Contacts of the helix formed by residues 402 - 426 (chain A) in PDB entry 2ACZ
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 GLY 402 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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52A GLY 3.7 16.0 - - - +
53A ILE* 3.8 3.1 - - - -
54A THR* 3.2 32.3 + - - -
126A PHE* 4.1 4.7 - - - -
399A ARG* 3.4 0.6 - - - +
401A GLY* 1.3 71.6 - - - -
403A ASN* 1.3 61.3 + - - +
405A LEU 4.1 0.2 + - - -
406A LEU* 4.0 6.4 + - - +
589A OAA 2.9 17.1 + - - -
601A FAD 3.4 15.4 - - - +
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Residues in contact with ASN 403 (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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54A THR* 2.4 33.7 + - - -
68A HIS* 3.2 19.5 + - - -
72A THR* 3.1 29.1 - - - +
88A MET* 3.9 12.2 - - + +
395A HIS* 3.9 19.7 + - + +
399A ARG* 4.5 0.2 - - - +
400A LEU* 3.0 27.8 + - - +
401A GLY 4.4 0.8 + - - -
402A GLY* 1.3 77.5 - - - +
404A SER* 1.3 54.5 + - - +
406A LEU* 3.0 8.8 + - - +
407A ASP* 2.7 34.5 + - - +
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Residues in contact with SER 404 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
355A TYR* 3.2 7.7 + - - -
395A HIS* 4.1 7.2 - - - -
399A ARG* 3.2 38.5 - - - +
403A ASN* 1.3 75.0 - - - +
405A LEU* 1.3 50.4 + - - +
407A ASP* 2.8 6.8 + - - +
408A LEU* 2.7 36.7 + - - +
601A FAD 2.7 47.4 + - - -
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Residues in contact with LEU 405 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46A THR* 4.1 15.9 - - + -
49A ALA* 4.1 16.6 - - + -
52A GLY 3.6 12.3 - - - +
53A ILE* 3.4 38.1 - - + -
141A THR* 4.2 10.3 - - + -
142A GLY* 4.5 5.4 - - - +
145A LEU* 4.9 8.0 - - + +
402A GLY 4.3 2.7 - - - +
404A SER* 1.3 71.5 + - - +
406A LEU* 1.3 63.8 + - - +
408A LEU* 3.0 43.5 + - + +
409A VAL* 3.1 11.7 + - - +
601A FAD 2.7 39.8 + - + +
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Residues in contact with LEU 406 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53A ILE* 4.2 8.0 - - + +
54A THR 3.0 26.0 - - - +
55A VAL* 4.2 7.9 - - + -
68A HIS* 3.6 21.5 - - + -
88A MET* 4.0 27.4 - - + +
89A CYS* 5.2 0.4 - - - -
92A GLY* 3.9 13.2 - - - -
96A ILE* 4.2 22.9 - - + -
402A GLY 4.0 2.7 + - - +
403A ASN* 3.0 15.7 + - - +
405A LEU* 1.3 78.6 - - - +
407A ASP* 1.3 63.7 + - - +
409A VAL* 3.5 0.9 + - - +
410A VAL* 3.0 54.4 + - + +
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Residues in contact with ASP 407 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88A MET* 4.1 7.6 - - - -
355A TYR* 4.0 2.3 + - - -
387A GLY* 2.7 33.6 + - - +
392A VAL* 4.5 7.3 - - - +
394A VAL* 4.5 6.4 - - - +
395A HIS* 3.8 24.5 + - + +
403A ASN 2.7 15.6 + - - +
404A SER 2.9 12.3 - - - +
406A LEU* 1.3 70.3 - - - +
408A LEU* 1.3 70.1 + - - +
409A VAL 3.1 0.3 + - - -
411A PHE* 2.9 57.0 + - - +
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Residues in contact with LEU 408 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17A GLY* 3.5 25.4 - - - -
18A ALA* 3.6 31.6 - - + +
46A THR* 4.0 5.8 - - + -
145A LEU* 5.0 3.6 - - + -
387A GLY* 4.0 15.2 + - - -
404A SER* 2.7 22.9 + - - +
405A LEU* 3.0 34.5 + - + +
407A ASP* 1.3 71.7 - - - +
409A VAL* 1.3 56.9 + - + +
412A GLY* 2.8 34.8 + - - -
601A FAD 3.4 37.0 - - - +
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Residues in contact with VAL 409 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17A GLY 5.2 1.8 - - - +
21A ARG* 3.6 34.7 - - + +
95A ALA* 4.0 22.2 - - + +
96A ILE* 4.8 6.3 - - + -
98A GLU* 4.8 0.7 - - - +
99A LEU* 3.7 36.8 - - + -
145A LEU* 4.1 14.8 - - + -
149A LEU* 5.2 2.2 - - + -
405A LEU 3.1 12.9 + - - +
406A LEU 4.1 2.0 - - - +
408A LEU* 1.3 80.0 - - + +
410A VAL* 1.3 60.5 + - + +
413A ARG* 2.8 36.5 + - + +
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Residues in contact with VAL 410 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87A TYR* 3.9 22.5 + - + -
88A MET* 4.0 26.7 - - + +
91A THR* 4.2 14.1 - - + -
92A GLY* 4.2 2.0 - - - -
95A ALA* 4.0 20.2 - - + -
406A LEU* 3.0 45.9 + - + +
407A ASP 4.1 0.4 - - - +
409A VAL* 1.3 73.5 - - - +
411A PHE* 1.3 65.7 + - + +
413A ARG* 3.8 7.0 - - - +
414A ALA* 2.8 26.7 + - - +
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Residues in contact with PHE 411 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84A ALA 3.6 22.0 - - - -
87A TYR* 4.0 21.1 - + - -
88A MET* 3.5 32.1 - - + -
363A LYS 5.4 0.2 - - - -
364A VAL* 3.8 29.7 - - + +
366A GLY* 6.6 0.2 - - - -
386A VAL* 3.6 13.2 - - + +
387A GLY 5.6 1.1 - - - +
392A VAL* 3.9 26.0 - - + -
394A VAL* 3.7 16.2 - - + -
407A ASP* 2.9 41.0 + - - +
410A VAL* 1.3 72.8 - - + +
412A GLY* 1.3 58.2 + - - +
413A ARG 3.2 0.2 - - - -
414A ALA* 3.5 3.2 - - - +
415A ALA* 2.6 35.3 + - - +
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Residues in contact with GLY 412 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18A ALA* 4.0 15.9 - - - -
21A ARG* 4.7 0.4 - - - -
22A ALA* 3.1 21.1 - - - +
386A VAL* 4.1 13.6 - - - +
408A LEU 2.8 25.4 + - - -
411A PHE* 1.3 71.3 - - - +
413A ARG* 1.3 57.3 + - - +
415A ALA* 2.9 23.4 + - - +
416A GLY 3.1 1.6 + - - -
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Residues in contact with ARG 413 (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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21A ARG* 3.6 36.4 - - + +
25A GLN* 3.6 18.1 + - - +
87A TYR* 5.6 1.6 - - - -
91A THR* 3.4 30.4 - - - +
94A GLU* 3.7 19.2 + - - +
95A ALA* 3.5 25.3 - - - +
98A GLU* 3.6 27.8 + - - -
409A VAL* 2.8 18.9 + - - +
410A VAL 4.3 5.6 - - - -
412A GLY* 1.3 73.6 - - - +
414A ALA* 1.3 60.5 + - - +
416A GLY* 2.9 2.7 + - - +
417A LEU* 2.8 49.8 + - + +
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Residues in contact with ALA 414 (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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87A TYR* 3.3 31.6 - - + +
364A VAL 4.0 11.9 - - - +
365A THR 4.7 1.3 - - - -
410A VAL 2.8 20.5 + - - +
411A PHE* 3.1 9.8 + - - +
413A ARG* 1.3 78.4 - - - +
415A ALA* 1.3 63.8 + - - +
417A LEU* 4.4 5.6 - - - +
418A HIS* 3.1 38.5 + - + +
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Residues in contact with ALA 415 (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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22A ALA* 4.4 6.7 - - + -
26A ILE* 5.0 2.7 - - + +
199A VAL* 5.6 8.5 - - + -
365A THR 3.7 18.5 - - - +
366A GLY* 4.8 1.8 - - - -
384A PHE* 5.7 4.7 - - + -
386A VAL* 3.4 23.6 - - + -
411A PHE 2.6 13.0 + - - +
412A GLY* 2.9 14.6 - - - +
414A ALA* 1.3 78.8 - - - +
416A GLY* 1.3 57.4 + - - +
418A HIS 4.2 0.3 - - - -
419A LEU* 3.3 26.5 + - - +
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Residues in contact with GLY 416 (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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22A ALA* 4.6 0.6 - - - +
25A GLN* 3.7 19.7 - - - -
26A ILE* 3.9 24.0 - - - +
29A SER* 5.0 5.9 + - - -
412A GLY 3.1 7.2 + - - -
413A ARG 2.9 6.9 + - - -
415A ALA* 1.3 75.1 - - - +
417A LEU* 1.3 67.2 + - - +
418A HIS 3.0 2.8 + - - -
419A LEU* 3.0 17.0 + - - +
420A GLN 4.7 0.9 + - - -
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Residues in contact with LEU 417 (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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25A GLN* 3.3 31.6 - - - +
29A SER* 5.5 1.6 - - - -
87A TYR* 5.2 5.8 - - - +
413A ARG* 2.8 48.8 + - + +
414A ALA* 4.0 8.3 - - - +
416A GLY* 1.3 71.5 - - - +
418A HIS* 1.3 68.8 + - + +
420A GLN* 5.0 4.2 + - - +
421A GLU* 5.6 1.0 + - - +
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Residues in contact with HIS 418 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87A TYR* 4.6 10.3 + - - -
364A VAL* 5.1 5.3 - - + +
365A THR* 3.9 43.9 - - + +
414A ALA* 3.1 32.3 + - + +
416A GLY 3.0 1.0 - - - -
417A LEU* 1.3 85.5 + - + +
419A LEU* 1.3 64.6 + - - +
420A GLN 3.5 1.6 - - - -
421A GLU* 3.1 32.5 + - - +
422A SER* 3.0 21.5 + - - +
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Residues in contact with LEU 419 (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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9A ASP 5.3 0.2 - - - +
10A ALA* 4.2 12.8 - - + -
26A ILE* 3.6 42.4 - - + -
31A GLN* 4.4 13.7 - - + +
197A ALA* 3.8 9.4 - - + -
199A VAL* 5.3 3.6 - - + -
365A THR 6.1 0.2 - - - -
384A PHE* 3.6 37.5 - - + -
415A ALA 3.3 15.1 + - - +
416A GLY* 3.0 16.1 + - - +
418A HIS* 1.3 75.0 - - - +
420A GLN* 1.3 65.8 + - + +
422A SER* 3.0 6.5 + - - -
423A ILE* 3.0 32.6 + - + +
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Residues in contact with GLN 420 (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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29A SER* 3.2 33.3 - - - +
31A GLN* 3.7 29.8 - - + +
416A GLY 4.7 1.0 + - - -
417A LEU 5.0 2.8 + - - +
418A HIS 3.5 1.0 - - - -
419A LEU* 1.3 77.4 - - + +
421A GLU* 1.3 65.6 + - - +
423A ILE* 3.5 4.8 + - - +
424A ALA* 3.2 19.2 + - - +
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Residues in contact with GLU 421 (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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365A THR* 5.1 5.4 - - - +
417A LEU 5.6 0.8 + - - +
418A HIS* 3.1 37.1 + - - +
420A GLN* 1.3 78.8 - - - +
422A SER* 1.3 59.1 + - - +
424A ALA* 2.9 28.8 + - + +
425A GLU* 3.1 8.0 + - + +
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Residues in contact with SER 422 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
365A THR* 4.2 9.4 + - - +
367A GLN* 3.8 30.0 + - - +
384A PHE* 3.8 25.5 - - - -
418A HIS* 3.0 13.1 + - - +
419A LEU* 3.0 9.3 + - - -
421A GLU* 1.3 77.9 + - - +
423A ILE* 1.3 63.0 + - - +
424A ALA 3.1 0.9 + - - -
425A GLU* 3.2 12.3 + - - +
426A GLN* 3.2 24.7 + - - +
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Residues in contact with ILE 423 (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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9A ASP* 4.1 12.3 - - + +
31A GLN* 4.0 23.6 - - - +
196A ARG* 4.2 48.9 - - + +
197A ALA* 4.1 14.8 - - + -
384A PHE* 4.8 2.5 - - + -
419A LEU* 3.0 36.2 + - + +
420A GLN* 3.9 4.7 - - - +
422A SER* 1.3 71.5 - - - +
424A ALA* 1.3 65.4 + - - +
426A GLN* 3.3 23.4 - - - +
427A GLY* 3.3 10.1 + - - +
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Residues in contact with ALA 424 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
420A GLN 3.2 11.8 + - - +
421A GLU* 2.9 15.5 + - - +
423A ILE* 1.3 77.3 - - - +
425A GLU* 1.3 54.7 + - - +
427A GLY* 2.6 31.1 + - - -
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Residues in contact with GLU 425 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
363A LYS* 5.0 6.2 + - - -
367A GLN* 2.9 34.9 + - - +
379A VAL* 4.6 11.2 - - - +
421A GLU* 3.1 8.1 + - + +
422A SER* 3.4 10.0 - - - +
424A ALA* 1.3 78.7 - - - +
426A GLN* 1.3 61.9 + - - +
427A GLY 3.6 0.3 + - - -
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Residues in contact with GLN 426 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
196A ARG* 3.3 25.4 + - - +
367A GLN* 5.2 4.6 - - - +
379A VAL* 5.9 2.5 - - + +
380A VAL 4.6 1.4 - - - +
381A PRO* 3.9 12.9 - - + +
382A GLY* 3.1 22.7 + - - +
384A PHE* 4.4 10.1 - - - -
422A SER 3.2 16.5 + - - +
423A ILE* 3.3 23.0 + - - +
425A GLU* 1.3 80.4 - - + +
427A GLY* 1.3 69.0 + - - +
428A ALA 3.6 4.7 - - - +
429A LEU* 3.5 31.8 - - + +
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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