Contacts of the helix formed by residues 658 - 693 (chain B) in PDB entry 5MKE
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 PRO 658 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
634A PHE* 3.8 25.1 - - + -
646B PHE* 4.7 4.9 - - + -
649B ILE* 4.6 4.5 - - + +
650B GLU* 3.4 38.1 - - + +
653B ASN 3.2 12.1 - - - +
654B ARG 3.9 11.9 - - - +
655B VAL 3.1 15.5 - - - +
656B LEU 3.9 0.2 - - - +
657B GLY 1.3 83.3 - - - +
659B ILE* 1.3 50.0 + - - +
660B TYR 3.2 0.4 - - - -
661B PHE* 3.0 14.4 + - + +
662B THR* 2.7 38.3 + - - -
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Residues in contact with ILE 659 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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634A PHE* 4.7 2.5 - - - -
1007A PX6 4.7 32.1 - - + -
1008A PLM 3.8 19.5 - - + -
1009A PLM 4.8 30.7 - - + -
655B VAL* 3.5 23.0 + - + +
656B LEU* 5.4 2.9 - - + -
657B GLY* 2.4 22.0 + - - +
658B PRO* 1.3 71.8 - - - +
660B TYR* 1.3 51.7 + - + +
662B THR* 2.9 10.8 + - + -
663B THR* 2.4 52.3 + - + +
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Residues in contact with TYR 660 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1008A PLM 4.3 6.9 - - + +
611B TYR* 3.3 51.2 - + + +
612B ALA* 4.9 0.7 + - - -
614B LEU* 4.6 13.2 - - + -
615B ALA* 3.9 15.5 - - + +
618B VAL* 6.2 0.9 - - + -
619B PHE* 3.3 39.9 - + + -
626B PHE* 4.5 14.6 - + - -
636B GLN* 5.1 8.0 - - - +
639B ILE* 5.3 8.1 - - + +
649B ILE* 5.2 5.8 - - + -
657B GLY* 2.2 30.5 + - - +
659B ILE* 1.3 70.8 - - + +
661B PHE* 1.3 77.9 + - + +
663B THR* 2.3 32.8 + - - -
664B PHE* 2.8 23.2 + + + +
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Residues in contact with PHE 661 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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634A PHE* 4.3 16.4 - + + -
637A PHE* 4.7 15.7 - + + -
638A ARG* 5.1 11.4 - - + -
641A LEU* 5.0 5.8 - - + -
639B ILE* 4.5 23.6 - - + -
644B ILE* 3.6 26.0 - - + -
646B PHE* 3.2 44.6 - + + -
649B ILE* 4.5 9.6 - - + -
657B GLY 3.7 0.2 + - - -
658B PRO* 3.0 15.8 + - + +
660B TYR* 1.3 88.7 - + + +
662B THR* 1.3 67.4 + - - +
664B PHE* 4.1 4.8 - + - +
665B VAL* 2.9 45.3 + - + +
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Residues in contact with THR 662 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
634A PHE* 3.2 25.8 - - - -
637A PHE* 4.0 27.0 - - + -
1009A PLM 3.6 39.6 - - + +
658B PRO 2.7 18.5 + - - -
659B ILE* 2.9 12.2 + - - -
661B PHE* 1.3 74.4 - - - +
663B THR* 1.3 52.9 + - - +
665B VAL* 3.4 6.9 - - - +
666B PHE* 2.5 40.4 + - + +
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Residues in contact with THR 663 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1008A PLM 3.6 34.6 - - + +
1009A PLM 5.4 5.6 - - + -
611B TYR* 3.7 10.2 - - - -
659B ILE* 2.4 30.0 + - + +
660B TYR* 2.3 33.1 + - - -
662B THR* 1.3 72.8 - - + +
664B PHE* 1.3 53.2 + - - -
666B PHE* 3.2 2.0 - - - +
667B PHE* 2.3 69.5 + - + -
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Residues in contact with PHE 664 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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604B PHE* 5.8 0.7 - + - -
608B PHE* 4.8 7.9 - + - -
611B TYR* 4.1 28.2 - + + -
636B GLN* 3.7 44.0 - - + -
639B ILE* 4.2 31.2 - - + -
640B ILE* 4.5 15.3 - - + -
660B TYR* 2.8 32.7 + + + +
661B PHE* 4.1 4.5 - + - +
663B THR* 1.3 78.2 + - - +
665B VAL* 1.3 80.2 + - + +
667B PHE 2.9 0.9 + - - +
668B MET* 2.8 56.6 + - + +
669B PHE* 3.4 5.2 + - + -
672B LEU* 5.5 1.1 - - + -
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Residues in contact with VAL 665 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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637A PHE* 4.4 23.1 - - + +
640A ILE* 6.6 0.4 - - + -
641A LEU* 3.8 31.4 - - + -
639B ILE* 5.2 2.7 - - + -
640B ILE* 6.1 1.3 - - - -
661B PHE* 2.9 46.8 + - + +
662B THR* 3.4 7.6 - - - +
664B PHE* 1.3 88.5 - - + +
666B PHE* 1.3 62.0 + - - +
669B PHE* 2.8 48.1 - - + +
670B PHE* 4.3 1.0 - - - -
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Residues in contact with PHE 666 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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597A LEU* 4.4 30.7 - - + -
601A ALA* 5.7 1.1 - - + -
604A PHE* 5.9 0.7 - + - -
605A PHE* 4.3 16.4 - + - -
637A PHE* 5.1 12.1 - + + -
676A PHE* 5.9 0.4 - + - -
1009A PLM 3.4 45.3 - - + -
662B THR* 2.5 30.5 + - + +
663B THR* 2.9 4.7 + - - +
665B VAL* 1.3 73.6 - - - +
667B PHE* 1.3 91.2 + + - +
670B PHE* 2.6 78.2 + + + +
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Residues in contact with PHE 667 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
597A LEU* 6.2 2.5 - - + -
1008A PLM 3.9 44.0 - - + -
1009A PLM 4.9 12.6 - - + -
611B TYR* 3.8 19.3 - - + +
663B THR* 2.3 68.8 + - + +
664B PHE 2.9 1.0 + - - +
666B PHE* 1.3 93.2 - + - +
668B MET* 1.3 54.1 + - - +
670B PHE* 3.4 0.7 - - - +
671B ILE* 2.3 48.0 + - + +
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Residues in contact with MET 668 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
604B PHE* 5.1 7.6 - - + -
607B ILE* 6.1 4.7 - - + -
611B TYR* 5.6 3.3 - - + -
664B PHE* 2.8 45.6 + - + +
667B PHE* 1.3 73.1 - - - +
669B PHE* 1.3 56.9 + - - +
671B ILE* 2.6 18.4 + - - -
672B LEU* 2.3 51.4 + - + +
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Residues in contact with PHE 669 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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640A ILE* 4.2 29.4 - - + -
641A LEU* 5.9 6.7 - - + -
672A LEU* 5.5 2.7 - - + -
673A LEU* 6.3 1.8 - - + -
640B ILE* 4.2 31.4 - - + -
664B PHE* 3.4 4.2 + - + -
665B VAL* 2.8 35.2 - - + +
667B PHE 3.3 0.4 - - - -
668B MET* 1.3 79.0 - - - +
670B PHE* 1.3 88.7 + + - +
672B LEU* 3.4 10.5 - - + -
673B LEU* 2.9 42.6 - - + +
669C PHE* 6.6 0.4 - + - -
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Residues in contact with PHE 670 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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597A LEU* 5.9 4.3 - - + -
604A PHE* 5.0 17.0 - + - -
637A PHE* 5.5 8.3 - + - -
640A ILE* 5.0 6.5 - - + -
672A LEU* 5.0 1.8 - - + -
676A PHE* 3.2 55.8 - + + +
677A LEU* 4.3 0.3 - - - +
680A ILE* 3.2 23.2 - - + +
665B VAL 4.4 2.5 - - - -
666B PHE* 2.6 68.0 + + + +
667B PHE* 3.8 0.9 - - - +
669B PHE* 1.3 109.5 - + - +
671B ILE* 1.3 62.0 + - - +
672B LEU 3.3 0.4 + - - -
673B LEU* 3.8 11.4 + - + +
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Residues in contact with ILE 671 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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590A MET* 3.5 33.2 - - + -
597A LEU* 6.0 6.7 - - + -
680A ILE* 4.6 12.9 - - + +
1008A PLM 4.7 13.5 - - - +
603B MET* 5.3 6.5 - - + -
604B PHE* 6.3 1.8 - - + -
607B ILE* 6.0 6.3 - - + -
667B PHE* 2.3 43.7 + - + +
668B MET* 2.6 13.8 + - - +
670B PHE* 1.3 68.5 - - - +
672B LEU* 1.3 68.3 + - + +
673B LEU 3.4 0.3 + - - -
674B ASN 4.5 0.7 + - - -
675B MET* 3.6 22.1 + - + +
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Residues in contact with LEU 672 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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604B PHE* 4.4 21.5 - - + -
640B ILE* 3.3 36.6 - - + -
664B PHE* 5.5 1.1 - - + -
668B MET* 2.3 58.2 + - + +
669B PHE* 3.4 7.6 - - + +
671B ILE* 1.3 71.4 - - + +
673B LEU* 1.3 92.2 + - + +
674B ASN 3.6 0.2 - - - -
675B MET* 3.9 2.6 + - - +
676B PHE* 3.1 53.4 + - + -
669C PHE* 5.5 3.1 - - + -
670C PHE* 4.9 0.9 - - + -
673C LEU* 6.4 0.4 - - + -
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Residues in contact with LEU 673 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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672A LEU* 6.3 0.4 - - + -
673A LEU* 5.0 3.8 - - + +
676A PHE* 4.3 15.3 - - + -
677A LEU* 3.3 37.9 - - + -
669B PHE* 2.9 49.8 - - + +
670B PHE* 4.0 6.1 - - + +
671B ILE 3.3 1.6 - - - -
672B LEU* 1.3 100.2 - - + +
674B ASN* 1.3 64.2 + - - +
676B PHE* 3.2 20.6 - - - +
677B LEU* 3.2 15.3 - - + +
669C PHE* 6.3 2.7 - - + -
673C LEU* 5.8 3.4 - - + -
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Residues in contact with ASN 674 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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674A ASN* 4.9 0.4 + - - -
677A LEU* 2.4 57.4 + - + +
680A ILE* 3.4 18.1 - - + +
681A ASN* 3.1 18.0 + - - +
672B LEU 3.6 0.2 - - - -
673B LEU* 1.3 74.7 - - - +
675B MET* 1.3 57.9 + - - +
676B PHE 2.9 4.9 - - - -
677B LEU* 2.4 35.2 + - - +
678B ALA* 2.4 58.2 + - - +
674C ASN* 4.9 0.3 + - - -
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Residues in contact with MET 675 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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590A MET* 4.2 34.1 - - + +
680A ILE* 3.5 26.9 - - + +
684A TYR* 3.7 45.3 - - + -
600B PHE* 5.1 18.1 - - + +
603B MET* 6.0 2.7 - - - +
671B ILE* 3.6 21.0 + - + +
672B LEU* 4.2 4.9 - - - +
673B LEU 3.4 0.2 - - - -
674B ASN* 1.3 76.0 - - - +
676B PHE* 1.3 61.2 + - + +
678B ALA* 4.9 0.4 - - + -
679B ILE* 3.0 34.1 - - + +
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Residues in contact with PHE 676 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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597B LEU* 5.4 14.4 - - + -
604B PHE* 5.0 13.7 - + + -
672B LEU* 3.1 44.6 - - + -
673B LEU* 3.2 10.5 + - - +
674B ASN 2.9 4.2 - - - -
675B MET* 1.3 81.0 - - + +
677B LEU* 1.3 62.9 + - + +
679B ILE* 3.2 6.8 + - - +
680B ILE* 2.8 42.1 + - + +
666C PHE* 5.7 1.1 - + - -
670C PHE* 3.2 66.6 - + + +
673C LEU* 4.4 8.5 - - + -
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Residues in contact with LEU 677 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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677A LEU* 5.3 7.0 - - + -
673B LEU* 3.2 27.1 - - + +
674B ASN* 2.4 26.1 + - + +
676B PHE* 1.3 70.9 - - + +
678B ALA* 1.3 53.0 - - - +
680B ILE* 2.9 20.8 + - + +
681B ASN 2.2 36.6 + - - -
673C LEU* 3.4 49.6 - - + -
674C ASN* 2.5 26.1 + - + +
677C LEU* 5.4 7.2 - - + -
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Residues in contact with ALA 678 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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681A ASN* 3.9 21.3 - - - +
684A TYR* 3.7 24.9 - - + -
674B ASN* 2.4 42.7 + - - +
675B MET* 4.9 2.2 - - + -
677B LEU* 1.3 67.0 - - - +
679B ILE* 1.3 50.2 + - + +
681B ASN* 2.7 12.2 + - - -
682B ASP* 2.3 44.8 + - + +
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Residues in contact with ILE 679 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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684A TYR* 3.1 28.0 - - + +
593B CYS 4.8 7.4 - - - +
594B ALA* 5.4 4.2 - - - -
596B ASP* 3.0 51.8 - - + +
597B LEU* 4.6 8.7 - - + +
600B PHE* 4.7 13.5 - - + -
675B MET* 3.0 26.7 - - - +
676B PHE 3.2 7.0 + - - +
678B ALA* 1.3 74.8 - - - +
680B ILE* 1.3 58.0 + - + +
682B ASP* 2.6 22.1 - - - +
683B THR* 3.0 18.0 + - + +
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Residues in contact with ILE 680 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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590B MET* 6.5 0.2 - - + -
676B PHE* 2.8 21.7 + - + +
677B LEU* 3.1 27.1 - - + +
679B ILE* 1.3 79.8 - - + +
681B ASN* 1.3 62.5 + - - +
683B THR* 4.0 0.7 + - - -
684B TYR* 3.0 22.9 + - - +
670C PHE* 3.2 27.8 - - + +
671C ILE* 4.6 14.1 - - + +
674C ASN* 3.5 20.9 - - + +
675C MET* 3.5 30.6 - - + +
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Residues in contact with ASN 681 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
681A ASN* 3.5 22.5 - - - +
677B LEU 2.2 23.4 + - - +
678B ALA* 2.7 9.7 + - - +
680B ILE* 1.3 66.0 - - - +
682B ASP* 1.3 56.1 + - - +
684B TYR* 2.9 4.0 + - - +
685B SER* 2.4 53.7 + - - -
674C ASN* 3.0 25.2 + - - +
678C ALA* 3.9 18.7 - - - +
681C ASN* 3.5 25.8 - - - +
682C ASP* 5.6 1.2 - - - +
674D ASN* 5.9 0.2 - - - +
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Residues in contact with ASP 682 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
681A ASN* 5.5 1.3 - - - +
684A TYR* 3.6 24.0 + - + -
685A SER* 5.0 18.4 - - - -
688A LYS* 5.4 11.6 - - + +
678B ALA* 2.3 30.8 + - + +
679B ILE* 2.6 27.5 - - - +
681B ASN* 1.3 67.0 - - - +
683B THR* 1.3 83.1 + - - +
685B SER* 2.4 15.6 + - - -
686B GLU* 2.3 38.5 + - - +
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Residues in contact with THR 683 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
688A LYS* 5.3 11.2 - - - +
593B CYS* 3.2 46.7 + - + +
596B ASP* 6.4 0.4 - - + -
679B ILE* 3.0 19.7 + - + +
680B ILE 4.0 1.4 + - - -
682B ASP* 1.3 101.7 + - - +
684B TYR* 1.3 50.7 + - - +
686B GLU* 2.8 21.5 - - + +
687B VAL* 2.4 36.9 + - - +
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Residues in contact with TYR 684 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
586B LEU* 5.8 5.7 - - + +
593B CYS* 4.9 1.1 - - - -
680B ILE 3.0 19.7 + - - +
681B ASN 2.9 2.2 + - - +
683B THR* 1.3 77.9 + - - +
685B SER* 1.3 61.8 + - - +
686B GLU 2.9 1.3 - - - -
687B VAL* 2.6 62.1 + - + +
688B LYS* 3.1 4.8 + - + +
691B LEU* 5.9 1.5 - - + +
596C ASP* 2.5 29.6 + - - -
600C PHE* 5.0 13.6 - + - -
675C MET* 3.7 20.6 - - + -
678C ALA* 3.6 18.4 - - + -
679C ILE* 3.0 28.5 - - + +
682C ASP* 3.6 20.5 + - - -
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Residues in contact with SER 685 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
681B ASN* 2.4 38.8 + - - -
682B ASP* 2.4 33.6 + - - -
684B TYR* 1.3 73.8 - - - +
686B GLU* 1.3 57.9 + - - +
688B LYS* 3.5 19.2 + - - +
689B SER* 3.9 4.9 + - - -
682C ASP* 5.1 14.4 - - - -
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Residues in contact with GLU 686 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
688A LYS* 5.0 13.2 - - - +
589B THR* 6.0 0.3 - - - -
593B CYS* 5.1 4.0 - - - +
682B ASP 2.3 27.6 + - - +
683B THR* 2.8 31.2 - - - +
685B SER* 1.3 67.0 + - - +
687B VAL* 1.3 56.2 + - - +
688B LYS 3.1 2.0 - - - -
689B SER* 2.8 14.3 + - - +
690B ASP* 2.6 62.0 + - - +
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Residues in contact with VAL 687 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
586B LEU* 4.5 13.7 - - + +
589B THR* 3.3 31.9 - - + +
590B MET* 5.4 1.3 - - - +
593B CYS* 4.7 5.6 - - - -
683B THR 2.4 36.1 + - - +
684B TYR* 2.6 51.1 + - + +
686B GLU* 1.3 74.2 - - - +
688B LYS* 1.3 51.2 + - - +
690B ASP* 3.1 10.5 - - + +
691B LEU* 2.2 50.3 + - + +
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Residues in contact with LYS 688 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
684B TYR* 3.1 8.5 + - + +
685B SER* 3.5 14.1 - - - +
686B GLU 3.1 0.6 - - - -
687B VAL* 1.3 74.4 - - + +
689B SER* 1.3 56.1 + - - +
691B LEU* 3.0 33.0 + - + +
692B ALA* 2.4 40.8 + - + +
695B LYS* 5.4 4.0 - - - +
682C ASP* 5.3 12.6 - - + +
683C THR* 5.2 11.5 - - + +
686C GLU* 4.9 17.4 - - - +
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Residues in contact with SER 689 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
685B SER 3.9 3.4 + - - -
686B GLU* 2.8 29.6 + - - +
688B LYS* 1.3 79.4 - - - +
690B ASP* 1.3 51.4 + - - +
692B ALA* 3.3 11.4 - - - +
693B GLN* 2.7 36.5 + - - +
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Residues in contact with ASP 690 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
586B LEU* 5.7 2.1 - - - +
589B THR* 3.9 23.6 - - - +
686B GLU* 2.6 44.0 + - - +
687B VAL* 3.1 9.4 - - - +
689B SER* 1.3 73.7 + - - +
691B LEU* 1.3 56.9 + - - +
693B GLN* 2.3 49.3 + - - +
694B GLN* 4.4 3.1 + - - +
----------------------------------------------------------
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Residues in contact with LEU 691 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
582B THR* 6.2 3.6 - - + -
586B LEU* 3.5 45.8 - - + -
684B TYR* 5.9 2.0 - - + +
687B VAL* 2.2 35.8 + - + +
688B LYS* 3.1 41.1 - - + +
690B ASP* 1.3 68.9 - - - +
692B ALA* 1.3 60.3 + - - +
693B GLN 3.3 0.7 - - - -
694B GLN* 3.1 34.3 - - - +
695B LYS* 3.2 35.3 - - - +
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Residues in contact with ALA 692 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
688B LYS* 2.4 33.4 + - + +
689B SER* 2.9 14.8 + - - +
691B LEU* 1.3 71.4 - - + +
693B GLN* 1.3 54.9 + - - +
694B GLN 3.2 2.7 - - - -
695B LYS* 3.0 42.3 + - + +
----------------------------------------------------------
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Residues in contact with GLN 693 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
689B SER 2.7 14.7 + - - +
690B ASP* 2.3 48.6 + - - +
692B ALA* 1.3 72.8 - - - +
694B GLN* 1.3 57.6 + - - +
695B LYS 3.4 0.9 - - - -
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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