Contacts of the helix formed by residues 439 - 470 (chain A) in PDB entry 4ZTZ
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 GLN 439 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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438A ASN* 1.3 77.1 - - - +
440A ASN* 1.3 77.1 + - - +
441A TRP 3.0 0.2 - - - -
442A GLU* 2.9 24.6 + - + +
443A ARG* 3.0 43.7 + - - +
815A TRP* 4.1 7.6 - - - -
832A ASP* 4.8 9.9 + - - +
835A GLY* 3.6 12.6 - - - -
836A LEU* 2.9 39.9 + - + +
837A TYR* 5.6 3.8 + - - -
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Residues in contact with ASN 440 (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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438A ASN* 3.2 19.1 + - - +
439A GLN* 1.3 93.9 + - - +
441A TRP* 1.3 55.4 + - - +
443A ARG* 3.8 14.0 + - - +
444A TYR 2.9 22.7 + - - -
877A MET* 3.2 26.5 - - + +
879A GLN* 2.5 32.4 + - - +
1207A GLU* 4.9 13.8 + - - +
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Residues in contact with TRP 441 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
437A VAL* 4.3 27.1 - - + -
438A ASN* 3.0 17.4 + - - +
440A ASN* 1.3 76.0 - - - +
442A GLU* 1.3 72.7 + - - +
444A TYR* 3.2 13.0 + + - +
445A LEU* 2.9 50.4 + - + +
808A ILE* 3.3 31.2 - - + -
811A GLN* 4.0 22.4 + - + -
813A VAL* 4.1 21.5 - - + +
815A TRP* 4.7 2.9 - + + -
840A ILE* 6.2 3.6 - - + -
859A TRP* 3.8 23.1 - + - -
874A LEU* 3.4 34.3 - - + -
877A MET* 4.1 19.6 + - + +
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Residues in contact with GLU 442 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
438A ASN 4.1 0.2 + - - -
439A GLN* 2.9 14.8 + - + +
441A TRP* 1.3 90.9 - - - +
443A ARG* 1.3 68.2 + - - +
445A LEU* 3.2 17.8 + - - +
446A ALA* 2.9 23.8 + - + +
813A VAL* 5.4 1.9 - - - +
815A TRP* 4.6 13.4 + - + -
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Residues in contact with ARG 443 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
439A GLN* 3.0 44.8 + - - +
440A ASN* 3.8 18.0 + - - +
442A GLU* 1.3 81.6 - - - +
444A TYR* 1.3 56.4 + - - +
446A ALA* 3.4 6.3 + - - +
447A GLU* 2.9 38.8 + - + +
1206A MET* 6.4 2.0 - - + -
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Residues in contact with TYR 444 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
440A ASN 2.9 18.8 + - - +
441A TRP* 3.3 9.6 - + - +
443A ARG* 1.3 76.7 - - - +
445A LEU* 1.3 77.1 + - + +
447A GLU* 4.0 3.8 - - - +
448A ALA* 2.9 37.3 + - + +
800A PHE* 5.1 0.2 - - - -
801A TRP* 3.3 28.4 - + - -
808A ILE* 4.6 2.0 - - + -
871A GLY* 2.8 24.1 + - - -
873A GLU* 3.1 30.1 - - + -
874A LEU* 3.2 39.5 - - + +
877A MET* 3.7 27.8 - - + -
1199A THR* 5.8 1.8 - - + -
1200A PRO* 6.2 0.4 - - + -
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Residues in contact with LEU 445 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
441A TRP* 2.9 57.5 + - + +
442A GLU* 3.4 22.9 - - - +
444A TYR* 1.3 93.1 - - + +
446A ALA* 1.3 56.8 + - - +
448A ALA* 4.0 2.8 - - - +
449A GLN* 2.9 34.4 + - - +
801A TRP* 4.5 7.7 - - + -
808A ILE 4.1 5.8 - - - +
809A SER* 3.9 35.9 - - - +
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Residues in contact with ALA 446 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
442A GLU* 2.9 16.5 + - + +
443A ARG* 3.7 6.7 - - - +
445A LEU* 1.3 77.0 - - - +
447A GLU* 1.3 61.1 + - + +
449A GLN* 3.9 3.4 - - - +
450A GLY* 2.9 26.2 + - - -
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Residues in contact with GLU 447 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
443A ARG* 2.9 24.8 + - + +
444A TYR* 4.1 3.4 - - - +
446A ALA* 1.3 76.8 - - + +
448A ALA* 1.3 60.8 + - - +
450A GLY* 3.2 1.7 + - - -
451A THR* 2.9 34.1 + - - -
1199A THR* 3.7 21.5 - - + +
1200A PRO* 6.3 1.1 - - + -
257B ARG* 3.4 37.6 + - - -
258B HIS* 5.5 1.7 + - - -
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Residues in contact with ALA 448 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
444A TYR* 2.9 29.4 + - + +
447A GLU* 1.3 76.2 - - - +
449A GLN* 1.3 58.3 + - - +
451A THR 3.3 1.0 + - - -
452A TYR* 2.9 29.6 + - - +
801A TRP* 3.6 35.7 - - + -
870A VAL* 3.6 15.2 - - + +
871A GLY* 4.7 0.7 - - - -
1199A THR* 3.9 12.0 - - + +
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Residues in contact with GLN 449 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
445A LEU 2.9 19.2 + - - +
446A ALA* 3.9 4.0 - - - +
448A ALA* 1.3 77.1 - - - +
450A GLY* 1.3 58.0 + - - +
452A TYR* 3.5 14.9 + - - +
453A GLU* 2.9 68.2 + - - +
801A TRP* 2.9 31.5 + - + +
805A HIS* 4.2 14.0 + - - +
809A SER* 5.8 3.1 - - - -
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Residues in contact with GLY 450 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
446A ALA 2.9 16.0 + - - -
447A GLU* 3.6 4.0 - - - -
448A ALA 3.2 0.2 - - - -
449A GLN* 1.3 76.7 - - - +
451A THR* 1.3 56.9 + - - +
453A GLU* 3.2 9.7 + - - +
454A GLU* 2.9 35.6 + - - +
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Residues in contact with THR 451 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
447A GLU* 2.9 18.4 + - - -
448A ALA* 3.7 4.3 - - - -
450A GLY* 1.3 73.8 - - - +
452A TYR* 1.3 63.2 + - - +
454A GLU* 3.1 7.9 + - + +
455A LEU* 2.9 41.5 + - + +
870A VAL* 4.1 11.0 - - + -
1198A LYS* 3.3 34.2 + - - +
1199A THR* 3.9 7.4 + - - +
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Residues in contact with TYR 452 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
448A ALA 2.9 17.9 + - - +
449A GLN* 3.7 23.8 - - - +
451A THR* 1.3 78.5 - - - +
453A GLU* 1.3 59.5 + - + +
455A LEU* 3.5 1.2 + - - +
456A GLN* 2.9 63.5 + - - +
798A ILE* 3.8 39.3 - - + +
801A TRP* 3.4 30.7 - + + -
802A ARG* 3.7 40.3 + - + +
805A HIS* 4.9 10.0 + + - -
870A VAL* 4.4 4.0 - - + +
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Residues in contact with GLU 453 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
449A GLN* 2.9 51.6 + - - +
450A GLY* 3.2 7.6 + - - +
452A TYR* 1.3 80.8 - - + +
454A GLU* 1.3 60.3 + - + +
456A GLN* 3.9 7.6 - - - +
457A ARG* 2.9 29.6 + - - +
485B VAL* 4.8 20.1 - - + +
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Residues in contact with GLU 454 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
450A GLY* 2.9 20.6 + - - +
451A THR* 3.1 11.2 + - + +
453A GLU* 1.3 77.2 - - - +
455A LEU* 1.3 63.3 + - + +
457A ARG* 2.9 44.8 + - - +
458A GLU* 2.9 28.6 + - - +
261B GLN* 2.9 43.1 + - + +
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Residues in contact with LEU 455 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
451A THR* 2.9 34.9 + - + +
452A TYR 4.0 0.2 - - - +
454A GLU* 1.3 76.7 - - + +
456A GLN* 1.3 58.6 + - - +
458A GLU* 3.3 13.7 + - - +
459A MET* 2.9 29.8 + - - +
790A ARG* 4.0 23.8 - - - +
794A ILE* 3.8 16.2 - - + +
797A MET* 3.9 30.3 - - + -
798A ILE* 3.7 29.4 - - + -
870A VAL* 4.2 3.1 - - + -
1198A LYS* 6.0 1.6 - - - -
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Residues in contact with GLN 456 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
452A TYR* 2.9 52.9 + - + +
453A GLU* 4.0 8.2 - - - +
455A LEU* 1.3 75.3 - - - +
457A ARG* 1.3 58.3 + - - +
459A MET* 4.0 21.9 - - + +
460A LYS* 2.9 58.4 + - + +
798A ILE* 4.7 10.4 - - + +
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Residues in contact with ARG 457 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
453A GLU 2.9 19.7 + - - +
454A GLU* 2.9 39.0 + - - +
456A GLN* 1.3 77.6 - - - +
458A GLU* 1.3 63.6 + - - +
460A LYS* 3.9 4.0 - - - +
461A LYS* 2.9 43.1 + - + +
261B GLN* 5.1 2.9 + - - +
264B ARG* 3.7 25.3 + - - +
265B LYS* 3.7 33.0 - - - +
267B ALA 5.3 2.4 + - - -
270B PRO* 4.6 12.5 - - - +
485B VAL* 4.8 22.4 - - + +
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Residues in contact with GLU 458 (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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454A GLU 2.9 12.0 + - - +
455A LEU* 3.6 14.8 - - - +
457A ARG* 1.3 84.1 - - - +
459A MET* 1.3 66.9 - - - +
461A LYS* 3.1 7.2 + - - +
462A SER* 2.9 25.5 + - - -
790A ARG* 3.7 29.8 + - - +
794A ILE* 3.2 25.5 - - + +
270B PRO* 4.6 29.9 - - + +
271B SER* 5.7 4.9 + - - -
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Residues in contact with MET 459 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
455A LEU 2.9 15.4 + - - +
456A GLN* 4.0 20.2 - - + +
458A GLU* 1.3 79.8 - - - +
460A LYS* 1.3 80.7 - - + +
462A SER* 3.3 4.4 + - - -
463A LEU* 2.9 40.9 + - + +
592A LEU 4.4 9.2 - - - +
594A LEU* 3.5 43.7 - - + +
791A ALA* 5.8 4.9 - - + +
794A ILE* 4.1 20.6 - - + +
795A ASN* 5.6 3.1 - - - -
798A ILE* 4.5 18.6 - - + -
802A ARG* 5.8 0.2 - - - -
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Residues in contact with LYS 460 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
456A GLN* 2.9 40.6 + - + +
457A ARG* 4.1 4.0 - - - +
459A MET* 1.3 92.1 - - + +
461A LYS* 1.3 56.3 + - - +
463A LEU* 4.2 0.2 - - - +
464A MET* 2.9 38.3 + - - +
586A THR* 5.2 0.8 + - - -
590A SER* 3.6 14.5 + - - +
591A LEU* 3.0 29.6 - - - +
592A LEU* 3.6 37.1 - - + +
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Residues in contact with LYS 461 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
457A ARG* 2.9 32.5 + - + +
458A GLU* 3.1 8.5 + - - +
460A LYS* 1.3 74.5 - - - +
462A SER* 1.3 59.9 + - - +
464A MET* 3.2 24.8 - - + +
465A ASP* 2.9 29.1 + - - +
266B PHE 6.2 0.7 - - - +
267B ALA 4.4 19.7 - - - +
268B MET* 4.8 27.4 - - - +
270B PRO* 6.1 4.0 - - + -
375B HIS* 4.2 25.9 + - - -
376B PRO* 5.5 4.6 - - - +
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Residues in contact with SER 462 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
458A GLU* 2.9 17.2 + - - -
459A MET* 3.7 5.4 - - - -
461A LYS* 1.3 76.5 - - - +
463A LEU* 1.3 63.5 + - - +
465A ASP* 3.1 9.1 + - - +
466A LEU* 2.9 42.9 + - - +
787A SER* 4.5 11.4 + - - -
268B MET 5.4 7.6 + - - -
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Residues in contact with LEU 463 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
459A MET* 2.9 28.7 + - + +
460A LYS 4.2 0.2 - - - +
462A SER* 1.3 83.5 - - - +
464A MET* 1.3 57.8 + - - +
466A LEU* 3.3 8.7 + - + +
467A ALA* 2.9 27.2 + - - +
592A LEU* 3.6 21.3 - - + +
593A SER* 3.7 25.4 - - - +
594A LEU* 3.6 34.5 - - + -
599A THR* 3.8 16.6 - - - +
602A LEU* 4.8 3.1 - - + +
603A MET* 4.6 19.5 - - - -
791A ALA* 5.5 8.3 - - + -
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Residues in contact with MET 464 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
460A LYS* 2.9 27.3 + - - +
461A LYS* 3.2 37.2 - - + +
463A LEU* 1.3 75.1 - - - +
465A ASP* 1.3 60.6 + - - +
467A ALA* 3.6 6.1 - - - +
468A ASN* 2.9 40.5 + - - +
587A PRO 3.7 22.4 - - - +
588A GLY* 4.2 1.3 - - - -
589A PRO* 3.2 43.2 - - + +
590A SER* 5.0 3.4 - - - +
592A LEU* 3.7 7.3 - - + +
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Residues in contact with ASP 465 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
461A LYS 2.9 15.1 + - - +
462A SER* 3.2 11.4 - - - +
464A MET* 1.3 75.5 - - - +
466A LEU* 1.3 72.5 + - - +
468A ASN* 3.0 8.4 + - - +
469A ASP* 2.9 46.0 + - - +
268B MET* 3.8 33.4 - - + +
355B GLN* 4.5 3.7 + - - +
373B LYS* 3.9 13.2 - - - +
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Residues in contact with LEU 466 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
462A SER* 2.9 34.2 + - - +
463A LEU* 3.6 10.5 - - - +
465A ASP* 1.3 86.8 - - - +
467A ALA* 1.3 60.5 + - - +
469A ASP* 4.2 4.6 - - + +
470A ALA* 3.2 27.3 + - + +
602A LEU* 3.6 24.1 - - + +
603A MET* 4.5 23.6 - - + -
783A PRO* 4.2 35.4 - - + +
787A SER* 5.9 2.2 - - - +
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Residues in contact with ALA 467 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
463A LEU 2.9 17.5 + - - +
464A MET* 3.6 10.1 - - - +
465A ASP 3.2 0.2 - - - -
466A LEU* 1.3 76.7 - - - +
468A ASN* 1.3 61.4 + - - +
470A ALA 4.2 0.4 - - - -
471A CYS* 3.7 6.2 + - - +
572A TRP* 3.3 30.1 - - + -
573A TYR* 3.5 11.3 - - + -
576A LEU* 3.9 28.3 - - + -
589A PRO* 4.6 6.5 - - + -
592A LEU* 4.4 1.1 - - + -
602A LEU* 4.0 6.9 - - + +
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Residues in contact with ASN 468 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
464A MET* 2.9 31.2 + - - +
465A ASP* 3.0 8.9 + - - +
467A ALA* 1.3 77.6 - - - +
469A ASP* 1.3 62.0 + - - +
470A ALA 3.2 5.2 + - - -
471A CYS* 3.4 15.3 + - - +
472A GLN* 4.3 4.0 + - - +
573A TYR* 2.4 33.8 + - - -
588A GLY* 5.5 0.2 - - - -
589A PRO* 3.3 16.3 - - - +
373B LYS* 5.2 2.5 - - - +
459B ASP* 3.4 45.6 + - + +
460B THR* 3.9 6.5 - - - +
461B THR* 6.0 0.2 - - - +
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Residues in contact with ASP 469 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
465A ASP* 2.9 27.8 + - - +
466A LEU* 4.6 5.8 - - + +
468A ASN* 1.3 76.7 - - - +
470A ALA* 1.3 58.1 + - - +
471A CYS 3.4 0.4 - - - -
472A GLN* 3.3 34.3 + - - +
473A LEU* 5.7 0.3 - - - +
355B GLN* 3.6 13.5 + - - +
369B ARG* 4.3 8.7 + - - -
371B VAL* 5.8 0.2 - - - +
373B LYS* 3.2 38.7 + - - -
459B ASP 4.3 1.7 - - - +
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Residues in contact with ALA 470 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
466A LEU* 3.2 19.3 + - + +
468A ASN 3.2 0.8 - - - -
469A ASP* 1.3 76.1 - - - +
471A CYS* 1.3 59.3 + - - +
472A GLN 3.2 5.6 - - - -
473A LEU* 3.3 33.1 - - + +
485A LEU* 4.0 22.3 - - + +
490A TRP* 3.8 5.4 - - - -
572A TRP* 4.5 11.2 - - + -
602A LEU* 5.2 6.7 - - + +
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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