Contacts of the helix formed by residues 622 - 645 (chain B) in PDB entry 6IEH
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 SER 622 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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620B GLU* 3.0 10.2 + - - +
621B GLU* 1.3 72.1 - - - +
623B VAL* 1.3 58.8 + - - +
624B VAL 3.2 2.9 - - - -
625B ILE* 3.0 30.6 + - - +
807B HIS* 3.4 25.1 - - - -
808B PRO* 5.8 1.0 - - - +
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Residues in contact with VAL 623 (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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618B PRO* 4.2 18.8 - - + -
620B GLU 3.2 19.8 + - - +
621B GLU 4.5 2.0 - - - -
622B SER* 1.3 76.6 + - - +
624B VAL* 1.3 63.7 + - + +
626B TYR* 3.0 7.6 + - - +
627B TYR* 2.9 24.6 + - - +
807B HIS* 4.5 2.5 - - - -
809B LEU* 3.8 19.7 - - + -
818B VAL* 3.8 33.0 - - + +
819B TYR* 4.7 7.9 - - + -
822B CYS* 4.2 20.9 - - + -
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Residues in contact with VAL 624 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
618B PRO* 6.5 1.1 - - + -
621B GLU* 3.7 16.6 - - - +
623B VAL* 1.3 78.6 - - + +
625B ILE* 1.3 68.6 + - + +
627B TYR* 3.5 4.5 + - + +
628B LYS* 3.1 22.4 + - + +
822B CYS* 3.9 23.6 - - - -
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Residues in contact with ILE 625 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
622B SER* 3.0 16.3 + - - +
624B VAL* 1.3 84.6 - - + +
626B TYR* 1.3 64.6 + - - +
628B LYS* 3.5 10.6 + - + +
629B ILE* 3.1 18.9 + - + +
803B ARG* 4.3 30.6 + - - +
807B HIS* 4.0 15.7 - - + +
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Residues in contact with TYR 626 (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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622B SER 3.5 3.0 + - - -
623B VAL* 3.0 10.6 + - - +
625B ILE* 1.3 79.2 - - - +
627B TYR* 1.3 57.3 + - - +
629B ILE* 2.7 28.6 + - + +
630B ARG* 3.0 49.8 + - + -
804B MET* 3.6 30.1 - - + +
807B HIS* 3.5 41.3 + - + -
809B LEU* 3.7 21.5 - - + -
810B HIS* 3.6 32.6 + + + -
815B LEU* 4.5 8.9 - - + +
819B TYR* 4.1 18.6 - + - -
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Residues in contact with TYR 627 (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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623B VAL 2.9 15.3 + - - +
624B VAL* 3.6 7.6 - - + +
626B TYR* 1.3 75.7 - - - +
628B LYS* 1.3 62.3 + - + +
630B ARG* 3.2 3.3 + - - +
631B GLN* 2.8 64.1 + - + +
819B TYR* 3.5 44.4 + + + -
822B CYS* 4.2 22.2 - - + -
823B GLU* 3.9 25.5 - - + +
826B ALA* 3.9 22.5 - - + +
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Residues in contact with LYS 628 (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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624B VAL* 3.1 16.7 + - + +
625B ILE* 3.7 13.5 - - + +
626B TYR 3.2 0.2 - - - -
627B TYR* 1.3 86.2 - - + +
629B ILE* 1.3 61.8 + - - +
631B GLN* 3.7 5.8 - - - +
632B GLN* 2.9 28.4 + - + +
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Residues in contact with ILE 629 (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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625B ILE* 3.1 12.1 + - + +
626B TYR* 2.7 21.1 + - + +
628B LYS* 1.3 71.9 - - - +
630B ARG* 1.3 62.1 + - + +
632B GLN* 3.2 3.8 + - - +
633B LEU* 3.1 26.2 + - - +
800B PHE* 4.1 32.2 - - + +
803B ARG* 5.2 13.7 - - + +
804B MET* 5.1 12.1 - - + -
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Residues in contact with ARG 630 (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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626B TYR* 3.0 51.7 + - + +
627B TYR 3.7 6.3 - - - +
629B ILE* 1.3 77.0 - - + +
631B GLN* 1.3 61.4 + - - +
633B LEU* 3.3 12.1 + - - +
634B ALA* 3.1 20.8 + - - +
804B MET* 4.1 25.0 - - + +
810B HIS* 5.3 4.0 + - - -
815B LEU* 6.0 3.0 - - - +
819B TYR* 3.8 21.1 - - - +
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Residues in contact with GLN 631 (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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627B TYR* 2.8 55.4 + - + +
628B LYS* 3.7 8.1 - - - +
629B ILE 3.2 0.2 - - - -
630B ARG* 1.3 73.7 - - - +
632B GLN* 1.3 66.7 + - + +
634B ALA* 3.3 8.1 + - - +
635B LYS* 3.1 21.3 + - - +
819B TYR* 4.8 4.6 + - - +
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Residues in contact with GLN 632 (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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628B LYS* 2.9 20.3 + - + +
629B ILE 3.5 4.9 - - - +
630B ARG 3.2 0.2 - - - -
631B GLN* 1.3 78.3 - - - +
633B LEU* 1.3 63.0 + - - +
635B LYS* 3.2 12.0 + - - +
636B LEU* 3.0 35.3 + - + +
800B PHE* 3.9 30.9 - - + -
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Residues in contact with LEU 633 (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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629B ILE 3.1 16.1 + - - +
630B ARG* 3.5 13.5 - - + +
632B GLN* 1.3 76.3 - - - +
634B ALA* 1.3 58.2 + - - +
636B LEU* 3.2 5.1 + - + +
637B GLY* 2.7 29.1 + - - -
797B VAL* 3.7 32.5 - - + +
800B PHE* 3.7 26.0 - - + +
801B GLU* 4.1 13.2 - - + +
804B MET* 2.6 42.2 - - + -
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Residues in contact with ALA 634 (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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630B ARG 3.1 10.1 + - - +
631B GLN* 3.7 12.6 - - - +
632B GLN 3.2 0.2 - - - -
633B LEU* 1.3 78.5 - - - +
635B LYS* 1.3 59.2 + - - +
637B GLY* 3.3 2.3 + - - +
638B LYS* 3.2 22.3 + - - +
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Residues in contact with LYS 635 (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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631B GLN 3.1 13.4 + - - +
632B GLN* 3.5 20.4 - - - +
634B ALA* 1.3 77.1 - - - +
636B LEU* 1.3 62.5 + - + +
638B LYS* 3.7 7.1 + - - +
639B GLU* 3.4 16.6 + - - +
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Residues in contact with LEU 636 (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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632B GLN* 3.0 28.7 + - - +
633B LEU* 3.6 2.5 - - - +
635B LYS* 1.3 75.0 - - + +
637B GLY* 1.3 61.5 + - - +
638B LYS 3.2 0.4 - - - -
639B GLU* 2.9 24.4 + - + +
640B ILE* 3.0 15.8 + - - +
793B VAL* 3.5 28.2 - - + +
796B LYS* 4.0 27.4 - - + +
797B VAL* 3.6 25.6 - - + +
800B PHE* 4.8 10.5 - - + -
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Residues in contact with GLY 637 (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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633B LEU 2.7 16.8 + - - -
634B ALA* 3.3 3.6 + - - -
636B LEU* 1.3 77.8 - - - +
638B LYS* 1.3 57.7 + - - +
640B ILE* 3.4 11.7 + - - +
641B GLU* 3.4 27.6 + - - +
797B VAL* 4.6 4.0 - - - +
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Residues in contact with LYS 638 (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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634B ALA 3.2 11.9 + - - +
635B LYS* 3.8 11.2 - - - +
637B GLY* 1.3 74.4 - - - +
639B GLU* 1.3 62.1 + - - +
641B GLU* 3.4 15.7 + - - +
642B GLU* 3.2 21.3 + - - +
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Residues in contact with GLU 639 (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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635B LYS 3.4 8.6 + - - +
636B LEU* 2.9 22.9 + - + +
638B LYS* 1.3 76.7 - - - +
640B ILE* 1.3 63.8 + - - +
642B GLU* 3.6 12.6 + - - +
643B TYR* 3.8 10.0 + - - +
790B LEU* 5.0 1.2 - - - +
793B VAL* 4.1 19.8 - - + +
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Residues in contact with ILE 640 (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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636B LEU 3.0 17.8 + - - +
637B GLY* 3.6 11.7 - - - +
638B LYS 3.3 0.2 - - - -
639B GLU* 1.3 74.1 - - - +
641B GLU* 1.3 67.1 + - + +
643B TYR* 3.2 15.4 + - - +
644B ILE* 3.3 16.9 + - + +
779B PRO* 4.4 18.2 - - + -
790B LEU* 4.2 15.9 - - + +
793B VAL* 3.8 12.3 - - + +
794B ILE* 4.0 28.9 - - + -
797B VAL* 4.5 17.7 - - + -
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Residues in contact with GLU 641 (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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637B GLY 3.4 16.0 - - - +
638B LYS* 3.4 16.3 + - - +
639B GLU 3.3 0.2 - - - -
640B ILE* 1.3 80.4 - - + +
642B GLU* 1.3 62.3 + - - +
644B ILE* 3.2 19.5 + - + +
645B HIS* 3.2 25.4 + - + -
663B LYS* 5.8 4.0 + - - +
736B LEU 4.9 0.7 - - - +
737B SER* 3.7 45.8 - - - +
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Residues in contact with GLU 642 (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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638B LYS 3.2 13.1 + - - +
639B GLU* 3.8 9.6 - - - +
640B ILE 3.2 0.8 - - - -
641B GLU* 1.3 81.1 - - - +
643B TYR* 1.3 58.9 + - - +
645B HIS* 3.2 27.1 + - - +
646B LYS* 3.9 7.4 + - - +
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Residues in contact with TYR 643 (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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639B GLU 3.8 7.2 + - - +
640B ILE 3.2 9.9 + - - +
642B GLU* 1.3 80.7 - - - +
644B ILE* 1.3 62.5 + - + +
645B HIS 3.3 0.7 + - - -
646B LYS* 3.3 19.0 + - - +
649B TYR* 3.7 15.4 - - + -
779B PRO* 6.4 0.4 - - + -
785B ILE* 5.6 7.2 - - + -
787B ASP* 6.3 2.0 - - + -
790B LEU* 4.5 25.1 - - + -
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Residues in contact with ILE 644 (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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640B ILE* 3.3 16.9 + - + +
641B GLU* 3.2 13.9 + - + +
643B TYR* 1.3 78.2 - - + +
645B HIS* 1.3 58.9 + - + +
646B LYS 3.3 1.5 + - - -
649B TYR* 5.1 0.4 - - - -
650B CYS* 3.5 18.4 + - - +
736B LEU* 5.6 1.8 - - + +
737B SER 5.7 7.0 - - - +
738B ALA* 6.4 0.7 - - - -
739B ILE* 3.5 33.5 - - + +
777B LEU 4.6 9.6 - - - +
779B PRO* 3.5 38.1 - - + -
783B MET* 3.6 21.8 - - + +
790B LEU* 6.5 0.2 - - + -
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Residues in contact with HIS 645 (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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641B GLU* 3.2 18.5 + - + -
642B GLU* 3.2 36.3 - - - +
643B TYR 3.2 0.4 - - - -
644B ILE* 1.3 75.2 - - + +
646B LYS* 1.3 65.2 + - - +
647B PRO* 3.8 0.3 - - - +
650B CYS* 3.8 6.5 - - - -
733B VAL* 3.4 23.5 - - - +
734B HIS* 2.5 44.7 + - + +
736B LEU* 2.8 43.0 + - + +
737B SER* 5.5 0.2 - - - -
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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