Contacts of the helix formed by residues 410 - 439 (chain A) in PDB entry 2WWB
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 VAL 410 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
395A LYS* 4.1 25.1 - - - +
399A MET* 6.0 2.5 - - + -
406A GLU* 3.5 14.6 - - - +
407A THR* 3.2 37.0 - - + +
409A MET* 1.3 77.5 - - + +
411A HIS* 1.4 62.6 + - - +
412A GLU 3.5 0.5 + - - -
413A LEU* 3.7 22.0 + - - +
414A ASN* 3.6 8.4 - - - +
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Residues in contact with HIS 411 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
407A THR* 3.7 20.4 - - + +
408A SER* 3.1 15.1 + - - +
410A VAL* 1.4 80.4 - - + +
412A GLU* 1.4 63.8 + - + +
413A LEU 3.2 0.2 - - - -
414A ASN* 3.2 49.5 + - - +
415A ARG* 3.6 27.6 + - + +
77K GLU* 5.4 9.9 + - - -
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Residues in contact with GLU 412 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
265A LEU* 5.5 11.2 - - + +
267A ILE* 4.6 16.8 - - + +
405A ARG* 3.0 30.0 + - - -
408A SER* 2.8 39.4 + - - +
409A MET* 3.5 19.8 - - - +
410A VAL 3.4 0.2 - - - -
411A HIS* 1.4 76.6 - - + +
413A LEU* 1.4 64.5 + - + +
415A ARG* 3.5 25.8 + - - +
416A TYR* 4.1 8.8 + - - +
73K MET* 5.9 5.6 - - + +
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Residues in contact with LEU 413 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
267A ILE* 3.8 34.1 - - + -
279A TYR* 5.8 1.8 - - + -
387A ALA* 3.9 15.0 - - + +
390A VAL* 4.8 7.2 - - + -
391A ALA* 3.9 29.6 - - + +
394A LEU* 3.8 20.9 - - + -
395A LYS* 6.0 1.1 - - - +
399A MET* 5.3 5.6 - - + -
409A MET 4.2 11.2 - - - +
410A VAL* 3.9 15.7 - - - +
411A HIS 3.2 0.6 - - - -
412A GLU* 1.4 80.8 - - + +
414A ASN* 1.4 62.3 + - - +
415A ARG 3.5 0.3 + - - -
416A TYR* 3.9 1.6 + - - +
417A ILE* 3.2 28.1 + - + +
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Residues in contact with ASN 414 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
387A ALA* 3.9 13.0 - - + -
410A VAL 3.6 5.2 - - - +
411A HIS* 3.2 50.7 + - - +
413A LEU* 1.4 79.2 - - - +
415A ARG* 1.4 77.5 + - - +
417A ILE* 4.2 0.7 - - - +
418A PRO* 3.3 22.3 - - - +
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Residues in contact with ARG 415 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
411A HIS* 3.6 32.3 + - + +
412A GLU* 3.5 22.5 + - - +
414A ASN* 1.4 89.0 - - - +
416A TYR* 1.4 88.6 + - - +
418A PRO* 3.9 7.1 - - - +
419A THR* 4.1 13.2 - - - +
20B ARG* 3.9 19.7 - - - +
77K GLU* 5.6 5.9 + - - -
133K LEU* 5.5 8.3 - - - +
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Residues in contact with TYR 416 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
263A VAL* 3.7 31.5 - - + +
265A LEU* 5.7 15.5 - - + -
281A ILE* 5.7 7.2 - - + -
412A GLU 4.5 7.9 - - - +
413A LEU 3.9 3.2 + - - +
414A ASN 3.5 0.4 - - - -
415A ARG* 1.4 100.2 - - - +
417A ILE* 1.4 66.6 + - + +
418A PRO 3.5 0.2 - - - -
419A THR* 2.8 26.0 + - - -
420A ALA* 3.4 23.5 + - + -
17B ASP* 4.4 4.9 + - - -
20B ARG* 3.2 55.5 + - + +
21B LEU* 4.9 4.2 + - - +
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Residues in contact with ILE 417 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
281A ILE* 4.6 27.6 - - + -
380A ILE* 5.0 8.1 - - + -
385A SER* 4.5 9.0 - - - +
386A SER* 4.2 12.3 - - - -
387A ALA* 3.9 33.0 - - + +
390A VAL* 6.3 2.9 - - + -
413A LEU* 3.2 20.4 - - + +
414A ASN 3.7 2.0 + - - +
415A ARG 3.4 0.4 - - - -
416A TYR* 1.4 78.2 - - + +
418A PRO* 1.3 72.9 - - + +
419A THR 3.5 0.2 + - - -
420A ALA* 3.7 8.1 + - + +
421A ALA* 3.6 19.2 + - + +
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Residues in contact with PRO 418 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
377A LYS* 6.1 0.7 - - - +
380A ILE* 4.4 21.4 - - + +
414A ASN 3.3 18.2 - - - +
415A ARG 3.9 4.5 - - - +
416A TYR 3.8 2.2 - - - -
417A ILE* 1.3 95.2 - - + +
419A THR* 1.4 64.9 + - + +
421A ALA* 3.6 2.8 + - - +
422A ALA* 3.4 22.3 + - - +
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Residues in contact with THR 419 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
415A ARG 4.1 14.6 - - - +
416A TYR* 2.8 19.8 + - - -
418A PRO* 1.4 79.5 - - + +
420A ALA* 1.4 60.4 + - - +
422A ALA* 3.7 5.5 + - - +
423A PHE* 3.4 17.2 + - - +
17B ASP* 3.3 25.5 - - + +
20B ARG* 2.9 28.6 + - - +
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Residues in contact with ALA 420 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
263A VAL* 4.8 7.6 - - + -
281A ILE* 6.2 4.7 - - + -
283A LEU* 4.2 22.4 - - + +
286A THR* 5.7 0.7 - - - -
416A TYR* 3.4 25.7 + - + +
417A ILE* 4.0 11.4 - - + +
418A PRO 3.4 0.2 - - - -
419A THR* 1.4 78.3 + - - +
421A ALA* 1.4 63.1 + - - +
423A PHE* 3.4 6.2 + - - +
424A GLY* 3.2 19.4 + - - -
17B ASP* 4.3 5.6 - - - -
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Residues in contact with ALA 421 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
286A THR* 4.8 13.7 - - + +
287A SER* 3.5 11.8 + - - +
376A SER* 3.4 27.9 - - - +
379A TRP* 6.6 0.4 - - + -
380A ILE* 4.1 26.0 - - + -
385A SER 6.0 1.1 - - - +
417A ILE* 3.6 11.3 + - + +
418A PRO 3.9 7.4 - - - +
419A THR 3.5 0.8 - - - -
420A ALA* 1.4 73.4 - - - +
422A ALA* 1.4 65.2 + - - +
424A GLY 3.4 8.3 + - - -
425A GLY 3.5 0.7 + - - -
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Residues in contact with ALA 422 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
373A ALA* 4.4 5.9 - - - +
376A SER* 4.8 4.7 - - - -
377A LYS* 3.8 32.9 - - + +
418A PRO 3.4 13.6 + - - +
419A THR* 3.8 6.7 - - - +
421A ALA* 1.4 79.8 - - - +
423A PHE* 1.4 60.1 + - - +
425A GLY* 3.7 0.5 + - - -
426A LEU* 3.2 26.7 + - + +
14B PHE* 5.4 11.9 - - + -
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Residues in contact with PHE 423 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
283A LEU* 4.5 9.6 - - + -
284A PHE* 5.3 5.2 - + - -
419A THR 3.4 7.1 + - - +
420A ALA* 3.4 10.0 + - - +
421A ALA 3.4 0.4 - - - -
422A ALA* 1.4 76.1 - - - +
424A GLY* 1.4 65.5 + - - +
426A LEU* 3.4 13.3 + - + +
427A CYS* 3.2 53.4 + - - -
14B PHE* 5.0 13.0 - + + -
17B ASP* 3.2 28.3 - - - +
18B SER* 4.3 19.7 - - - -
21B LEU* 3.5 43.5 - - + -
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Residues in contact with GLY 424 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
283A LEU* 4.1 13.0 - - - -
284A PHE* 4.1 10.9 - - - -
287A SER* 3.5 18.4 - - - -
420A ALA 3.2 12.2 + - - -
421A ALA 3.4 0.4 + - - -
422A ALA 3.4 0.6 - - - -
423A PHE* 1.4 81.9 - - - +
425A GLY* 1.4 58.0 + - - +
427A CYS* 3.9 2.4 + - - +
428A ILE* 3.4 27.9 + - - +
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Residues in contact with GLY 425 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
287A SER* 3.4 12.9 + - - -
291A ILE* 4.0 11.9 - - - +
369A LEU 4.5 0.2 - - - +
372A CYS* 3.3 26.5 - - - +
373A ALA* 4.3 3.1 - - - -
376A SER* 3.5 19.3 - - - -
421A ALA 3.5 6.3 + - - -
422A ALA 4.4 0.4 - - - -
424A GLY* 1.4 73.4 - - - +
426A LEU* 1.4 63.2 + - - +
427A CYS 3.3 0.2 - - - -
428A ILE 3.6 0.3 + - - -
429A GLY 3.4 11.1 + - - -
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Residues in contact with LEU 426 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
369A LEU* 3.5 47.3 - - + +
370A GLY* 5.3 0.9 - - - -
373A ALA* 3.8 20.9 - - + +
377A LYS* 5.9 0.9 - - - +
422A ALA* 3.2 19.3 + - + +
423A PHE* 3.6 14.6 - - + +
425A GLY* 1.4 78.2 - - - +
427A CYS* 1.4 62.6 - - - +
429A GLY 4.0 0.2 + - - -
430A ALA* 3.8 14.2 + - - +
14B PHE* 4.4 37.2 - - + -
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Residues in contact with CYS 427 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
258A PHE* 6.5 0.9 - - + -
284A PHE* 4.1 17.5 - - + -
423A PHE* 3.2 60.0 + - - +
424A GLY 4.0 4.9 - - - +
426A LEU* 1.4 78.3 - - - +
428A ILE* 1.4 63.1 + - - +
430A ALA* 3.5 8.5 + - - +
431A LEU* 3.4 20.7 + - - +
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Residues in contact with ILE 428 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
258A PHE* 6.5 0.7 - - + -
284A PHE* 4.1 39.0 - - + +
287A SER 4.7 3.4 - - - +
288A ASN* 5.3 1.8 - - - +
291A ILE* 3.8 43.7 - - + -
424A GLY 3.4 17.0 - - - +
425A GLY 3.6 1.2 + - - -
426A LEU 3.5 0.6 - - - -
427A CYS* 1.4 75.3 - - - +
429A GLY* 1.4 59.1 + - - +
431A LEU* 3.2 9.8 + - + +
432A SER* 3.0 31.6 + - - +
448A LEU* 3.8 21.5 - - + -
449A LEU* 5.8 2.2 - - + -
452A THR* 5.6 9.0 - - + +
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Residues in contact with GLY 429 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
365A ILE 4.7 0.2 - - - +
368A MET* 3.9 10.8 - - - +
369A LEU* 4.3 9.1 + - - -
372A CYS* 3.6 28.1 - - - -
425A GLY 3.4 11.1 + - - -
427A CYS 3.4 0.2 - - - -
428A ILE* 1.4 76.1 - - - +
430A ALA* 1.4 60.8 + - - +
432A SER* 4.0 9.2 + - - -
433A VAL* 3.6 21.3 + - - +
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Residues in contact with ALA 430 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
365A ILE* 4.8 13.5 - - + +
369A LEU* 4.0 27.2 - - + +
426A LEU 3.8 7.7 + - - +
427A CYS* 3.5 10.5 + - - +
428A ILE 3.3 0.4 - - - -
429A GLY* 1.4 78.1 - - - +
431A LEU* 1.4 60.1 - - - +
432A SER 3.5 0.7 + - - -
433A VAL* 3.6 10.1 + - - +
434A LEU* 3.5 23.3 + - + +
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Residues in contact with LEU 431 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
254A VAL* 4.5 13.0 - - + -
258A PHE* 3.7 35.0 - - + -
427A CYS 3.4 11.0 + - - +
428A ILE* 3.2 13.4 + - + +
430A ALA* 1.4 78.9 - - - +
432A SER* 1.4 58.0 + - - +
434A LEU* 3.3 17.4 + - + +
435A ALA* 3.1 26.2 + - + +
448A LEU* 3.9 29.8 - - + -
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Residues in contact with SER 432 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
291A ILE* 4.4 6.5 - - - +
368A MET* 5.3 3.8 - - - -
428A ILE* 3.0 21.3 + - - +
429A GLY* 4.1 9.3 - - - -
431A LEU* 1.4 73.8 - - - +
433A VAL* 1.4 63.5 + - - +
435A ALA* 3.3 14.0 + - - +
436A ASP* 3.1 20.6 - - - +
445A THR* 3.4 33.4 + - - +
448A LEU* 3.4 19.8 - - - +
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Residues in contact with VAL 433 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
364A TYR* 3.7 40.6 - - + +
365A ILE* 3.8 18.6 - - + -
368A MET* 3.7 33.7 - - + -
429A GLY 3.6 17.0 - - - +
430A ALA 3.8 7.2 - - - +
431A LEU 3.4 0.2 - - - -
432A SER* 1.4 73.8 - - - +
434A LEU* 1.4 62.8 + - - +
436A ASP* 3.3 23.3 + - - +
437A PHE* 3.5 25.9 - - + -
445A THR* 4.9 0.4 - - - -
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Residues in contact with LEU 434 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
365A ILE* 4.5 17.7 - - + -
430A ALA* 3.5 21.1 - - + +
431A LEU* 3.3 21.9 + - + +
433A VAL* 1.4 73.5 - - - +
435A ALA* 1.4 64.4 + - - +
437A PHE* 3.4 33.1 + - + +
438A LEU* 3.4 25.3 + - + +
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Residues in contact with ALA 435 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
247A ALA 5.7 0.2 - - - +
250A PHE* 5.7 1.9 - - - -
251A VAL* 4.6 17.2 - - + +
431A LEU* 3.1 13.4 + - + +
432A SER* 3.4 13.9 - - - +
433A VAL 3.3 0.2 - - - -
434A LEU* 1.4 73.8 - - - +
436A ASP* 1.4 56.4 + - - +
437A PHE 3.5 0.3 + - - -
438A LEU* 3.7 8.1 + - - +
439A GLY 2.8 32.7 + - - +
444A GLY* 3.4 22.8 - - - +
448A LEU* 5.2 5.4 - - + -
----------------------------------------------------------
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Residues in contact with ASP 436 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64A TRP* 3.6 12.9 + - - -
347A PRO* 4.1 15.3 - - + +
351A PHE* 3.5 18.9 - - + +
364A TYR* 3.0 27.4 + - + -
432A SER 3.1 9.0 - - - +
433A VAL* 3.3 10.9 + - - +
434A LEU 3.3 0.4 - - - -
435A ALA* 1.4 75.1 - - - +
437A PHE* 1.4 69.3 + - + +
439A GLY 3.8 6.0 + - - -
440A ALA* 3.9 13.3 - - - +
443A SER* 5.1 0.4 - - - -
444A GLY* 3.1 13.9 + - - +
445A THR* 3.0 30.8 + - - -
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Residues in contact with PHE 437 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
348A PRO* 4.6 13.5 - - + -
351A PHE* 3.0 19.5 - - - +
352A GLY* 3.8 20.1 - - - +
355A LEU* 3.7 41.1 - - + -
360A HIS* 5.6 1.3 - + - -
361A ALA* 4.7 12.1 - - + -
364A TYR* 4.2 19.5 - + - -
365A ILE* 4.5 9.6 - - + -
433A VAL* 3.5 39.0 - - + -
434A LEU* 3.6 26.7 - - + +
435A ALA 3.3 0.6 - - - -
436A ASP* 1.4 78.9 - - + +
438A LEU* 1.4 65.4 + - + +
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Residues in contact with LEU 438 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
243A MET* 4.0 10.6 - - - +
246A ILE* 4.6 1.7 - - - +
250A PHE* 3.4 61.4 - - + -
434A LEU* 3.4 22.7 + - + +
435A ALA* 3.7 6.3 + - - +
436A ASP 3.5 0.2 - - - -
437A PHE* 1.4 79.7 - - + +
439A GLY* 1.3 58.0 + - - +
----------------------------------------------------------
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Residues in contact with GLY 439 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
243A MET* 4.0 17.7 - - - -
247A ALA* 3.4 27.0 - - - +
250A PHE* 4.2 2.3 - - - -
351A PHE* 5.4 2.2 - - - -
435A ALA 2.8 17.8 - - - +
436A ASP 4.0 2.7 - - - -
437A PHE 3.4 2.8 - - - -
438A LEU* 1.3 80.0 - - - +
440A ALA* 1.4 60.8 + - - -
444A GLY* 4.5 0.2 - - - -
447A ILE* 4.4 3.1 - - - +
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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).
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