Contacts of the helix formed by residues 775 - 791 (chain B) in PDB entry 2HRC
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 PRO 775 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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297A TYR* 6.5 0.7 - - + -
298A ARG* 3.8 33.0 - - - +
694B TYR* 3.5 35.7 - - + +
696B CYS* 4.3 2.2 - - - -
726B ARG* 3.9 16.4 - - - +
773B GLY 3.4 7.6 - - - +
774B ASP* 1.3 89.2 - - - +
776B TYR* 1.3 61.9 + - - -
777B PRO* 3.6 0.7 - - - -
778B GLN* 3.4 10.4 + - + +
779B GLU* 3.2 26.7 + - + +
898B GLN* 5.1 4.3 - - - +
903B CYS* 4.3 4.0 - - - -
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Residues in contact with TYR 776 (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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691B TYR* 6.4 1.6 - + - -
693B GLN* 3.9 22.9 - - + -
694B TYR 3.0 11.9 + - - +
695B SER* 3.8 10.1 - - - -
698B THR* 5.7 0.7 - - - -
762B ALA* 3.5 7.3 - - + +
763B HIS 2.8 41.6 + - - -
765B LEU* 3.5 23.8 - - + -
774B ASP* 2.9 19.8 + - - +
775B PRO* 1.3 75.8 - - - +
777B PRO* 1.3 70.4 - - + +
779B GLU* 3.1 4.4 + - - +
780B VAL* 2.9 48.1 + - + +
801B TRP* 3.7 17.0 - + - -
811B LEU* 6.0 0.2 - - + -
836B ALA* 3.6 12.3 - - + +
1602B IMD 3.3 25.6 + + - -
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Residues in contact with PRO 777 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
707A GOL 3.4 32.7 + - - +
765B LEU* 4.2 4.7 - - + -
770B VAL* 4.3 17.7 - - + -
774B ASP* 3.4 15.3 - - + +
775B PRO 3.8 0.4 - - - -
776B TYR* 1.3 98.8 - - + +
778B GLN* 1.3 59.8 + - - +
780B VAL* 3.5 1.9 + - - +
781B SER* 2.8 29.3 + - - -
801B TRP* 3.9 13.4 - - + -
811B LEU* 3.8 22.9 - - + -
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Residues in contact with GLN 778 (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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281A SER* 3.0 48.5 + - - +
284A VAL* 3.9 5.6 - - + +
285A GLN* 3.7 21.6 - - - +
297A TYR* 2.9 33.5 + - + -
299A LEU* 4.1 24.5 - - + +
707A GOL 4.1 1.9 + - - +
774B ASP 5.4 0.2 + - - -
775B PRO* 3.4 10.8 + - + +
776B TYR 3.3 0.8 - - - -
777B PRO* 1.3 79.1 - - - +
779B GLU* 1.3 67.0 + - - +
781B SER* 3.4 4.2 + - - -
782B ALA* 3.0 22.6 + - - +
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Residues in contact with GLU 779 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
297A TYR* 4.5 8.2 + - - +
693B GLN* 3.5 17.0 - - + -
694B TYR* 2.8 29.7 + - - +
726B ARG* 3.0 42.8 + - - +
728B PRO* 3.8 17.4 - - + +
775B PRO* 3.2 18.7 + - + +
776B TYR 3.1 4.7 + - - +
778B GLN* 1.3 87.6 - - - +
780B VAL* 1.3 66.3 + - - +
782B ALA* 3.0 9.7 + - + +
783B THR* 3.0 23.2 + - - -
898B GLN* 4.6 3.6 - - - +
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Residues in contact with VAL 780 (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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693B GLN* 3.6 21.5 - - + +
762B ALA* 4.0 6.5 - - + -
776B TYR* 2.9 57.7 + - + +
777B PRO 3.9 3.4 - - - +
779B GLU* 1.3 74.6 - - - +
781B SER* 1.3 63.6 + - - +
783B THR* 3.1 4.5 + - - -
784B VAL* 3.1 20.6 + - - +
799B LEU* 3.9 20.9 - - + -
801B TRP* 4.0 6.1 - - + -
835B ILE* 3.8 27.4 - - + -
836B ALA* 4.5 1.6 - - + -
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Residues in contact with SER 781 (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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278A GLN* 3.1 27.1 + - - -
281A SER* 3.2 28.0 - - - -
282A ALA 5.2 0.4 - - - -
707A GOL 3.3 23.7 + - - -
777B PRO 2.8 19.1 + - - -
778B GLN 3.4 0.4 - - - -
780B VAL* 1.3 78.8 - - - +
782B ALA* 1.3 60.1 + - - +
784B VAL* 3.3 2.1 + - - +
785B GLN* 3.0 18.9 + - - +
799B LEU* 3.5 14.6 - - - +
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Residues in contact with ALA 782 (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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281A SER* 4.9 0.2 - - - -
282A ALA* 5.0 3.8 - - - +
285A GLN* 3.4 37.7 - - + -
728B PRO* 5.1 2.7 - - + -
729B THR* 4.0 9.9 - - + -
778B GLN* 3.0 13.9 + - - +
779B GLU* 3.0 13.9 + - - +
781B SER* 1.3 74.9 - - - +
783B THR* 1.3 65.5 + - - +
785B GLN* 3.3 7.1 + - - +
786B LYS* 3.1 27.7 + - - +
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Residues in contact with THR 783 (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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693B GLN* 2.9 26.3 + - - +
728B PRO* 2.7 29.8 + - - +
733B LEU* 4.8 1.8 - - + -
734B ILE* 3.9 13.2 - - + -
737B PHE* 4.2 10.3 - - + -
779B GLU 3.0 10.8 + - - -
780B VAL 3.1 7.4 + - - -
782B ALA* 1.3 76.2 - - - +
784B VAL* 1.3 64.1 + - - +
786B LYS* 3.3 3.2 + - - +
787B VAL* 3.0 22.4 + - + +
835B ILE* 3.7 27.1 - - + -
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Residues in contact with VAL 784 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
278A GLN* 4.0 15.7 - - + +
760B PHE* 3.6 53.2 - - + -
780B VAL 3.1 14.5 + - - +
781B SER* 3.5 8.1 - - - +
782B ALA 3.3 0.2 - - - -
783B THR* 1.3 76.8 - - - +
785B GLN* 1.3 63.5 + - - +
787B VAL* 3.2 7.0 + - - +
788B MET* 3.0 22.9 + - - +
797B TYR* 4.1 16.8 - - + -
799B LEU* 4.1 20.0 - - + -
835B ILE* 4.2 7.2 - - + -
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Residues in contact with GLN 785 (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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228A PRO* 4.7 10.3 - - - +
229A THR* 4.2 17.3 + - + +
278A GLN* 2.9 25.8 + - - +
279A GLU* 4.9 3.7 - - - +
282A ALA* 3.4 28.9 - - + +
285A GLN* 6.2 0.2 - - - +
286A LYS* 6.1 0.9 - - + -
781B SER 3.0 12.8 + - - +
782B ALA* 3.7 8.5 - - - +
783B THR 3.3 0.2 - - - -
784B VAL* 1.3 77.6 - - - +
786B LYS* 1.3 60.9 + - + +
788B MET* 3.3 3.7 + - - +
789B GLU* 2.9 31.8 + - + +
793B TYR* 3.0 37.7 + - - +
797B TYR* 3.7 10.4 + - - -
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Residues in contact with LYS 786 (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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285A GLN* 2.4 39.4 + - - +
286A LYS* 4.8 7.7 - - - +
289A GLU* 3.7 21.4 + - - -
729B THR* 3.8 22.0 - - + +
734B ILE* 3.5 34.2 - - + +
782B ALA 3.1 17.6 + - - +
783B THR 3.3 0.4 + - - +
785B GLN* 1.3 79.9 - - + +
787B VAL* 1.3 63.2 + - - +
789B GLU* 3.3 25.7 + - - +
790B ARG* 3.0 19.6 + - - +
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Residues in contact with VAL 787 (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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734B ILE* 3.7 23.8 - - + -
737B PHE* 3.8 21.8 - - + -
738B ALA* 4.4 9.1 - - - +
741B ILE* 3.5 33.0 - - + -
760B PHE* 4.0 11.2 - - + -
783B THR 3.0 20.7 + - - +
784B VAL 3.6 4.3 - - - +
786B LYS* 1.3 75.9 - - - +
788B MET* 1.3 57.7 + - - +
790B ARG* 3.2 5.1 + - - +
791B LEU* 3.0 33.1 + - + +
835B ILE* 4.2 12.3 - - + -
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Residues in contact with MET 788 (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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758B ILE* 4.3 9.9 - - + -
760B PHE* 3.6 29.6 - - + -
784B VAL 3.0 19.5 + - - +
785B GLN 3.9 3.6 - - - +
787B VAL* 1.3 73.6 - - - +
789B GLU* 1.3 63.3 + - - +
791B LEU* 3.2 17.6 + - + +
792B GLU 3.0 3.8 + - - -
793B TYR* 2.9 55.1 + - + +
794B CYS 4.4 2.0 - - - +
795B ASN 3.4 18.4 - - - +
797B TYR* 3.3 53.4 - - + +
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Residues in contact with GLU 789 (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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229A THR* 5.1 5.5 + - - -
286A LYS* 4.9 17.2 + - - +
785B GLN* 2.9 20.0 + - + +
786B LYS* 3.5 29.5 - - - +
787B VAL 3.2 0.2 - - - -
788B MET* 1.3 76.6 - - - +
790B ARG* 1.3 62.6 + - - +
792B GLU* 3.0 17.8 + - - +
793B TYR* 4.0 23.9 + - + +
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Residues in contact with ARG 790 (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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731B HIS 5.5 2.2 + - - -
734B ILE* 4.2 10.3 - - + -
735B GLN* 3.4 56.9 + - - +
738B ALA* 3.6 23.7 - - + +
739B ASP* 5.1 3.8 + - - -
786B LYS 3.0 12.8 + - - +
787B VAL 3.2 8.3 + - - +
789B GLU* 1.3 78.5 + - - +
791B LEU* 1.3 57.9 + - - +
792B GLU* 3.1 9.9 + - - +
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Residues in contact with LEU 791 (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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738B ALA* 3.8 19.7 - - + +
741B ILE* 3.7 39.0 - - + -
742B LEU* 3.5 42.4 - - + -
758B ILE* 4.6 2.2 - - + -
787B VAL* 3.0 23.1 + - + +
788B MET* 3.8 22.2 - - + +
789B GLU 3.2 0.6 - - - -
790B ARG* 1.3 75.4 - - - +
792B GLU* 1.3 70.2 + - - +
793B TYR 3.2 0.9 - - - +
794B CYS* 3.2 30.5 + - - +
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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
------------------------------------------------------------
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