Contacts of the helix formed by residues 957 - 976 (chain K) in PDB entry 5ANC
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 PHE 957 (chain K).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175J ARG* 3.6 34.1 - - - -
236J VAL* 3.8 24.9 - - + -
237J LEU 3.8 9.9 - - - -
916K GLU* 4.6 1.1 - - - -
917K GLU* 3.5 29.3 + - - +
931K GLN* 4.9 0.7 - - - -
932K ASP* 3.6 34.1 - - + +
955K GLY 3.5 1.4 + - - -
956K PRO* 1.3 73.4 - - - +
958K SER* 1.3 67.0 + - - +
960K GLN* 3.0 48.8 + - - +
961K LEU 3.0 10.2 + - - -
1109K HIS* 3.4 28.5 - - + -
1110K ALA* 3.7 10.8 - - - -
1111K GLU 4.0 2.7 - - - -
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Residues in contact with SER 958 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
173J ARG* 6.0 0.4 - - - -
175J ARG* 4.2 10.5 - - - +
198J GLU* 5.5 0.5 + - - -
867K ASN 5.7 0.2 - - - -
868K SER* 4.4 10.4 + - - -
932K ASP* 4.0 6.8 - - - +
933K GLY* 4.6 2.0 - - - -
934K CYS* 3.7 43.4 + - - +
957K PHE* 1.3 74.6 - - - +
959K GLY* 1.3 58.2 + - - +
961K LEU* 3.2 14.0 + - - +
962K ILE* 2.9 45.6 + - - +
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Residues in contact with GLY 959 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
173J ARG* 3.7 23.1 - - - +
175J ARG* 3.9 18.9 - - - +
957K PHE* 3.3 4.4 - - - -
958K SER* 1.3 77.2 - - - +
960K GLN* 1.3 58.0 + - - +
962K ILE* 3.2 8.1 + - - +
963K ALA* 2.9 28.8 + - - +
1105K LYS* 4.1 0.5 + - - -
1109K HIS* 4.1 11.7 - - - -
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Residues in contact with GLN 960 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
744K THR* 4.8 13.0 - - + +
745K PRO* 4.4 8.1 - - + +
913K GLU* 3.1 35.5 + - - +
916K GLU* 4.3 0.8 + - - -
917K GLU* 5.3 1.8 - - - +
956K PRO* 3.6 22.8 - - + +
957K PHE* 3.0 39.6 + - + +
959K GLY* 1.3 75.2 - - - +
961K LEU* 1.3 56.1 + - - +
963K ALA* 3.2 8.4 + - - +
964K THR* 2.9 31.3 + - - -
1108K GLU* 5.2 3.0 - - - +
1109K HIS* 3.2 31.7 + - - +
1110K ALA* 4.2 6.6 - - - +
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Residues in contact with LEU 961 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
749K ALA* 3.6 31.9 - - + -
865K LEU* 5.6 1.3 - - + -
868K SER* 3.5 21.1 - - - +
897K TRP* 4.6 14.3 + - + +
899K LEU* 4.0 26.7 - - + -
933K GLY* 5.0 7.9 - - - -
956K PRO* 3.2 37.0 - - + +
957K PHE 3.0 8.7 + - - +
958K SER* 3.2 13.9 + - - +
960K GLN* 1.3 76.0 - - - +
962K ILE* 1.3 62.4 + - - +
964K THR* 3.2 25.4 + - + +
965K MET* 3.2 13.7 + - - +
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Residues in contact with ILE 962 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
173J ARG* 3.6 25.1 - - - +
244J GLU* 5.3 2.7 - - - +
867K ASN 4.9 2.2 - - - +
868K SER* 3.8 32.8 - - - +
871K SER* 4.3 16.2 - - - +
872K GLY* 3.8 25.1 - - - +
875K LEU* 4.9 3.8 - - + +
958K SER* 2.9 32.7 + - - +
959K GLY* 3.4 6.3 - - - +
961K LEU* 1.3 78.0 - - - +
963K ALA* 1.3 62.4 + - - +
965K MET* 3.6 10.3 + - - +
966K LYS* 3.7 9.0 + - - +
1105K LYS* 3.5 22.4 - - - +
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Residues in contact with ALA 963 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
959K GLY 2.9 11.9 + - - +
960K GLN 3.3 10.1 - - - +
962K ILE* 1.3 78.0 - - - +
964K THR* 1.3 61.8 + - - +
966K LYS* 3.2 19.5 + - - +
967K GLU* 3.2 16.6 + - - +
1105K LYS* 4.3 9.4 - - - +
1107K VAL* 4.5 4.9 - - - +
1108K GLU* 3.6 33.2 - - - +
1109K HIS* 4.2 13.7 - - + +
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Residues in contact with THR 964 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
742K ILE* 3.1 31.3 - - + +
744K THR* 4.5 11.4 - - - -
745K PRO* 4.8 3.0 - - + +
749K ALA* 4.2 18.2 - - + +
751K LEU* 4.3 8.1 - - + -
897K TRP* 5.6 2.0 - - - +
960K GLN* 2.9 16.8 + - - +
961K LEU* 3.2 28.4 + - + +
963K ALA* 1.3 74.1 - - - +
965K MET* 1.3 66.2 - - + +
967K GLU* 3.2 16.4 + - - +
968K ALA* 3.2 25.3 + - - +
1108K GLU* 5.5 1.3 - - - -
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Residues in contact with MET 965 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
751K LEU* 3.8 24.1 - - + +
868K SER* 3.4 33.4 - - - +
869K ILE* 3.8 4.0 - - + -
872K GLY* 4.0 14.4 - - - -
873K PHE* 3.6 31.6 - - + -
876K ALA* 5.0 0.2 - - - -
897K TRP* 3.4 53.6 - - + +
961K LEU 3.2 13.4 + - - +
962K ILE 3.7 7.0 - - - +
964K THR* 1.3 78.3 - - + +
966K LYS* 1.3 62.5 + - - +
969K CYS* 3.3 30.9 + - - -
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Residues in contact with LYS 966 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
872K GLY 4.3 5.8 + - - +
875K LEU* 3.6 48.7 - - + +
876K ALA* 4.4 6.8 - - - +
879K SER* 3.6 17.3 + - - +
962K ILE 3.7 7.0 + - - +
963K ALA* 3.2 12.2 + - - +
965K MET* 1.3 79.8 - - - +
967K GLU* 1.3 57.0 - - - +
969K CYS* 3.6 2.3 - - - +
970K ARG* 2.9 42.4 + - - +
1104K GLU* 3.2 30.2 + - - -
1105K LYS* 4.0 19.2 + - + +
1107K VAL* 3.8 23.8 - - + +
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Residues in contact with GLU 967 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
730K GLU* 5.8 2.0 - - - +
742K ILE* 3.9 9.9 - - + +
744K THR* 4.1 5.5 + - - -
963K ALA 3.2 8.9 + - - +
964K THR* 3.2 24.2 + - - +
966K LYS* 1.3 76.4 - - - +
968K ALA* 1.3 60.5 + - - +
970K ARG* 3.2 16.9 + - - +
971K TYR* 2.9 47.7 + - + +
1107K VAL* 3.4 40.3 - - + +
1108K GLU* 3.3 34.7 + - - +
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Residues in contact with ALA 968 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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740K ILE 4.3 5.8 - - - +
741K THR* 3.9 15.5 - - - -
742K ILE* 3.4 33.4 - - + +
751K LEU* 3.9 21.8 - - + +
752K SER* 5.9 0.2 - - - -
753K VAL* 5.0 1.6 - - + -
964K THR 3.2 7.2 + - - +
967K GLU* 1.3 77.7 - - - +
969K CYS* 1.3 58.6 + - - +
971K TYR* 3.2 8.4 + - - +
972K ALA* 2.9 29.7 + - - +
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Residues in contact with CYS 969 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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751K LEU* 4.1 2.7 - - - -
753K VAL* 3.7 27.8 - - - +
873K PHE* 3.5 25.8 - - - -
876K ALA* 3.4 34.3 - - + +
892K PHE* 3.9 9.9 - - + -
965K MET 3.3 20.8 + - - +
966K LYS 3.6 0.7 - - - +
967K GLU 3.2 0.4 - - - -
968K ALA* 1.3 78.3 - - - +
970K ARG* 1.3 63.3 + - - +
972K ALA* 3.2 3.1 + - - +
973K LEU* 3.1 30.1 + - - +
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Residues in contact with ARG 970 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
879K SER* 4.1 28.7 + - - +
880K GLY 4.6 5.5 - - - +
883K CYS* 4.3 14.7 - - - -
966K LYS* 2.9 30.0 + - - +
967K GLU* 3.3 14.7 + - - +
969K CYS* 1.3 78.3 - - - +
971K TYR* 1.3 82.4 + - + +
973K LEU* 3.4 9.3 + - - +
974K GLN* 2.9 46.7 + - - +
1069K THR* 3.6 17.0 + - - -
1070K THR* 2.9 31.9 + - - +
1073K GLU* 5.9 1.3 + - - -
1107K VAL* 3.9 28.3 - - - +
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Residues in contact with TYR 971 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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726K SER* 4.2 2.8 + - - +
729K PRO* 3.7 15.5 - - + +
730K GLU* 3.5 22.8 - - + +
739K LEU* 3.2 49.7 - - + +
741K THR 3.5 12.3 - - - +
742K ILE* 3.7 21.1 - - + -
967K GLU* 2.9 31.7 + - + +
968K ALA 3.2 5.8 + - - +
970K ARG* 1.3 95.9 + - + +
972K ALA* 1.3 64.9 + - - +
974K GLN* 3.2 19.9 + - - +
975K VAL* 3.2 13.3 + - - +
1070K THR* 6.0 1.9 - - + +
1073K GLU* 3.5 28.0 - - + -
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Residues in contact with ALA 972 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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739K LEU 3.5 10.1 - - - -
740K ILE* 3.8 19.5 - - + +
753K VAL* 3.8 15.3 - - + +
968K ALA 2.9 13.2 + - - +
969K CYS 3.2 8.0 + - - +
971K TYR* 1.3 77.0 - - - +
973K LEU* 1.3 63.1 + - - +
975K VAL* 3.1 6.8 - - - +
976K LYS* 3.1 48.2 + - - +
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Residues in contact with LEU 973 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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696K ILE* 4.0 8.9 - - + +
755K ALA* 3.9 29.2 - - + -
876K ALA 4.0 9.2 - - - +
879K SER 3.4 24.7 - - - +
880K GLY 4.2 1.1 - - - +
881K PRO* 3.8 24.3 - - + +
887K LEU* 3.8 34.3 - - + -
892K PHE* 4.2 13.5 - - + -
969K CYS 3.1 20.2 + - - +
970K ARG* 3.7 6.1 - - - +
972K ALA* 1.3 75.9 - - - +
974K GLN* 1.3 64.8 + - - +
976K LYS* 3.1 28.7 + - - +
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Residues in contact with GLN 974 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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721K MET* 3.4 12.8 - - - +
725K GLN* 3.6 16.9 - - + +
726K SER* 3.8 9.6 - - - +
880K GLY 4.5 1.3 - - - +
881K PRO* 3.3 27.3 + - + +
882K MET* 5.2 0.6 - - - +
883K CYS* 3.8 27.9 - - - +
970K ARG* 2.9 42.4 + - - +
971K TYR* 3.2 17.0 + - - +
973K LEU* 1.3 79.0 - - - +
975K VAL* 1.3 60.9 + - - +
976K LYS 3.8 0.3 - - - +
978K GLN* 3.5 14.6 + - - -
1068K PRO* 4.6 6.5 - - - +
1073K GLU* 3.2 25.6 + - - +
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Residues in contact with VAL 975 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
712K GLN* 3.6 20.0 - - - +
721K MET* 3.8 11.7 - - - +
722K LYS* 3.7 23.3 - - + +
725K GLN 4.8 3.6 - - - +
726K SER* 3.7 26.5 - - - +
737K ASP 5.3 0.4 - - - +
738K GLY* 3.8 10.5 - - - -
739K LEU 3.4 38.1 - - - +
740K ILE* 3.8 13.5 - - + -
971K TYR 3.2 3.3 + - - +
972K ALA 3.1 15.5 - - - +
974K GLN* 1.3 76.5 - - - +
976K LYS* 1.3 64.0 + - + +
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Residues in contact with LYS 976 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
696K ILE* 4.1 11.2 - - + -
698K LYS 4.0 11.7 - - - +
700K PRO* 3.9 35.9 - - + -
712K GLN* 3.7 1.6 - - - -
721K MET* 3.9 1.7 - - - +
753K VAL* 3.9 5.4 + - - +
754K ARG* 3.8 9.7 - - - +
755K ALA* 3.5 43.3 - - + +
892K PHE* 5.1 0.8 - - - -
972K ALA* 3.1 45.8 + - - +
973K LEU* 3.1 22.0 + - + +
974K GLN 3.8 0.5 - - - +
975K VAL* 1.3 78.6 - - - +
977K PRO* 1.4 68.7 - - + +
978K GLN* 3.0 24.8 + - - +
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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