Contacts of the strand formed by residues 978 - 991 (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 GLN 978 (chain K).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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695K THR 3.7 13.0 - - - +
696K ILE* 4.3 4.3 - - + -
697K THR* 3.7 4.9 + - - -
717K VAL* 4.2 10.9 - - - +
718K ILE* 5.1 0.5 - - - +
719K HIS 5.4 2.3 - - - +
721K MET* 3.4 14.7 - - - +
881K PRO* 3.2 41.5 - - + +
882K MET* 5.2 1.1 - - + -
974K GLN 3.5 11.1 + - - -
976K LYS 3.0 19.3 + - - +
977K PRO* 1.3 73.9 - - - +
979K ARG* 1.3 67.0 + - - +
1064K PRO* 3.4 28.0 - - + +
1065K PHE* 3.2 27.7 - - - -
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Residues in contact with ARG 979 (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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694K GLU* 4.6 0.9 - - - -
695K THR* 3.1 28.5 + - - +
697K THR* 3.7 9.4 + - + +
717K VAL* 3.4 48.8 + - + +
718K ILE* 3.5 28.0 - - - +
978K GLN* 1.3 71.8 - - - +
980K LEU* 1.3 64.5 + - - +
981K MET 3.3 4.7 + - - -
1059K ILE* 3.7 30.2 + - + +
1060K ILE* 3.6 17.2 + - - +
1061K PRO* 3.3 38.4 - - - +
1062K SER 4.6 0.7 - - - -
1064K PRO* 3.9 7.4 - - - -
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Residues in contact with LEU 980 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
692K PHE* 3.9 41.3 - - + -
693K ARG 4.2 6.1 - - - +
694K GLU* 5.3 1.6 - - + +
979K ARG* 1.3 73.7 - - - +
981K MET* 1.3 58.8 + - - +
982K ALA* 3.2 12.9 + - + +
1059K ILE* 3.9 2.6 - - - +
1060K ILE* 3.4 27.7 + - + +
1062K SER* 3.8 38.3 + - - +
1064K PRO* 3.6 11.5 - - + +
1087K ALA* 4.9 4.5 - - + -
1088K ARG* 3.4 48.9 - - + +
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Residues in contact with MET 981 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
692K PHE* 3.7 1.6 - - - +
693K ARG* 3.1 45.4 + - + +
695K THR* 3.1 46.2 - - + +
760K GLU* 3.2 33.2 - - - +
763K THR* 5.8 0.2 - - - -
889K GLY* 4.6 9.2 - - - +
979K ARG 3.3 3.8 + - - -
980K LEU* 1.3 67.6 - - - +
982K ALA* 1.3 61.9 + - - +
1057K TRP* 3.8 33.9 - - + +
1058K GLU 3.4 19.5 - - - +
1059K ILE* 4.1 20.4 - - + +
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Residues in contact with ALA 982 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
692K PHE* 4.1 23.8 - - + -
980K LEU* 3.2 7.8 + - + +
981K MET* 1.3 73.2 - - - +
983K ALA* 1.3 67.3 + - - +
984K MET* 3.6 6.1 - - + +
1029K PRO* 4.7 3.4 - - + -
1057K TRP* 3.2 3.0 - - - +
1058K GLU 2.8 31.9 + - - +
1060K ILE* 3.4 36.6 - - + -
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Residues in contact with ALA 983 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
690K ILE* 4.2 10.3 - - + -
692K PHE* 3.7 27.3 - - + +
693K ARG* 4.6 8.5 - - - +
981K MET 3.7 1.8 + - - -
982K ALA* 1.3 73.7 - - - +
984K MET* 1.3 55.0 + - - +
1029K PRO* 3.1 10.4 - - - +
1030K VAL* 2.8 44.6 + - + -
1057K TRP* 4.0 21.1 - - + -
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Residues in contact with MET 984 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
982K ALA* 3.6 11.7 - - + +
983K ALA* 1.3 76.2 - - - +
985K TYR* 1.3 69.5 + - - +
986K THR 4.2 0.7 - - - +
1008K GLY* 5.3 2.5 - - - -
1027K VAL* 4.1 7.6 - - + -
1028K LEU 3.5 37.0 - - - +
1029K PRO* 3.5 10.3 - - + -
1030K VAL* 3.5 6.1 - - - +
1054K PHE* 3.5 10.4 - - - -
1055K SER* 4.0 4.0 + - - +
1056K HIS 3.0 28.4 + - - +
1057K TRP* 4.5 0.6 - - - -
1058K GLU* 3.9 42.8 - - + +
1060K ILE* 3.6 44.4 - - + -
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Residues in contact with TYR 985 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
615K THR* 3.4 25.8 - - + -
616K PRO* 2.7 19.4 + - + -
617K ILE* 2.7 28.8 + - - +
618K VAL* 4.3 2.8 - - - +
984K MET* 1.3 81.6 - - - +
986K THR* 1.3 63.6 + - - +
987K CYS* 3.6 7.1 + - - -
1027K VAL* 5.1 0.2 - - - -
1028K LEU 3.0 26.4 + - - +
1030K VAL* 3.4 42.3 - - + +
1033K SER* 4.1 9.9 - - - -
1034K PHE* 4.8 7.6 - + - -
1052K LEU* 3.7 31.0 - - + -
1053K VAL 3.3 10.1 - - - +
1054K PHE* 4.1 24.0 - + + -
1055K SER 4.5 0.2 - - - +
1057K TRP* 6.3 0.9 - + - -
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Residues in contact with THR 986 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
984K MET* 4.2 0.8 - - - +
985K TYR* 1.3 70.8 - - - +
987K CYS* 1.3 60.6 + - - +
988K ASP* 3.7 20.4 + - - +
1011K LEU* 5.2 3.5 - - - +
1025K LYS* 4.9 3.3 - - - +
1026K ALA 3.6 20.2 + - - -
1027K VAL* 4.4 12.3 + - - +
1052K LEU* 3.8 1.6 - - - -
1053K VAL* 2.8 53.3 + - + +
1055K SER* 3.6 29.4 - - - -
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Residues in contact with CYS 987 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
985K TYR 3.8 1.3 - - - -
986K THR* 1.3 69.9 + - - +
988K ASP* 1.3 62.3 + - - +
989K ILE* 3.2 14.5 + - + +
1003K LEU* 4.7 7.9 - - + -
1024K ILE 2.8 16.1 - - - +
1025K LYS* 3.7 0.3 - - - -
1026K ALA* 2.8 29.2 + - + +
1028K LEU* 3.7 35.4 - - - -
1036K PHE* 5.1 8.7 - - + -
1050K PRO* 6.1 2.2 - - + -
1051K GLN 4.1 7.6 - - - +
1052K LEU* 3.5 29.2 - - + -
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Residues in contact with ASP 988 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
986K THR* 3.7 18.7 + - - +
987K CYS* 1.3 71.4 - - - +
989K ILE* 1.3 60.8 + - - +
1023K ILE* 3.4 13.8 - - + +
1024K ILE 3.5 5.6 - - - -
1025K LYS* 3.4 36.7 + - - +
1051K GLN* 3.2 41.7 + - + +
1053K VAL* 3.2 28.4 - - - +
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Residues in contact with ILE 989 (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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987K CYS* 4.2 14.1 - - + +
988K ASP* 1.3 71.1 - - - +
990K MET* 1.3 62.6 + - - +
991K ALA* 3.2 5.5 + - + +
999K VAL* 3.9 30.3 - - + -
1003K LEU* 5.9 3.1 - - + -
1023K ILE* 3.5 1.7 - - - -
1024K ILE* 3.1 49.8 + - + +
1026K ALA* 6.1 0.9 - - + -
1036K PHE* 4.5 4.7 - - + -
1040K ILE* 4.2 12.6 - - + -
1048K ALA* 3.6 29.8 - - + -
1049K SER 3.5 16.8 - - - +
1050K PRO* 4.1 23.8 - - + -
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Residues in contact with MET 990 (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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123K VAL* 3.5 9.7 - - + +
128K GLN* 3.9 16.8 - - - +
175K ALA 4.4 3.8 - - - +
178K GLY 3.8 9.4 - - - +
179K THR* 3.6 48.5 - - + +
988K ASP 3.4 1.8 + - - -
989K ILE* 1.3 68.3 - - - +
991K ALA* 1.3 59.3 + - - +
1016K LYS* 3.6 22.9 - - - -
1021K MET* 4.1 22.4 - - + -
1022K PHE 3.4 22.2 - - - +
1023K ILE* 3.9 10.3 - - + -
1048K ALA* 3.4 1.9 - - - -
1049K SER* 2.8 39.0 + - - +
1051K GLN* 3.9 10.5 - - - +
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Residues in contact with ALA 991 (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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123K VAL* 5.0 0.2 - - - -
989K ILE* 3.2 12.4 + - + +
990K MET* 1.3 74.2 - - - +
992K THR* 1.3 59.0 + - - +
995K VAL 4.4 5.4 - - - +
996K LEU* 3.5 23.1 - - + -
999K VAL* 5.1 0.7 - - + -
1021K MET* 3.6 8.7 - - - +
1022K PHE* 2.8 35.2 + - - +
1024K ILE* 4.1 11.9 - - + -
1047K LEU 4.6 0.9 - - - -
1048K ALA* 4.3 18.6 - - + +
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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