Contacts of the helix formed by residues 445 - 478 (chain N) in PDB entry 1OCR
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 445 (chain N).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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443N TYR 4.2 0.9 - - - -
444N PRO* 1.3 70.2 - - - +
446N ALA* 1.3 61.6 + - - +
448N THR* 2.5 28.5 + - - -
133O LEU* 6.4 1.6 - - + -
134O ARG* 2.7 46.0 + - - +
110Q THR* 2.9 33.1 + - - +
111Q PHE* 3.1 28.4 - - + -
119Q GLN* 4.4 14.8 + - - +
41X ASN* 3.2 14.7 + - - +
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Residues in contact with ALA 446 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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444N PRO* 3.0 6.7 + - + +
445N ASP* 1.3 77.1 - - - +
447N TYR* 1.3 61.0 + - + +
448N THR 3.2 3.5 + - - -
449N MET 4.7 2.4 + - - -
450N TRP* 5.7 1.6 - - - -
1O MET* 5.4 2.9 - - + -
2O ALA* 3.1 35.7 - - + +
3O TYR* 3.7 15.3 - - - +
4O PRO* 3.4 31.7 - - + +
5O MET 3.8 5.7 + - - -
41X ASN* 4.7 0.9 + - - +
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Residues in contact with TYR 447 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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431N LEU* 4.1 15.7 - - + +
434N SER* 2.8 45.6 + - - -
435N GLY* 3.5 9.0 + - - -
436N MET* 3.8 25.4 - - + -
443N TYR* 3.6 16.7 - - + -
444N PRO* 3.1 40.3 + - + -
445N ASP 3.0 1.6 + - - -
446N ALA* 1.3 78.0 - - + +
448N THR* 1.3 62.3 + - - +
449N MET 3.5 1.1 - - - -
450N TRP* 4.1 6.2 + + - -
451N ASN* 2.7 42.8 + - - +
2O ALA* 3.4 22.3 - - + +
3O TYR 5.9 0.9 - - - -
6O GLN* 6.3 0.4 - - + -
10O GLN* 4.1 4.3 + - - -
195O GLN* 4.6 6.8 + - - -
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Residues in contact with THR 448 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44N PRO* 3.4 37.8 - - + +
443N TYR* 3.6 8.6 + - + -
445N ASP* 2.5 26.8 + - - -
446N ALA 3.2 1.8 - - - -
447N TYR* 1.3 77.5 - - - +
449N MET* 1.3 63.7 + - - +
451N ASN* 3.2 3.3 + - - +
452N THR* 2.6 36.9 + - - +
111Q PHE* 3.5 5.8 - - + -
39X GLU* 3.6 23.6 - - + +
41X ASN* 4.2 15.9 - - + -
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Residues in contact with MET 449 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
446N ALA 4.7 2.0 + - - +
447N TYR 3.5 0.2 - - - -
448N THR* 1.3 77.4 - - - +
450N TRP* 1.3 79.5 + - + +
452N THR* 2.9 18.1 + - - -
453N ILE* 3.0 30.8 + - + +
5O MET* 3.2 52.7 - - + +
40X TRP* 3.4 53.6 + - + +
41X ASN 4.7 5.3 + - - +
42X PRO* 4.5 3.6 - - + -
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Residues in contact with TRP 450 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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427N PRO* 4.1 17.8 - - + +
430N PHE* 3.8 32.6 - + + +
431N LEU* 3.5 34.1 - - + -
434N SER* 5.6 1.1 - - - -
447N TYR* 4.1 5.5 + + - -
448N THR 3.4 0.4 - - - -
449N MET* 1.3 83.3 - - + +
451N ASN* 1.3 63.7 + - - +
453N ILE* 3.4 28.4 + - + +
454N SER* 3.0 25.7 + - - -
5O MET* 3.9 34.3 - - + +
6O GLN 2.9 26.5 + - - -
7O LEU* 3.4 26.5 - - + -
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Residues in contact with ASN 451 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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38N ARG* 2.9 37.7 + - - +
41N LEU* 3.4 20.0 - - - +
371N TYR* 5.4 0.9 - - - -
431N LEU* 3.5 23.5 - - - +
436N MET* 3.5 27.1 - - - +
443N TYR* 3.5 23.3 - - - +
447N TYR* 2.7 27.1 + - - +
448N THR 3.2 2.9 + - - +
450N TRP* 1.3 78.3 - - - +
452N THR* 1.3 57.4 + - - +
454N SER* 4.2 1.1 - - - -
455N SER* 3.0 16.1 + - - -
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Residues in contact with THR 452 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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42N GLY 3.8 24.6 + - - +
43N GLN* 5.2 0.2 - - - -
44N PRO* 5.3 0.2 - - - +
443N TYR* 4.7 0.5 + - - -
448N THR* 2.6 31.9 + - - +
449N MET* 2.9 10.4 + - - -
451N ASN* 1.3 77.3 - - - +
453N ILE* 1.3 64.9 + - - +
455N SER* 3.3 3.8 + - - -
456N MET* 3.1 45.5 + - + +
38X ILE* 4.2 17.9 - - + -
39X GLU 4.3 3.8 + - - +
40X TRP* 4.2 9.6 - - + -
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Residues in contact with ILE 453 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
423N MET* 4.0 23.5 - - + +
427N PRO* 4.1 15.9 - - + -
449N MET* 3.0 25.4 + - + +
450N TRP* 3.6 38.1 - - + +
452N THR* 1.3 74.1 - - - +
454N SER* 1.3 64.4 + - - +
456N MET* 2.9 15.2 + - - +
457N GLY* 2.9 19.8 + - - -
40X TRP* 4.1 18.6 - - + -
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Residues in contact with SER 454 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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38N ARG* 3.4 17.9 + - - -
423N MET 4.0 7.0 - - - -
424N THR* 2.7 36.4 + - - +
427N PRO* 4.7 3.1 - - - +
428N GLN* 3.2 22.5 + - - -
431N LEU* 5.7 0.7 - - - -
450N TRP 3.0 17.9 + - - -
451N ASN* 4.2 1.3 - - - -
453N ILE* 1.3 77.5 - - - +
455N SER* 1.3 63.9 + - - +
457N GLY* 3.0 11.6 + - - -
458N SER* 3.2 8.5 + - - -
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Residues in contact with SER 455 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38N ARG* 2.7 62.8 + - - +
39N ALA* 5.5 0.2 - - - -
42N GLY* 3.2 15.5 - - - -
451N ASN 3.0 10.4 + - - -
452N THR 3.3 3.1 + - - -
454N SER* 1.3 77.0 - - - +
456N MET* 1.3 59.9 + - - +
458N SER* 2.6 22.1 + - - -
459N PHE* 3.6 12.9 - - - -
96Q LEU* 5.5 0.9 - - - -
104Q TYR* 5.1 0.4 - - - -
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Residues in contact with MET 456 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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423N MET* 4.4 5.4 - - - -
452N THR* 3.1 28.9 + - + +
453N ILE* 2.9 15.3 + - - +
455N SER* 1.3 75.1 - - - +
457N GLY* 1.3 65.3 + - - +
458N SER 3.0 1.1 - - - -
459N PHE* 3.0 14.9 + - - +
460N ILE* 3.5 11.7 + - - +
96Q LEU* 3.4 35.9 - - + +
29X TRP* 4.3 21.5 - - + -
32X MET* 4.3 7.4 - - + -
38X ILE* 3.7 24.5 - - + -
40X TRP* 3.5 36.1 - - + -
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Residues in contact with GLY 457 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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420N GLY* 3.7 3.8 - - - -
423N MET* 3.7 29.8 - - - -
424N THR* 2.9 18.2 + - - -
453N ILE 2.9 11.1 + - - -
454N SER 3.0 2.4 + - - -
456N MET* 1.3 74.6 - - - +
458N SER* 1.3 57.1 + - - +
460N ILE* 2.9 24.5 + - - +
461N SER* 3.3 8.8 + - - -
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Residues in contact with SER 458 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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35N LEU* 3.2 27.5 - - - +
38N ARG* 3.4 33.9 - - - +
424N THR* 2.9 9.9 + - - -
454N SER 3.2 5.3 + - - -
455N SER 2.6 19.6 + - - -
456N MET 3.0 1.0 - - - -
457N GLY* 1.3 75.9 - - - +
459N PHE* 1.3 63.6 + - - +
461N SER* 3.8 8.3 + - - +
462N LEU 3.4 11.3 + - - -
515N HEA 4.1 14.3 - - - +
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Residues in contact with PHE 459 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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35N LEU* 4.4 18.4 - - + -
38N ARG* 5.8 0.4 - - + -
39N ALA* 5.5 6.1 - - + -
455N SER* 3.6 16.6 - - - -
456N MET 3.0 9.5 + - - +
458N SER* 1.3 87.5 + - - +
460N ILE* 1.3 66.3 + - - +
462N LEU* 3.0 29.1 + - + +
463N THR* 3.1 15.8 + - - -
92Q THR* 3.7 15.3 - - + +
95Q LEU* 4.0 37.3 - - + +
96Q LEU* 4.1 16.4 - - + -
99Q GLU* 3.5 37.5 - - + -
27Z LEU* 6.5 0.2 - - + -
34Z LEU* 6.0 5.4 - - + -
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Residues in contact with ILE 460 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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416N ILE* 3.6 26.2 - - + +
419N VAL* 4.2 12.8 - - + -
420N GLY* 3.6 17.3 - - - +
423N MET* 3.9 34.5 - - + -
456N MET 3.8 9.6 - - - +
457N GLY* 2.9 9.3 + - - +
459N PHE* 1.3 77.5 - - - +
461N SER* 1.3 63.0 + - - +
463N THR* 2.9 16.5 + - - -
464N ALA 3.1 8.5 + - - -
89Q ILE* 4.3 20.6 - - + -
92Q THR* 3.9 23.1 - - + +
29X TRP* 4.3 14.4 - - + -
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Residues in contact with SER 461 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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417N MET* 4.5 10.4 + - - +
420N GLY* 3.4 5.0 - - - -
421N VAL* 3.3 34.1 + - - +
424N THR* 4.5 1.7 + - - -
457N GLY 3.3 4.0 + - - -
458N SER* 4.0 10.1 - - - -
459N PHE 3.2 0.4 - - - -
460N ILE* 1.3 78.5 - - - +
462N LEU* 1.3 63.4 + - - +
464N ALA* 3.0 19.5 + - - +
465N VAL* 3.0 19.1 + - - +
515N HEA 4.2 24.8 + - - -
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Residues in contact with LEU 462 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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31N THR* 4.6 7.0 - - + -
35N LEU* 3.5 31.9 - - + -
458N SER 3.4 12.3 + - - +
459N PHE* 3.0 32.8 + - + +
461N SER* 1.3 77.9 - - - +
463N THR* 1.3 62.8 + - - +
465N VAL* 3.1 9.0 + - + -
466N MET* 3.1 46.5 + - + +
95Q LEU* 4.6 3.4 - - + -
33Y PHE* 3.6 24.9 - - + -
26Z PHE* 4.7 1.8 - - + -
27Z LEU* 4.3 15.3 - - + -
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Residues in contact with THR 463 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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416N ILE* 4.7 7.4 - - + -
459N PHE 3.1 7.9 + - - -
460N ILE* 2.9 9.7 + - - -
462N LEU* 1.3 74.1 - - - +
464N ALA* 1.3 59.4 + - - +
466N MET* 3.0 17.1 + - - +
467N LEU* 2.8 30.4 + - + +
88Q PHE* 3.9 43.1 - - + +
91Q PHE* 4.5 9.2 - - + -
92Q THR* 2.7 25.0 + - - +
95Q LEU* 4.8 3.1 - - - +
23Z PHE* 4.4 9.8 - - + -
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Residues in contact with ALA 464 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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413N HIS* 3.0 21.5 - - + -
416N ILE* 3.8 23.7 - - + +
417N MET* 3.9 32.5 - - + +
460N ILE 3.1 5.9 + - - +
461N SER 3.0 10.6 + - - +
463N THR* 1.3 77.5 - - - +
465N VAL* 1.3 57.3 + - - +
467N LEU* 3.4 6.7 - - - +
468N MET 3.0 21.1 + - - -
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Residues in contact with VAL 465 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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28N MET* 4.0 25.4 - - + -
31N THR* 4.4 13.7 - - + -
413N HIS* 4.8 1.6 - - - -
417N MET* 5.4 4.3 - - + -
461N SER 3.0 17.9 + - - +
462N LEU* 3.1 10.7 + - + +
464N ALA* 1.3 74.2 - - + +
466N MET* 1.3 70.8 + - + +
468N MET* 3.2 16.0 + - + +
469N VAL* 3.2 20.4 + - - +
515N HEA 4.4 30.3 - - + -
26Z PHE* 4.1 16.8 - - + -
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Residues in contact with MET 466 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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462N LEU* 3.1 24.1 + - + +
463N THR* 3.0 25.7 + - - +
465N VAL* 1.3 76.5 - - - +
467N LEU* 1.3 66.7 + - - +
469N VAL* 2.9 20.3 + - - +
470N PHE 3.3 3.6 + - - -
91Q PHE* 4.8 0.9 - - + -
95Q LEU* 4.6 5.6 - - + -
22Z THR* 3.6 5.6 - - + +
23Z PHE* 3.7 42.0 - - + +
26Z PHE* 3.3 52.9 - - + -
27Z LEU* 4.1 23.1 - - + -
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Residues in contact with LEU 467 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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409N TRP* 4.1 20.6 - - + -
412N ILE* 3.9 18.8 - - + -
413N HIS* 4.2 15.9 - - + +
416N ILE* 3.7 28.5 - - + -
463N THR 2.8 12.4 + - - +
464N ALA* 3.4 10.3 - - - +
466N MET* 1.3 77.6 - - - +
468N MET* 1.3 62.2 + - - +
470N PHE* 2.9 36.1 + - + +
471N ILE* 3.0 19.9 + - + +
88Q PHE* 4.5 15.3 - - + -
19Z LEU* 4.5 9.9 - - + -
23Z PHE* 3.9 9.3 - - + -
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Residues in contact with MET 468 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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28N MET* 4.8 7.2 - - + -
390N MET* 3.8 33.7 - - - +
393N PHE* 5.8 3.4 - - + -
413N HIS* 3.4 28.7 - - + +
464N ALA 3.0 7.2 + - - +
465N VAL* 3.5 19.1 - - + +
466N MET 3.1 0.4 - - - -
467N LEU* 1.3 76.8 - - - +
469N VAL* 1.3 68.3 + - + +
471N ILE* 3.1 19.0 + - + +
472N ILE* 3.2 26.7 + - + +
515N HEA 4.0 37.7 - - + -
29Y PHE* 5.8 4.0 - - + -
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Residues in contact with VAL 469 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28N MET* 4.7 3.1 - - - -
465N VAL 3.4 13.0 - - - +
466N MET 2.9 8.1 + - - +
468N MET* 1.3 83.0 - - + +
470N PHE* 1.3 61.8 + - - +
472N ILE* 3.4 7.7 + - - +
473N TRP* 3.1 16.4 + - + +
25Y MET* 3.5 19.1 - - + +
26Y THR* 6.2 1.1 - - - -
29Y PHE* 3.9 42.0 - - + -
22Z THR* 3.9 18.6 - - + +
26Z PHE* 3.7 26.0 - - + -
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Residues in contact with PHE 470 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
409N TRP* 3.7 34.8 - + - -
466N MET 3.3 4.1 + - - +
467N LEU* 2.9 30.4 + - + +
469N VAL* 1.3 81.6 - - - +
471N ILE* 1.3 56.5 + - + +
473N TRP* 2.8 36.4 + + - +
474N GLU* 2.7 42.5 + - + +
15Z GLN* 3.6 43.7 - - + -
18Z GLY 4.0 1.6 - - - -
19Z LEU* 3.7 27.8 - - + -
22Z THR* 4.2 15.2 - - + +
23Z PHE* 5.6 0.2 - - + -
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Residues in contact with ILE 471 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
405N LEU* 4.2 23.9 - - + +
406N ASN* 5.0 6.0 + - + +
409N TRP* 3.6 46.4 - - + +
410N ALA* 3.9 9.2 - - + +
413N HIS* 3.8 21.8 - - + +
467N LEU* 3.0 22.7 + - + +
468N MET* 3.5 11.4 - - + +
470N PHE* 1.3 85.5 - - + +
472N ILE* 1.3 62.4 + - + +
474N GLU* 3.6 7.9 + - + +
475N ALA* 3.2 21.7 + - - +
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Residues in contact with ILE 472 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
393N PHE* 4.0 33.7 - - + -
397N PHE* 4.7 6.7 - - + -
405N LEU* 4.9 7.0 - - + -
468N MET* 3.2 30.9 + - + +
469N VAL* 3.8 9.2 - - - +
470N PHE 3.2 0.4 - - - -
471N ILE* 1.3 75.1 - - + +
473N TRP* 1.3 69.4 + - - +
475N ALA* 3.3 6.0 + - - +
476N PHE* 3.2 43.1 + - + -
515N HEA 5.4 2.9 - - + -
25Y MET* 4.1 11.0 - - + -
29Y PHE* 5.1 13.2 - - + -
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Residues in contact with TRP 473 (chain N).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
469N VAL* 3.1 13.2 + - + +
470N PHE* 2.8 40.8 + + - +
472N ILE* 1.3 76.2 - - - +
474N GLU* 1.3 76.0 + - + +
476N PHE* 2.9 6.5 + - - +
477N ALA* 2.7 39.3 + - + +
18Y LYS* 2.7 33.4 + - + -
19Y TRP* 3.9 35.7 - + - -
21Y LEU* 3.9 8.8 - - + +
22Y LEU* 3.5 36.4 - - + +
25Y MET* 3.7 24.9 - - + +
10Z THR* 4.1 23.3 - - + -
14Z GLU 4.0 6.7 - - - -
15Z GLN* 4.5 0.4 - - - -
18Z GLY* 3.9 10.3 - - - -
22Z THR* 5.5 0.9 - - - +
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Residues in contact with GLU 474 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
406N ASN* 4.3 17.3 + - + +
409N TRP* 4.8 7.4 - - + -
470N PHE* 2.7 33.7 + - + +
471N ILE* 4.2 9.0 - - - +
473N TRP* 1.3 90.9 - - + +
475N ALA* 1.3 59.9 + - - +
477N ALA* 4.0 3.4 - - - -
478N SER* 2.7 44.3 + - - +
480N ARG* 2.5 38.6 + - - -
10Z THR* 4.3 2.2 - - - +
15Z GLN* 4.1 20.5 + - + -
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Residues in contact with ALA 475 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
397N PHE* 4.0 13.5 - - + -
403N TYR* 4.2 9.7 - - + +
404N THR 3.5 21.7 - - - +
405N LEU* 4.0 20.2 - - + -
471N ILE 3.2 13.7 + - - +
472N ILE 3.7 7.4 - - - +
473N TRP 3.2 0.8 - - - -
474N GLU* 1.3 85.5 + - - +
476N PHE* 1.3 62.5 + - - +
478N SER* 4.3 0.3 - - - -
479N LYS* 3.1 21.8 + - - -
480N ARG* 4.1 1.3 + - - +
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Residues in contact with PHE 476 (chain N).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
397N PHE* 4.1 20.6 - + - -
401N SER* 4.1 13.7 - - - -
403N TYR* 3.6 29.8 - + - -
472N ILE* 3.2 35.5 + - + -
473N TRP* 2.9 4.2 + - - +
475N ALA* 1.3 77.8 - - - +
477N ALA* 1.3 64.5 + - - +
479N LYS* 3.3 24.6 - - - +
8Y GLY* 5.4 0.7 - - - -
11Y ILE* 4.2 21.3 - - + -
13Y PHE* 4.2 25.6 - + - -
15Y VAL* 3.4 32.8 - - + +
21Y LEU* 3.5 13.7 - - + -
25Y MET* 5.4 2.7 - - - -
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Residues in contact with ALA 477 (chain N).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
473N TRP* 2.7 34.8 + - + +
474N GLU* 3.7 5.6 - - - +
476N PHE* 1.3 80.1 - - - +
478N SER* 1.3 51.8 + - - +
479N LYS* 4.1 1.0 - - - +
15Y VAL 5.9 0.2 - - - -
18Y LYS* 3.5 35.9 - - + +
21Y LEU* 4.4 0.8 - - - +
8Z THR* 2.7 31.9 + - - +
10Z THR* 3.8 13.0 - - - +
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Residues in contact with SER 478 (chain N).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
474N GLU* 2.7 45.4 + - - -
475N ALA 4.3 0.4 - - - -
477N ALA* 1.3 72.6 - - - +
479N LYS* 1.3 70.6 + - - +
480N ARG* 3.8 15.6 + - - -
6Z ALA* 3.2 26.4 - - - +
7Z LYS 3.2 4.2 + - - -
8Z THR 3.2 13.0 + - - -
10Z THR* 2.9 21.7 + - - -
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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