Contacts of the helix formed by residues 815 - 832 (chain A) in PDB entry 1MWH
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 815 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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814A TRP* 1.3 119.0 - - + +
816A ALA* 1.3 59.0 + - - +
817A ILE* 2.9 3.6 - - + -
818A LEU* 2.8 39.1 + - + +
819A ASP 3.9 1.4 + - - -
865A TYR* 3.9 20.4 - - + +
953A ARG* 3.8 30.5 - - + +
1034A MET* 3.7 17.0 - - + -
1038A LEU* 4.9 1.6 - - + -
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Residues in contact with ALA 816 (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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812A GLU* 3.7 33.9 - - + +
813A PRO 3.0 18.4 + - - +
814A TRP* 3.5 0.4 - - - +
815A PRO* 1.3 76.2 - - - +
817A ILE* 1.3 62.7 + - - +
819A ASP* 3.1 21.8 + - - +
820A GLN* 3.3 23.6 + - - +
953A ARG* 4.1 12.8 + - - +
954A ASN* 6.1 1.6 - - + -
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Residues in contact with ILE 817 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148A LYS* 3.8 34.8 - - + +
149A ALA* 4.3 1.3 - - + -
812A GLU 5.5 1.2 + - - -
813A PRO 4.9 0.2 + - - -
814A TRP* 3.6 35.8 - - + +
815A PRO 2.9 2.0 - - - -
816A ALA* 1.3 80.0 - - - +
818A LEU* 1.3 59.7 + - + +
820A GLN* 3.1 21.3 + - + +
821A ILE* 2.9 49.2 + - + +
849A PHE* 3.6 38.4 - - + -
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Residues in contact with LEU 818 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
814A TRP* 4.5 2.5 - - + -
815A PRO* 2.8 26.5 + - + +
817A ILE* 1.3 76.8 - - + +
819A ASP* 1.3 67.3 + - - +
821A ILE* 3.1 8.1 + - + +
822A MET* 2.9 28.1 + - - +
846A CYS* 4.7 0.7 - - - +
849A PHE* 3.6 38.4 - - + +
850A SER* 5.1 0.2 - - - -
865A TYR* 3.5 36.8 - - + -
870A PHE* 4.0 21.0 - - + -
873A TRP* 3.6 30.7 - - + -
953A ARG* 5.3 1.3 - - - -
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Residues in contact with ASP 819 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
815A PRO 5.2 0.2 - - - -
816A ALA* 3.1 14.1 + - + +
818A LEU* 1.3 79.6 - - - +
820A GLN* 1.3 59.0 + - + +
822A MET* 3.4 8.3 + - - +
823A GLY* 2.9 24.3 + - - -
873A TRP* 5.3 2.9 - - - -
953A ARG* 2.6 53.2 + - - +
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Residues in contact with GLN 820 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148A LYS* 3.8 31.8 - - + +
803A LYS* 3.3 40.2 - - + +
805A ARG* 4.7 1.8 + - - +
812A GLU* 4.5 10.3 + - - +
816A ALA* 3.3 29.3 + - - +
817A ILE* 3.1 16.9 + - + +
818A LEU 3.1 0.4 - - - -
819A ASP* 1.3 77.5 - - + +
821A ILE* 1.3 60.0 + - - +
823A GLY* 3.2 2.2 + - - -
824A VAL* 2.9 32.0 + - - +
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Residues in contact with ILE 821 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148A LYS* 4.9 2.2 - - + -
154A PHE* 4.3 11.4 - - + -
817A ILE* 2.9 40.5 + - + +
818A LEU* 3.1 8.5 + - + +
820A GLN* 1.3 74.7 - - - +
822A MET* 1.3 62.6 + - - +
824A VAL* 3.1 10.2 + - + +
825A PHE* 2.9 25.8 + - - +
842A SER* 5.1 2.5 - - - +
845A LEU* 3.3 41.5 - - + -
846A CYS* 4.1 27.4 - - - +
849A PHE* 4.0 24.0 - - + -
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Residues in contact with MET 822 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
818A LEU 2.9 19.4 + - - +
819A ASP* 3.7 9.0 - - - +
821A ILE* 1.3 76.0 - - - +
823A GLY* 1.3 57.3 + - - +
825A PHE* 3.3 18.7 + - + +
826A PHE* 3.0 67.5 + - + -
846A CYS* 4.1 23.6 - - - -
870A PHE* 4.2 8.3 - - + -
873A TRP* 3.6 45.5 - - + +
875A LEU* 4.0 19.1 - - + +
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Residues in contact with GLY 823 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
819A ASP 2.9 14.2 + - - -
820A GLN* 3.2 5.1 + - - -
821A ILE 3.1 0.2 - - - -
822A MET* 1.3 75.3 - - - +
824A VAL* 1.3 63.6 + - - +
826A PHE* 3.4 10.5 + - - +
827A ASN* 3.1 30.6 + - - -
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Residues in contact with VAL 824 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148A LYS* 3.7 26.7 - - + +
799A PRO 5.4 0.2 - - - +
800A ILE* 3.8 39.7 - - + +
820A GLN 2.9 22.1 + - - +
821A ILE* 3.1 15.7 + - + +
823A GLY* 1.3 75.8 - - - +
825A PHE* 1.3 65.1 + - - +
827A ASN* 3.2 11.7 + - - +
828A GLY 3.2 16.1 + - - -
838A TRP* 3.3 20.7 - - + -
841A TYR* 6.1 0.4 - - + -
845A LEU* 5.1 7.0 - - + -
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Residues in contact with PHE 825 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
821A ILE* 2.9 12.9 + - + +
822A MET* 3.4 19.7 - - + +
824A VAL* 1.3 77.6 - - - +
826A PHE* 1.3 87.3 + + - +
828A GLY 3.0 10.7 + - - -
829A VAL* 3.2 24.2 + - + +
838A TRP* 3.1 33.5 + + - +
839A ILE* 4.4 12.6 - - + -
842A SER* 3.1 29.8 - - - +
846A CYS* 6.3 0.9 - - - -
874A GLY 3.8 18.2 - - - -
875A LEU* 3.6 18.2 - - + -
876A PRO* 3.6 22.2 - - + -
890A TRP* 3.8 11.0 - - + -
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Residues in contact with PHE 826 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
822A MET* 3.0 45.1 + - + +
823A GLY* 4.0 7.9 - - - +
824A VAL 3.4 0.2 - - - -
825A PHE* 1.3 97.4 - + - +
827A ASN* 1.3 65.7 + - - +
829A VAL* 3.2 5.5 + - + +
830A HIS* 3.1 40.5 + - + +
873A TRP 3.3 25.1 - - - -
874A GLY* 4.4 7.6 - - - -
890A TRP 5.9 0.7 - - - -
894A THR* 5.0 2.7 - - - -
1182A ASP* 6.4 2.2 - - + -
1183A THR* 4.1 22.2 - - + -
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Residues in contact with ASN 827 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
798A HIS* 4.3 35.7 + - + +
823A GLY 3.1 21.4 + - - +
824A VAL* 3.6 13.1 - - + +
825A PHE 3.2 0.4 - - - -
826A PHE* 1.3 76.8 - - - +
828A GLY* 1.3 59.3 + - - +
830A HIS* 3.4 9.0 + - - +
831A ASP* 2.7 45.1 + - - +
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Residues in contact with GLY 828 (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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824A VAL 3.2 4.8 + - - -
825A PHE 3.0 4.6 + - - -
827A ASN* 1.3 79.2 - - - +
829A VAL* 1.3 55.0 + - - +
831A ASP* 3.6 1.7 - - - -
832A GLY* 2.9 23.7 + - - -
833A LEU* 3.2 25.6 + - - -
838A TRP* 3.4 30.5 - - - -
890A TRP* 3.7 0.7 - - - -
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Residues in contact with VAL 829 (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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825A PHE* 3.2 30.6 + - + +
826A PHE* 3.2 9.8 + - - +
828A GLY* 1.3 74.0 - - - +
830A HIS* 1.3 66.5 + - - +
832A GLY* 3.2 9.5 + - - -
890A TRP* 3.2 72.2 + - + +
891A TYR* 4.2 11.4 + - + -
1081A ILE* 5.4 2.9 - - - +
1183A THR* 3.9 25.6 - - + +
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Residues in contact with HIS 830 (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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563A VAL* 4.8 25.2 - - + +
564A ILE* 3.9 19.4 - - + +
791A ARG* 3.2 21.0 + - - +
826A PHE* 3.1 30.4 + - + +
827A ASN* 3.9 10.3 - - - +
829A VAL* 1.3 78.4 - - - +
831A ASP* 1.3 62.8 + - - +
832A GLY 3.2 0.9 + - - -
1078A CYS* 4.8 3.1 - - - -
1081A ILE* 5.3 2.6 - - - +
1182A ASP* 3.5 36.0 + - - +
1183A THR* 3.8 22.2 + - + +
1186A SER* 5.3 7.4 + - - -
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Residues in contact with ASP 831 (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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366A ARG* 4.8 1.9 + - - -
563A VAL* 5.2 2.4 - - - +
791A ARG* 4.3 5.2 + - - -
793A PRO* 3.7 33.8 - - + +
794A ASN 4.9 1.0 + - - -
795A LEU* 4.1 29.7 - - + +
798A HIS* 2.9 42.6 + - - +
827A ASN* 2.7 28.4 + - - +
828A GLY* 4.1 4.7 - - - +
830A HIS* 1.3 76.0 - - - +
832A GLY* 1.3 61.8 + - - +
833A LEU* 3.6 6.6 + - + +
1078A CYS* 5.2 0.7 - - - -
1079A ALA 4.5 3.5 - - - +
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Residues in contact with GLY 832 (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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366A ARG* 3.4 14.6 + - - -
828A GLY 2.9 8.1 + - - -
829A VAL 3.2 7.5 + - - -
830A HIS 3.2 5.8 - - - -
831A ASP* 1.3 79.5 - - - +
833A LEU* 1.3 66.3 + - - +
890A TRP* 4.2 5.8 - - - -
1078A CYS* 5.5 0.2 - - - -
1080A GLY 3.7 8.2 - - - +
1081A ILE* 4.2 21.1 - - - -
1085A ASN* 3.2 10.3 + - - -
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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
------------------------------------------------------------
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