Contacts of the helix formed by residues 516 - 542 (chain A) in PDB entry 2FBW
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 ASN 516 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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196A ILE* 5.1 1.2 - - - +
457A ARG* 4.7 2.2 - - - +
510A ASP* 3.0 35.7 + - - +
512A GLY 2.8 35.0 + - - +
513A ILE* 3.9 8.3 + - - +
514A VAL 3.2 0.9 + - - +
515A TRP* 1.3 73.9 - - - +
517A THR* 1.3 57.9 + - - +
518A ASP* 3.1 14.0 + - - +
519A LEU* 2.8 43.0 + - + +
520A VAL* 3.0 28.3 + - - +
109B LYS* 4.1 5.6 - - - +
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Residues in contact with THR 517 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
196A ILE* 5.9 1.1 - - + -
510A ASP* 5.1 0.2 + - - -
515A TRP* 3.1 37.8 + - + -
516A ASN* 1.3 71.1 - - - +
518A ASP* 1.3 59.1 + - - +
520A VAL* 3.7 12.1 - - + +
521A GLU* 2.9 40.9 + - - +
52B LYS* 2.6 34.2 + - - -
59B LEU 4.1 0.2 + - - -
60B THR* 3.7 20.2 + - + +
61B PHE 4.8 7.1 + - - +
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Residues in contact with ASP 518 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
465A THR* 4.6 7.6 + - - +
507A LYS 5.3 0.2 - - - +
508A THR* 4.0 15.6 - - - +
509A PHE* 2.8 30.9 + - - -
510A ASP* 3.0 16.0 + - + +
516A ASN* 3.1 10.9 + - - +
517A THR* 1.3 82.4 + - - +
519A LEU* 1.3 55.6 + - - +
521A GLU* 4.1 3.1 - - - +
522A THR* 2.8 31.2 + - - -
52B LYS* 3.8 5.5 - - - +
57B SER* 3.1 39.6 + - - +
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Residues in contact with LEU 519 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
194A LEU* 4.8 7.2 - - + -
453A LEU* 3.8 33.4 - - + +
456A LEU* 3.8 13.5 - - + -
457A ARG* 3.7 36.6 - - + +
508A THR* 5.3 4.0 - - - +
510A ASP 5.6 0.4 + - - +
513A ILE* 4.2 18.6 - - + +
516A ASN* 2.8 35.4 + - + +
518A ASP* 1.3 72.0 - - - +
520A VAL* 1.3 66.3 + - + +
522A THR* 2.9 16.3 + - - -
523A LEU* 3.0 26.3 + - + +
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Residues in contact with VAL 520 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49A LYS* 5.8 0.4 - - + -
177A PHE* 3.7 29.2 - - + -
194A LEU* 4.7 13.9 - - + -
196A ILE* 4.3 30.3 - - + -
516A ASN 3.0 21.8 + - - +
517A THR* 4.1 11.4 - - + +
518A ASP 3.5 0.4 - - - -
519A LEU* 1.3 75.7 - - + +
521A GLU* 1.3 60.5 + - + +
523A LEU* 3.3 13.2 + - + +
524A GLU* 2.9 36.3 + - - +
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Residues in contact with GLU 521 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
465A THR* 4.0 6.7 - - + +
469A ARG* 3.7 29.2 + - - +
517A THR* 2.9 26.2 + - - +
518A ASP* 4.1 3.5 - - - +
520A VAL* 1.3 78.7 - - + +
522A THR* 1.3 57.1 + - - +
524A GLU* 3.7 20.0 - - - +
525A LEU* 2.9 24.9 + - - +
52B LYS* 3.5 30.8 - - - +
53B ASN* 4.5 3.6 - - - +
63B ARG* 3.3 31.2 + - - +
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Residues in contact with THR 522 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
456A LEU* 3.8 23.8 - - + -
465A THR* 2.9 31.4 + - + +
506A LEU* 3.6 28.2 - - + +
508A THR* 3.5 15.2 - - + +
518A ASP 2.8 17.1 + - - -
519A LEU* 2.9 7.9 + - - -
521A GLU* 1.3 75.9 - - - +
523A LEU* 1.3 64.0 + - - +
525A LEU* 3.2 3.2 + - + +
526A GLN* 3.1 23.2 + - - +
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Residues in contact with LEU 523 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177A PHE* 4.0 20.6 - - + -
179A LEU* 3.7 32.1 - - + -
194A LEU* 5.1 3.6 - - + -
452A ASN* 3.7 26.9 - - - +
453A LEU* 4.8 14.8 - - + -
456A LEU* 3.8 10.7 - - + +
519A LEU* 3.0 29.3 + - + +
520A VAL* 3.4 16.6 - - + +
522A THR* 1.3 76.1 - - - +
524A GLU* 1.3 61.5 + - - +
526A GLN* 3.2 11.6 + - - +
527A ASN* 3.1 27.5 + - - +
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Residues in contact with GLU 524 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49A LYS* 2.6 30.3 + - - +
177A PHE* 3.7 19.8 - - + -
227A HIS 4.7 4.5 - - - +
228A THR* 5.0 4.5 - - - +
230A THR* 3.4 30.8 - - + +
232A ASP* 4.0 0.9 - - - +
520A VAL* 2.9 29.0 + - - +
521A GLU* 3.7 22.9 - - - +
522A THR 3.2 0.2 - - - -
523A LEU* 1.3 75.2 - - - +
525A LEU* 1.3 58.4 + - - +
527A ASN* 3.1 9.1 + - - +
528A LEU* 2.8 35.1 + - + +
63B ARG* 4.8 6.5 + - - -
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Residues in contact with LEU 525 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
465A THR* 3.9 30.7 - - + +
468A ALA* 4.0 12.8 - - + +
469A ARG* 3.8 28.0 - - + +
472A MET* 3.9 12.8 - - + -
503A LEU* 3.9 23.3 - - + -
506A LEU* 4.2 10.3 - - + -
521A GLU 2.9 15.3 + - - +
522A THR* 3.5 9.4 - - - +
523A LEU 3.2 0.4 - - - -
524A GLU* 1.3 73.0 - - - +
526A GLN* 1.3 66.4 + - - +
528A LEU* 3.4 6.7 + - - +
529A MET* 2.9 39.5 + - + +
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Residues in contact with GLN 526 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
239A ARG* 4.8 9.1 + - - +
452A ASN* 2.9 42.4 + - - -
456A LEU* 3.4 26.8 - - + +
500A TYR* 5.1 1.7 - - - -
503A LEU* 4.6 19.1 - - + +
506A LEU* 5.3 5.5 - - + +
522A THR 3.1 14.2 + - - +
523A LEU* 3.4 13.0 - - - +
525A LEU* 1.3 76.4 - - - +
527A ASN* 1.3 66.1 + - - +
529A MET* 3.5 5.4 + - - +
530A LEU* 3.3 27.2 + - + +
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Residues in contact with ASN 527 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177A PHE* 4.0 13.9 - - - -
178A ALA 5.4 0.6 + - - -
230A THR 3.6 7.4 - - - +
231A GLY 4.1 0.2 - - - +
232A ASP* 2.8 38.7 + - - +
235A ALA* 3.4 20.0 - - + +
239A ARG* 2.9 35.4 + - - +
523A LEU* 3.1 16.8 + - - +
524A GLU 3.1 6.3 + - - +
526A GLN* 1.3 74.6 - - - +
528A LEU* 1.3 66.3 + - - +
530A LEU* 3.2 12.5 + - - +
531A CYS* 3.2 17.4 + - - -
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Residues in contact with LEU 528 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
216A TYR* 4.1 2.2 - - + +
218A ARG* 3.7 11.9 - - + +
219A THR* 3.3 41.3 - - + +
229A SER 4.0 2.7 - - - +
230A THR* 3.5 43.9 + - + +
469A ARG* 4.8 12.1 - - - -
472A MET* 3.7 28.0 - - + -
524A GLU* 2.8 27.0 + - + +
525A LEU* 3.8 6.3 - - - +
527A ASN* 1.3 71.3 - - - +
529A MET* 1.3 58.5 + - - +
531A CYS* 3.2 6.4 + - - +
532A ALA* 2.8 25.8 + - - +
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Residues in contact with MET 529 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
472A MET* 3.5 37.7 - - - +
496A LEU* 3.7 33.9 - - + +
499A ILE* 3.9 11.4 - - + -
500A TYR* 3.7 37.0 - - + +
503A LEU* 4.5 11.4 - - + -
525A LEU* 2.9 32.0 + - + +
526A GLN 3.8 4.9 - - - +
527A ASN 3.2 0.4 - - - -
528A LEU* 1.3 77.9 - - - +
530A LEU* 1.3 57.3 + - - +
532A ALA* 3.9 1.8 - - - +
533A LEU* 3.0 39.1 + - + +
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Residues in contact with LEU 530 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
235A ALA* 4.1 15.9 - - + +
238A THR* 4.3 6.5 - - + -
239A ARG* 3.8 42.4 - - + +
500A TYR* 3.5 34.1 - - + +
526A GLN* 3.3 11.3 + - + +
527A ASN 3.2 7.8 + - - +
529A MET* 1.3 78.4 - - - +
531A CYS* 1.3 61.6 + - - +
533A LEU* 3.9 4.2 - - + +
534A GLN* 2.9 38.7 + - - +
587A VAL* 4.0 24.7 - - + +
589A VAL* 4.2 11.7 - - + -
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Residues in contact with CYS 531 (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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216A TYR* 3.6 37.0 - - + -
231A GLY* 3.8 22.7 - - - -
234A THR* 3.8 24.9 - - - -
235A ALA* 4.6 3.6 - - - -
247A LEU* 4.2 3.9 - - - +
527A ASN 3.2 13.3 + - - -
528A LEU* 3.2 8.6 + - - +
530A LEU* 1.3 75.1 - - - +
532A ALA* 1.3 64.3 + - - +
534A GLN* 3.4 9.1 + - - +
535A THR* 2.9 28.6 + - - -
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Residues in contact with ALA 532 (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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216A TYR* 5.4 0.2 - - - -
219A THR* 4.4 7.8 - - + +
472A MET* 4.3 14.6 - - + -
476A MET* 3.8 20.8 - - + +
496A LEU* 3.6 20.1 - - + +
528A LEU 2.8 19.8 + - - +
529A MET* 3.9 4.3 - - - +
530A LEU 3.4 0.2 - - - -
531A CYS* 1.3 73.6 - - - +
533A LEU* 1.3 64.1 + - - +
535A THR* 3.2 8.4 + - - -
536A ILE* 3.0 25.6 + - - +
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Residues in contact with LEU 533 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
496A LEU* 3.8 37.9 - - + +
497A SER* 4.0 6.1 - - - +
500A TYR* 3.7 37.7 - - + -
529A MET* 3.0 24.0 + - + +
530A LEU* 3.9 5.2 - - - +
531A CYS 3.3 0.2 - - - -
532A ALA* 1.3 75.0 - - - +
534A GLN* 1.3 59.4 + - + +
536A ILE* 3.5 0.8 + - - +
537A TYR* 3.0 55.7 + - + +
587A VAL* 4.7 8.5 - - + -
592A GLY* 4.0 20.4 - - - +
594A VAL* 4.1 9.4 - - + -
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Residues in contact with GLN 534 (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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234A THR* 5.3 1.4 - - - +
235A ALA* 6.1 0.2 - - - +
238A THR* 3.2 26.3 + - - +
242A LEU 5.6 0.2 - - - +
244A CYS* 3.8 6.2 - - - +
247A LEU* 3.6 25.6 - - + +
248A GLU* 4.9 0.9 + - - +
530A LEU* 2.9 24.3 + - - +
531A CYS* 3.4 2.0 + - - +
532A ALA 3.3 0.4 - - - -
533A LEU* 1.3 73.2 - - - +
535A THR* 1.3 65.4 + - - +
538A GLY* 3.0 21.8 + - - -
583A THR* 6.0 0.2 - - - +
585A SER* 2.7 51.0 + - - +
586A TYR* 4.4 0.5 - - - -
587A VAL* 3.3 29.6 - - + +
594A VAL* 4.6 10.5 - - + -
596A LEU* 5.1 0.2 - - - +
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Residues in contact with THR 535 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
216A TYR* 2.9 27.1 + - + -
220A TYR* 4.5 2.7 - - + +
247A LEU* 3.3 23.4 + - - +
248A GLU* 3.4 11.8 - - - +
250A VAL* 4.0 17.3 - - + -
476A MET* 3.9 20.0 - - + -
480A ALA* 5.4 1.8 - - + -
484A ARG* 5.2 3.4 - - - +
531A CYS 2.9 21.1 + - - -
532A ALA* 3.2 6.0 + - - -
534A GLN* 1.3 77.2 - - - +
536A ILE* 1.3 60.5 + - - +
539A ALA* 3.0 25.3 + - + +
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Residues in contact with ILE 536 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
475A THR* 5.0 2.5 - - + -
476A MET* 4.4 15.3 - - + -
479A HIS* 4.1 16.2 - - + +
480A ALA* 4.3 14.4 - - + -
489A LEU* 4.1 23.3 - - + +
492A GLY* 3.8 29.8 - - - +
493A CYS* 3.6 15.0 - - - -
496A LEU* 3.7 16.4 - - + -
532A ALA 3.0 14.7 + - - +
533A LEU 3.5 9.2 - - - +
535A THR* 1.3 75.4 - - - +
537A TYR* 1.3 70.1 + - + +
539A ALA* 3.7 5.1 - - - +
540A GLU* 3.0 27.5 + - - +
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Residues in contact with TYR 537 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
493A CYS* 3.5 37.9 + - + +
494A GLU* 5.0 1.2 - - - +
497A SER* 2.7 30.0 + - - -
533A LEU* 3.0 41.0 + - + +
534A GLN 4.3 0.4 - - - +
536A ILE* 1.3 81.8 - - + +
538A GLY* 1.3 64.5 + - - +
540A GLU* 3.4 7.1 + - + +
541A ALA* 3.1 17.8 + - - +
592A GLY 5.6 0.7 - - - -
593A LYS* 6.3 1.6 - - - -
594A VAL* 3.8 39.9 - - + -
596A LEU* 3.6 12.0 - - + +
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Residues in contact with GLY 538 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
248A GLU* 3.9 18.4 - - - +
534A GLN 3.0 18.1 + - - -
535A THR 4.0 0.4 - - - -
537A TYR* 1.3 74.7 - - - +
539A ALA* 1.3 63.7 + - - +
541A ALA* 3.3 2.4 + - - +
542A ARG* 3.0 25.3 + - - +
583A THR* 4.5 6.3 + - - -
596A LEU* 3.8 18.9 - - - +
598A TYR* 5.3 0.5 + - - -
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Residues in contact with ALA 539 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
248A GLU* 3.4 15.5 - - + +
480A ALA* 5.6 1.3 - - + -
484A ARG* 3.9 11.4 - - - +
489A LEU* 3.6 18.7 - - + +
535A THR* 3.0 19.3 + - + +
536A ILE* 3.7 6.5 - - - +
537A TYR 3.3 0.2 - - - -
538A GLY* 1.3 76.4 - - - +
540A GLU* 1.3 60.9 + - - +
542A ARG 3.3 6.4 + - - -
549A HIS* 3.5 26.5 - - + -
551A ARG* 3.3 14.4 + - - -
----------------------------------------------------------
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Residues in contact with GLU 540 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
486A GLY* 4.6 3.5 - - - +
489A LEU* 3.8 20.8 - - + +
490A GLN* 3.2 43.6 + - + -
493A CYS* 3.9 16.6 - - - -
536A ILE 3.0 17.6 + - - +
537A TYR* 3.7 8.2 - - + +
539A ALA* 1.3 76.1 - - - +
541A ALA* 1.3 66.5 + - - +
543A LYS* 3.7 18.5 + - - -
551A ARG* 3.1 16.9 + - - +
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Residues in contact with ALA 541 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
537A TYR 3.1 6.7 + - - +
538A GLY 3.9 1.8 - - - +
539A ALA 3.2 0.2 - - - -
540A GLU* 1.3 84.6 - - - +
542A ARG* 1.3 58.4 + - - +
543A LYS* 3.0 21.7 + - - +
579A TRP* 3.1 20.4 - - + -
596A LEU* 3.5 32.3 - - + -
598A TYR* 3.7 12.3 - - - +
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Residues in contact with ARG 542 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90A LEU* 4.8 1.8 - - - +
246A ASP* 4.3 0.6 + - - -
248A GLU* 2.7 21.3 + - - +
249A PHE* 3.6 29.6 - - - -
538A GLY 3.0 16.4 + - - +
539A ALA 3.3 1.4 + - - -
541A ALA* 1.3 72.1 - - - +
543A LYS* 1.3 58.4 + - - +
544A GLU* 3.0 35.5 + - + +
546A ARG* 4.1 3.2 - - - +
549A HIS* 3.0 39.7 + - + +
551A ARG* 3.3 11.0 + - - +
579A TRP* 2.9 45.8 + - + +
581A LYS 2.7 24.2 + - - -
582A HIS 4.2 0.2 - - - -
583A THR* 3.0 24.8 + - - +
598A TYR* 4.6 1.0 + - - -
----------------------------------------------------------
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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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