Contacts of the helix formed by residues 1008 - 1034 (chain H) in PDB entry 6C3P
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 GLY1008 (chain H).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1006H SER 4.2 0.6 + - - -
1007H ALA* 1.3 76.2 - - - +
1009H ILE* 1.3 67.2 + - - -
1010H LEU* 3.0 5.8 - - - -
1011H LEU* 2.9 30.8 + - - +
1012H LEU* 3.3 6.1 + - - +
1091H LYS* 5.0 5.7 - - - +
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Residues in contact with ILE1009 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1007H ALA 3.6 2.0 + - - -
1008H GLY* 1.3 73.2 - - - -
1010H LEU* 1.3 60.9 + - + +
1012H LEU* 2.9 29.9 + - + +
1013H SER* 3.0 14.2 + - - -
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Residues in contact with LEU1010 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1008H GLY* 3.0 2.6 - - - -
1009H ILE* 1.3 85.5 - - + +
1011H LEU* 1.3 59.1 + - - +
1013H SER* 3.4 10.4 + - - -
1014H LEU* 2.9 38.1 + - + +
1087H TRP* 5.4 12.6 - - + -
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Residues in contact with LEU1011 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1007H ALA* 3.6 17.0 - - + -
1008H GLY* 2.9 20.3 + - - +
1010H LEU* 1.3 76.8 - - + +
1012H LEU* 1.3 58.5 + - + +
1014H LEU* 4.1 4.6 - - + +
1015H LEU* 2.9 34.3 + - - +
1084H THR* 4.0 19.1 - - + +
1087H TRP* 3.4 32.5 - - + -
1088H THR* 3.5 40.8 - - - +
1091H LYS* 3.6 29.6 - - + -
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Residues in contact with LEU1012 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1004H LEU* 3.5 68.9 - - + +
1007H ALA* 4.8 3.4 - - + -
1008H GLY 3.6 10.5 - - - +
1009H ILE* 2.9 21.1 + - + +
1011H LEU* 1.3 75.5 - - + +
1013H SER* 1.3 63.5 + - - +
1015H LEU* 3.9 9.8 - - + +
1016H VAL* 3.0 40.6 + - + +
1088H THR* 5.9 0.4 - - - +
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Residues in contact with SER1013 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1009H ILE* 3.0 12.2 + - - -
1010H LEU* 3.6 13.0 - - - -
1011H LEU 3.3 0.2 - - - -
1012H LEU* 1.3 77.0 - - - +
1014H LEU* 1.3 64.5 + - - +
1016H VAL* 3.9 1.7 - - - +
1017H PHE* 2.9 49.9 + - - -
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Residues in contact with LEU1014 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1010H LEU* 2.9 33.3 + - + +
1011H LEU* 4.1 4.9 - - + +
1013H SER* 1.3 72.5 - - - +
1015H LEU* 1.3 53.7 + - - +
1017H PHE* 3.9 5.1 - - + +
1018H SER* 2.4 45.1 + - - +
1080H VAL* 4.1 17.3 - - + -
1084H THR* 3.2 35.0 - - + +
1087H TRP* 5.8 5.4 - - + -
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Residues in contact with LEU1015 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1011H LEU 2.9 18.6 + - - +
1012H LEU* 3.9 9.9 - - + +
1014H LEU* 1.3 76.3 - - - +
1016H VAL* 1.3 75.6 + - + +
1018H SER* 3.2 4.8 + - - -
1019H GLN* 3.0 42.9 + - + +
1081H THR* 6.0 0.4 - - - -
1084H THR* 3.7 12.6 - - + +
1085H VAL* 4.8 17.3 - - + -
1088H THR* 4.2 24.9 - - + -
1139H LEU* 4.5 20.4 - - + -
1143H SER* 5.1 5.2 - - - +
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Residues in contact with VAL1016 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1012H LEU* 3.0 29.9 + - + +
1013H SER* 4.0 2.5 - - - +
1015H LEU* 1.3 90.1 - - + +
1017H PHE* 1.3 67.9 + - + +
1018H SER 3.3 0.2 + - - -
1019H GLN* 3.4 3.1 + - - +
1020H LEU* 3.0 46.4 + - + +
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Residues in contact with PHE1017 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1013H SER* 2.9 46.4 + - - +
1014H LEU* 4.1 5.4 - - + +
1016H VAL* 1.3 78.5 - - + +
1018H SER* 1.3 64.7 + - - +
1020H LEU* 4.7 6.7 - - + -
1021H LEU* 2.9 49.6 + - + +
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Residues in contact with SER1018 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1014H LEU* 2.4 41.8 + - - +
1015H LEU* 3.5 5.8 - - - -
1016H VAL 3.2 0.2 - - - -
1017H PHE* 1.3 74.6 - - - +
1019H GLN* 1.3 64.6 + - - +
1022H LYS* 2.8 28.2 + - - +
1077H LEU* 4.0 11.0 - - - +
1080H VAL* 4.0 11.9 - - - +
1081H THR* 3.3 34.6 + - - -
1084H THR* 4.2 1.6 + - - -
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Residues in contact with GLN1019 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1015H LEU* 3.0 31.9 + - + +
1016H VAL* 3.9 3.6 - - - +
1018H SER* 1.3 75.2 - - - +
1020H LEU* 1.3 65.7 + - + +
1022H LYS* 3.3 4.8 - - - +
1023H HIS* 3.0 49.9 + - - +
1081H THR* 3.1 27.8 - - - +
1085H VAL* 4.3 14.1 - - - +
1140H GLU* 5.7 2.8 + - - +
1143H SER* 3.0 35.6 + - - +
1144H ARG* 4.2 5.3 + - - +
1147H LEU* 4.7 11.8 - - + +
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Residues in contact with LEU1020 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1016H VAL* 3.0 41.7 + - + +
1017H PHE* 4.0 6.7 - - + +
1019H GLN* 1.3 78.2 - - + +
1021H LEU* 1.3 65.7 + - + +
1023H HIS* 4.1 0.5 - - - +
1024H MET* 2.9 45.2 + - + +
1147H LEU* 3.9 29.1 - - + +
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Residues in contact with LEU1021 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1017H PHE* 2.9 43.6 + - + +
1020H LEU* 1.3 76.2 - - + +
1022H LYS* 1.3 64.8 + - - +
1024H MET* 4.5 9.6 - - + -
1025H VAL* 2.9 33.4 + - + +
1077H LEU* 3.5 21.3 - - + -
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Residues in contact with LYS1022 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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548H THR* 3.4 26.7 - - - +
1018H SER 2.8 20.0 + - - +
1019H GLN* 3.3 4.3 - - - +
1021H LEU* 1.3 78.8 - - - +
1023H HIS* 1.3 94.7 + - + +
1025H VAL* 3.1 4.0 + - - +
1026H LEU* 2.9 40.5 + - + +
1074H GLY* 4.8 2.6 - - - +
1077H LEU* 3.3 16.7 - - + +
1078H CYS* 3.5 41.2 - - + +
1081H THR* 3.7 25.8 - - + +
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Residues in contact with HIS1023 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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548H THR* 5.3 0.8 - - - +
1019H GLN* 3.0 25.7 + - - +
1022H LYS* 1.3 117.2 + - + +
1024H MET* 1.3 62.0 + - - +
1026H LEU* 3.2 16.6 + - + +
1027H VAL* 2.9 32.3 + - - +
1144H ARG* 4.0 13.9 - - + -
1147H LEU* 3.5 35.5 - - + +
1148H LEU* 3.2 41.9 - - + +
1151H SER* 5.2 3.8 - - - +
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Residues in contact with MET1024 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1020H LEU* 2.9 38.7 + - + +
1021H LEU* 4.0 10.5 - - + +
1023H HIS* 1.3 78.7 - - - +
1025H VAL* 1.3 56.9 + - + +
1027H VAL* 3.5 9.0 + - - +
1028H ALA* 2.8 26.9 + - - +
1147H LEU* 5.5 5.4 - - + -
1151H SER* 6.1 3.4 - - - -
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Residues in contact with VAL1025 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1021H LEU* 2.9 26.2 + - + +
1022H LYS* 3.4 5.4 - - - +
1024H MET* 1.3 76.6 - - + +
1026H LEU* 1.3 60.4 + - - +
1028H ALA* 3.5 8.0 - - + +
1029H ILE* 2.8 31.9 + - + +
1070H LEU* 4.1 24.7 - - + +
1073H LEU* 3.6 37.9 - - + -
1074H GLY* 4.3 8.7 - - - +
1077H LEU* 4.6 0.9 - - + -
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Residues in contact with LEU1026 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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552H ILE* 3.9 28.7 - - + -
584H HIS* 6.0 6.5 - - + -
1022H LYS* 2.9 46.2 + - + +
1023H HIS* 3.3 26.0 - - + +
1025H VAL* 1.3 76.1 - - - +
1027H VAL* 1.3 53.7 + - + +
1029H ILE* 3.0 23.9 - - + +
1030H ASP* 2.6 31.4 - - - +
1074H GLY* 5.1 13.7 - - - +
1148H LEU* 5.6 8.7 - - + -
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Residues in contact with VAL1027 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1023H HIS 2.9 19.9 + - - +
1024H MET* 3.7 7.9 - - - +
1026H LEU* 1.3 75.8 - - + +
1028H ALA* 1.3 63.3 + - - +
1030H ASP* 2.6 19.7 - - - +
1031H TYR* 2.9 27.1 + - + +
1148H LEU* 6.2 2.0 - - + -
1151H SER* 3.9 27.6 - - - +
1152H ALA* 5.9 0.7 - - - -
1155H VAL* 3.5 30.1 - - + -
1286H TYR* 4.8 7.6 - - + -
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Residues in contact with ALA1028 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1024H MET 2.8 22.1 + - - +
1025H VAL* 3.2 12.1 + - + +
1027H VAL* 1.3 73.9 - - - +
1029H ILE* 1.3 59.1 + - - +
1031H TYR* 3.8 3.4 - - - -
1032H TRP* 2.9 35.8 + - - +
1070H LEU* 4.4 9.0 - - + -
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Residues in contact with ILE1029 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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552H ILE* 6.2 3.6 - - + -
555H VAL* 6.2 1.3 - - + -
1025H VAL* 2.8 21.5 + - + +
1026H LEU* 3.0 35.2 - - + +
1028H ALA* 1.3 73.3 - - - +
1030H ASP* 1.3 60.8 + - + +
1032H TRP* 3.6 2.8 - - - +
1033H LEU* 2.8 24.8 + - - +
1067H PHE* 3.6 26.2 - - + +
1070H LEU* 3.6 26.0 - - + +
1071H CYS* 3.3 52.3 - - - +
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Residues in contact with ASP1030 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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577H PHE* 5.4 4.0 - - + -
580H LEU* 4.3 25.5 - - + +
584H HIS* 4.3 13.7 + - - -
1026H LEU* 2.6 21.8 + - - +
1027H VAL* 2.6 32.1 - - - +
1029H ILE* 1.3 75.1 - - + +
1031H TYR* 1.3 60.8 + - - +
1032H TRP 3.0 1.6 - - - -
1033H LEU* 3.0 12.1 + - - +
1034H ALA 3.0 21.8 + - - -
1067H PHE* 5.5 0.4 - - - -
1282H LEU* 3.8 6.7 - - - +
1286H TYR* 2.5 33.1 + - - +
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Residues in contact with TYR1031 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1027H VAL* 2.9 24.6 + - + +
1028H ALA* 4.2 2.2 - - - +
1030H ASP* 1.3 83.1 + - - +
1032H TRP* 1.3 58.4 + - + +
1034H ALA* 3.0 18.0 - - + +
1035H LYS* 3.8 14.4 + - + +
1155H VAL* 4.7 5.4 - - + -
1158H TYR* 3.1 32.9 + + - -
1159H VAL* 3.8 21.1 - - + -
1279H LEU* 3.6 30.4 - - + +
1282H LEU* 3.4 30.0 - - + +
1286H TYR* 5.0 1.1 - - - +
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Residues in contact with TRP1032 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1028H ALA 2.9 21.0 + - - +
1029H ILE 3.7 1.8 - - - +
1031H TYR* 1.3 77.7 - - + +
1033H LEU* 1.3 58.8 + - - +
1034H ALA 3.1 1.1 - - - -
1035H LYS* 3.0 58.6 + - + +
1036H TRP* 3.3 8.0 + + + +
1063H TYR* 3.0 57.2 - + + -
1066H VAL* 3.3 24.0 - - + -
1067H PHE* 3.3 42.2 - + + -
1070H LEU* 4.1 17.9 - - + -
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Residues in contact with LEU1033 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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559H PHE* 3.6 34.1 - - + -
576H ALA* 4.8 11.2 - - + -
577H PHE* 4.8 14.8 - - + +
580H LEU* 3.7 18.4 - - + -
1029H ILE 2.8 15.4 + - - +
1030H ASP* 3.1 13.0 - - - +
1032H TRP* 1.3 73.4 - - - +
1034H ALA* 1.3 58.3 + - - -
1036H TRP* 2.7 57.6 + - + +
1037H THR* 3.2 13.0 + - + +
1067H PHE* 3.9 26.2 - - + -
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Residues in contact with ALA1034 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
577H PHE* 6.2 1.5 - - - -
1030H ASP 3.0 7.1 + - - -
1031H TYR* 3.0 19.7 - - + +
1032H TRP 3.1 0.4 - - - -
1033H LEU* 1.3 75.9 - - - +
1035H LYS* 1.3 58.1 + - + +
1037H THR* 2.9 25.5 + - - -
1038H ASP* 4.1 5.9 - - - +
1276H SER* 6.0 0.7 - - - -
1278H GLY* 4.7 9.7 - - - -
1279H LEU* 4.2 26.1 - - + +
1282H LEU* 3.6 23.6 - - + -
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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) + - + + + + + -
------------------------------------------------------------
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