Contacts of the helix formed by residues 832 - 853 (chain C) in PDB entry 6CKX
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 SER 832 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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830C HIS* 4.0 15.3 + - - -
831C PHE* 1.3 77.3 - - - +
833C GLU* 1.3 66.0 + - - +
834C ASP* 3.1 9.5 - - - +
835C HIS* 2.5 43.3 + - - +
836C ILE* 3.1 22.0 + - - +
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Residues in contact with GLU 833 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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832C SER* 1.3 72.6 - - - +
834C ASP* 1.3 65.9 + - - +
836C ILE* 3.5 9.7 + - - +
837C LYS* 3.0 35.2 + - + +
930C PHE* 5.1 4.9 - - + -
990C PRO* 3.1 42.3 - - + +
992C ALA* 5.8 1.6 - - - +
1019C PHE* 4.1 20.5 - - + -
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Residues in contact with ASP 834 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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832C SER* 3.1 7.6 - - - +
833C GLU* 1.3 80.3 - - - +
835C HIS* 1.3 65.2 + - - +
837C LYS* 3.3 26.0 - - + +
838C SER* 3.2 23.6 + - - -
1023C VAL* 5.7 0.2 - - - +
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Residues in contact with HIS 835 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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830C HIS 5.1 2.4 + - - -
831C PHE* 3.9 23.6 - + + -
832C SER* 2.5 44.4 + - - +
834C ASP* 1.3 78.4 - - - +
836C ILE* 1.3 57.4 + - - +
838C SER* 3.4 2.6 + - - -
839C PHE* 2.9 60.2 + + + -
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Residues in contact with ILE 836 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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831C PHE* 3.6 26.7 - - + +
832C SER 3.1 18.7 + - - +
833C GLU* 3.7 3.6 - - - +
835C HIS* 1.3 74.3 - - - +
837C LYS* 1.3 66.4 + - - +
839C PHE* 3.2 6.6 + - - +
840C MET* 2.8 26.5 + - + +
926C LEU* 4.0 22.9 - - + -
929C LEU* 3.8 38.8 - - + +
930C PHE* 3.6 34.3 - - + -
1019C PHE* 4.0 11.2 - - + -
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Residues in contact with LYS 837 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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833C GLU* 3.0 26.6 + - + +
834C ASP* 3.3 31.2 - - + +
836C ILE* 1.3 77.0 - - - +
838C SER* 1.3 61.8 + - - +
840C MET* 3.9 1.4 - - - +
841C LYS* 3.0 25.3 + - - +
992C ALA* 5.9 0.6 - - - +
1018C ASP 4.5 3.4 + - - -
1019C PHE* 2.9 60.5 + - + +
1020C LEU* 4.1 5.6 - - - +
1023C VAL* 3.9 25.0 - - + +
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Residues in contact with SER 838 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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834C ASP 3.2 14.5 + - - -
835C HIS* 3.5 6.3 - - - -
837C LYS* 1.3 77.4 - - - +
839C PHE* 1.3 70.9 + - - +
841C LYS* 3.3 3.0 + - - +
842C GLN* 3.2 41.6 + - - +
871C GLY 4.5 3.1 + - - -
1023C VAL* 4.0 15.0 - - - +
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Residues in contact with PHE 839 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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820C LEU* 5.3 3.1 - - + -
831C PHE* 3.4 44.6 - + - -
835C HIS* 2.9 48.1 + + + +
836C ILE* 3.7 6.7 - - - +
838C SER* 1.3 83.2 - - - +
840C MET* 1.3 59.5 + - - +
842C GLN* 3.6 3.7 - - - +
843C LEU* 3.1 26.7 + - - +
867C LEU* 4.3 20.2 - - + -
871C GLY* 3.8 28.7 - - - -
873C ILE* 4.2 25.4 - - + +
929C LEU* 5.0 12.6 - - + -
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Residues in contact with MET 840 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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836C ILE* 2.8 37.1 + - + +
839C PHE* 1.3 73.4 - - - +
841C LYS* 1.3 58.7 + - - +
843C LEU* 4.3 14.4 - - + -
844C MET* 2.8 52.7 + - + +
922C CYS 3.7 20.4 - - - +
925C ILE* 4.6 3.4 - - - -
926C LEU* 3.8 28.0 - - + -
929C LEU* 4.1 18.6 - - + -
996C LEU* 5.1 2.5 - - + -
1000C MET* 4.1 17.0 - - + -
1019C PHE* 4.8 2.5 - - + -
1020C LEU* 4.0 19.7 - - + -
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Residues in contact with LYS 841 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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837C LYS 3.0 16.9 + - - +
838C SER* 3.3 5.4 + - - +
840C MET* 1.3 75.8 - - - +
842C GLN* 1.3 59.5 - - + +
844C MET 3.8 0.2 - - - -
845C GLU* 2.9 63.4 + - - +
1015C LEU* 3.9 17.7 + - + +
1020C LEU* 3.5 34.1 + - + +
1021C LYS 4.3 7.9 + - - -
1022C ASP 4.7 0.8 - - - -
1023C VAL* 2.9 40.2 + - + +
1024C GLU 6.1 0.4 - - - +
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Residues in contact with GLN 842 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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784C ARG* 5.2 13.5 - - - +
785C SER* 3.4 25.8 + - - +
838C SER* 3.2 24.7 + - - +
839C PHE* 3.6 7.0 - - - +
841C LYS* 1.3 76.7 - - + +
843C LEU* 1.3 65.3 + - - +
845C GLU* 3.8 4.6 - - - -
846C GLY 2.9 19.4 + - - -
871C GLY 3.1 21.8 - - - +
872C GLN* 3.7 15.1 - - - +
873C ILE* 3.0 42.7 + - + +
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Residues in contact with LEU 843 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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785C SER* 5.4 0.7 - - - -
839C PHE 3.1 15.0 + - - +
840C MET* 3.4 17.9 + - - +
842C GLN* 1.3 78.1 - - - +
844C MET* 1.3 78.8 + - + +
846C GLY* 3.1 3.9 + - - -
847C LEU* 2.8 27.7 + - + +
860C ILE* 5.7 0.2 - - + -
865C ILE* 4.0 37.5 - - + -
873C ILE* 4.1 13.1 - - + +
875C LEU* 4.3 26.9 - - + -
922C CYS* 3.7 19.1 - - + -
925C ILE* 4.8 8.1 - - + -
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Residues in contact with MET 844 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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840C MET* 2.8 34.5 + - + +
843C LEU* 1.3 95.9 - - + +
845C GLU* 1.3 61.6 + - - +
847C LEU* 3.9 12.1 - - + +
848C GLU* 2.8 30.5 + - - +
919C VAL* 5.6 2.5 - - - -
922C CYS* 3.2 42.8 - - + -
1000C MET* 4.3 8.3 - - + -
1011C ALA* 4.0 8.3 - - - +
1014C THR* 3.4 40.4 - - + +
1015C LEU* 3.6 14.9 - - + +
1020C LEU* 4.4 7.6 - - + -
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Residues in contact with GLU 845 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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783C HIS* 3.7 18.4 + - + +
784C ARG* 3.2 29.1 + - - -
785C SER* 5.1 1.1 + - - +
841C LYS* 2.9 51.3 + - - +
842C GLN* 3.8 5.1 - - - +
844C MET* 1.3 73.5 - - - +
846C GLY* 1.3 66.1 + - - +
848C GLU* 3.9 5.1 - - - +
849C TYR* 3.1 24.9 + - - +
1015C LEU* 3.8 22.9 - - + +
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Residues in contact with GLY 846 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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783C HIS* 3.8 16.7 - - - -
785C SER* 4.1 6.5 - - - -
786C VAL* 4.0 14.3 - - - +
842C GLN 2.9 14.6 + - - -
843C LEU* 3.4 4.7 - - - -
845C GLU* 1.3 78.6 - - - +
847C LEU* 1.3 61.3 + - - +
849C TYR* 3.3 4.3 + - - +
850C CYS* 3.2 23.3 + - - -
875C LEU* 4.8 4.5 - - - -
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Residues in contact with LEU 847 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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843C LEU* 2.8 19.0 + - + +
844C MET* 3.9 13.5 - - + +
846C GLY* 1.3 72.2 - - - +
848C GLU* 1.3 57.7 + - - +
850C CYS* 3.3 8.2 + - + +
851C HIS* 2.9 61.2 + - + +
857C HIS* 4.6 4.9 - - + -
860C ILE* 3.6 22.0 - - + -
875C LEU* 4.1 15.3 - - + +
918C ASP* 3.8 17.7 - - + +
919C VAL* 4.3 9.0 - - + +
922C CYS* 3.7 25.6 - - - -
1011C ALA* 4.3 4.5 - - + -
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Residues in contact with GLU 848 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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844C MET 2.8 22.3 + - - +
845C GLU* 3.9 6.2 - - - +
847C LEU* 1.3 73.2 - - - +
849C TYR* 1.3 54.1 + - - +
851C HIS* 3.7 3.7 - - + +
852C LYS* 2.8 39.2 + - + +
1011C ALA* 3.8 13.8 - - + +
1012C GLU* 3.2 42.8 - - + +
1015C LEU* 3.8 19.8 - - + +
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Residues in contact with TYR 849 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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780C GLN 3.6 8.5 + - - -
781C LEU* 3.7 23.3 - - + -
782C ILE* 3.1 49.6 + - - +
783C HIS* 3.6 33.4 - + + -
786C VAL* 4.5 4.9 - - + -
845C GLU 3.1 13.8 + - - +
846C GLY 3.4 8.3 - - - +
848C GLU* 1.3 76.6 + - - +
850C CYS* 1.3 65.1 + - - +
852C LYS* 3.5 4.8 + - - +
853C LYS* 3.2 50.5 + - + +
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Residues in contact with CYS 850 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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781C LEU* 4.2 20.2 - - - -
786C VAL* 4.2 9.6 - - - -
846C GLY 3.2 15.6 + - - -
847C LEU* 3.5 12.6 - - + +
849C TYR* 1.3 81.1 - - - +
851C HIS* 1.3 65.1 + - + +
853C LYS* 3.0 13.9 + - - +
854C ASN 3.3 0.3 + - - -
855C PHE* 3.1 33.3 + - + +
857C HIS* 6.0 3.1 - - + +
875C LEU* 4.7 6.5 - - - -
878C PHE* 3.9 33.4 - - + -
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Residues in contact with HIS 851 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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847C LEU* 2.9 47.1 + - + +
848C GLU* 4.0 4.5 - - - +
850C CYS* 1.3 75.3 - - + +
852C LYS* 1.3 57.5 + - - +
854C ASN* 2.9 18.5 + - - -
855C PHE 3.1 22.4 - - - +
856C LEU* 4.6 1.1 - - - -
857C HIS 5.2 0.2 - - - -
884C TYR* 3.4 21.2 + - - +
915C PRO* 3.4 42.5 - - + +
918C ASP* 2.8 27.5 + - + +
919C VAL* 4.6 5.1 - - + +
1011C ALA* 4.4 11.7 + - + +
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Residues in contact with LYS 852 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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848C GLU* 2.8 29.4 + - + +
849C TYR* 3.9 5.6 - - - +
851C HIS* 1.3 70.7 - - - +
853C LYS* 1.3 59.7 + - + +
854C ASN* 3.3 10.5 + - - -
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Residues in contact with LYS 853 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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780C GLN* 2.9 46.5 + - - +
781C LEU* 4.7 2.7 - - + -
849C TYR* 3.2 45.6 + - + +
850C CYS* 3.0 8.4 + - - +
852C LYS* 1.3 78.3 - - + +
854C ASN* 1.3 70.3 + - - +
855C PHE* 3.3 23.9 - - + -
883C LEU* 4.6 2.3 - - - +
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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
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Atomic class I II III IV V VI VII VIII
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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