Contacts of the helix formed by residues 744 - 764 (chain B) in PDB entry 2G5T
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 744 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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738B GLU* 2.8 32.0 + - - -
742B ILE 3.6 0.6 - - - -
743B ALA* 1.3 81.2 - - - +
745B SER* 1.3 65.1 + - - +
746B THR* 3.7 7.5 + - - -
747B ALA* 3.0 22.3 + - - +
748B HIS* 2.9 19.4 + - - +
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Residues in contact with SER 745 (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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743B ALA 3.4 2.9 + - - -
744B SER* 1.3 74.6 - - - +
746B THR* 1.3 63.6 + - - +
748B HIS* 3.9 4.6 - - - +
749B GLN* 2.9 44.4 + - - +
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Residues in contact with THR 746 (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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724A VAL* 3.6 18.8 - - - +
725A ASP* 3.0 44.4 + - + +
727A GLY 5.8 0.2 - - - +
744B SER* 3.7 7.1 + - - -
745B SER* 1.3 82.1 - - - +
747B ALA* 1.3 61.1 + - - +
749B GLN* 3.4 10.5 + - - +
750B HIS* 2.9 28.9 + - - +
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Residues in contact with ALA 747 (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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724A VAL* 3.7 13.5 - - + -
735B TYR* 4.2 9.1 - - + -
738B GLU* 3.6 27.4 - - + +
742B ILE* 3.8 13.3 - - + +
744B SER* 3.0 22.3 + - - +
746B THR* 1.3 78.1 + - - +
748B HIS* 1.3 53.5 + - - +
750B HIS* 3.7 1.1 - - - +
751B ILE* 2.8 37.1 + - - +
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Residues in contact with HIS 748 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48B TYR* 3.4 26.2 + - - -
49B LEU* 4.0 20.2 - - + +
629B TRP* 6.2 0.2 - - - -
741B GLY 5.7 1.0 + - - -
742B ILE 3.7 16.2 + - - +
743B ALA* 4.4 8.9 - - - +
744B SER 2.9 19.2 + - - +
745B SER* 3.9 4.7 - - - +
747B ALA* 1.3 78.4 - - - +
749B GLN* 1.3 66.7 + - + +
751B ILE* 3.3 7.1 - - - +
752B TYR* 3.2 58.2 + + - +
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Residues in contact with GLN 749 (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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49B LEU* 3.8 38.9 + - + +
50B LYS* 2.9 33.8 + - - +
745B SER* 2.9 37.1 + - - +
746B THR* 3.4 12.0 + - - +
747B ALA 3.3 0.2 - - - -
748B HIS* 1.3 80.1 - - + +
750B HIS* 1.3 55.0 + - - +
753B THR* 2.6 38.1 + - - +
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Residues in contact with HIS 750 (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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724A VAL* 3.8 29.4 - - + +
727A GLY* 5.0 3.6 - - - -
728A VAL 3.0 35.3 + - - -
729A ASP* 3.9 17.5 - - - +
730A PHE* 3.5 20.6 - + - -
733B MET* 4.3 13.0 - - + -
735B TYR* 2.6 31.7 + + + +
746B THR 2.9 18.7 + - - +
747B ALA* 3.7 3.6 - - - +
748B HIS 3.2 0.2 - - - -
749B GLN* 1.3 76.4 - - - +
751B ILE* 1.3 61.0 + - - +
753B THR* 3.4 5.3 + - - -
754B HIS* 2.9 25.6 + - + +
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Residues in contact with ILE 751 (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 TRP* 4.1 11.2 - - + -
653B VAL* 4.0 11.9 - - + -
703B ILE* 3.6 37.9 - - + -
735B TYR* 3.2 20.4 + - + +
742B ILE* 3.8 27.8 - - + +
747B ALA 2.8 24.9 + - - +
748B HIS* 3.3 13.9 - - - +
750B HIS* 1.3 72.6 - - - +
752B TYR* 1.3 76.0 + - + +
754B HIS* 3.4 1.7 + - - +
755B MET* 2.9 36.0 + - - +
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Residues in contact with TYR 752 (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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45B LEU* 4.5 8.7 - - + -
48B TYR* 4.0 12.6 + + + -
49B LEU* 4.2 14.4 - - + -
563B TRP* 3.5 50.5 + + + -
627B TRP* 4.2 16.0 - + - -
629B TRP* 3.7 24.9 - + - -
748B HIS* 3.2 54.9 + + - +
751B ILE* 1.3 88.5 - - + +
753B THR* 1.3 58.1 + - - +
755B MET* 3.9 8.1 - - - +
756B SER* 2.7 38.0 + - - -
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Residues in contact with THR 753 (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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729A ASP* 4.8 11.2 - - + +
45B LEU* 4.0 17.3 - - + +
49B LEU* 3.8 13.0 - - - +
749B GLN* 2.6 24.6 + - - +
750B HIS* 3.7 6.3 - - - -
752B TYR* 1.3 77.7 - - - +
754B HIS* 1.3 62.5 + - - +
756B SER* 3.2 3.6 + - - -
757B HIS* 3.2 47.6 + - + +
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Residues in contact with HIS 754 (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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729A ASP* 2.9 26.1 + - - +
730A PHE 3.2 24.6 + - - -
731A GLN* 3.8 21.4 + - - -
701B LEU* 4.2 23.7 - - + +
703B ILE* 4.7 4.0 - - + -
731B GLN* 5.8 3.2 + - - +
732B ALA 4.7 3.4 + - - -
733B MET* 3.6 33.6 - - + +
735B TYR* 4.2 7.0 - - - +
750B HIS* 2.9 18.8 + - - +
751B ILE* 3.6 4.3 - - - +
753B THR* 1.3 80.2 - - - +
755B MET* 1.3 62.2 + - + +
757B HIS* 3.3 7.5 + - + +
758B PHE* 3.2 20.4 + - + +
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Residues in contact with MET 755 (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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563B TRP* 3.9 18.2 - - + -
627B TRP* 3.1 41.7 - - + -
629B TRP* 5.6 0.7 - - - -
651B ILE* 3.3 41.7 - - + +
653B VAL* 4.1 11.7 - - + -
701B LEU* 4.4 1.6 - - + -
703B ILE* 3.7 17.9 - - + -
751B ILE* 2.9 36.1 + - - +
752B TYR* 4.0 10.5 - - - +
753B THR 3.3 0.2 - - - -
754B HIS* 1.3 73.3 - - - +
756B SER* 1.3 67.1 + - - +
758B PHE* 3.2 5.2 + - - +
759B ILE* 3.0 27.0 + - - +
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Residues in contact with SER 756 (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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45B LEU* 3.9 12.4 - - - +
563B TRP* 2.9 26.7 + - - -
566B TYR* 3.5 25.0 - - - -
567B LEU* 5.4 1.3 - - - -
752B TYR 2.7 25.6 + - - -
753B THR 3.2 6.0 + - - -
755B MET* 1.3 76.2 - - - +
757B HIS* 1.3 62.8 + - - +
759B ILE* 3.3 3.3 + - - +
760B LYS* 3.0 33.6 + - - +
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Residues in contact with HIS 757 (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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729A ASP* 3.8 25.7 + - - +
753B THR* 3.2 39.1 + - + +
754B HIS* 3.6 7.2 - - - +
755B MET 3.3 0.2 - - - -
756B SER* 1.3 77.9 - - - +
758B PHE* 1.3 62.8 + - - +
760B LYS* 3.5 17.3 + - - +
761B GLN* 3.0 26.0 + - - +
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Residues in contact with PHE 758 (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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649B CYS* 4.1 21.1 - - + -
650B GLY 4.0 7.0 - - - -
651B ILE* 3.7 30.5 - - + -
699B GLU* 3.6 34.3 - - + -
700B TYR 4.2 1.8 - - - -
701B LEU* 3.7 32.1 - - + -
731B GLN* 4.0 27.6 - - + -
754B HIS* 3.2 7.2 + - + +
755B MET 3.2 6.7 + - - +
757B HIS* 1.3 79.7 - - - +
759B ILE* 1.3 62.5 + - + +
761B GLN* 3.4 19.7 + - - +
762B CYS* 3.0 26.4 + - + +
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Residues in contact with ILE 759 (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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543B LEU* 4.6 15.0 - - + -
563B TRP* 4.0 20.2 - - + -
567B LEU* 4.6 8.5 - - + -
573B ILE* 3.8 28.0 - - + -
625B ALA* 4.4 22.0 - - + -
626B ILE 6.2 0.4 - - - +
627B TRP* 5.9 1.1 - - + -
649B CYS* 4.9 1.8 - - - -
650B GLY* 6.1 0.4 - - - -
651B ILE* 3.9 19.5 - - + -
755B MET 3.0 21.0 + - - +
756B SER* 3.3 6.0 + - - +
758B PHE* 1.3 81.0 - - + +
760B LYS* 1.3 61.2 - - + +
762B CYS* 3.2 3.9 + - - +
763B PHE* 2.9 40.9 + - + +
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Residues in contact with LYS 760 (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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566B TYR* 4.2 8.0 + - - +
567B LEU* 6.3 0.9 - - + -
571B GLU* 3.0 46.6 + - + +
573B ILE* 5.7 2.2 - - + -
756B SER* 3.0 21.0 + - - +
757B HIS* 3.9 18.5 + - - +
759B ILE* 1.3 80.1 - - + +
761B GLN* 1.3 53.7 + - - +
763B PHE* 3.6 3.3 - - - -
764B SER* 2.8 47.0 + - - +
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Residues in contact with GLN 761 (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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648B LYS* 4.9 1.6 + - - -
699B GLU* 4.1 18.9 + - - +
731B GLN* 6.1 2.4 - - - -
757B HIS 3.0 19.6 + - - +
758B PHE* 3.5 19.7 + - - +
760B LYS* 1.3 76.4 - - - +
762B CYS* 1.3 65.0 + - - +
763B PHE 3.4 0.5 + - - -
764B SER* 3.6 14.5 + - - +
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Residues in contact with CYS 762 (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 ARG* 4.6 1.9 - - - +
648B LYS* 2.8 51.7 + - - +
649B CYS* 2.0 52.9 - - + -
699B GLU* 4.2 11.0 - - - +
758B PHE* 3.0 19.7 + - + +
759B ILE* 3.7 5.4 - - - +
761B GLN* 1.3 76.8 - - - +
763B PHE* 1.3 67.3 + - - +
764B SER 4.9 1.9 - - - +
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Residues in contact with PHE 763 (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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541B PRO* 3.7 20.9 - - + -
542B LEU 3.6 17.5 - - - -
543B LEU* 4.5 2.9 - - + -
573B ILE* 3.8 29.4 - - + -
623B ARG* 2.8 82.4 + - + +
624B ILE 3.9 1.6 - - - -
625B ALA* 3.6 22.9 - - + -
759B ILE* 2.9 36.0 + - + +
760B LYS* 4.1 4.0 - - - +
762B CYS* 1.3 90.4 - - - +
764B SER* 1.3 63.9 + - - +
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Residues in contact with SER 764 (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 ARG* 4.9 2.7 - - - +
760B LYS* 2.8 30.3 + - - +
761B GLN* 3.6 9.9 + - - +
762B CYS 3.6 2.5 - - - +
763B PHE* 1.3 80.9 + - - +
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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
------------------------------------------------------------
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