Contacts of the helix formed by residues 712 - 732 (chain C) in PDB entry 2R17
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 712 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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710C CYS 3.3 7.5 + - - +
711C MSE 1.3 79.3 - - - +
713C PRO* 1.3 80.4 - - - +
714C SER* 3.6 6.7 + - - -
715C LEU* 2.9 44.9 - - + +
716C GLN* 2.6 40.4 + - - +
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Residues in contact with PRO 713 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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712C ASP* 1.3 95.3 - - - +
714C SER* 1.3 61.9 + - - +
716C GLN* 3.6 2.4 - - + +
717C VAL* 3.2 28.2 + - + +
756C ASN 4.4 7.2 - - - +
757C LEU* 3.8 20.0 - - + -
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Residues in contact with SER 714 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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712C ASP* 3.4 6.1 + - - -
713C PRO* 1.3 80.2 - - - +
715C LEU* 1.3 74.9 + - - +
717C VAL* 4.3 1.4 - - - +
718C GLN* 3.3 24.7 + - - +
757C LEU* 3.8 16.8 - - - +
762C GLU* 4.5 12.5 + - - +
763C THR* 5.8 1.2 + - - -
766C ILE* 3.7 20.2 - - - +
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Residues in contact with LEU 715 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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664C PRO* 4.1 29.4 - - + -
668C ARG* 5.5 8.9 + - - +
710C CYS* 5.0 5.6 - - + -
712C ASP* 2.9 32.5 + - + +
713C PRO 3.5 0.2 - - - -
714C SER* 1.3 86.5 - - - +
716C GLN* 1.3 67.5 + - - +
718C GLN* 3.7 15.3 - - - +
719C LEU* 2.9 26.2 + - - +
762C GLU* 5.9 1.8 - - - +
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Residues in contact with GLN 716 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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707C ALA 2.6 32.6 + - - +
708C ASN* 3.3 12.6 + - - +
710C CYS* 3.9 17.6 - - + +
711C MSE 4.2 13.9 - - + +
712C ASP 2.6 24.9 + - - +
713C PRO* 3.6 3.8 - - + +
715C LEU* 1.3 79.9 - - - +
717C VAL* 1.3 65.0 + - - +
719C LEU* 3.3 6.7 + - - +
720C PHE* 3.0 58.6 + - - -
753C ASP* 4.4 9.2 - - - +
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Residues in contact with VAL 717 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
713C PRO* 3.2 19.6 + - + +
714C SER* 4.3 2.9 - - - +
716C GLN* 1.3 75.5 - - + +
718C GLN* 1.3 59.0 + - - +
720C PHE* 2.6 35.8 + - + +
721C ILE* 2.9 22.9 + - + +
750C ILE* 4.2 24.9 - - + +
753C ASP* 3.8 33.0 - - + +
754C LEU* 4.4 20.2 - - + +
757C LEU* 5.3 5.6 - - + -
766C ILE* 4.5 3.1 - - + -
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Residues in contact with GLN 718 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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105A GLN* 6.3 1.6 - - - +
668C ARG* 5.0 9.2 + - - +
714C SER* 3.3 20.8 + - - +
715C LEU* 3.3 18.7 + - - +
717C VAL* 1.3 78.5 - - - +
719C LEU* 1.3 59.9 + - - +
721C ILE* 3.6 12.3 + - - +
722C GLU* 3.2 38.7 + - + +
762C GLU* 4.8 14.4 + - - +
766C ILE* 3.8 29.5 - - + +
769C HIS* 5.5 7.8 + - + +
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Residues in contact with LEU 719 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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663C LYS 4.8 1.1 - - - +
664C PRO* 4.0 22.0 - - + +
667C GLY* 4.2 4.9 - - - -
668C ARG* 4.1 27.1 - - + +
703C ALA 4.8 0.2 - - - +
706C ILE* 4.2 7.9 - - + +
707C ALA* 3.3 36.1 - - + +
710C CYS* 3.3 21.3 - - - -
715C LEU 2.9 17.3 + - - +
716C GLN 3.5 4.3 - - - +
718C GLN* 1.3 76.7 - - - +
720C PHE* 1.3 59.8 + - - +
722C GLU* 3.6 10.3 + - + +
723C ILE* 3.0 47.9 + - + +
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Residues in contact with PHE 720 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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704C LEU* 4.1 14.6 - - + -
707C ALA* 3.5 21.5 - - + -
708C ASN* 3.5 19.1 - - - -
716C GLN* 3.0 57.5 + - - -
717C VAL* 2.6 28.5 + - + +
719C LEU* 1.3 70.3 - - - +
721C ILE* 1.3 56.0 + - - +
723C ILE* 3.3 2.7 + - - +
724C LEU* 2.9 28.9 + - - +
746C LEU* 3.6 26.5 - - + +
749C LYS* 5.3 15.5 - - + -
750C ILE* 3.6 22.4 - - + -
753C ASP* 4.7 9.4 - - + -
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Residues in contact with ILE 721 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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717C VAL* 2.9 20.2 + - + +
718C GLN* 3.9 7.4 - - - +
720C PHE* 1.3 75.8 - - - +
722C GLU* 1.3 59.4 + - - +
724C LEU* 3.3 3.9 + - + +
725C ASN* 2.7 38.4 + - - +
750C ILE* 3.7 24.7 - - + -
754C LEU* 4.7 0.9 - - + -
766C ILE* 3.3 46.7 - - + +
769C HIS* 3.3 33.4 - - + +
770C PHE* 3.7 18.6 - - + +
773C THR* 4.0 9.9 - - + +
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Residues in contact with GLU 722 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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101A LEU* 5.3 3.4 - - + +
105A GLN* 3.5 27.6 + - - +
668C ARG* 3.4 38.7 + - + +
718C GLN* 3.2 27.0 + - + +
719C LEU* 3.6 16.3 - - + +
720C PHE 3.2 0.6 - - - -
721C ILE* 1.3 75.1 - - - +
723C ILE* 1.3 66.5 + - + +
724C LEU 3.0 1.7 + - - -
725C ASN* 3.2 9.2 + - - +
726C ARG* 3.0 22.4 + - - +
769C HIS* 4.2 8.5 - - + -
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Residues in contact with ILE 723 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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667C GLY 5.1 1.6 - - - +
671C SER* 5.0 9.2 - - - +
700C LEU* 4.2 14.4 - - + +
703C ALA* 3.6 39.3 - - + +
704C LEU* 3.9 22.9 - - + +
707C ALA* 4.2 6.1 - - + -
719C LEU* 3.0 38.6 + - + +
720C PHE* 3.3 4.5 + - - +
722C GLU* 1.3 76.5 - - + +
724C LEU* 1.3 57.4 + - - +
726C ARG* 3.5 7.5 + - - +
727C TYR* 3.1 45.9 + - + -
746C LEU* 4.0 1.1 - - + -
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Residues in contact with LEU 724 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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720C PHE 2.9 10.1 + - - +
721C ILE* 3.3 12.3 - - - +
722C GLU 3.0 0.2 - - - -
723C ILE* 1.3 75.2 - - - +
725C ASN* 1.3 64.5 + - - +
727C TYR* 3.2 6.7 + - + +
728C ILE* 3.1 36.8 + - + +
743C LEU* 3.8 23.3 - - + +
746C LEU* 3.3 30.1 - - + -
747C ILE* 3.7 32.3 - - + -
750C ILE* 4.2 7.4 - - + -
770C PHE* 5.5 2.7 - - + -
773C THR* 3.2 33.9 - - + -
777C LEU* 4.8 0.7 - - + -
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Residues in contact with ASN 725 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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101A LEU* 3.2 33.2 - - + +
104A ARG* 3.1 24.4 + - - +
721C ILE 2.7 28.5 + - - -
722C GLU* 3.2 5.7 + - - +
724C LEU* 1.3 75.7 - - - +
726C ARG* 1.3 57.1 + - - +
728C ILE* 3.2 11.8 + - - +
729C TYR* 2.8 26.3 + - - +
769C HIS* 3.5 20.9 + - - -
773C THR* 3.1 37.9 + - - +
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Residues in contact with ARG 726 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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91A ILE* 3.8 13.3 + - - +
98A SER* 4.6 5.3 + - - -
101A LEU* 4.1 24.4 - - + +
668C ARG 5.2 0.2 + - - -
671C SER* 3.8 28.1 + - - +
672C THR* 4.0 18.2 + - - +
675C HIS* 2.9 35.7 + - - -
700C LEU* 3.4 22.9 - - + -
722C GLU 3.0 13.1 + - - +
723C ILE* 3.5 13.2 - - - +
724C LEU 3.1 0.2 - - - -
725C ASN* 1.3 74.8 - - - +
727C TYR* 1.3 64.4 + - - +
729C TYR* 3.2 14.4 + - - +
730C PHE* 3.2 28.4 - - + -
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Residues in contact with TYR 727 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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697C MSE 3.7 29.6 - - - +
700C LEU* 3.8 35.0 - - + +
701C LYS* 4.2 4.9 + - - +
704C LEU* 3.5 27.1 - - + +
723C ILE* 3.1 45.0 + - + -
724C LEU* 3.2 8.5 + - + +
726C ARG* 1.3 74.8 - - - +
728C ILE* 1.3 59.2 + - - +
730C PHE* 3.0 5.8 + - - +
731C TYR* 2.8 26.7 + - - +
738C VAL* 3.7 23.1 - - + +
742C VAL* 3.6 29.4 - - + +
743C LEU* 4.0 14.6 - - + -
746C LEU* 4.1 13.0 - - + -
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Residues in contact with ILE 728 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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104A ARG* 4.6 6.3 - - - +
724C LEU* 3.1 36.5 + - + +
725C ASN* 3.2 13.5 - - - +
727C TYR* 1.3 76.9 - - - +
729C TYR* 1.3 62.1 + - - +
731C TYR* 3.9 8.5 - - + -
732C GLU* 3.0 49.4 + - + +
743C LEU* 4.1 19.7 - - + -
773C THR* 3.8 14.6 - - + +
776C HIS* 4.0 16.2 - - + +
777C LEU* 3.8 25.6 - - + -
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Residues in contact with TYR 729 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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92A PRO* 3.5 13.2 - - - +
95A ASP* 3.0 31.0 + - - -
97A ALA* 3.5 25.5 - - + +
98A SER* 3.3 24.0 - - - -
101A LEU* 4.5 10.1 - - + -
675C HIS* 3.3 32.3 + + + -
678C TRP* 4.9 6.0 - + - -
679C SER* 5.6 2.0 - - - -
725C ASN 2.8 13.2 + - - +
726C ARG* 3.2 14.6 + - - +
728C ILE* 1.3 79.5 - - - +
730C PHE* 1.3 77.9 + + + +
732C GLU* 3.9 5.2 + - - +
733C LYS* 3.1 45.7 + - + +
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Residues in contact with PHE 730 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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674C ALA* 3.4 34.3 - - + -
675C HIS* 3.6 25.8 - + - -
678C TRP* 3.5 43.7 - + + -
696C VAL* 3.4 16.6 - - + -
700C LEU* 4.0 8.3 - - + -
726C ARG* 3.2 33.9 - - + -
727C TYR 3.0 5.4 + - - +
729C TYR* 1.3 93.6 - + - +
731C TYR* 1.3 69.7 + - - +
733C LYS* 3.0 11.8 + - - +
734C GLU 3.5 0.2 + - - -
735C ASN* 3.2 35.6 + - + +
738C VAL* 3.9 5.6 - - + -
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Residues in contact with TYR 731 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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727C TYR 2.8 8.9 + - - +
728C ILE* 3.5 12.3 - - + +
730C PHE* 1.3 75.5 - - - +
732C GLU* 1.3 66.7 + - + +
734C GLU* 2.8 29.6 + - - +
735C ASN 3.7 2.3 + - - +
738C VAL* 2.9 48.4 - - + +
739C THR* 4.6 0.7 - - - -
740C ILE* 4.1 37.7 - - + +
743C LEU* 4.1 19.1 - - + -
777C LEU* 5.5 7.2 - - + -
597D GLU* 4.7 5.0 + - - -
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Residues in contact with GLU 732 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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97A ALA* 5.9 2.9 - - - +
104A ARG* 4.7 2.6 + - - -
728C ILE* 3.0 28.4 + - + +
729C TYR* 4.4 5.0 - - - +
731C TYR* 1.3 92.0 - - + +
733C LYS* 1.3 59.7 + - - +
734C GLU* 3.1 7.6 + - - +
776C HIS* 2.9 38.1 + - - +
777C LEU* 5.7 3.1 - - + +
778C ARG* 5.6 3.5 + - - -
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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
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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