Contacts of the helix formed by residues 692 - 713 (chain A) in PDB entry 6T2C
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 ASP 692 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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279A ARG* 2.9 25.7 + - - -
645A TYR* 3.2 19.8 - - - +
647A SER* 2.8 26.6 + - - +
649A GLN* 3.8 12.3 + - - +
691A ASN* 1.3 79.8 + - - +
693A PRO* 1.3 77.8 - - - +
694A TRP* 4.5 4.7 - - - +
695A VAL* 3.7 25.5 - - + +
696A LEU* 3.1 24.9 + - - +
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Residues in contact with PRO 693 (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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276A CYS* 3.9 22.2 - - + -
277A THR 3.7 22.9 - - - +
279A ARG* 4.4 11.4 - - + -
398A LEU* 4.6 0.3 - - - +
401A TRP* 4.1 18.4 - - + -
402A ILE* 4.3 15.0 - - + +
645A TYR* 4.5 10.1 - - + -
691A ASN 3.7 4.9 - - - +
692A ASP* 1.3 95.6 - - - +
694A TRP* 1.3 57.5 + - - +
696A LEU* 3.5 10.9 + - + +
697A LEU* 2.9 30.2 + - - +
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Residues in contact with TRP 694 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
402A ILE* 4.4 5.8 - - + +
406A PHE* 3.7 25.8 - + + -
638A LYS* 4.2 13.5 - - + -
641A PHE* 3.7 41.8 + + + -
642A ASN* 2.4 33.1 + - - -
645A TYR* 3.7 27.0 - - + +
650A LEU* 3.6 26.3 - - + +
692A ASP* 3.3 2.8 - - - +
693A PRO* 1.3 80.9 - - - +
695A VAL* 1.3 57.5 + - - +
697A LEU* 3.5 28.8 + - + +
698A ASN* 2.9 52.7 + - - +
701A TRP* 3.6 24.5 - + - -
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Residues in contact with VAL 695 (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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649A GLN* 3.9 5.2 - - + +
650A LEU* 3.5 36.6 - - + +
653A PHE* 4.1 21.2 - - + -
688A CYS 3.5 23.8 - - - +
689A ILE* 4.1 13.9 - - + -
692A ASP* 3.4 30.4 + - + +
693A PRO 3.3 0.4 - - - -
694A TRP* 1.3 75.4 - - + +
696A LEU* 1.3 60.8 + - + +
698A ASN* 3.3 5.8 + - - +
699A ALA* 2.9 28.4 + - - +
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Residues in contact with LEU 696 (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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270A LEU* 3.9 13.0 - - + +
271A PRO* 3.7 13.9 - - + -
276A CYS* 4.0 29.4 - - + -
396A ARG 3.6 27.8 - - - +
398A LEU* 3.9 22.2 - - + +
689A ILE* 3.7 26.7 - - + -
690A ILE 4.7 2.5 - - - +
691A ASN* 4.3 7.2 - - - +
692A ASP 3.1 24.4 + - - +
693A PRO 3.8 2.5 - - - +
695A VAL* 1.3 76.2 - - - +
697A LEU* 1.3 61.9 + - - +
699A ALA* 3.4 4.6 + - - +
700A SER* 3.0 22.2 + - - -
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Residues in contact with LEU 697 (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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398A LEU* 4.0 9.1 - - + +
402A ILE* 3.7 46.7 - - + +
403A GLN* 3.7 27.8 - - + +
406A PHE* 4.7 0.9 - - + -
693A PRO 2.9 18.5 + - - +
694A TRP* 3.7 19.3 - - + +
696A LEU* 1.3 78.1 - - - +
698A ASN* 1.3 56.8 + - - +
700A SER* 3.2 10.7 + - - +
701A TRP* 2.9 56.3 + - + +
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Residues in contact with ASN 698 (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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638A LYS* 4.7 9.0 - - - -
642A ASN* 5.3 0.7 - - - +
650A LEU* 4.8 7.7 - - + +
653A PHE* 3.6 21.6 - - + -
654A SER* 5.4 1.4 + - - -
694A TRP* 2.9 62.9 + - - +
695A VAL* 3.3 4.2 + - - +
697A LEU* 1.3 77.6 - - - +
699A ALA* 1.3 57.5 + - - +
701A TRP* 3.2 21.7 + - - +
702A PHE* 3.0 24.3 + - - +
6B MET* 3.7 21.8 - - - +
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Residues in contact with ALA 699 (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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268A LEU* 4.8 5.2 - - + +
270A LEU* 3.7 23.3 - - + -
653A PHE* 3.7 15.7 - - + -
689A ILE* 3.7 22.9 - - + -
695A VAL 2.9 17.1 + - - +
696A LEU* 3.8 2.9 - - - +
698A ASN* 1.3 73.6 - - - +
700A SER* 1.3 60.6 + - - +
702A PHE* 3.3 3.5 + - - +
703A ASN* 3.0 32.2 + - - +
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Residues in contact with SER 700 (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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270A LEU* 4.4 8.2 - - - +
398A LEU* 4.0 20.9 - - - +
696A LEU 3.0 14.2 + - - -
697A LEU* 3.2 13.8 + - - +
699A ALA* 1.3 77.0 - - - +
701A TRP* 1.3 59.9 + - - +
703A ASN* 3.3 9.5 + - - +
704A SER* 3.0 33.3 + - - -
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Residues in contact with TRP 701 (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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403A GLN* 2.9 22.6 + - - -
406A PHE* 3.5 30.3 - + - -
638A LYS* 5.0 5.4 - - - -
694A TRP* 3.6 31.0 - + - -
697A LEU* 2.9 36.7 + - + +
698A ASN* 3.5 29.6 - - - +
699A ALA 3.2 0.2 - - - -
700A SER* 1.3 78.4 - - - +
702A PHE* 1.3 59.1 + - - +
704A SER* 3.4 1.0 + - - -
705A PHE* 2.9 27.7 + - - +
3B VAL 3.5 20.3 + - - -
4B ASN* 3.2 36.0 + - + +
5B PRO* 3.5 21.8 - - + -
6B MET* 4.1 13.1 - - + +
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Residues in contact with PHE 702 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
268A LEU* 3.6 29.2 - - + -
653A PHE* 4.5 7.4 - + + -
657A SER* 4.8 10.5 - - - -
660A LEU* 3.6 40.8 - - + -
661A LEU* 3.6 35.9 - - + -
664A ILE* 4.6 11.0 - - + -
682A TYR* 5.8 0.4 - + - -
685A ILE* 5.8 0.2 - - + -
698A ASN 3.0 13.5 + - - +
699A ALA* 3.3 9.4 + - - +
701A TRP* 1.3 76.1 - - - +
703A ASN* 1.3 62.4 + - - +
705A PHE* 3.3 11.0 + + - +
706A LEU* 2.9 41.7 + - + +
6B MET* 3.8 17.2 - - + -
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Residues in contact with ASN 703 (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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267A GLU* 3.9 27.2 + - + +
268A LEU* 2.7 57.5 + - - +
270A LEU* 4.4 9.3 - - - +
699A ALA 3.0 16.7 + - - +
700A SER* 3.6 10.3 - - - +
701A TRP 3.3 0.2 - - - -
702A PHE* 1.3 81.1 - - - +
704A SER* 1.3 57.8 + - - +
706A LEU* 3.3 6.7 + - - +
707A LYS* 3.0 28.1 + - - +
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Residues in contact with SER 704 (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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618A GLU* 3.8 25.4 + - - +
700A SER* 3.0 21.4 + - - -
701A TRP* 3.8 4.7 - - - -
702A PHE 3.3 0.2 - - - -
703A ASN* 1.3 73.8 - - - +
705A PHE* 1.3 61.2 + - - +
707A LYS* 3.5 6.6 + - - +
708A ALA* 2.9 28.4 + - - +
4B ASN* 3.9 14.0 + - - -
7B LEU* 4.8 2.9 - - - +
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Residues in contact with PHE 705 (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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661A LEU* 3.6 30.1 - - + -
664A ILE* 4.3 21.8 - - + -
668A ARG* 5.9 2.7 - - - -
701A TRP 2.9 18.2 + - - +
702A PHE* 3.7 13.2 - + - +
704A SER* 1.3 76.1 - - - +
706A LEU* 1.3 61.5 + - - +
708A ALA* 3.2 4.4 + - - +
709A VAL* 2.9 54.9 + - + +
4B ASN* 4.9 0.2 - - - +
6B MET* 3.5 27.1 - - + -
7B LEU* 4.3 15.4 - - + +
9B PHE* 3.7 31.9 - + + -
10B LEU* 4.2 9.9 - - + -
14B VAL* 5.3 4.7 - - + -
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Residues in contact with LEU 706 (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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262A PRO* 4.3 9.9 - - + +
265A ILE* 3.8 32.5 - - + -
266A ARG 3.8 21.8 - - - +
267A GLU* 4.6 11.2 - - + -
268A LEU 5.6 0.2 - - - +
664A ILE* 3.8 25.8 - - + -
682A TYR* 4.6 0.7 - - - +
702A PHE* 2.9 35.0 + - + +
703A ASN* 3.8 5.4 - - - +
705A PHE* 1.3 78.7 - - - +
707A LYS* 1.3 58.9 + - - +
709A VAL* 3.3 11.8 - - + +
710A GLN* 2.9 42.6 + - - +
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Residues in contact with LYS 707 (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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267A GLU* 4.4 21.2 + - - +
703A ASN 3.0 17.7 + - - +
704A SER* 3.9 6.3 - - - +
706A LEU* 1.3 76.5 - - - +
708A ALA* 1.3 58.4 + - - +
710A GLN* 3.4 16.4 + - - +
711A LEU* 3.0 36.4 + - + +
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Residues in contact with ALA 708 (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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618A GLU* 5.8 2.2 - - - +
623A ILE* 4.1 26.0 - - + +
704A SER 2.9 17.7 + - - +
705A PHE 3.2 5.8 + - - +
707A LYS* 1.3 77.3 - - - +
709A VAL* 1.3 57.4 + - - +
711A LEU* 3.2 7.6 + - - +
712A SER* 2.9 26.6 + - - -
7B LEU* 4.2 13.7 - - + -
10B LEU* 4.4 8.6 - - + +
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Residues in contact with VAL 709 (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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262A PRO* 5.3 4.7 - - + -
664A ILE* 4.3 21.8 - - + -
668A ARG* 5.0 10.3 - - - +
705A PHE* 2.9 44.3 + - + +
706A LEU* 3.3 29.8 - - + +
708A ALA* 1.3 72.1 - - - +
710A GLN* 1.3 65.6 + - + +
712A SER* 3.7 11.7 + - - -
713A MET* 3.5 33.8 - - + +
10B LEU* 3.7 15.3 - - + -
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Residues in contact with GLN 710 (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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262A PRO 3.3 27.6 + - - +
263A ARG* 4.4 21.2 - - + +
265A ILE 3.6 19.4 + - - -
267A GLU* 5.7 5.3 - - - +
706A LEU* 2.9 33.7 + - + +
707A LYS* 3.5 17.3 - - + +
708A ALA 3.2 0.2 - - - -
709A VAL* 1.3 79.6 - - + +
711A LEU* 1.3 61.1 + - - +
712A SER 3.3 1.0 + - - -
713A MET* 3.5 9.0 + - - +
714A GLY 3.5 17.9 - - - +
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Residues in contact with LEU 711 (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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707A LYS* 3.0 26.6 + - + +
708A ALA* 3.2 7.4 + - - +
710A GLN* 1.3 74.3 - - - +
712A SER* 1.3 65.6 + - - +
714A GLY* 3.7 16.0 + - - +
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Residues in contact with SER 712 (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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668A ARG* 5.5 7.0 + - - -
708A ALA 2.9 14.8 + - - -
709A VAL* 3.8 12.8 - - - -
710A GLN 3.2 0.4 - - - -
711A LEU* 1.3 78.6 - - - +
713A MET* 1.3 65.0 + - - +
714A GLY 3.2 3.2 + - - -
10B LEU* 5.5 6.3 - - - -
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Residues in contact with MET 713 (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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262A PRO* 4.6 9.0 - - + -
263A ARG* 4.3 33.3 + - + +
664A ILE* 5.5 0.7 - - + -
667A PHE* 3.8 29.8 - - + -
668A ARG* 3.7 36.6 - - + -
709A VAL* 3.5 25.1 - - + +
710A GLN 3.5 4.4 + - - +
712A SER* 1.3 81.1 - - - +
714A GLY* 1.3 63.9 + - - +
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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
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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