Contacts of the helix formed by residues 658 - 693 (chain D) 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 D).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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634C PHE* 3.8 29.1 - - + -
646D PHE* 4.7 4.0 - - + -
649D ILE* 4.6 3.8 - - + +
650D GLU* 3.4 38.1 - - + +
653D ASN 3.2 11.7 - - - +
654D ARG 3.9 12.3 - - - +
655D VAL 3.1 15.5 - - - +
656D LEU 3.3 0.2 - - - -
657D GLY 1.3 84.5 - - - +
659D ILE* 1.3 49.1 + - - +
660D TYR 3.2 0.7 - - - -
661D PHE* 3.0 14.3 + - + +
662D THR* 2.7 36.6 + - - -
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Residues in contact with ILE 659 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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634C PHE* 4.6 3.1 - - - -
1007C PX6 4.7 31.4 - - + -
1008C PLM 3.9 18.2 - - + -
1009C PLM 4.7 32.3 - - + -
655D VAL* 3.5 23.4 + - + +
656D LEU* 5.7 2.5 - - + -
657D GLY* 2.4 21.6 + - - +
658D PRO* 1.3 71.0 - - - +
660D TYR* 1.3 53.3 + - + +
662D THR* 2.9 10.0 + - - -
663D THR* 2.4 51.9 + - + +
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Residues in contact with TYR 660 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1008C PLM 4.4 8.3 - - + +
611D TYR* 3.3 52.1 - + + +
612D ALA* 4.9 0.5 + - - -
614D LEU* 4.6 13.0 - - + -
615D ALA* 3.9 16.1 - - + +
618D VAL* 6.5 0.4 - - + -
619D PHE* 3.3 38.4 - + + -
626D PHE* 4.5 14.0 - + - -
636D GLN* 5.1 7.8 - - - +
639D ILE* 5.3 7.6 - - + +
649D ILE* 5.2 6.3 - - + -
657D GLY* 2.2 30.9 + - - +
659D ILE* 1.3 69.7 - - + +
661D PHE* 1.3 78.9 + - + +
663D THR* 2.3 31.3 + - - -
664D PHE* 2.8 23.1 + + + +
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Residues in contact with PHE 661 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
634C PHE* 4.4 15.5 - + + -
637C PHE* 4.6 16.6 - - + -
638C ARG* 5.0 11.9 - - + -
641C LEU* 4.9 6.3 - - + -
639D ILE* 4.5 23.6 - - + -
644D ILE* 3.6 26.0 - - + -
646D PHE* 3.2 44.9 - + + -
649D ILE* 4.5 8.7 - - + -
658D PRO* 3.0 15.9 + - + +
660D TYR* 1.3 89.8 - + + +
662D THR* 1.3 68.8 + - - +
664D PHE* 4.1 3.5 - + - +
665D VAL* 2.9 44.4 + - + +
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Residues in contact with THR 662 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
634C PHE* 3.2 33.1 - - - -
637C PHE* 3.9 28.2 - - + -
1009C PLM 3.6 39.0 - - + +
658D PRO 2.7 10.8 + - - -
659D ILE* 2.9 12.2 + - - -
661D PHE* 1.3 75.4 - - - +
663D THR* 1.3 53.4 + - - +
665D VAL* 3.4 6.2 - - - +
666D PHE* 2.5 39.9 + - + +
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Residues in contact with THR 663 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1008C PLM 3.6 34.6 - - + +
1009C PLM 5.3 6.5 - - + -
611D TYR* 3.7 10.0 - - - -
659D ILE* 2.4 30.1 + - + +
660D TYR* 2.3 33.7 + - - -
662D THR* 1.3 72.4 - - - +
664D PHE* 1.3 53.9 + - - -
666D PHE* 3.1 2.1 - - - +
667D PHE* 2.3 68.8 + - + -
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Residues in contact with PHE 664 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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604D PHE* 5.8 0.4 - + - -
608D PHE* 4.8 8.5 - + - -
611D TYR* 4.1 28.9 - + + -
636D GLN* 3.7 42.0 - - + -
639D ILE* 4.2 31.0 - - + -
640D ILE* 4.5 15.0 - - + -
660D TYR* 2.8 33.2 + + + +
661D PHE* 4.1 4.3 - + - +
663D THR* 1.3 77.9 + - - +
665D VAL* 1.3 81.0 + - + +
667D PHE 2.9 0.5 + - - -
668D MET* 2.8 57.6 + - + +
669D PHE* 3.4 4.5 + - + -
672D LEU* 5.5 1.6 - - + -
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Residues in contact with VAL 665 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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637C PHE* 4.4 22.2 - - + +
640C ILE* 6.5 0.9 - - + -
641C LEU* 3.7 32.1 - - + -
639D ILE* 5.2 2.0 - - + -
640D ILE* 6.1 1.3 - - - -
661D PHE* 2.9 45.9 + - + +
662D THR* 3.4 8.3 - - - +
664D PHE* 1.3 87.9 - - + +
666D PHE* 1.3 62.2 + - - +
669D PHE* 2.8 49.1 - - + +
670D PHE* 4.3 1.4 - - - -
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Residues in contact with PHE 666 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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597C LEU* 4.4 29.6 - - + -
601C ALA* 5.7 1.6 - - + -
604C PHE* 5.8 1.3 - + - -
605C PHE* 4.3 15.9 - + - -
637C PHE* 5.1 13.0 - + + -
676C PHE* 5.8 0.9 - + - -
1009C PLM 3.4 44.9 - - + -
662D THR* 2.5 31.1 + - + +
663D THR* 3.2 4.0 - - - +
665D VAL* 1.3 75.3 - - - +
667D PHE* 1.3 91.3 + + - +
670D PHE* 2.6 76.9 + + + +
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Residues in contact with PHE 667 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
597C LEU* 6.2 2.7 - - + -
1008C PLM 4.1 42.4 - - + -
1009C PLM 4.8 13.2 - - + -
611D TYR* 3.8 18.6 - - + +
663D THR* 2.3 69.4 + - + +
664D PHE* 2.9 0.8 + - - +
666D PHE* 1.3 96.1 - + + +
668D MET* 1.3 53.7 + - - +
670D PHE* 3.8 0.3 - - - +
671D ILE* 2.3 49.1 + - + +
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Residues in contact with MET 668 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
604D PHE* 5.1 7.6 - - + -
607D ILE* 6.1 5.2 - - + -
611D TYR* 5.6 4.2 - - + -
664D PHE* 2.8 46.7 + - + +
667D PHE* 1.3 72.5 - - - +
669D PHE* 1.3 55.3 + - - +
671D ILE* 2.6 18.7 + - - +
672D LEU* 2.3 51.9 + - + +
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Residues in contact with PHE 669 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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669A PHE* 6.5 0.7 - + - -
640C ILE* 4.2 29.6 - - + -
641C LEU* 5.9 6.5 - - + -
669C PHE* 6.6 0.2 - + - -
672C LEU* 5.5 2.7 - - + -
673C LEU* 6.3 2.0 - - + -
640D ILE* 4.2 31.2 - - + -
664D PHE* 3.4 3.9 + - + -
665D VAL* 2.8 37.0 - - + +
667D PHE 3.3 0.6 - - - -
668D MET* 1.3 77.5 - - - +
670D PHE* 1.3 88.6 + + - +
672D LEU* 3.4 10.3 - - + -
673D LEU* 2.9 42.8 - - + +
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Residues in contact with PHE 670 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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597C LEU* 6.0 3.8 - - + -
604C PHE* 5.0 16.4 - + - -
637C PHE* 5.6 7.6 - + - -
640C ILE* 5.1 7.2 - - + -
672C LEU* 4.9 1.3 - - + -
676C PHE* 3.2 57.0 - + + -
677C LEU* 4.3 0.2 - - - +
680C ILE* 3.2 23.0 - - + +
665D VAL 4.4 2.7 - - - -
666D PHE* 2.6 66.8 + + + +
667D PHE* 3.8 1.1 - - - +
669D PHE* 1.3 111.2 - + - +
671D ILE* 1.3 61.5 + - - +
672D LEU 3.3 0.8 + - - -
673D LEU* 3.8 11.0 + - + +
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Residues in contact with ILE 671 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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590C MET* 3.5 32.5 - - + -
597C LEU* 6.0 6.3 - - + -
680C ILE* 4.7 12.7 - - + +
1008C PLM 4.8 13.7 - - - +
603D MET* 5.3 6.3 - - + -
604D PHE* 6.2 2.2 - - + -
607D ILE* 6.0 6.1 - - + -
667D PHE* 2.3 43.2 + - + +
668D MET* 2.6 14.9 + - - +
670D PHE* 1.3 69.1 - - - +
672D LEU* 1.3 66.7 + - + +
673D LEU 3.4 0.5 + - - -
674D ASN 4.5 0.7 + - - -
675D MET* 3.6 22.1 + - + +
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Residues in contact with LEU 672 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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669A PHE* 5.4 2.5 - - + -
670A PHE* 4.8 1.3 - - + -
673A LEU* 6.3 0.9 - - + -
604D PHE* 4.4 20.9 - - + -
640D ILE* 3.3 36.3 - - + -
664D PHE* 5.5 1.1 - - + -
668D MET* 2.3 59.1 + - + +
669D PHE* 3.4 8.1 - - - +
671D ILE* 1.3 71.5 - - + +
673D LEU* 1.3 91.6 + - + +
675D MET* 3.9 2.8 + - - +
676D PHE* 3.1 53.6 + - + -
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Residues in contact with LEU 673 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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669A PHE* 6.3 2.7 - - + -
673A LEU* 5.8 4.5 - - + -
672C LEU* 6.3 0.4 - - + -
673C LEU* 5.7 3.6 - - + -
676C PHE* 4.3 12.1 - - + -
677C LEU* 3.4 39.0 - - + -
640D ILE* 5.8 0.2 - - + -
669D PHE* 2.9 47.6 - - + +
670D PHE* 4.0 9.0 - - + +
671D ILE 3.3 2.2 - - - -
672D LEU* 1.3 99.9 - - + +
674D ASN* 1.3 63.9 + - - +
676D PHE* 3.2 20.3 - - - +
677D LEU* 3.2 15.7 - - + +
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Residues in contact with ASN 674 (chain D).
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 0.3 + - - -
674C ASN* 4.9 0.2 + - - -
677C LEU* 2.5 53.8 + - + +
680C ILE* 3.5 19.6 - - + +
681C ASN* 3.1 18.8 + - - +
673D LEU* 1.3 74.1 - - - +
675D MET* 1.3 56.2 + - - +
676D PHE 2.9 4.9 - - - -
677D LEU* 2.4 34.7 + - - +
678D ALA* 2.4 58.9 + - - +
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Residues in contact with MET 675 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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590C MET* 4.3 33.2 - - + +
680C ILE* 3.5 27.0 - - + +
684C TYR* 3.8 43.7 - - + -
600D PHE* 5.1 18.4 - - + +
603D MET* 6.0 2.0 - - - +
671D ILE* 3.6 21.7 + - + +
672D LEU* 4.2 4.0 - - - +
674D ASN* 1.3 76.7 - - - +
676D PHE* 1.3 60.9 + - + +
678D ALA* 4.9 0.9 - - + -
679D ILE* 3.0 34.9 - - + +
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Residues in contact with PHE 676 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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666A PHE* 5.7 1.6 - + - -
670A PHE* 3.2 65.7 - + + +
673A LEU* 4.4 8.7 - - + -
597D LEU* 5.4 13.9 - - + -
604D PHE* 5.0 13.9 - + + -
672D LEU* 3.1 44.4 - - + -
673D LEU* 3.2 9.6 + - - +
674D ASN 2.9 3.8 - - - -
675D MET* 1.3 79.8 - - + +
677D LEU* 1.3 62.3 + - + +
679D ILE* 3.2 6.8 + - - +
680D ILE* 2.8 42.0 + - + +
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Residues in contact with LEU 677 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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673A LEU* 3.4 48.0 - - + -
674A ASN* 2.5 28.0 + - + +
677A LEU* 5.3 7.4 - - + -
677C LEU* 5.3 7.4 - - + -
673D LEU* 3.2 28.0 - - + +
674D ASN* 2.4 25.4 + - + +
676D PHE* 1.3 71.1 - - + +
678D ALA* 1.3 51.9 + - - +
680D ILE* 2.9 20.7 + - + -
681D ASN 2.2 35.9 + - - -
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Residues in contact with ALA 678 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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681C ASN* 4.0 21.5 - - - +
684C TYR* 3.7 25.6 - - + -
674D ASN* 2.4 42.7 + - - +
675D MET* 4.9 2.2 - - + -
677D LEU* 1.3 66.6 - - - +
679D ILE* 1.3 49.9 + - + +
681D ASN* 2.7 11.8 + - - -
682D ASP* 2.3 45.2 + - + +
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Residues in contact with ILE 679 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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684C TYR* 3.1 28.9 - - + +
593D CYS 4.8 7.2 - - - +
594D ALA* 5.4 3.7 - - - -
596D ASP* 3.0 50.9 - - + +
597D LEU* 4.6 9.2 - - + +
600D PHE* 4.7 12.8 - - + -
675D MET* 3.0 26.2 - - + +
676D PHE 3.2 7.0 + - - +
678D ALA* 1.3 74.3 - - - +
680D ILE* 1.3 58.3 + - + +
682D ASP* 2.6 22.3 - - - +
683D THR* 3.0 18.5 + - + +
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Residues in contact with ILE 680 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
670A PHE 3.2 27.1 - - - +
671A ILE* 4.6 14.6 - - + +
674A ASN* 3.5 16.8 - - + +
675A MET* 3.5 32.3 - - + +
676D PHE* 2.8 22.5 + - + +
677D LEU* 3.1 27.6 - - + +
679D ILE* 1.3 79.1 - - - +
681D ASN* 1.3 63.8 + - - +
683D THR* 4.0 0.7 + - - -
684D TYR* 3.0 23.4 + - - +
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Residues in contact with ASN 681 (chain D).
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* 3.1 16.5 + - - +
678A ALA* 3.9 20.3 - - - +
681A ASN* 3.6 24.7 - - - +
682A ASP* 5.6 2.1 - - - +
681C ASN* 3.6 21.2 - - - +
677D LEU 2.2 30.3 + - - +
678D ALA* 2.7 10.1 + - - +
680D ILE* 1.3 65.8 - - - +
682D ASP* 1.3 54.8 + - - +
684D TYR* 2.9 4.0 + - - +
685D SER* 2.4 53.7 + - - -
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Residues in contact with ASP 682 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
681C ASN* 5.6 1.1 - - - +
684C TYR* 3.7 23.6 + - + -
685C SER* 5.1 17.0 - - - -
688C LYS* 5.5 11.5 - - + +
678D ALA* 2.3 31.4 + - + +
679D ILE* 2.6 28.3 - - - +
681D ASN* 1.3 66.8 - - - +
683D THR* 1.3 82.3 + - - +
685D SER* 2.4 16.0 + - - -
686D GLU* 2.3 39.0 + - - +
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Residues in contact with THR 683 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
688C LYS* 5.3 10.3 - - - +
593D CYS* 3.2 45.1 + - + +
596D ASP* 6.4 0.2 - - + -
679D ILE* 3.0 20.0 + - + +
680D ILE* 4.0 1.2 + - - -
682D ASP* 1.3 102.8 + - - +
684D TYR* 1.3 53.1 + - - +
686D GLU* 2.8 22.1 + - + +
687D VAL* 2.4 36.4 + - - +
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Residues in contact with TYR 684 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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596A ASP* 2.5 29.3 + - - -
600A PHE* 5.0 14.1 - + - -
675A MET* 3.8 20.4 - - + -
678A ALA* 3.7 17.9 - - + -
679A ILE* 3.1 27.5 - - + +
682A ASP* 3.7 20.2 + - - -
586D LEU* 5.8 6.6 - - + +
593D CYS* 4.9 1.1 - - - -
680D ILE 3.0 19.6 + - - +
681D ASN 2.9 2.2 + - - +
683D THR* 1.3 77.9 + - - +
685D SER* 1.3 61.4 + - - +
686D GLU 2.9 0.9 - - - -
687D VAL* 2.6 61.2 + - + +
688D LYS* 3.1 5.2 + - + +
691D LEU* 5.9 2.0 - - + +
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Residues in contact with SER 685 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
682A ASP* 5.1 14.4 - - - -
681D ASN* 2.4 38.8 + - - -
682D ASP* 2.4 33.8 + - - -
684D TYR* 1.3 75.0 - - - +
686D GLU* 1.3 57.4 + - - +
688D LYS* 3.5 18.8 + - - +
689D SER* 3.9 5.4 + - - -
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Residues in contact with GLU 686 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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688C LYS* 5.0 14.1 - - - +
589D THR* 6.0 0.3 - - - -
593D CYS* 5.1 4.5 - - - +
682D ASP 2.3 27.1 + - - +
683D THR* 2.8 31.2 - - - +
685D SER* 1.3 67.1 - - - +
687D VAL* 1.3 57.3 + - - +
688D LYS 3.1 2.5 - - - -
689D SER* 2.8 13.5 + - - +
690D ASP* 2.6 62.8 + - - +
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Residues in contact with VAL 687 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
586D LEU* 4.4 13.0 - - + +
589D THR* 3.3 31.2 - - + +
590D MET* 5.4 1.3 - - - +
593D CYS* 4.7 5.8 - - - -
683D THR 2.4 35.5 + - - +
684D TYR* 2.6 53.3 + - + +
686D GLU* 1.3 72.8 - - - +
688D LYS* 1.3 52.2 + - + +
690D ASP* 3.5 11.4 - - + +
691D LEU* 2.2 50.3 + - + +
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Residues in contact with LYS 688 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
682A ASP* 5.4 11.2 - - + +
683A THR* 5.3 10.1 - - - +
686A GLU* 5.0 15.4 - - - +
684D TYR* 3.1 9.0 + - + +
685D SER* 3.5 13.9 - - - +
686D GLU 3.1 0.8 - - - -
687D VAL* 1.3 75.2 - - + +
689D SER* 1.3 55.7 + - - +
691D LEU* 3.0 33.5 + - + +
692D ALA* 2.4 41.4 + - + +
695D LYS* 5.4 4.0 - - - +
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Residues in contact with SER 689 (chain D).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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685D SER 3.9 3.5 + - - -
686D GLU* 2.8 30.5 + - - +
688D LYS* 1.3 79.6 - - - +
690D ASP* 1.3 52.1 + - - +
692D ALA* 3.3 10.6 - - - +
693D GLN* 2.7 36.6 + - - +
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Residues in contact with ASP 690 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
586D LEU* 5.7 2.0 - - - +
589D THR* 3.9 22.5 - - - +
686D GLU* 2.6 44.8 + - - +
687D VAL* 3.1 10.1 - - - +
689D SER* 1.3 73.2 + - - +
691D LEU* 1.3 57.6 + - - +
693D GLN* 2.3 49.8 + - - +
694D GLN* 4.4 2.9 + - - +
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Residues in contact with LEU 691 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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582D THR* 6.2 3.6 - - + -
586D LEU* 3.5 44.6 - - + -
684D TYR* 5.9 2.0 - - + +
687D VAL* 2.2 35.5 + - + +
688D LYS* 3.1 39.3 - - + +
690D ASP* 1.3 69.4 - - - +
692D ALA* 1.3 59.1 + - - +
693D GLN 3.3 0.7 - - - -
694D GLN* 3.1 34.8 - - - +
695D LYS* 3.2 36.2 - - - +
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Residues in contact with ALA 692 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
688D LYS* 2.4 33.0 + - + +
689D SER* 2.9 15.0 + - - +
691D LEU* 1.3 72.6 - - + +
693D GLN* 1.3 54.9 + - - +
694D GLN 3.2 3.1 - - - -
695D LYS* 3.0 40.8 + - + +
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Residues in contact with GLN 693 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
689D SER 2.7 15.0 + - - +
690D ASP* 2.3 49.3 + - - +
692D ALA* 1.3 72.4 - - - +
694D GLN* 1.3 58.5 + - - +
695D LYS 3.4 0.7 - - - -
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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
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Atomic class I II III IV V VI VII VIII
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I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
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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