Contacts of the helix formed by residues 968 - 993 (chain A) in PDB entry 4ZZ0
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 THR 968 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
932A LEU* 3.6 9.9 - - - -
966A GLY 3.9 9.0 - - - +
967A ASP* 1.3 78.7 - - - +
969A VAL* 1.3 65.4 + - - +
970A ALA* 3.2 19.8 + - - +
971A THR* 3.0 18.7 + - + +
972A LEU* 2.8 23.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 969 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
928A HIS* 4.1 25.8 - - + -
929A GLU* 3.8 33.2 - - + +
932A LEU* 3.6 11.8 - - + +
968A THR* 1.3 73.4 - - - +
970A ALA* 1.3 58.5 + - - +
972A LEU* 4.7 0.4 - - - -
973A SER* 2.7 43.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 970 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
968A THR* 3.1 10.8 + - - +
969A VAL* 1.3 82.7 - - - +
971A THR* 1.3 65.1 + - + +
973A SER* 3.3 5.6 + - - -
974A GLU* 3.3 21.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 971 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
966A GLY 5.8 1.1 - - - +
967A ASP* 2.7 29.0 + - - -
968A THR* 3.0 27.6 + - + +
970A ALA* 1.3 77.8 - - + +
972A LEU* 1.3 64.8 + - - +
974A GLU* 3.5 14.8 + - - +
975A ARG* 3.2 28.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 972 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
928A HIS* 3.8 26.5 - - + +
931A ALA* 4.5 6.5 - - + -
932A LEU* 4.0 27.4 - - + -
939A THR* 3.8 28.7 - - + -
961A VAL* 4.9 0.9 - - + -
962A PRO 4.0 5.8 - - - +
963A VAL* 4.1 9.0 - - + -
967A ASP* 3.7 12.3 - - + +
968A THR 2.8 17.9 + - - +
969A VAL* 4.3 2.2 - - - +
971A THR* 1.3 76.5 + - - +
973A SER* 1.3 58.3 + - - +
975A ARG* 3.1 24.7 + - - +
976A VAL* 2.9 37.2 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 973 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
928A HIS* 3.5 33.0 + - - -
969A VAL* 2.7 29.0 + - - +
970A ALA* 3.3 7.3 + - - -
972A LEU* 1.3 77.5 - - - +
974A GLU* 1.3 59.9 + - - +
976A VAL* 3.8 0.5 - - - +
977A LYS* 2.9 47.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 974 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
970A ALA 3.3 14.9 + - - +
971A THR* 3.6 15.6 - - - +
972A LEU 3.2 0.2 - - - -
973A SER* 1.3 83.9 + - - +
975A ARG* 1.3 63.3 + - - +
977A LYS* 3.4 13.6 + - - +
978A LEU* 3.5 19.6 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 975 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
961A VAL* 3.6 17.5 - - + +
962A PRO* 2.9 38.8 + - + -
964A LYS* 3.7 32.7 - - - +
967A ASP* 2.8 43.8 + - - -
971A THR* 3.2 14.2 + - - +
972A LEU* 3.1 17.9 + - - +
974A GLU* 1.3 79.7 - - - +
976A VAL* 1.3 63.4 + - - +
978A LEU* 3.2 30.2 + - + +
979A ALA 3.8 2.1 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 976 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
916A PRO* 4.2 2.2 - - + -
928A HIS* 3.8 24.2 - - + -
939A THR* 4.0 19.7 - - + -
940A GLY* 3.6 22.9 - - - +
941A CYS* 3.9 11.7 - - + -
961A VAL* 3.9 24.2 - - + -
972A LEU* 2.9 22.6 + - + +
973A SER 4.0 1.1 - - - +
975A ARG* 1.3 74.4 - - - +
977A LYS* 1.3 60.4 + - - +
979A ALA* 3.0 5.9 + - - +
980A GLU* 2.9 36.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 977 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
817A THR* 5.0 8.1 + - - +
819A SER* 3.7 14.9 + - - +
820A ASN* 5.2 0.4 - - - +
973A SER* 2.9 32.4 + - - +
974A GLU* 3.8 7.9 - - - +
975A ARG 3.3 0.4 - - - -
976A VAL* 1.3 77.9 - - - +
978A LEU* 1.3 62.7 + - + +
980A GLU* 3.7 21.1 - - - +
981A HIS* 3.0 43.1 + - + +
1101A GAR 3.3 48.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 978 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
974A GLU* 3.5 17.2 + - + +
975A ARG* 3.2 20.3 + - + +
976A VAL 3.2 0.6 - - - -
977A LYS* 1.3 80.2 - - + +
979A ALA* 1.3 60.5 + - - +
981A HIS* 3.6 15.6 + - + +
982A LYS* 3.5 27.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 979 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
941A CYS* 3.7 12.6 - - - -
959A GLU* 3.5 34.7 - - + +
961A VAL* 3.7 23.8 - - + -
975A ARG 3.8 0.8 + - - +
976A VAL 3.0 9.6 + - - +
978A LEU* 1.3 76.4 - - - +
980A GLU* 1.3 65.1 + - - +
981A HIS 3.1 1.8 - - - -
982A LYS* 2.9 14.7 + - - +
983A ILE* 3.0 15.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 980 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
820A ASN* 2.8 36.4 + - - +
914A ILE* 3.6 12.1 - - + +
916A PRO* 3.7 12.7 - - - +
928A HIS* 5.0 0.7 + - - -
941A CYS* 3.5 23.8 - - + -
973A SER 5.0 0.2 - - - +
976A VAL* 2.9 22.4 + - - +
977A LYS* 3.6 19.8 - - - +
979A ALA* 1.3 76.0 - - - +
981A HIS* 1.3 58.2 + - + +
982A LYS 3.1 0.2 - - - -
983A ILE* 4.2 0.2 - - - -
984A PHE* 3.0 36.0 + - - +
1101A GAR 2.7 43.3 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 981 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
819A SER* 2.8 50.5 + - - -
820A ASN* 3.5 20.2 + - - -
823A ALA* 3.7 19.8 - - + +
977A LYS* 3.0 30.9 + - + +
978A LEU* 3.9 14.0 - - + +
979A ALA 3.1 0.4 - - - -
980A GLU* 1.3 75.8 - - + +
982A LYS* 1.3 59.5 + - + +
985A PRO* 3.2 21.5 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 982 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
959A GLU* 3.9 28.4 + - - +
978A LEU* 3.5 21.5 - - - +
979A ALA 2.9 6.5 + - - +
981A HIS* 1.3 81.3 - - + +
983A ILE* 1.3 65.6 + - + +
984A PHE 3.4 0.4 - - - -
985A PRO* 3.5 4.2 - - - +
986A ALA* 3.2 22.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 983 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
914A ILE* 4.0 2.5 - - + -
941A CYS* 3.5 42.0 - - - +
942A THR 3.9 0.4 - - - +
943A VAL* 3.7 20.0 - - + +
957A LEU* 3.7 28.0 - - + +
958A GLN* 4.0 9.9 - - - +
959A GLU* 3.7 31.4 - - + +
979A ALA 3.0 15.8 + - - +
980A GLU 4.0 2.9 - - - +
982A LYS* 1.3 75.5 - - + +
984A PHE* 1.3 62.8 + - - +
986A ALA* 4.2 5.8 - - + -
987A ALA* 2.8 31.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 984 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
820A ASN* 3.9 13.5 - - + +
824A LEU* 3.8 19.1 - - + -
891A CYS* 3.7 34.5 - - + -
892A LEU 3.4 25.8 - - - -
893A ALA* 3.9 12.3 - - + -
912A LEU* 3.9 25.1 - - + -
914A ILE* 3.6 29.6 - - + -
943A VAL* 3.8 22.9 - - + -
980A GLU 3.0 17.8 + - - +
983A ILE* 1.3 77.9 - - - +
985A PRO* 1.3 68.7 - - + +
988A LEU* 2.9 22.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PRO 985 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
823A ALA* 3.7 27.1 - - + +
824A LEU* 3.7 13.0 - - + -
827A SER* 3.4 26.9 + - - +
980A GLU 3.9 0.2 - - - +
981A HIS* 3.2 30.7 - - - +
982A LYS 3.5 5.8 - - - +
984A PHE* 1.3 93.8 - - + +
986A ALA* 1.3 61.2 + - - +
988A LEU* 3.4 2.8 + - + +
989A GLN* 3.0 23.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 986 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
957A LEU* 3.6 20.4 - - + -
982A LYS 3.2 16.2 + - - +
983A ILE* 3.8 2.0 - - - +
984A PHE 3.2 1.0 - - - -
985A PRO* 1.3 79.6 - - - +
987A ALA* 1.3 57.7 + - - +
989A GLN* 3.3 6.8 + - - +
990A LEU* 3.0 32.3 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 987 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
912A LEU* 4.0 3.8 - - + -
943A VAL* 3.6 33.4 - - + -
956A ILE* 3.9 18.6 - - + -
957A LEU* 3.6 9.8 - - + +
983A ILE 2.8 18.1 + - - +
984A PHE 3.7 1.6 - - - +
986A ALA* 1.3 73.3 - - - +
988A LEU* 1.3 68.4 + - - +
990A LEU* 3.2 5.6 + - - +
991A VAL* 3.0 26.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 988 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
810A VAL* 4.0 18.6 - - + -
824A LEU* 3.9 21.5 - - + -
827A SER* 5.4 0.7 - - - +
828A THR* 3.8 28.7 - - + -
835A ALA* 4.0 12.1 - - + -
837A ILE* 5.4 0.9 - - + -
889A ILE* 3.9 24.0 - - + -
891A CYS* 3.9 27.6 - - - -
912A LEU* 4.0 9.6 - - + +
984A PHE* 2.9 17.0 + - + +
985A PRO 3.8 4.3 - - - +
987A ALA* 1.3 76.0 - - - +
989A GLN* 1.3 57.8 + - - +
991A VAL* 3.3 1.5 + - + +
992A ALA* 2.8 32.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 989 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
832A ASN 3.8 10.3 + - - -
833A SER* 3.6 9.2 + - - -
834A SER* 2.8 47.2 + - - +
835A ALA* 4.3 2.2 + - - +
985A PRO 3.0 18.1 + - - +
986A ALA* 3.6 7.0 - - - +
987A ALA 3.2 0.2 - - - -
988A LEU* 1.3 78.2 - - - +
990A LEU* 1.3 60.5 + - + +
992A ALA* 4.5 2.7 - - - +
993A SER* 2.8 41.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 990 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
956A ILE* 4.5 3.8 - - + -
957A LEU* 4.1 26.2 - - + -
986A ALA* 3.0 19.8 + - + +
987A ALA* 3.2 9.4 + - - +
989A GLN* 1.3 79.1 - - + +
991A VAL* 1.3 60.4 + - + +
993A SER* 3.2 4.0 + - - -
995A THR* 2.9 54.4 + - + +
996A VAL* 3.1 18.8 + - + -
1006A TRP* 3.6 34.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 991 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
889A ILE* 3.9 20.8 - - + +
909A GLY 4.5 7.6 - - - +
912A LEU* 4.1 19.5 - - + -
945A PHE* 3.8 31.0 - - + -
956A ILE* 4.1 14.6 - - + -
987A ALA 3.0 16.9 + - - +
988A LEU* 4.0 2.5 - - - +
990A LEU* 1.3 74.8 - - + +
992A ALA* 1.3 66.2 + - - +
994A GLY* 3.0 14.4 + - - -
996A VAL* 3.7 20.5 - - + +
997A GLN* 6.0 0.4 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 992 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
808A ALA* 3.9 18.5 + - + +
834A SER* 3.7 29.7 - - - +
835A ALA* 3.8 18.4 - - + -
889A ILE* 3.7 15.0 - - + +
988A LEU 2.8 22.4 + - - +
989A GLN* 4.2 1.6 - - - +
991A VAL* 1.3 74.0 - - - +
993A SER* 1.3 59.0 + - - +
994A GLY 3.2 0.6 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 993 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
834A SER* 3.7 19.9 - - - -
989A GLN* 2.8 31.4 + - - +
990A LEU* 3.2 4.7 + - - +
992A ALA* 1.3 76.1 - - - +
994A GLY* 1.3 60.6 + - - +
995A THR* 2.8 27.7 + - - -
----------------------------------------------------------
Back to top of page
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) + - + + + + + -
------------------------------------------------------------
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