Contacts of the strand formed by residues 370 - 401 (chain A) in PDB entry 1QFG
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 ILE 370 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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366A ALA* 3.2 2.8 - - - -
367A THR* 2.7 49.5 + - + +
368A GLY 3.3 0.8 - - - -
369A ASP* 1.3 77.7 - - - +
371A ASP* 1.3 62.6 + - - +
372A HIS* 2.6 41.3 + - + +
451A ALA* 4.5 11.2 - - + -
452A GLN 3.6 3.1 - - - +
453A TRP* 3.4 43.1 - - + +
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Residues in contact with ASP 371 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
365A PHE 3.7 3.2 - - - +
366A ALA* 3.2 23.4 + - - +
369A ASP 5.2 2.9 - - - +
370A ILE* 1.3 71.4 - - - +
372A HIS* 1.3 68.3 + - - +
450A GLN 3.6 0.7 - - - +
451A ALA* 3.1 1.2 - - - -
452A GLN* 2.8 49.3 + - + +
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Residues in contact with HIS 372 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
364A LYS* 3.1 9.2 - - - +
365A PHE* 2.7 68.5 + + + +
367A THR* 3.2 30.5 - - + +
370A ILE* 2.6 34.5 - - + +
371A ASP* 1.3 87.2 - - - +
373A THR* 1.3 65.3 + - - +
374A LEU 3.8 0.2 - - - -
449A ASP* 3.1 21.9 + - - +
450A GLN 3.2 2.7 - - - -
451A ALA* 3.9 9.8 - - + +
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Residues in contact with THR 373 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39A THR* 4.0 6.7 - - + -
362A GLN* 3.9 24.9 - - + -
363A SER 3.7 2.0 - - - -
364A LYS* 3.3 22.7 + - + +
372A HIS* 1.3 76.4 - - - +
374A LEU* 1.3 59.8 + - - +
375A LEU* 3.9 0.6 + - - +
448A GLN* 3.6 1.4 + - - +
449A ASP* 3.1 5.2 - - - -
450A GLN* 2.6 64.0 + - - +
1106A GOL 3.5 30.3 + - - +
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Residues in contact with LEU 374 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
361A LEU* 3.5 5.1 - - + +
362A GLN* 3.6 1.9 - - - -
363A SER* 2.8 47.4 + - - +
365A PHE* 4.1 26.9 - - + -
373A THR* 1.3 74.9 - - - +
375A LEU* 1.3 60.8 + - - +
376A THR* 3.8 23.9 + - + +
447A VAL* 4.2 13.7 - - + -
448A GLN 3.3 11.9 - - - +
449A ASP* 3.6 17.7 - - + +
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Residues in contact with LEU 375 (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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37A THR 3.5 2.5 - - - +
38A LYS* 3.5 31.9 - - + +
39A THR* 4.4 9.2 - - + -
139A LEU* 3.9 9.2 - - + -
297A ARG* 4.2 9.4 - - - +
360A GLN* 3.7 35.7 - - + +
361A LEU 3.8 9.2 - - - +
362A GLN* 4.6 5.4 - - + +
373A THR 3.9 1.0 + - - -
374A LEU* 1.3 70.9 - - - +
376A THR* 1.3 71.4 + - - +
446A TYR* 4.1 14.1 - - + -
447A VAL* 3.1 5.2 - - - +
448A GLN* 2.4 72.4 + - - +
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Residues in contact with THR 376 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
360A GLN* 3.6 0.8 - - - -
361A LEU* 2.9 50.4 + - + +
374A LEU* 3.8 29.8 - - + +
375A LEU* 1.3 85.3 - - - +
377A GLY* 1.3 58.3 + - - +
446A TYR 3.5 6.5 - - - -
447A VAL* 4.4 13.7 - - + -
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Residues in contact with GLY 377 (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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359A THR 3.2 13.5 - - - -
360A GLN* 4.1 1.1 - - - -
376A THR* 1.3 74.4 - - - +
378A VAL* 1.3 66.1 + - - +
445A VAL* 3.4 4.2 - - - +
446A TYR* 3.0 53.9 + - - +
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Residues in contact with VAL 378 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
357A VAL 4.2 0.7 - - - +
358A ASP* 3.5 2.7 - - - -
359A THR* 2.8 48.2 + - - +
377A GLY* 1.3 78.7 - - - +
379A ASP* 1.3 60.4 + - - +
443A THR* 5.9 3.8 - - + -
444A GLY 3.4 6.7 - - - +
445A VAL* 3.6 20.9 - - + -
1100A DDQ 4.6 21.8 - - + -
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Residues in contact with ASP 379 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38A LYS* 4.5 3.2 + - - -
105A TYR* 6.2 0.2 - - - -
109A LEU* 4.8 4.9 - - - +
140A TYR* 3.8 11.4 - - - +
356A SER* 5.8 0.5 - - - -
357A VAL 3.5 9.6 - - - +
358A ASP* 3.7 22.3 - - - +
378A VAL* 1.3 74.7 - - - +
380A PHE* 1.3 73.1 + - - +
381A MET* 5.8 0.6 - - - +
442A GLN* 3.9 3.0 + - - +
443A THR* 3.3 5.1 - - - +
444A GLY 2.8 34.4 + - - +
446A TYR* 4.1 2.4 - - + -
463A ARG* 2.9 43.5 + - - +
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Residues in contact with PHE 380 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
355A PHE* 4.0 26.7 - + - -
356A SER* 3.4 2.6 - - - -
357A VAL* 2.9 37.1 + - + +
378A VAL 5.7 0.2 - - - -
379A ASP* 1.3 80.9 + - - +
381A MET* 1.3 86.7 + - - +
382A ARG* 4.2 3.4 - - + -
441A LYS* 3.9 17.0 - - + -
442A GLN 3.4 7.0 - - - -
443A THR* 3.2 29.8 - - + +
1009A FTT 3.0 37.9 - - + -
1100A DDQ 3.7 46.0 - - + -
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Residues in contact with MET 381 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110A LYS* 5.9 5.2 - - + -
112A GLN* 4.1 19.3 - - + -
142A LYS* 4.7 7.0 - - - -
354A ASN* 3.6 8.1 - - - +
355A PHE 3.1 15.3 - - - +
356A SER* 3.8 11.4 - - - +
379A ASP* 5.8 0.9 - - - +
380A PHE* 1.3 86.2 - - - +
382A ARG* 1.3 103.2 + - - +
383A MET* 3.0 17.5 - - + +
440A GLN* 4.2 13.9 - - - +
441A LYS* 3.3 3.0 - - - -
442A GLN* 3.0 58.0 + - + +
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Residues in contact with ARG 382 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
302A PHE* 4.8 1.4 - - - -
353A GLN* 4.0 9.7 - - - +
354A ASN* 3.2 5.4 + - - -
355A PHE* 3.0 36.5 + - + +
380A PHE* 4.2 6.0 - - + -
381A MET* 1.3 79.8 - - - +
383A MET* 1.3 59.0 + - - +
384A ARG* 3.8 31.9 - - - +
440A GLN 3.2 10.5 - - - +
441A LYS* 4.1 13.9 - - + -
1009A FTT 3.4 32.3 + - - +
1011A FTT 3.0 31.1 + - - +
1012A DAO 2.7 34.3 + - - +
2000A DPO 4.4 5.5 + - - -
1B PA1 3.6 29.2 + - - -
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Residues in contact with MET 383 (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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112A GLN* 3.7 18.4 - - + +
113A GLY 4.1 4.0 - - - +
114A ASN* 4.0 18.4 - - + +
352A LEU* 3.6 35.7 - - + -
353A GLN 3.4 3.8 - - - +
354A ASN* 4.3 1.6 - - + +
381A MET* 3.0 14.1 - - + +
382A ARG* 1.3 78.9 - - - +
384A ARG* 1.3 78.6 + - - +
385A ASN* 3.8 7.4 - - - -
438A ASN* 4.9 4.7 - - + +
439A LYS* 3.2 7.3 - - - +
440A GLN* 2.9 80.0 + - + +
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Residues in contact with ARG 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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351A LYS 5.7 0.2 - - - +
352A LEU* 2.7 35.3 - - - +
353A GLN* 2.9 23.0 + - + +
382A ARG* 3.8 24.0 - - - +
383A MET* 1.3 78.0 - - - +
385A ASN* 1.4 59.4 + - - +
386A ASP* 5.1 0.9 - - + +
437A LEU* 4.2 14.4 - - + +
438A ASN 3.4 8.3 - - - +
439A LYS* 3.2 41.5 - - + +
2000A DPO 3.3 11.0 + - - -
1B PA1 3.7 16.5 + - - -
2B GCN 5.0 1.8 + - - -
3B KDO 3.0 45.7 + - - +
4B GMH 4.2 5.3 - - - -
9B KDO 2.9 26.6 + - - -
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Residues in contact with ASN 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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114A ASN* 2.8 45.1 + - + +
117A ASN* 3.1 22.5 + - - -
350A GLU* 2.9 24.9 + - - +
351A LYS 3.4 7.7 + - - +
352A LEU* 3.3 16.4 - - + +
383A MET* 3.8 2.4 - - - -
384A ARG* 1.4 75.8 - - - +
386A ASP* 1.3 65.4 + - - +
387A ILE* 3.3 9.7 + - - +
436A ILE 4.0 0.2 - - - +
437A LEU* 3.4 4.4 - - - -
438A ASN* 2.8 39.3 + - - +
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Residues in contact with ASP 386 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
349A ASP* 3.6 1.7 - - - +
350A GLU* 3.2 23.7 - - - -
351A LYS* 3.0 20.9 + - + +
384A ARG* 5.6 1.3 - - + -
385A ASN* 1.3 73.2 + - - +
387A ILE* 1.3 67.3 + - - +
388A ASN* 5.4 3.3 - - - +
436A ILE 3.8 2.2 - - - +
437A LEU* 3.0 17.0 - - + +
474A ARG* 3.0 25.3 + - - -
3B KDO 2.6 44.3 + - - +
4B GMH 4.3 0.2 - - - +
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Residues in contact with ILE 387 (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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114A ASN* 3.4 13.2 - - - +
115A PHE* 3.7 30.3 - - + -
348A ASP* 3.7 19.5 - - - +
349A ASP 3.8 2.0 - - - -
350A GLU* 3.2 20.6 - - - +
385A ASN* 3.3 23.1 - - - +
386A ASP* 1.3 78.6 + - - +
388A ASN* 1.3 65.2 + - - +
389A ALA* 4.2 2.9 - - + +
434A TYR* 4.1 15.9 - - + -
435A ARG* 3.3 4.5 - - - +
436A ILE* 2.6 44.7 + - + +
438A ASN* 3.6 15.3 - - - +
474A ARG* 4.8 2.1 - - - -
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Residues in contact with ASN 388 (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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347A VAL* 4.2 1.9 - - - +
348A ASP 3.9 0.9 - - - -
349A ASP* 3.0 43.1 + - + +
386A ASP* 5.4 3.1 - - - +
387A ILE* 1.3 75.0 - - - +
389A ALA* 1.3 65.0 + - - +
390A TRP* 6.2 0.6 - - - -
433A PRO* 6.0 0.2 - - - +
434A TYR 3.6 2.5 - - - -
435A ARG* 3.0 34.1 - - - +
474A ARG* 6.4 0.7 - - - -
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Residues in contact with ALA 389 (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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115A PHE* 5.1 0.2 - - + -
346A VAL* 4.3 0.7 - - + -
347A VAL* 2.9 17.5 - - - +
348A ASP* 3.7 18.2 - - + +
387A ILE* 4.2 6.0 - - + -
388A ASN* 1.3 81.2 + - - +
390A TRP* 1.3 62.3 + - - +
391A PHE* 3.7 23.3 - - + -
433A PRO* 3.5 4.5 - - - +
434A TYR* 2.7 38.1 + - + +
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Residues in contact with TRP 390 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
345A TYR* 3.3 21.5 + + - -
346A VAL* 3.3 6.6 - - - +
347A VAL* 3.0 37.5 + - + +
388A ASN* 6.2 1.1 - - - -
389A ALA* 1.3 79.4 - - - +
391A PHE* 1.3 63.8 - - - +
426A LYS* 2.8 66.5 - - + +
427A ASP 5.2 1.1 - - - -
428A PRO* 5.2 4.0 - - + -
431A SER* 2.1 35.4 + - - -
432A GLY* 3.0 21.8 - - - -
433A PRO* 3.1 40.2 - - + -
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Residues in contact with PHE 391 (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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115A PHE* 3.8 26.2 - + - -
116A TYR* 4.6 2.7 - + - -
313A TYR* 5.0 4.5 - - - -
345A TYR 3.5 4.9 - - - +
346A VAL* 3.4 29.2 - - + -
389A ALA* 3.7 12.8 - - + -
390A TRP* 1.3 77.1 - - - +
392A GLY* 1.3 67.5 - - - +
393A TYR* 3.3 18.5 - - + -
431A SER* 3.3 2.6 - - - -
432A GLY 2.8 35.0 + - - -
434A TYR* 3.6 36.1 - + + -
1108A GOL 4.0 27.8 - - - -
1109A GOL 4.5 3.1 - - - -
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Residues in contact with GLY 392 (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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313A TYR* 4.9 1.6 + - - -
344A LYS* 3.6 18.1 - - - +
345A TYR* 3.0 34.5 + - - +
391A PHE* 1.3 75.7 - - - +
393A TYR* 1.3 60.7 + - - -
396A SER* 3.2 26.9 - - - -
430A ASN 3.7 2.2 - - - -
431A SER* 4.1 1.3 - - - -
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Residues in contact with TYR 393 (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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343A ARG 4.9 0.2 - - - +
344A LYS* 3.8 16.5 - - - +
391A PHE* 3.3 20.4 - - + -
392A GLY* 1.3 76.1 - - - -
394A ASP* 1.3 69.8 + - - +
395A ASP 3.1 2.0 + - - -
396A SER* 2.5 24.4 + - - -
428A PRO 5.7 0.9 - - - -
429A ALA 5.2 2.2 - - - -
430A ASN* 2.6 31.1 + - - +
431A SER 3.3 17.9 - - - -
432A GLY* 3.0 25.8 - - - -
433A PRO* 4.4 3.3 + - - +
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Residues in contact with ASP 394 (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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322A ALA 4.3 9.8 - - - +
323A ASN* 4.0 13.5 - - - +
325A TYR* 3.8 18.3 + - - +
326A SER* 3.8 31.7 + - - -
328A GLN* 4.7 3.3 + - - -
343A ARG 4.9 5.5 - - - +
344A LYS* 3.5 22.5 + - - +
393A TYR* 1.3 80.2 - - + +
395A ASP* 1.3 74.7 + - - +
396A SER 3.6 0.7 + - - -
397A VAL 5.2 0.2 + - - -
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Residues in contact with ASP 395 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
325A TYR 4.4 0.9 - - - +
326A SER* 3.6 5.9 + - - -
327A LYS* 2.9 37.9 + - + +
328A GLN* 2.6 58.6 + - + +
393A TYR* 3.1 2.8 + - - +
394A ASP* 1.3 84.4 - - - +
396A SER* 1.3 60.1 + - - +
397A VAL 3.4 3.2 + - - -
430A ASN* 3.7 22.2 - - + +
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Residues in contact with SER 396 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
343A ARG 4.3 0.3 + - - -
344A LYS* 4.0 2.8 - - - -
345A TYR* 3.9 7.5 - - - -
392A GLY* 3.2 25.7 - - - -
393A TYR 2.5 27.6 + - - -
394A ASP 3.4 0.6 + - - -
395A ASP* 1.3 76.2 - - - +
397A VAL* 1.3 71.5 + - - +
398A PRO* 4.4 0.5 - - - +
421A PHE* 3.5 16.3 - - - -
430A ASN* 3.5 26.2 - - - +
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Residues in contact with VAL 397 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
312A VAL* 3.7 17.0 - - + -
328A GLN* 3.2 20.0 + - - -
343A ARG* 2.8 66.8 + - + +
344A LYS* 3.2 22.4 - - - +
345A TYR* 4.3 2.5 - - + -
395A ASP 3.4 2.2 + - - -
396A SER* 1.3 84.9 - - - +
398A PRO* 1.3 87.1 - - + +
421A PHE* 3.5 14.6 - - + -
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Residues in contact with PRO 398 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
328A GLN* 4.5 6.9 - - - +
341A LEU 4.3 0.3 - - - +
343A ARG* 3.4 29.6 + - - +
396A SER 4.4 0.7 - - - +
397A VAL* 1.3 106.6 - - + +
399A LEU* 1.3 65.0 + - + +
400A LEU* 5.8 0.2 - - + -
421A PHE* 4.3 13.0 - - + -
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Residues in contact with LEU 399 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
318A CYS* 3.2 36.1 - - - -
326A SER* 5.2 0.2 - - - +
328A GLN* 3.2 53.4 - - + +
329A CYS* 3.8 7.9 - - - -
332A LEU* 5.2 5.8 - - + -
340A TYR* 4.4 17.9 - - + -
341A LEU 3.3 15.5 - - - +
342A ALA* 4.3 4.3 - - + -
343A ARG* 3.7 0.6 + - - -
398A PRO* 1.3 81.3 - - + +
400A LEU* 1.3 76.9 + - - +
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Residues in contact with LEU 400 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
266A PHE* 4.0 22.7 - - + -
268A GLU* 4.4 6.5 - - + -
340A TYR* 3.2 10.0 - - - -
341A LEU* 2.8 37.5 + - + -
343A ARG* 3.2 40.6 - - - +
398A PRO* 5.8 0.2 - - + -
399A LEU* 1.3 90.0 - - - +
401A ASN* 1.3 65.9 + - - +
402A LEU* 3.4 11.7 + - + +
405A PRO* 5.9 1.8 - - + -
418A ASN* 3.8 34.8 - - + +
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Residues in contact with ASN 401 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
339A HIS* 3.3 15.7 + - - -
340A TYR* 3.0 45.6 + - + -
400A LEU* 1.3 74.9 - - - +
402A LEU* 1.3 60.7 + - - +
403A TYR* 2.8 44.4 + - - +
404A ASN* 5.0 4.0 - - + +
405A PRO* 3.2 22.9 - - - +
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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