Contacts of the helix formed by residues 354 - 385 (chain C) in PDB entry 4H9Q
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 354 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75B HIS* 2.6 35.7 + - + +
350C PRO 3.5 11.3 + - - +
351C ALA 3.5 7.9 + - - +
352C LEU 3.7 0.4 - - - -
353C SER* 1.3 80.5 - - - +
355C PRO* 1.3 62.6 - - - +
356C VAL* 3.2 23.1 + - - +
357C LEU* 3.3 13.3 + - + +
358C ALA 3.0 22.0 + - - -
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Residues in contact with PRO 355 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
351C ALA 5.2 0.2 - - - +
353C SER 4.0 5.8 - - - +
354C ASP* 1.3 85.8 - - - +
356C VAL* 1.3 66.0 + - + +
357C LEU 3.3 0.2 - - - -
358C ALA* 3.7 9.6 - - + +
359C ARG* 2.9 41.1 + - - +
362C ARG* 5.0 1.7 + - - -
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Residues in contact with VAL 356 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
354C ASP* 3.2 10.6 + - - +
355C PRO* 1.3 81.1 - - + +
357C LEU* 1.3 60.1 + - - +
359C ARG* 3.4 29.1 + - - +
360C ARG* 3.0 28.0 + - + +
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Residues in contact with LEU 357 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71B THR* 3.6 37.9 - - + +
72B TYR* 4.1 11.2 - - + +
75B HIS* 3.8 30.5 - - + +
350C PRO* 3.9 13.2 - - + -
351C ALA* 3.6 27.6 - - + +
354C ASP* 3.3 19.6 + - - +
356C VAL* 1.3 76.8 - - - +
358C ALA* 1.3 65.8 + - - +
360C ARG* 3.2 4.3 + - - -
361C LEU* 2.9 41.4 + - + +
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Residues in contact with ALA 358 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92B ARG* 5.9 0.9 - - - +
351C ALA* 3.7 24.2 - - + +
354C ASP 3.0 15.6 + - - +
355C PRO* 3.8 9.6 - - + +
356C VAL 3.4 0.2 - - - -
357C LEU* 1.3 76.1 - - - +
359C ARG* 1.3 58.8 + - - +
361C LEU* 3.3 6.0 + - - +
362C ARG* 2.9 42.9 + - - +
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Residues in contact with ARG 359 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
355C PRO* 2.9 36.5 + - - +
356C VAL* 3.6 28.6 - - - +
357C LEU 3.2 0.2 - - - -
358C ALA* 1.3 76.3 - - - +
360C ARG* 1.3 63.1 + - - +
362C ARG* 3.2 26.3 + - - +
363C GLU* 3.0 22.5 + - + +
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Residues in contact with ARG 360 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71B THR* 3.8 27.2 + - + +
74B GLU* 5.9 1.0 + - - -
356C VAL* 3.0 15.2 + - + +
357C LEU* 3.2 7.6 + - - +
359C ARG* 1.3 77.4 - - - +
361C LEU* 1.3 55.9 + - - +
363C GLU* 3.3 26.7 + - - +
364C ASN* 2.9 41.2 + - - +
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Residues in contact with LEU 361 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68B ASP* 3.6 29.7 - - - +
71B THR* 3.9 23.3 - - + -
72B TYR* 3.4 39.7 - - + +
92B ARG* 3.6 24.6 - - - +
351C ALA* 3.6 20.9 - - + -
357C LEU* 2.9 27.0 + - + +
358C ALA* 3.7 4.3 - - - +
360C ARG* 1.3 74.9 - - - +
362C ARG* 1.3 57.1 + - - +
364C ASN* 3.4 4.9 + - - +
365C ARG* 2.9 28.1 + - - +
----------------------------------------------------------
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Residues in contact with ARG 362 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
355C PRO 5.0 1.6 + - - -
358C ALA* 2.9 31.9 + - - +
359C ARG* 3.2 39.1 + - - +
361C LEU* 1.3 75.2 - - - +
363C GLU* 1.3 64.5 + - - +
365C ARG* 3.1 8.9 + - + +
366C SER* 3.1 22.0 + - - -
----------------------------------------------------------
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Residues in contact with GLU 363 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
359C ARG* 3.0 14.4 + - + +
360C ARG* 3.4 33.9 + - - +
362C ARG* 1.3 76.5 - - - +
364C ASN* 1.3 65.0 + - - +
365C ARG 3.2 0.3 + - - -
366C SER* 3.2 8.1 + - - -
367C LEU* 3.1 21.8 + - + +
----------------------------------------------------------
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Residues in contact with ASN 364 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64B ASN 6.0 0.2 - - - +
67B ARG* 3.9 31.3 + - - +
68B ASP* 2.8 31.0 + - - +
71B THR* 3.0 28.9 + - - -
360C ARG* 2.9 35.9 + - - +
361C LEU* 3.5 8.4 - - - +
363C GLU* 1.3 75.6 - - - +
365C ARG* 1.3 58.5 + - - +
367C LEU* 3.3 8.7 + - - +
368C ALA* 2.8 30.4 + - - +
----------------------------------------------------------
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Residues in contact with ARG 365 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64B ASN* 5.0 1.8 - - - +
68B ASP* 5.6 3.1 + - - +
92B ARG* 3.3 32.5 + - - -
93B GLN* 3.3 37.2 + - - +
94B GLY* 4.3 3.6 - - - +
361C LEU 2.9 14.5 + - - +
362C ARG* 3.1 13.4 + - + +
364C ASN* 1.3 73.9 - - - +
366C SER* 1.3 65.6 + - - +
368C ALA* 3.5 18.1 - - - +
369C MET* 3.1 69.4 + - + +
372C LEU* 5.2 6.3 - - - +
----------------------------------------------------------
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Residues in contact with SER 366 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
362C ARG 3.1 11.9 + - - -
363C GLU* 3.2 10.1 + - - -
365C ARG* 1.3 77.4 - - - +
367C LEU* 1.3 63.3 + - - +
369C MET* 3.5 6.6 + - - +
370C SER* 3.1 25.8 + - - -
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Residues in contact with LEU 367 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67B ARG* 3.5 37.9 - - - +
363C GLU 3.1 12.7 + - - +
364C ASN* 3.5 8.7 - - - +
366C SER* 1.3 78.0 - - - +
368C ALA* 1.3 57.6 + - - +
370C SER* 3.2 7.6 + - - -
371C ARG* 2.9 55.2 + - + +
----------------------------------------------------------
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Residues in contact with ALA 368 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64B ASN* 3.3 47.6 + - + +
67B ARG* 3.9 3.3 - - - +
93B GLN* 4.2 2.7 - - - +
364C ASN 2.8 20.4 + - - +
365C ARG* 3.3 23.8 + - - +
367C LEU* 1.3 72.5 - - - +
369C MET* 1.3 65.1 + - - +
371C ARG* 3.2 1.4 + - - +
372C LEU* 3.0 21.1 + - - +
----------------------------------------------------------
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Residues in contact with MET 369 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128A ARG* 4.8 1.9 + - - +
134A ARG* 3.6 36.8 - - + +
365C ARG* 3.1 61.1 + - + +
366C SER* 3.9 5.6 - - - +
368C ALA* 1.3 77.0 - - - +
370C SER* 1.3 62.7 + - - +
372C LEU* 3.4 6.7 + - + +
373C ASP* 3.0 31.9 + - - +
----------------------------------------------------------
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Residues in contact with SER 370 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
366C SER* 3.1 16.6 + - - -
367C LEU* 3.7 11.4 - - - -
369C MET* 1.3 77.0 - - - +
371C ARG* 1.3 58.3 + - - +
373C ASP* 3.5 9.6 + - - +
374C GLU* 2.9 31.2 + - - +
----------------------------------------------------------
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Residues in contact with ARG 371 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60B VAL* 3.8 29.2 - - + +
63B GLU* 2.8 35.4 + - - -
64B ASN* 4.2 4.5 + - - +
67B ARG* 4.6 10.8 - - - +
367C LEU* 2.9 44.6 + - + +
368C ALA 3.6 4.0 - - - +
370C SER* 1.3 75.0 - - - +
372C LEU* 1.3 58.1 + - - +
374C GLU* 3.2 28.5 + - - +
375C VAL* 3.0 28.8 + - - +
----------------------------------------------------------
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Residues in contact with LEU 372 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99A PHE* 3.9 37.0 - - + -
128A ARG* 3.9 17.9 - - - +
57B VAL* 4.5 9.9 - - + -
60B VAL* 3.8 17.3 - - + -
61B PHE* 4.4 9.9 - - + +
64B ASN* 3.6 22.2 - - - +
93B GLN 6.1 1.1 - - - +
365C ARG* 5.2 8.3 - - - +
368C ALA 3.0 12.9 + - - +
369C MET* 3.8 6.1 - - + +
371C ARG* 1.3 74.7 - - - +
373C ASP* 1.3 67.4 + - - +
374C GLU 3.2 0.2 + - - -
375C VAL* 3.3 6.9 - - + +
376C ILE* 3.1 32.8 + - + +
----------------------------------------------------------
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Residues in contact with ASP 373 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125A GLN* 5.5 0.2 + - - -
128A ARG* 2.9 32.9 + - - +
134A ARG 4.5 13.8 - - - +
369C MET* 3.0 25.8 + - - +
370C SER* 3.6 9.0 + - - +
372C LEU* 1.3 76.1 - - - +
374C GLU* 1.3 58.0 + - - +
376C ILE* 3.7 2.2 - - - +
377C SER* 2.9 31.8 + - - -
----------------------------------------------------------
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Residues in contact with GLU 374 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
370C SER 2.9 17.8 + - - +
371C ARG* 3.5 34.9 + - - +
372C LEU 3.1 0.2 - - - -
373C ASP* 1.3 77.6 - - - +
375C VAL* 1.3 58.4 + - - +
377C SER* 3.8 4.3 - - - -
378C LYS* 2.8 32.0 + - + +
----------------------------------------------------------
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Residues in contact with VAL 375 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53B GLU* 5.1 0.4 - - - -
56B GLY* 4.0 22.7 - - - +
57B VAL* 4.0 21.1 - - + +
60B VAL* 4.0 21.5 - - + -
371C ARG 3.0 14.8 + - - +
372C LEU* 3.3 18.8 - - + +
374C GLU* 1.3 73.5 - - - +
376C ILE* 1.3 68.8 + - + +
378C LYS* 3.2 7.9 + - + +
379C TYR* 3.1 53.1 + - + -
----------------------------------------------------------
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Residues in contact with ILE 376 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103A LEU* 4.9 7.6 - - + -
121A PRO 5.1 1.3 - - - +
124A ILE* 4.1 16.6 - - + -
125A GLN* 3.6 39.6 - - + +
128A ARG* 4.2 31.2 - - - +
53B GLU* 3.6 23.7 - - - +
57B VAL* 4.1 16.4 - - + -
372C LEU* 3.1 21.7 + - + +
373C ASP* 3.7 4.3 - - - +
375C VAL* 1.3 79.2 - - + +
377C SER* 1.3 56.8 + - - +
379C TYR* 3.4 1.7 + - - -
380C ALA* 3.1 25.3 + - - +
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Residues in contact with SER 377 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125A GLN* 3.7 20.2 + - - +
373C ASP 2.9 19.8 + - - -
374C GLU* 3.9 5.4 - - - -
376C ILE* 1.3 74.4 - - - +
378C LYS* 1.3 60.6 + - - +
380C ALA* 3.4 1.4 + - - +
381C MET* 2.9 30.0 + - - +
----------------------------------------------------------
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Residues in contact with LYS 378 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
374C GLU* 2.8 22.3 + - + +
375C VAL* 3.2 10.5 + - + +
377C SER* 1.3 77.4 - - - +
379C TYR* 1.3 89.3 + - + +
381C MET* 3.2 11.2 + - + +
382C LEU* 2.9 48.8 + - + +
----------------------------------------------------------
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Residues in contact with TYR 379 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121A PRO* 3.3 15.1 - - + +
49B LEU* 4.0 18.5 - - + +
52B GLU* 3.7 37.8 + - + +
53B GLU* 3.6 55.6 - - + +
56B GLY* 5.1 3.9 - - - -
375C VAL* 3.1 35.6 + - + +
376C ILE 4.2 0.2 - - - +
378C LYS* 1.3 106.2 + - + +
380C ALA* 1.3 65.5 + - - +
382C LEU* 3.7 22.2 - - + +
383C GLN* 3.0 18.4 + - - +
----------------------------------------------------------
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Residues in contact with ALA 380 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121A PRO* 3.8 9.9 - - - +
122A LYS* 4.1 19.7 - - + +
125A GLN* 3.2 32.5 - - + +
376C ILE 3.1 13.7 + - - +
377C SER 3.6 7.6 - - - +
378C LYS 3.3 0.2 - - - -
379C TYR* 1.3 78.1 - - - +
381C MET* 1.3 56.5 + - - +
383C GLN* 3.3 4.9 + - - +
384C ASP* 3.0 30.4 + - - +
----------------------------------------------------------
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Residues in contact with MET 381 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
377C SER* 2.9 18.9 + - - +
378C LYS* 3.4 10.1 - - + +
380C ALA* 1.3 74.2 - - - +
382C LEU* 1.3 84.7 + - + +
384C ASP* 3.1 21.2 + - + +
385C LYS* 3.2 50.6 + - + +
----------------------------------------------------------
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Residues in contact with LEU 382 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49B LEU* 3.8 21.1 - - + +
378C LYS* 2.9 36.1 + - + +
379C TYR* 3.7 35.9 - - + +
381C MET* 1.3 91.0 - - + +
383C GLN* 1.3 65.0 + - - +
385C LYS* 3.1 19.1 + - + +
386C SER* 3.5 11.6 + - - -
----------------------------------------------------------
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Residues in contact with GLN 383 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120A PHE* 3.3 41.7 - - + +
121A PRO* 3.4 3.4 - - + -
122A LYS* 2.7 52.9 + - + +
49B LEU* 3.5 14.5 - - + +
379C TYR 3.0 13.9 + - - +
380C ALA 3.4 8.5 - - - +
382C LEU* 1.3 74.3 - - - +
384C ASP* 1.3 62.2 + - - +
386C SER* 3.0 23.6 + - - -
----------------------------------------------------------
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Residues in contact with ASP 384 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122A LYS* 2.5 40.8 + - - -
380C ALA* 3.0 11.3 + - - +
381C MET* 3.1 18.9 + - + +
383C GLN* 1.3 76.7 - - - +
385C LYS* 1.3 57.8 + - + +
386C SER 3.2 3.2 + - - -
----------------------------------------------------------
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Residues in contact with LYS 385 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
381C MET* 3.3 44.8 - - + +
382C LEU* 3.1 14.1 + - + +
384C ASP* 1.3 77.7 - - + +
386C SER* 1.3 58.5 + - - +
----------------------------------------------------------
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A short description of the
analytical approach
The contact analysis used in this page
is based upon the approach
developed in:
Sobolev V., Wade R.C., Vriend G.
and Edelman M. PROTEINS (1996)
25, 120-129.
Contact legitimacy depends on the hydrophobic-hydrophilic
properties of the contacting atoms. In order to
define it, for each inter-atomic contact,
eight atom classes have been introduced:
I Hydrophilic - N and O that can donate and accept hydrogen bonds
(e.g., oxygen of hydroxyl group of Ser. or Thr)
II Acceptor - N or O that can only accept a hydrogen bond
III Donor - N that can only donate a hydrogen bond
IV Hydrophobic - Cl, Br, I and all C atoms that are not in
aromatic rings and do not have a covalent bond to
a N or O atom
V Aromatic - C in aromatic rings irrespective of any other
bonds formed by the atom
VI Neutral - C atoms that have a covalent bond to at least one
atom of class I or two or more atoms from class II
or III; atoms; S, F, P, and metal atoms in all cases
VII Neutral-donor - C atoms that have a covalent bond with only one
atom of class III
VIII Neutral-acceptor - C atoms that have a covalent bond with only
one atom of class II
For each pair of contacts the state of legitimacy
is shown below:
Legend:
+, legitimate
-, illegitimate
------------------------------------------------------------
Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
------------------------------------------------------------
Warning!
Atom classes for heterogroups are automatically
assigned based on the atomic coordinates. However, in
three cases (see below) the automatic assignment
is currently ambiguous. In these
cases, the user is advised to manually analyse
the full list of contacts using
LPC software.
1. Carbon atoms belonging to a 4-, 5- or 6-member ring are
considered "aromatic" (Class V) if the ring is approximately
planar, and "hydrophobic" (Class IV) or "neutral" (Classes
VI, VII, VIII) if the ring is non-planar.
2. The oxygen atom of a carbonyl or hydroxy group is considered
"hydroxy" (Class I) if the CO bond is longer than 1.29 Å, and
"carbonyl" (Class II) if shorter.
3. All nitrogen atoms are considered "hydrophilic" (Class I).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il