458C MET 3.0 0.2 - - - -
459C PHE* 1.3 80.7 - - - +
461C ILE* 1.3 69.4 + - + +
463C PRO* 2.9 20.2 - - + +
464C VAL* 2.9 19.5 + - + +
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Residues in contact with ILE 461 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
248C TYR* 2.7 36.8 - - + +
457C SER 2.7 24.0 - - - +
458C MET* 3.4 15.0 - - + +
460C ILE* 1.3 76.3 - - + +
462C THR* 1.3 67.7 + - - +
464C VAL* 2.7 33.4 - - + +
465C MET* 2.8 10.5 + - + +
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Residues in contact with THR 462 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
458C MET* 2.6 39.8 + - + +
459C PHE* 4.0 10.8 - - + -
461C ILE* 1.3 77.4 - - - +
463C PRO* 1.4 57.3 - - + -
465C MET* 3.0 18.4 - - - +
466C VAL* 2.6 42.4 + - + +
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Residues in contact with PRO 463 (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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459C PHE* 2.7 41.5 - - + +
460C ILE* 2.9 19.1 - - + +
462C THR* 1.4 81.5 - - - +
464C VAL* 1.3 51.4 + - - +
465C MET 2.9 1.8 - - - -
466C VAL* 2.6 15.3 + - + -
467C LEU* 2.5 53.1 + - + +
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Residues in contact with VAL 464 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
240C SER* 5.8 8.7 - - - +
244C ALA* 6.2 4.0 - - + -
460C ILE* 2.9 21.2 + - + +
461C ILE* 2.7 28.5 - - + +
463C PRO* 1.3 71.5 - - - +
465C MET* 1.3 71.2 + - + +
467C LEU* 3.7 12.1 - - + +
468C GLY* 2.6 36.6 + - - +
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Residues in contact with MET 465 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
461C ILE* 2.8 12.7 + - + +
462C THR* 3.0 22.0 - - - +
464C VAL* 1.3 83.9 - - + +
466C VAL* 1.3 71.4 + - + +
469C THR* 2.5 56.2 + - + +
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Residues in contact with VAL 466 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
462C THR* 2.6 42.2 + - + +
463C PRO* 2.6 23.6 + - + +
465C MET* 1.3 88.2 - - + +
467C LEU* 1.3 52.9 + - + +
469C THR* 3.5 1.9 - - - +
470C ILE* 2.5 49.9 + - + +
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Residues in contact with LEU 467 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
298C LEU* 3.2 34.5 - - + +
301C GLY* 5.2 12.3 - - - -
463C PRO* 2.5 53.4 + - + +
464C VAL* 3.7 8.1 - - + +
466C VAL* 1.3 70.6 - - + +
468C GLY* 1.3 70.5 + - - +
469C THR 3.0 1.3 - - - -
470C ILE* 2.7 23.6 + - + +
471C PHE* 2.8 15.6 + - - +
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Residues in contact with GLY 468 (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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298C LEU* 5.3 4.9 - - - -
464C VAL* 2.6 27.3 + - - -
467C LEU* 1.3 78.6 - - - +
469C THR* 1.3 59.9 + - - +
471C PHE* 3.6 7.3 + - - +
472C ILE* 3.5 22.9 + - - +
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Residues in contact with THR 469 (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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464C VAL 3.9 0.2 + - - -
465C MET* 2.5 44.1 + - + +
466C VAL* 3.5 3.4 - - - +
468C GLY* 1.3 76.3 - - - +
470C ILE* 1.3 52.2 + - + +
471C PHE 3.0 0.2 + - - -
472C ILE* 3.3 8.8 + - + -
473C PHE* 2.4 67.5 + - + +
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Residues in contact with ILE 470 (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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466C VAL* 2.5 41.1 + - + +
467C LEU* 2.7 18.7 + - + +
469C THR* 1.3 70.7 - - + +
471C PHE* 1.3 50.5 + - + +
473C PHE* 3.1 16.3 - - + +
474C VAL* 2.6 53.5 + - + +
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Residues in contact with PHE 471 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
233C ILE* 5.3 18.6 - - + -
294C PHE* 4.9 30.7 - + + -
295C ILE* 6.5 0.2 - - - -
298C LEU* 3.5 32.8 - - + -
467C LEU 2.8 13.0 + - - +
468C GLY* 3.8 7.9 - - - +
469C THR 3.0 0.4 + - - -
470C ILE* 1.3 70.5 - - + +
472C ILE* 1.3 66.4 + - + +
473C PHE 2.8 2.7 - - - -
474C VAL* 2.5 13.7 + - + +
475C MET* 2.3 56.2 + - + -
478C PHE* 5.6 3.1 - + - -
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Residues in contact with ILE 472 (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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468C GLY 3.5 12.9 + - - +
469C THR* 3.3 13.0 + - + +
471C PHE* 1.3 92.7 - - + +
473C PHE* 1.3 59.7 + - - +
475C MET* 2.9 53.4 - - + +
476C GLY* 3.1 10.6 + - - -
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Residues in contact with PHE 473 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
469C THR* 2.4 55.5 + - + +
470C ILE* 3.1 19.7 - - + +
472C ILE* 1.3 71.9 - - - +
474C VAL* 1.3 51.6 + - + +
476C GLY* 3.2 3.1 + - - -
477C ASN* 2.7 51.0 + - + +
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Residues in contact with VAL 474 (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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294C PHE* 4.1 30.1 - - + -
470C ILE* 2.6 38.3 + - + +
471C PHE* 2.5 17.6 + - + +
473C PHE* 1.3 67.2 - - + +
475C MET* 1.3 68.8 + - - +
476C GLY 3.0 0.2 - - - -
477C ASN* 2.5 39.4 + - - +
478C PHE* 3.1 21.5 + - + -
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Residues in contact with MET 475 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
471C PHE* 2.3 35.5 + - + +
472C ILE* 2.9 55.4 - - + +
474C VAL* 1.3 66.6 - - - +
476C GLY* 1.3 59.9 + - - +
478C PHE* 2.3 58.1 - - + -
479C ASN* 2.9 8.7 + - + +
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Residues in contact with GLY 476 (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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472C ILE 3.1 7.5 + - - -
473C PHE 3.5 3.1 - - - -
474C VAL 3.0 0.2 - - - -
475C MET* 1.3 83.4 - - - +
477C ASN* 1.3 50.2 + - - +
478C PHE 2.7 7.1 + - - -
479C ASN* 2.6 33.0 + - - -
480C ARG* 2.6 36.8 - - - +
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Residues in contact with ASN 477 (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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473C PHE* 2.7 35.1 + - + +
474C VAL* 2.5 58.0 - - - +
476C GLY* 1.3 72.2 - - - +
478C PHE* 1.3 55.8 + - - +
480C ARG* 4.2 6.1 - - - +
481C PRO* 3.0 17.6 - - - +
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Residues in contact with PHE 478 (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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139C PHE* 3.8 35.9 - + + -
291C TYR* 5.0 12.8 - + - -
294C PHE* 4.7 16.8 - + - -
471C PHE* 5.6 3.4 - + - -
474C VAL* 3.1 22.1 + - + +
475C MET* 2.3 50.7 - - + -
476C GLY 2.7 0.8 + - - -
477C ASN* 1.3 77.6 - - - +
479C ASN* 1.3 64.1 + - + +
480C ARG 3.3 1.8 - - - -
481C PRO* 3.3 9.8 - - - +
482C PRO* 2.5 29.6 - - - +
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Residues in contact with ASN 479 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139C PHE* 5.8 0.7 - - - -
475C MET* 3.0 22.1 - - + +
476C GLY* 2.6 9.9 + - - +
478C PHE* 1.3 86.2 - - + +
480C ARG* 1.3 79.2 + - - +
482C PRO* 3.1 23.6 - - - +
483C ALA* 3.4 12.4 - - - +
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Residues in contact with ARG 480 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
476C GLY* 2.6 36.1 + - - +
477C ASN* 4.2 4.3 - - - +
479C ASN* 1.3 89.2 - - - +
481C PRO* 1.4 61.1 - - + +
482C PRO* 3.1 5.2 - - - -
483C ALA* 3.3 9.1 + - - +
484C LYS* 3.0 27.5 + - - +
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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) + - + + + + + -
------------------------------------------------------------
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