Contacts of the helix formed by residues 710 - 736 (chain B) in PDB entry 1ZUC
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 THR 710 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
708B PRO* 4.0 8.5 - - + +
709B ASP* 1.3 80.4 - - - +
711B SER* 1.3 65.3 + - - +
712B SER* 3.6 8.8 + - - -
713B SER* 3.0 28.9 + - - +
714B LEU* 3.0 28.1 + - - +
792B SER 4.9 0.7 - - - -
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Residues in contact with SER 711 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
710B THR* 1.3 71.8 - - - +
712B SER* 1.3 64.3 + - - +
714B LEU* 4.0 2.5 - - - +
715B LEU* 3.1 42.8 + - - +
792B SER 3.9 8.5 + - - -
793B SER* 3.2 33.3 + - - -
890B TYR* 5.5 0.2 + - - -
901B LEU* 5.5 2.9 + - - +
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Residues in contact with SER 712 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
710B THR* 3.1 7.9 + - - -
711B SER* 1.3 81.9 + - - +
713B SER* 1.3 58.0 + - - +
715B LEU* 4.2 0.5 - - - +
716B THR* 2.8 34.7 + - - -
901B LEU 3.3 18.4 - - - -
902B SER* 3.2 31.0 + - - +
903B VAL* 4.2 6.0 - - - +
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Residues in contact with SER 713 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
703B HIS* 3.7 17.0 + - - -
704B ASP* 4.4 10.0 + - - -
708B PRO 4.5 1.8 + - - -
709B ASP* 4.0 3.1 - - - -
710B THR* 3.0 33.8 + - - -
712B SER* 1.3 75.4 + - - +
714B LEU* 1.3 62.5 + - - +
716B THR* 3.6 5.3 + - - -
717B SER* 3.0 32.7 + - - -
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Residues in contact with LEU 714 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
703B HIS* 4.3 5.2 - - - +
709B ASP* 3.6 42.8 - - + +
710B THR 3.0 15.4 + - - +
711B SER 4.0 2.5 - - - +
713B SER* 1.3 79.6 + - - +
715B LEU* 1.3 57.6 + - - +
717B SER* 3.3 4.7 + - - -
718B LEU* 2.9 34.8 + - + +
782B LEU* 4.1 25.2 - - + +
784B LEU* 4.4 13.7 - - + -
788B ARG* 4.3 2.9 - - - +
792B SER* 3.8 35.9 - - - +
794B PHE* 4.0 19.3 - - + -
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Residues in contact with LEU 715 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
202B T98 3.9 31.8 + - + +
711B SER* 3.1 32.4 + - - +
714B LEU* 1.3 75.5 - - - +
716B THR* 1.3 60.9 + - - +
718B LEU* 3.3 5.7 + - + +
719B ASN* 2.9 34.3 + - - -
794B PHE* 3.7 29.6 - - + -
890B TYR* 3.6 29.6 - - + +
894B THR* 4.4 7.9 - - + -
901B LEU* 5.9 2.7 - - + -
903B VAL* 3.9 30.7 - - + -
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Residues in contact with THR 716 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
712B SER* 2.8 22.9 + - - -
713B SER* 3.8 6.5 - - - +
715B LEU* 1.3 76.7 - - - +
717B SER* 1.3 57.2 + - - +
719B ASN* 3.3 3.1 + - - +
720B GLN* 2.8 32.4 + - + +
902B SER 3.6 7.6 + - - -
903B VAL* 3.6 1.1 - - - +
904B GLU* 3.2 57.6 + - + +
906B PRO* 5.7 0.2 - - - +
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Residues in contact with SER 717 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
701B ALA* 4.1 8.2 + - - +
702B GLY 4.8 0.9 + - - -
703B HIS* 2.8 47.3 + - - +
713B SER 3.0 13.7 + - - -
714B LEU* 3.6 3.6 - - - -
716B THR* 1.3 74.0 - - - +
718B LEU* 1.3 61.9 + - - +
720B GLN* 3.7 7.0 + - - +
721B LEU* 2.8 32.8 + - - +
782B LEU* 4.2 11.7 - - - -
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Residues in contact with LEU 718 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
202B T98 3.5 56.6 - - + +
714B LEU* 2.9 22.1 + - + +
715B LEU* 3.3 8.9 + - + +
717B SER* 1.3 77.2 - - - +
719B ASN* 1.3 51.4 + - - +
721B LEU* 3.6 2.9 - - + +
722B GLY* 2.8 28.2 + - - -
778B PHE* 3.3 49.8 - - + -
782B LEU* 3.8 11.9 - - + -
784B LEU* 6.2 0.4 - - + -
794B PHE* 4.0 31.6 - - + -
801B MET* 5.4 0.4 - - + -
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Residues in contact with ASN 719 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
202B T98 2.8 33.1 + - - -
715B LEU 2.9 13.8 + - - +
716B THR 3.7 1.8 - - - +
718B LEU* 1.3 74.6 - - - +
720B GLN* 1.3 59.2 + - - +
722B GLY* 3.3 1.1 + - - +
723B GLU* 2.9 25.6 + - - +
903B VAL* 3.3 20.6 - - - +
904B GLU 3.1 27.7 + - - +
905B PHE* 3.3 28.2 - - - -
906B PRO* 3.8 11.1 - - + +
909B MET* 3.7 18.0 - - + +
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Residues in contact with GLN 720 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
701B ALA 3.1 22.5 - - - +
702B GLY* 4.1 10.2 - - - +
716B THR* 2.8 25.3 + - + +
717B SER* 3.2 6.7 + - - +
719B ASN* 1.3 68.9 - - - +
721B LEU* 1.3 65.1 + - - +
723B GLU* 3.2 4.9 + - + +
724B ARG* 3.1 49.7 + - - +
904B GLU* 6.0 0.4 + - - -
906B PRO* 4.3 16.0 - - + +
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Residues in contact with LEU 721 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
202B T98 3.9 10.8 - - - +
699B ILE* 3.7 23.8 - - + +
700B TYR 3.6 9.9 - - - +
701B ALA* 3.6 35.9 + - + +
717B SER 2.8 20.2 + - - +
718B LEU* 3.6 5.6 - - + +
720B GLN* 1.3 70.5 - - - +
722B GLY* 1.3 58.4 + - - +
724B ARG* 3.2 4.8 + - - +
725B GLN* 2.8 51.3 + - - +
778B PHE* 3.5 43.3 - - + +
779B ALA* 3.9 4.0 - - + -
782B LEU* 4.5 3.1 - - + -
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Residues in contact with GLY 722 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
202B T98 4.2 1.2 - - - -
718B LEU 2.8 20.2 + - - -
719B ASN 3.5 3.8 - - - -
720B GLN 3.3 0.4 - - - -
721B LEU* 1.3 71.8 - - - +
723B GLU* 1.3 52.0 + - - +
725B GLN* 3.2 0.8 + - - -
726B LEU* 2.8 33.3 + - - +
759B MET* 3.2 30.2 - - - +
909B MET* 3.7 13.9 - - - -
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Residues in contact with GLU 723 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
719B ASN 2.9 16.5 + - - +
720B GLN* 3.5 9.6 - - + +
722B GLY* 1.3 71.8 - - - +
724B ARG* 1.3 58.6 + - + +
726B LEU* 3.4 5.8 + - - +
727B LEU* 3.0 36.9 + - + +
906B PRO* 3.4 24.2 - - + +
907B GLU* 3.5 9.0 + - - +
908B MET* 2.8 34.7 + - - +
909B MET* 2.7 35.7 + - - +
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Residues in contact with ARG 724 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
699B ILE* 3.6 17.1 - - + +
700B TYR* 2.8 45.3 + - - +
701B ALA 3.7 13.8 - - - -
702B GLY* 3.7 6.7 - - - +
720B GLN* 3.1 41.6 + - + +
721B LEU* 3.6 5.6 - - - +
723B GLU* 1.3 75.5 - - + +
725B GLN* 1.3 66.4 + - - +
727B LEU* 3.3 15.1 + - + +
728B SER* 3.1 21.5 + - - -
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Residues in contact with GLN 725 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
202B T98 2.9 30.6 + - - -
699B ILE* 4.1 19.3 + - + +
721B LEU* 2.8 44.1 + - + +
722B GLY 3.7 3.1 - - - +
724B ARG* 1.3 71.8 - - - +
726B LEU* 1.3 57.1 + - - +
728B SER* 3.2 8.4 + - - -
729B VAL* 2.8 36.6 + - + +
759B MET* 3.0 38.2 - - + +
766B ARG* 3.5 16.6 - - - +
778B PHE 4.0 1.2 + - - -
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Residues in contact with LEU 726 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
722B GLY 2.8 16.8 + - - +
723B GLU* 3.4 6.3 - - - +
725B GLN* 1.3 70.7 - - - +
727B LEU* 1.3 65.7 + - - +
729B VAL* 3.1 9.4 + - + +
730B VAL* 3.0 26.2 + - - +
751B ILE* 4.3 18.6 - - + -
755B TRP* 3.7 30.3 - - + -
759B MET* 4.1 4.4 - - + +
908B MET* 3.7 51.4 - - + +
909B MET* 3.8 24.0 - - + +
912B VAL* 4.0 13.9 - - + -
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Residues in contact with LEU 727 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
723B GLU* 3.0 25.0 + - + +
724B ARG* 3.5 16.8 - - + +
726B LEU* 1.3 75.3 - - - +
728B SER* 1.3 57.2 + - - +
730B VAL* 3.4 10.1 + - + +
731B LYS* 3.0 27.9 + - - +
908B MET* 3.5 26.5 - - + -
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Residues in contact with SER 728 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
696B PRO* 3.3 33.7 - - - +
699B ILE* 3.6 16.4 - - - +
724B ARG 3.1 13.4 + - - -
725B GLN* 3.3 10.3 - - - -
727B LEU* 1.3 74.7 - - - +
729B VAL* 1.3 60.1 + - - +
731B LYS* 3.4 6.6 + - - +
732B TRP* 2.8 31.1 + - - +
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Residues in contact with VAL 729 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
725B GLN* 2.8 22.7 + - + +
726B LEU* 3.1 13.2 + - + +
728B SER* 1.3 72.7 - - - +
730B VAL* 1.3 59.3 + - - +
732B TRP* 3.6 16.7 - - + +
733B SER* 2.8 30.6 + - - -
751B ILE* 4.1 29.8 - - + -
755B TRP* 6.0 4.0 - - + +
758B LEU* 3.9 36.3 - - + -
759B MET* 6.0 4.3 - - + -
826B LEU* 5.1 0.7 - - + -
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Residues in contact with VAL 730 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
726B LEU 3.0 16.0 + - - +
727B LEU* 3.6 12.6 - - + +
729B VAL* 1.3 73.8 - - - +
731B LYS* 1.3 62.1 + - - +
733B SER* 2.8 23.5 + - - +
734B LYS* 3.3 36.1 + - - +
751B ILE* 4.2 25.1 - - + -
908B MET* 4.0 21.8 - - + -
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Residues in contact with LYS 731 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
727B LEU 3.0 17.5 + - - +
728B SER* 3.7 6.5 - - - +
730B VAL* 1.3 76.5 - - - +
732B TRP* 1.3 64.3 + - - +
734B LYS* 3.2 31.6 + - + +
735B SER* 3.6 13.6 + - - -
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Residues in contact with TRP 732 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
691B LEU* 5.0 3.6 + - + +
694B ILE* 3.3 51.0 - - + +
695B GLU* 3.9 15.2 + - - -
696B PRO* 5.1 9.6 - - + -
728B SER 2.8 21.2 + - - +
729B VAL* 3.8 23.3 - - + -
731B LYS* 1.3 73.7 - - - +
733B SER* 1.3 64.6 + - - +
735B SER* 2.9 23.2 + - - -
736B LEU* 3.0 27.6 + - + +
758B LEU* 4.3 18.2 - - + -
819B LEU 5.6 0.2 - - - -
822B LYS* 3.7 40.6 - - + -
823B VAL* 3.9 24.2 - - + -
826B LEU* 3.9 24.5 - - + -
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Residues in contact with SER 733 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
729B VAL* 2.8 19.4 + - - -
730B VAL* 2.8 19.4 + - - +
732B TRP* 1.3 81.2 - - - +
734B LYS* 1.3 62.0 + - - +
736B LEU* 3.3 17.6 + - - +
739B PHE* 3.5 46.7 - - - +
740B ARG* 4.5 2.3 + - - -
747B GLN* 5.1 2.6 + - - -
751B ILE* 3.6 19.0 - - - +
826B LEU* 4.9 3.6 - - - -
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Residues in contact with LYS 734 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
730B VAL* 3.3 35.1 + - + +
731B LYS* 3.2 20.2 + - + +
732B TRP 3.2 0.4 - - - -
733B SER* 1.3 78.6 + - - +
735B SER* 1.3 60.6 + - - +
736B LEU 5.2 0.6 - - - +
740B ARG* 4.6 23.2 - - - +
747B GLN* 5.8 6.5 - - - +
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Residues in contact with SER 735 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
690B LEU* 4.2 4.5 - - - +
694B ILE* 3.8 30.2 - - - +
731B LYS* 3.6 13.8 + - - -
732B TRP* 2.9 10.2 + - - -
734B LYS* 1.3 79.8 + - - +
736B LEU* 1.3 61.6 + - - +
737B PRO* 3.3 11.3 - - - +
----------------------------------------------------------
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Residues in contact with LEU 736 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
691B LEU* 3.4 31.6 - - + -
694B ILE* 3.8 5.8 - - + -
732B TRP* 3.0 28.2 + - + +
733B SER* 3.3 13.1 + - - +
734B LYS 3.6 1.1 - - - +
735B SER* 1.3 75.0 - - - +
737B PRO* 1.3 71.9 - - - +
738B GLY 3.1 0.3 + - - -
739B PHE* 3.0 21.8 + - + +
740B ARG* 4.3 4.0 + - - +
823B VAL* 3.5 18.4 - - + -
826B LEU* 3.4 33.2 - - + -
844B MET* 3.9 17.5 - - + -
848B TYR* 3.4 15.5 - - + +
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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