Contacts of the helix formed by residues 371 - 395 (chain A) in PDB entry 1G50
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 371 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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370A LEU* 1.3 77.8 - - - +
372A LEU* 1.3 65.0 + - - +
373A HIS* 4.3 4.1 - - - +
374A ASP* 2.7 38.0 + - - +
375A GLN* 3.1 19.6 + - - -
467A LYS* 3.8 36.6 - - + +
471A GLU* 2.7 25.2 + - + +
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Residues in contact with LEU 372 (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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362A LYS* 5.3 4.7 + - - +
368A VAL 5.0 3.6 - - - +
370A LEU 4.5 1.8 - - - +
371A THR* 1.3 72.1 - - - +
373A HIS* 1.3 67.6 + - - +
375A GLN* 3.2 30.9 + - - +
376A VAL* 3.1 26.5 + - + +
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Residues in contact with HIS 373 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
371A THR* 3.4 4.7 + - - +
372A LEU* 1.3 80.7 - - + +
374A ASP* 1.3 58.8 + - - +
376A VAL* 3.1 14.8 + - + +
377A HIS* 2.8 26.5 + - - +
462A LEU* 3.4 25.3 - - + +
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Residues in contact with ASP 374 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
370A LEU* 4.5 1.8 - - + -
371A THR* 2.7 28.0 + - - +
372A LEU 3.2 1.0 - - - -
373A HIS* 1.3 77.8 - - - +
375A GLN* 1.3 51.3 + - - +
377A HIS* 2.8 8.3 + - - +
378A LEU* 2.6 40.7 + - + +
461A PHE* 3.7 35.3 - - + +
462A LEU* 3.5 25.6 - - - +
463A SER* 5.0 3.7 + - - -
468A SER* 5.9 0.3 - - - -
471A GLU* 2.9 28.0 - - - +
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Residues in contact with GLN 375 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
362A LYS* 2.8 34.9 + - - +
367A PHE* 3.2 50.5 + - + +
368A VAL* 3.7 9.6 + - - +
370A LEU* 3.0 31.2 + - + -
371A THR 3.1 9.0 + - - +
372A LEU* 3.2 26.3 + - - +
374A ASP* 1.3 73.2 - - - +
376A VAL* 1.3 69.1 + - - +
378A LEU* 3.2 4.9 + - - +
379A LEU* 2.7 28.4 + - - +
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Residues in contact with VAL 376 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
362A LYS* 5.3 6.5 - - - +
372A LEU 3.2 16.6 - - - +
373A HIS* 3.1 17.2 + - + +
375A GLN* 1.3 77.0 - - + +
377A HIS* 1.3 58.2 + - - +
379A LEU* 3.7 7.3 - - + +
380A GLU* 2.8 52.6 + - + +
542A GLU* 5.2 8.7 - - - +
543A MET* 5.7 2.5 - - + -
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Residues in contact with HIS 377 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
373A HIS 2.8 13.0 + - - +
374A ASP* 2.8 17.2 + - - +
376A VAL* 1.3 80.0 - - - +
378A LEU* 1.3 60.7 + - - -
380A GLU* 3.3 18.6 + - + +
381A CYS* 2.9 34.2 + - + +
457A GLY* 3.5 13.2 + - - -
460A THR* 2.5 30.7 + - - -
461A PHE* 3.4 40.8 + + - -
462A LEU* 4.8 7.6 - - + +
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Residues in contact with LEU 378 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
367A PHE* 4.1 10.3 - - + -
370A LEU* 3.6 22.9 - - + -
374A ASP 2.6 33.2 + - - +
375A GLN* 3.8 4.0 - - - +
377A HIS* 1.3 74.6 - - - +
379A LEU* 1.3 65.0 + - - +
381A CYS* 3.0 16.0 + - - +
382A ALA* 3.1 17.7 + - - +
453A LEU* 2.9 28.6 - - - +
454A LEU* 3.6 31.4 - - + +
456A SER 4.2 5.2 - - - +
457A GLY 5.3 0.4 - - - -
458A VAL 5.2 4.3 - - - +
461A PHE* 3.3 26.2 - - + -
475A ILE* 3.9 9.2 - - + -
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Residues in contact with LEU 379 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
357A MET* 4.0 26.9 - - + -
358A ILE* 3.6 47.3 - - + -
360A TRP* 6.5 0.2 - - + -
361A ALA* 3.8 18.8 - - + -
362A LYS* 5.3 5.2 - - - +
367A PHE* 4.5 5.6 - - + -
375A GLN 2.7 21.6 + - - +
376A VAL* 3.7 7.2 - - + +
378A LEU* 1.3 74.5 - - - +
380A GLU* 1.3 57.2 + - - +
383A TRP* 3.3 25.4 + - + +
386A ILE* 5.5 1.1 - - + +
453A LEU* 3.9 13.6 - - + +
543A MET* 5.1 8.3 - - - -
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Residues in contact with GLU 380 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
376A VAL* 2.8 44.6 + - + +
377A HIS* 3.3 23.8 + - + +
379A LEU* 1.3 72.4 - - - +
381A CYS* 1.3 59.9 + - - +
383A TRP* 3.6 5.9 - - - -
542A GLU* 4.9 3.8 - - - +
543A MET* 3.8 33.8 - - + +
546A ALA* 3.6 27.3 - - + +
547A HIS* 3.1 24.1 + - - -
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Residues in contact with CYS 381 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
377A HIS* 2.9 26.1 + - + +
378A LEU 3.0 1.5 + - - +
380A GLU* 1.3 81.1 - - - +
382A ALA* 1.3 60.6 + - - +
383A TRP 3.8 0.2 - - - -
385A GLU* 4.5 5.9 - - - +
456A SER* 3.7 9.8 - - - +
457A GLY* 3.3 33.7 - - - -
460A THR* 4.6 7.2 - - - -
515A ARG* 4.5 9.3 + - - -
518A SER* 5.6 0.9 + - - -
522A MET* 5.7 0.3 - - - +
547A HIS* 3.7 20.6 + - - -
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Residues in contact with ALA 382 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
378A LEU 3.1 12.3 + - - +
381A CYS* 1.3 78.3 - - - +
383A TRP* 1.3 64.9 + - - +
384A LEU 3.5 2.0 - - - -
385A GLU* 2.9 25.5 + - - +
386A ILE* 3.1 10.0 + - + +
452A ILE* 3.6 22.2 - - + +
453A LEU* 4.2 6.5 - - + -
456A SER* 3.4 28.0 - - - +
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Residues in contact with TRP 383 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
350A ALA* 5.1 0.2 - - + -
354A LEU* 3.8 11.9 - - + -
357A MET* 3.6 25.2 - - - +
379A LEU* 3.3 17.6 + - + +
380A GLU* 3.6 21.8 - - - -
382A ALA* 1.3 74.8 - - - +
384A LEU* 1.3 85.0 + - + +
386A ILE* 2.6 27.5 + - - +
387A LEU* 2.7 43.8 + - + +
522A MET* 3.7 21.6 - - - +
525A LEU* 4.3 11.4 - - + -
540A LEU* 3.4 31.2 - - + -
543A MET* 3.3 41.3 + - + +
544A LEU* 4.1 8.7 - - + -
547A HIS* 3.8 12.9 - + - -
600A EST 5.8 0.7 - - + -
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Residues in contact with LEU 384 (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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382A ALA 3.5 0.6 - - - -
383A TRP* 1.3 106.6 - - + +
385A GLU* 1.3 61.0 + - - +
387A LEU* 3.7 11.0 - - + -
388A MET* 3.1 34.1 + - - +
518A SER* 3.3 35.6 + - - +
521A GLY* 3.9 6.5 - - - -
522A MET* 3.4 41.7 - - + +
525A LEU* 5.9 0.2 - - + -
600A EST 4.2 29.8 - - + -
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Residues in contact with GLU 385 (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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381A CYS 4.5 2.6 - - - +
382A ALA* 2.9 14.4 + - - +
384A LEU* 1.3 76.1 - - - +
386A ILE* 1.3 54.0 + - - +
388A MET* 2.9 4.5 + - - +
389A ILE* 2.6 38.1 + - - +
452A ILE* 3.7 15.2 - - + +
456A SER* 2.5 37.2 + - - -
511A LEU* 4.2 2.8 - - - +
514A ILE* 3.5 26.8 - - + +
515A ARG* 3.4 33.0 + - - +
518A SER* 3.0 27.0 + - - +
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Residues in contact with ILE 386 (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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357A MET* 3.4 36.8 - - + -
360A TRP* 3.5 32.8 - - + -
379A LEU* 5.5 1.6 - - + +
382A ALA 3.6 13.2 - - - +
383A TRP* 2.6 15.6 + - - +
385A GLU* 1.3 70.0 - - - +
387A LEU* 1.3 66.4 + - + +
389A ILE* 3.4 9.6 - - + +
390A GLY* 3.2 15.1 + - - -
449A LYS* 4.6 23.8 - - + +
452A ILE* 4.3 12.8 - - + -
453A LEU* 4.4 20.2 - - + -
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Residues in contact with LEU 387 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
350A ALA* 4.1 15.0 - - + -
353A GLU* 4.0 20.2 - - + +
354A LEU* 3.4 16.4 - - + -
357A MET* 3.5 24.2 - - + -
383A TRP* 2.7 47.6 + - + +
384A LEU* 3.7 12.6 - - + +
386A ILE* 1.3 76.2 - - + +
388A MET* 1.3 59.2 + - - +
390A GLY* 3.0 1.6 + - - -
391A LEU 2.9 23.2 + - - -
394A ARG* 4.6 0.7 + - - -
600A EST 3.6 39.3 + - + +
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Residues in contact with MET 388 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
384A LEU* 3.1 22.9 + - - +
385A GLU* 2.9 8.7 + - - +
387A LEU* 1.3 75.2 - - - +
389A ILE* 1.3 64.5 + - - +
390A GLY 3.0 1.3 - - - -
391A LEU* 3.1 7.6 + - - +
392A VAL* 3.0 28.8 + - - +
424A ILE* 4.0 19.5 - - + -
428A LEU* 3.6 27.1 - - + -
514A ILE* 5.0 7.0 - - + +
517A MET* 3.4 41.1 - - + +
518A SER* 3.8 21.1 - - - -
521A GLY* 4.8 1.3 - - - -
600A EST 3.6 24.9 - - + -
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Residues in contact with ILE 389 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
385A GLU 2.6 18.3 + - - +
386A ILE* 3.4 19.3 - - - +
388A MET* 1.3 72.8 - - - +
390A GLY* 1.3 67.5 + - - +
392A VAL* 3.8 6.4 + - - +
393A TRP* 3.3 11.6 + - - +
435A PHE* 4.5 11.4 - - + -
445A PHE* 3.2 29.5 - - + -
448A LEU* 3.6 35.2 - - + -
449A LYS* 3.7 22.9 - - + +
452A ILE* 4.0 21.5 - - + -
511A LEU* 5.2 0.2 - - + -
514A ILE* 4.6 19.0 - - + +
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Residues in contact with GLY 390 (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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386A ILE 3.2 5.3 + - - -
387A LEU 3.0 7.4 + - - -
388A MET 3.0 0.6 - - - -
389A ILE* 1.3 82.9 - - - +
391A LEU* 1.3 63.9 + - - +
393A TRP* 3.0 6.4 + - - +
394A ARG* 2.9 34.6 + - - +
445A PHE* 3.9 15.9 - - - -
449A LYS* 4.7 6.5 - - - -
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Residues in contact with LEU 391 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
387A LEU 2.9 10.8 + - - +
388A MET* 3.1 8.5 + - - +
390A GLY* 1.3 74.1 - - - +
392A VAL* 1.3 52.2 + - - +
394A ARG* 3.0 37.4 + - - +
395A SER* 2.7 43.5 + - - +
402A LEU* 3.5 24.5 - - + -
403A LEU 3.8 4.5 - - - +
404A PHE* 3.3 57.4 - - + +
428A LEU* 3.8 20.4 - - + -
600A EST 4.1 8.3 - - + -
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Residues in contact with VAL 392 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
388A MET 3.0 18.4 + - - +
389A ILE* 4.0 5.4 - - - +
391A LEU* 1.3 76.7 - - - +
393A TRP* 1.3 57.9 + - - +
395A SER* 3.2 4.3 + - - -
396A MET* 2.8 27.4 + - - +
402A LEU* 5.5 0.7 - - + -
428A LEU* 3.4 42.4 - - + +
431A THR* 3.9 14.8 - - + -
432A SER* 3.3 26.9 + - - +
435A PHE* 3.2 35.4 - - + -
517A MET* 5.1 0.9 - - + -
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Residues in contact with TRP 393 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
389A ILE 3.3 10.8 + - - +
390A GLY 3.0 9.3 + - - +
392A VAL* 1.3 80.0 - - - +
394A ARG* 1.3 64.8 + - + +
396A MET* 2.7 71.3 + - + +
435A PHE* 4.7 2.2 - - + -
440A LEU* 3.9 27.1 - - + -
441A GLN* 3.7 3.1 - - - -
442A GLY* 3.1 38.8 - - - -
445A PHE* 3.7 34.9 - + + -
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Residues in contact with ARG 394 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
326A ILE* 4.6 21.1 - - + -
353A GLU* 3.4 20.8 + - - -
387A LEU 4.6 0.4 + - - -
390A GLY* 2.9 18.6 + - - +
391A LEU* 3.0 45.3 - - - +
393A TRP* 1.3 85.0 - - + +
395A SER* 1.3 59.9 + - - +
396A MET 3.5 0.5 + - - -
397A GLU* 4.7 2.4 + - - +
398A HIS* 4.3 5.0 + - - -
403A LEU* 2.9 45.5 + - + +
404A PHE* 2.6 27.8 + - - +
600A EST 2.7 25.5 + - - -
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Residues in contact with SER 395 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
391A LEU* 2.7 21.5 + - - +
392A VAL 3.4 1.8 - - - -
394A ARG* 1.3 70.5 - - - +
396A MET* 1.3 68.5 + - - +
397A GLU 3.4 1.7 + - - -
398A HIS* 3.4 20.3 + - - +
401A LYS 3.3 20.2 - - - -
402A LEU* 3.0 14.4 - - - +
403A LEU* 2.6 29.4 + - - +
432A SER* 3.2 15.9 + - - -
436A ARG* 4.3 0.3 + - - -
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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