Contacts of the helix formed by residues 358 - 395 (chain B) in PDB entry 1JS3
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 ARG 358 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95B CYS* 4.9 2.0 - - - -
115B GLU* 5.2 2.0 + - - +
144B ILE* 3.3 44.7 + - + +
145B GLN 4.0 1.4 + - - -
146B GLY* 3.5 21.6 - - - +
310B ASP* 3.2 51.3 + - - +
311B CYS* 5.3 1.0 - - + -
350B GLN* 3.9 8.5 + - - -
352B PRO* 6.2 1.0 - - - +
355B ARG* 3.5 31.3 - - - +
356B ARG* 2.8 40.7 + - + +
357B PHE* 1.3 68.6 - - - +
359B SER* 1.3 61.9 + - - +
360B LEU 3.0 5.6 - - - -
361B LYS* 3.0 34.1 + - - +
362B MET* 3.9 3.5 + - - +
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Residues in contact with SER 359 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111B CYS 4.0 1.2 + - - -
114B LEU* 3.5 8.3 - - - +
115B GLU* 3.4 45.2 + - - +
118B MET* 3.9 5.8 - - - +
144B ILE* 3.6 14.7 - - - +
357B PHE* 3.2 25.3 - - - -
358B ARG* 1.3 77.8 - - - +
360B LEU* 1.3 61.4 + - - +
362B MET* 3.1 8.4 + - - +
363B TRP* 3.0 22.0 + - - +
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Residues in contact with LEU 360 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64A ILE* 5.0 5.4 - - + -
91B ALA* 3.5 12.3 - - + +
94B LEU* 4.2 24.2 - - + -
95B CYS* 3.8 26.0 - - + +
98B ILE* 4.4 2.7 - - + -
114B LEU* 3.6 23.6 - - + -
357B PHE* 3.3 49.7 + - + +
359B SER* 1.3 80.5 + - - +
361B LYS* 1.3 62.6 + - - +
363B TRP* 3.2 17.2 + - + +
364B PHE* 2.9 33.0 + - + -
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Residues in contact with LYS 361 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88B ALA* 3.6 21.8 - - - +
91B ALA* 3.4 13.5 - - + -
92B ASP* 3.8 27.0 + - - +
95B CYS* 6.0 0.7 - - + -
307B VAL* 3.7 17.5 - - + -
308B ASN* 2.9 29.4 + - + +
309B PHE 3.5 2.8 + - - -
310B ASP* 2.8 41.2 + - - +
311B CYS* 4.6 0.7 - - - -
356B ARG* 3.9 6.9 - - - +
357B PHE 5.7 0.2 - - - +
358B ARG* 3.0 25.0 + - - +
360B LEU* 1.3 78.4 - - + +
362B MET* 1.3 61.8 + - - +
364B PHE* 3.5 0.7 + - - +
365B VAL* 3.0 30.0 + - - +
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Residues in contact with MET 362 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118B MET* 4.0 20.9 - - + +
119B MET* 3.9 14.8 - - - +
122B LEU* 3.5 32.1 - - + -
144B ILE* 3.8 31.0 - - - -
301B PRO* 5.0 2.0 - - + -
307B VAL* 4.3 13.2 - - + -
311B CYS* 3.8 25.4 - - - -
313B ALA* 5.2 0.7 - - + -
358B ARG 4.7 2.9 - - - +
359B SER 3.1 7.9 + - - +
361B LYS* 1.3 78.2 - - - +
363B TRP* 1.3 58.1 + - - +
365B VAL 3.3 0.2 + - - -
366B PHE* 2.8 60.1 + - + -
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Residues in contact with TRP 363 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42A ILE* 4.5 20.7 - - + +
56A ILE* 4.5 3.1 - - + -
59A ASP* 3.5 28.3 - - + -
60A VAL* 3.9 17.0 - - + -
63A ILE* 5.5 0.7 - - + -
64A ILE* 3.6 34.3 - - + -
114B LEU* 4.1 22.5 - - + +
118B MET* 3.6 32.6 - - + +
121B TRP* 3.8 12.9 - + - -
359B SER 3.0 12.4 + - - +
360B LEU* 3.5 10.3 - - + +
362B MET* 1.3 76.9 - - - +
364B PHE* 1.3 74.8 + + - +
366B PHE* 3.9 0.8 - - - -
367B ARG* 3.0 78.5 + - - +
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Residues in contact with PHE 364 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13A MET* 3.9 22.9 - - + -
53A PHE* 4.5 6.3 - + - -
56A ILE* 3.6 33.7 - - + -
57A LEU* 5.0 1.6 - - + -
60A VAL* 4.3 3.8 - - + -
87B PRO* 3.6 22.9 - - - +
90B LEU* 4.0 3.6 - - + -
91B ALA* 3.7 18.4 - - + -
94B LEU* 3.8 29.2 - - + -
360B LEU* 2.9 25.8 + - + +
361B LYS 4.0 0.7 - - - +
363B TRP* 1.3 91.1 - + - +
365B VAL* 1.3 58.9 + - - +
368B MET* 2.8 59.8 + - + +
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Residues in contact with VAL 365 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
85B SER* 3.6 11.7 - - - +
87B PRO* 4.0 6.5 - - + -
88B ALA* 3.7 15.3 - - + +
305B LEU 3.8 21.1 - - - +
306B LEU* 3.4 23.8 - - + +
307B VAL* 4.2 9.0 - - + -
361B LYS 3.0 21.2 + - - +
362B MET 3.8 2.5 - - - +
364B PHE* 1.3 75.3 - - - +
366B PHE* 1.3 70.3 + - + +
369B TYR* 3.0 39.2 + - + +
374B LEU* 4.1 9.6 - - + -
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Residues in contact with PHE 366 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46A ALA* 4.5 3.0 - - + +
47A PRO* 3.8 5.9 - - - +
118B MET* 4.1 8.5 - - - -
121B TRP* 3.9 27.1 - + + -
122B LEU* 3.8 23.1 - - + -
125B MET* 3.6 24.7 - - + -
301B PRO* 5.8 0.4 - - + -
305B LEU* 3.9 22.9 - - + -
307B VAL* 4.7 11.7 - - + -
362B MET* 2.8 63.4 + - + +
363B TRP 4.0 2.0 - - - +
365B VAL* 1.3 75.4 - - + +
367B ARG* 1.3 57.9 + - - +
370B GLY* 2.7 30.9 + - - -
374B LEU* 3.8 19.7 - - + -
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Residues in contact with ARG 367 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43A PRO* 6.5 0.7 - - - -
47A PRO* 3.8 9.9 - - + +
50A PRO* 3.3 4.9 - - - +
51A ASP* 2.7 56.7 + - + +
55A ASP* 3.1 28.3 + - - -
56A ILE* 3.6 33.0 - - + +
59A ASP* 2.7 33.3 + - - +
121B TRP* 4.0 20.6 - - + -
363B TRP* 3.0 64.5 + - - +
366B PHE* 1.3 77.9 - - - +
368B MET* 1.3 57.6 + - - +
370B GLY 4.0 0.2 + - - -
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Residues in contact with MET 368 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1A MET* 4.6 17.1 + - + +
9A ARG* 6.4 0.2 - - - -
50A PRO* 3.4 19.5 - - - +
51A ASP 4.4 9.0 - - - +
53A PHE* 4.3 20.2 - - + -
56A ILE* 3.4 21.8 - - + -
87B PRO* 3.4 43.5 - - + -
90B LEU* 3.9 13.2 - - + -
364B PHE* 2.8 56.8 + - + +
367B ARG* 1.3 73.3 - - - +
369B TYR* 1.3 58.8 + - - +
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Residues in contact with TYR 369 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1A MET 4.3 24.1 + - - -
48A GLN 4.6 0.2 - - - +
50A PRO* 3.7 16.2 - - - +
85B SER* 3.9 11.9 - - - -
86B TYR 5.1 0.3 + - - -
87B PRO* 3.8 30.2 - - + +
306B LEU* 3.5 23.8 - - + -
365B VAL* 3.0 29.2 + - + +
368B MET* 1.3 77.0 - - - +
370B GLY* 1.3 66.8 + - - +
373B GLY* 3.2 31.1 + - - -
374B LEU* 3.5 22.9 - - + +
377B TYR* 5.5 2.9 - + + -
453B ARG* 3.6 25.7 + - + -
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Residues in contact with GLY 370 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47A PRO* 3.2 11.0 - - - -
48A GLN 3.8 8.5 - - - -
49A GLU 4.1 9.6 - - - -
366B PHE 2.7 22.6 + - - -
367B ARG 4.0 0.6 + - - -
368B MET 3.6 1.2 - - - -
369B TYR* 1.3 86.2 - - - +
371B VAL* 1.3 68.3 + - - -
372B LYS 3.2 1.8 - - - -
373B GLY 3.1 4.0 + - - -
374B LEU* 3.2 12.0 + - - +
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Residues in contact with VAL 371 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45A THR* 5.9 0.4 - - - +
46A ALA* 3.9 24.0 - - + +
47A PRO 2.8 22.0 + - - +
48A GLN* 3.7 28.9 - - - +
125B MET* 4.1 26.0 - - + +
280B ILE* 5.2 5.4 - - + +
366B PHE 4.4 0.4 + - - -
370B GLY* 1.3 69.7 - - - -
372B LYS* 1.3 58.5 + - - +
374B LEU* 3.2 10.9 + - - +
375B GLN* 2.9 50.6 + - + +
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Residues in contact with LYS 372 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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48A GLN* 3.0 43.7 + - + +
49A GLU* 2.7 31.2 + - + +
50A PRO* 6.3 0.7 - - + -
371B VAL* 1.3 77.2 - - - +
373B GLY* 1.3 57.4 + - - +
375B GLN* 3.3 14.5 + - - +
376B ALA* 2.9 29.1 + - - +
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Residues in contact with GLY 373 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50A PRO* 6.1 0.2 - - - +
369B TYR* 3.2 31.8 + - - -
370B GLY 3.1 4.4 + - - -
372B LYS* 1.3 79.1 - - - +
374B LEU* 1.3 61.4 + - - +
376B ALA* 3.3 7.0 + - - +
377B TYR* 3.0 23.2 + - - +
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Residues in contact with LEU 374 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125B MET* 4.7 9.2 - - - -
280B ILE* 3.8 13.9 - - + -
305B LEU* 3.7 21.5 - - + +
306B LEU* 3.9 17.9 - - + -
365B VAL* 4.1 9.2 - - + -
366B PHE* 3.8 39.5 - - + -
369B TYR* 3.5 29.2 - - + -
370B GLY 3.2 19.0 + - - +
371B VAL* 3.5 10.3 - - - +
373B GLY* 1.3 76.2 - - - +
375B GLN* 1.3 61.9 + - - +
377B TYR* 3.3 7.1 + - + +
378B ILE* 3.1 25.6 + - - +
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Residues in contact with GLN 375 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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48A GLN* 5.0 1.9 - - - +
280B ILE* 2.8 36.9 + - + +
281B CYS* 4.0 15.0 - - - -
282B PRO* 3.7 16.6 - - - +
371B VAL* 2.9 33.7 + - + +
372B LYS* 3.7 18.3 - - - +
374B LEU* 1.3 74.4 - - - +
376B ALA* 1.3 60.2 + - - +
378B ILE* 3.3 1.4 + - - +
379B ARG* 2.9 57.7 + - - +
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Residues in contact with ALA 376 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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372B LYS 2.9 17.0 + - - +
373B GLY* 3.3 8.0 + - - +
375B GLN* 1.3 75.4 - - - +
377B TYR* 1.3 58.6 + - - +
379B ARG* 3.8 7.6 - - - +
380B LYS* 2.9 32.4 + - - +
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Residues in contact with TYR 377 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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81B PRO* 5.0 1.2 - - - +
83B ALA* 5.9 1.2 - - - -
303B LYS 4.6 3.5 + - - -
304B TRP* 3.3 53.7 - + - -
305B LEU* 5.2 2.9 - - + -
306B LEU* 3.7 46.1 + - + +
369B TYR* 5.5 3.1 - + + -
373B GLY 3.0 13.3 + - - +
374B LEU* 3.3 12.3 - - - +
375B GLN 3.2 0.2 - - - -
376B ALA* 1.3 77.9 - - - +
378B ILE* 1.3 72.0 + - + +
380B LYS* 3.3 5.7 + - - +
381B HIS* 3.2 48.5 + + - +
451B CYS 4.5 4.5 + - - -
453B ARG* 4.2 19.9 - - + -
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Residues in contact with ILE 378 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
277B SER* 4.0 20.0 - - - +
278B ALA* 4.0 11.9 - - + -
280B ILE* 4.5 4.3 - - + -
281B CYS* 3.8 22.0 - - - -
284B PHE* 4.4 3.8 - - + -
304B TRP* 3.4 66.1 - - + +
305B LEU* 4.8 2.0 - - + -
374B LEU 3.1 15.3 + - - +
375B GLN 3.7 5.8 - - - +
377B TYR* 1.3 84.0 - - + +
379B ARG* 1.3 65.4 + - - +
381B HIS* 3.2 4.7 + - - +
382B VAL* 3.0 27.3 + - + +
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Residues in contact with ARG 379 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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281B CYS* 4.0 9.0 - - - +
282B PRO* 3.8 22.0 - - - +
283B GLU* 2.7 43.6 + - - +
284B PHE* 5.1 3.1 - - + -
375B GLN* 2.9 45.7 + - - +
376B ALA* 3.8 7.1 - - - +
378B ILE* 1.3 76.8 - - - +
380B LYS* 1.3 57.8 + - - +
382B VAL* 3.3 7.6 + - - +
383B GLN* 2.9 29.6 + - - +
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Residues in contact with LYS 380 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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376B ALA 2.9 18.0 + - - +
377B TYR* 3.7 6.1 - - - +
378B ILE 3.3 0.2 - - - -
379B ARG* 1.3 76.9 - - - +
381B HIS* 1.3 61.9 + - + +
383B GLN* 3.2 16.8 + - - +
384B LEU* 2.9 43.9 + - + +
453B ARG 5.2 6.8 + - - +
454B LYS* 5.6 0.2 - - - +
455B VAL 3.7 16.2 + - - +
456B GLU* 2.8 42.7 + - - +
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Residues in contact with HIS 381 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
304B TRP* 3.0 33.0 + + + +
377B TYR* 3.2 37.6 + + - +
378B ILE 3.2 9.2 + - - +
380B LYS* 1.3 84.7 - - + +
382B VAL* 1.3 58.1 + - - +
384B LEU* 3.3 12.0 + - + +
385B SER* 2.9 27.2 + - - -
407B GLY* 4.4 2.1 - - - -
450B ILE* 3.3 37.4 + - + +
451B CYS 3.5 15.9 - - - -
452B SER 2.9 29.1 + - - -
453B ARG* 4.4 4.5 + - - -
455B VAL* 4.9 1.8 - - + -
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Residues in contact with VAL 382 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
284B PHE* 3.9 31.4 - - + -
304B TRP* 3.9 22.2 - - + -
378B ILE 3.0 17.7 + - - +
379B ARG* 3.8 5.8 - - - +
381B HIS* 1.3 72.7 - - - +
383B GLN* 1.3 66.8 + - - +
385B SER* 3.2 7.1 + - - -
386B HIS* 3.0 52.4 + - + +
405B THR 3.8 10.3 - - - +
406B LEU* 4.2 11.7 - - + +
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Residues in contact with GLN 383 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
379B ARG 2.9 17.9 + - - +
380B LYS* 3.4 15.0 + - - +
382B VAL* 1.3 78.8 - - - +
384B LEU* 1.3 62.2 + - - +
386B HIS* 3.1 8.6 + - - +
387B GLU* 2.9 50.8 + - + +
457B SER* 4.4 5.7 + - - -
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Residues in contact with LEU 384 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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380B LYS* 2.9 32.2 + - + +
381B HIS* 3.6 10.8 - - + +
382B VAL 3.3 0.2 - - - -
383B GLN* 1.3 81.0 - - - +
385B SER* 1.3 63.1 + - - +
387B GLU* 3.2 12.7 + - - +
388B PHE* 3.1 21.7 + - - +
450B ILE* 3.9 19.0 - - + +
455B VAL* 3.5 44.4 - - + +
456B GLU* 4.0 1.1 - - - +
457B SER* 3.6 39.7 - - - +
460B VAL* 4.1 11.9 - - + +
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Residues in contact with SER 385 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
381B HIS 2.9 12.8 + - - -
382B VAL 3.3 7.2 - - - -
384B LEU* 1.3 78.4 - - - +
386B HIS* 1.3 58.0 + - - +
388B PHE* 3.3 2.9 + - - +
389B GLU* 2.9 21.7 + - - +
404B VAL* 3.5 6.0 - - - +
406B LEU 2.8 28.6 + - - -
407B GLY* 3.6 9.3 - - - -
408B LEU 3.5 5.5 + - - -
409B VAL* 3.4 26.5 - - - +
450B ILE* 3.8 11.4 - - - +
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Residues in contact with HIS 386 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
284B PHE* 6.2 0.2 - + - -
382B VAL* 3.0 43.4 + - + +
383B GLN* 3.1 9.1 + - - +
385B SER* 1.3 74.9 - - - +
387B GLU* 1.3 61.9 + - - +
389B GLU* 2.9 30.5 + - - +
390B ALA* 2.8 29.5 + - - +
404B VAL* 3.1 34.2 + - + +
405B THR* 4.2 6.5 - - - -
406B LEU 5.1 0.2 - - - -
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Residues in contact with GLU 387 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
383B GLN* 2.9 37.0 + - + +
384B LEU* 3.2 16.6 + - - +
386B HIS* 1.3 76.4 - - - +
388B PHE* 1.3 63.1 + - - +
390B ALA* 3.2 8.2 + - - +
391B PHE* 3.2 35.8 + - + -
457B SER* 2.8 43.7 + - - +
460B VAL* 4.7 7.0 - - + +
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Residues in contact with PHE 388 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
384B LEU 3.1 9.9 + - - +
385B SER 3.6 7.6 - - - +
387B GLU* 1.3 76.8 - - - +
389B GLU* 1.3 62.2 + - - +
391B PHE* 3.1 11.3 + - - +
392B VAL* 3.1 32.4 + - + +
409B VAL* 3.8 18.6 - - + -
411B PHE* 3.7 28.5 - + - -
448B PHE* 3.5 65.1 - + + -
460B VAL* 3.8 17.4 - - + +
464B TRP* 3.8 37.9 - + + -
467B ILE* 4.2 6.5 - - + -
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Residues in contact with GLU 389 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
385B SER 2.9 13.6 + - - +
386B HIS* 2.9 35.9 + - - +
388B PHE* 1.3 78.8 - - - +
390B ALA* 1.3 56.9 + - - +
392B VAL* 3.2 5.6 + - - +
393B LEU* 2.9 47.4 + - + +
400B VAL* 4.2 14.4 - - + +
403B GLU* 5.8 0.2 - - - -
404B VAL* 3.6 36.1 + - + +
409B VAL* 4.2 9.9 - - + -
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Residues in contact with ALA 390 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
386B HIS 2.8 17.6 + - - +
387B GLU* 3.5 8.3 - - - +
388B PHE 3.2 0.2 - - - -
389B GLU* 1.3 74.7 + - - +
391B PHE* 1.3 64.0 + - + +
393B LEU* 3.2 12.0 + - - +
394B GLN* 2.8 37.6 + - + +
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Residues in contact with PHE 391 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
387B GLU* 3.2 26.0 + - + -
388B PHE* 3.1 15.0 + - - +
390B ALA* 1.3 78.2 - - + +
392B VAL* 1.3 64.6 + - - +
394B GLN* 3.1 20.3 + - + +
395B ASP* 3.4 7.3 + - - +
460B VAL* 4.2 8.7 - - + -
461B ARG* 3.1 68.6 - - + -
464B TRP* 3.5 47.5 + + + +
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Residues in contact with VAL 392 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
388B PHE* 3.1 39.2 + - + +
389B GLU* 3.6 7.0 - - - +
391B PHE* 1.3 77.3 - - - +
393B LEU* 1.3 60.1 + - - +
395B ASP* 3.2 22.5 + - - +
398B PHE* 3.7 24.3 - - + +
399B GLU 4.1 12.3 - - - +
400B VAL* 3.6 23.3 - - + +
409B VAL* 5.0 1.3 - - + -
411B PHE* 4.1 10.3 - - + -
464B TRP* 3.6 23.6 - - + -
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Residues in contact with LEU 393 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
389B GLU* 2.9 44.6 + - + +
390B ALA* 3.2 10.0 + - - +
392B VAL* 1.3 75.8 - - - +
394B GLN* 1.3 66.2 + - - +
395B ASP 3.3 2.7 - - - -
396B PRO* 5.2 0.5 - - - +
399B GLU* 6.2 0.2 - - - -
400B VAL* 3.8 23.8 - - + +
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Residues in contact with GLN 394 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
390B ALA* 2.8 29.8 - - - +
391B PHE* 3.1 13.6 + - + +
393B LEU* 1.3 82.7 - - - +
395B ASP* 1.3 59.4 + - + +
396B PRO* 3.3 11.5 - - - +
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Residues in contact with ASP 395 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
391B PHE 3.4 1.0 + - - +
392B VAL 3.2 13.5 + - - +
393B LEU 4.7 2.2 - - - +
394B GLN* 1.3 79.0 - - - +
396B PRO* 1.3 61.7 - - - +
397B ARG* 2.6 77.8 + - - +
398B PHE* 3.0 33.1 + - + +
464B TRP* 3.9 14.4 - - + -
468B ARG* 3.7 13.6 - - - +
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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) + - + + + + + -
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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