Contacts of the helix formed by residues 1008 - 1034 (chain G) 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 G).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1006G SER 4.2 0.4 + - - -
1007G ALA* 1.3 77.5 - - - +
1009G ILE* 1.3 67.7 + - - -
1010G LEU* 3.0 5.2 - - - -
1011G LEU* 2.9 30.0 + - - +
1012G LEU* 3.3 5.9 + - - +
1091G LYS* 5.0 6.3 - - - +
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Residues in contact with ILE1009 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1007G ALA 3.6 2.6 + - - -
1008G GLY* 1.3 71.7 - - - -
1010G LEU* 1.3 61.3 + - + +
1012G LEU* 2.9 30.3 + - + +
1013G SER* 3.0 13.8 + - - -
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Residues in contact with LEU1010 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1008G GLY* 3.0 2.0 - - - -
1009G ILE* 1.3 86.9 - - + +
1011G LEU* 1.3 58.2 + - + +
1013G SER* 3.4 9.1 + - - -
1014G LEU* 2.8 38.9 + - + +
1087G TRP* 5.4 11.7 - - + -
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Residues in contact with LEU1011 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1007G ALA* 3.6 16.6 - - + -
1008G GLY* 2.9 19.9 + - - +
1010G LEU* 1.3 77.9 - - + +
1012G LEU* 1.3 58.5 + - + +
1014G LEU* 4.1 4.4 - - + +
1015G LEU* 2.9 34.5 + - - +
1084G THR* 4.0 18.9 - - + +
1087G TRP* 3.4 32.3 - - + -
1088G THR* 3.5 40.4 - - - +
1091G LYS* 3.6 29.6 - - + -
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Residues in contact with LEU1012 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1004G LEU* 3.5 67.8 - - + +
1005G SER* 5.5 0.2 - - - -
1007G ALA* 4.5 3.8 - - + +
1008G GLY 3.6 11.4 - - - +
1009G ILE* 2.9 19.1 + - + +
1011G LEU* 1.3 76.4 - - - +
1013G SER* 1.3 63.8 + - - +
1015G LEU* 3.9 9.1 - - + +
1016G VAL* 3.0 39.9 + - + +
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Residues in contact with SER1013 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1009G ILE* 3.0 12.4 + - - -
1010G LEU* 3.6 13.2 - - - -
1012G LEU* 1.3 77.3 - - - +
1014G LEU* 1.3 63.6 + - - +
1016G VAL* 4.0 2.0 - - - +
1017G PHE* 2.9 50.2 + - - -
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Residues in contact with LEU1014 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1010G LEU* 2.8 32.2 + - + +
1011G LEU* 4.1 5.2 - - + +
1013G SER* 1.3 72.6 - - - +
1015G LEU* 1.3 55.3 + - - +
1017G PHE* 4.1 4.4 - - + -
1018G SER* 2.4 45.3 + - - +
1080G VAL* 4.1 17.3 - - + -
1084G THR* 3.2 32.8 - - + +
1087G TRP* 5.8 5.8 - - + -
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Residues in contact with LEU1015 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1011G LEU 2.9 19.7 + - - +
1012G LEU* 3.9 10.3 - - + +
1014G LEU* 1.3 77.0 - - - +
1016G VAL* 1.3 77.9 + - + +
1018G SER* 3.2 5.0 + - - -
1019G GLN* 3.0 42.7 + - + +
1081G THR* 6.0 0.4 - - - -
1084G THR* 3.7 12.9 - - + +
1085G VAL* 4.9 17.5 - - + -
1088G THR* 4.2 24.2 - - + +
1139G LEU* 4.5 20.9 - - + -
1143G SER* 5.1 4.5 - - - +
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Residues in contact with VAL1016 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1012G LEU* 3.0 29.0 + - + +
1013G SER* 4.0 2.9 - - - +
1015G LEU* 1.3 88.9 - - + +
1017G PHE* 1.3 67.9 + - + +
1019G GLN* 3.4 3.3 + - - +
1020G LEU* 3.0 46.1 + - + +
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Residues in contact with PHE1017 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1013G SER* 2.9 47.7 + - - +
1014G LEU* 4.1 5.6 - - + +
1016G VAL* 1.3 79.3 - - + +
1018G SER* 1.3 62.8 + - - +
1020G LEU* 4.7 7.6 - - + -
1021G LEU* 2.9 51.7 + - + +
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Residues in contact with SER1018 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1014G LEU* 2.4 40.9 + - - +
1015G LEU* 3.5 6.3 - - - -
1016G VAL 3.2 0.2 - - - -
1017G PHE* 1.3 75.3 - - - +
1019G GLN* 1.3 65.2 + - - +
1022G LYS* 2.8 27.9 + - - +
1077G LEU* 4.0 11.3 - - - +
1080G VAL* 4.0 11.2 - - - +
1081G THR* 3.3 33.2 + - - -
1084G THR* 4.2 1.0 + - - -
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Residues in contact with GLN1019 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1015G LEU* 3.0 32.9 + - + +
1016G VAL* 3.9 3.6 - - - +
1018G SER* 1.3 75.3 - - - +
1020G LEU* 1.3 66.8 + - + +
1022G LYS* 3.3 4.6 - - - +
1023G HIS* 3.0 50.2 + - - +
1081G THR* 3.1 26.6 - - - +
1085G VAL* 4.3 14.1 - - - +
1140G GLU* 5.7 2.8 + - - +
1143G SER* 3.0 34.8 + - - +
1144G ARG* 4.2 5.1 + - - +
1147G LEU* 4.2 11.5 - - + +
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Residues in contact with LEU1020 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1016G VAL* 3.0 41.4 + - + +
1017G PHE* 4.0 7.6 - - + +
1019G GLN* 1.3 79.1 - - + +
1021G LEU* 1.3 67.2 + - + +
1023G HIS* 3.9 0.9 - - - +
1024G MET* 2.9 44.3 + - + +
1147G LEU* 3.9 29.8 - - + +
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Residues in contact with LEU1021 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1017G PHE* 2.9 44.1 + - + +
1020G LEU* 1.3 76.0 - - + +
1022G LYS* 1.3 64.5 + - - +
1024G MET* 4.5 9.6 - - + -
1025G VAL* 2.9 32.8 + - + +
1077G LEU* 3.5 21.8 - - + -
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Residues in contact with LYS1022 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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548G THR* 3.4 25.3 - - - +
1018G SER 2.8 20.0 + - - +
1019G GLN* 3.3 4.7 - - - +
1021G LEU* 1.3 77.2 - - - +
1023G HIS* 1.3 94.1 + - + +
1025G VAL* 3.1 4.2 + - - +
1026G LEU* 2.9 40.5 + - + +
1074G GLY* 4.8 3.0 - - - +
1077G LEU* 3.3 16.4 - - + +
1078G CYS* 3.5 40.5 - - + +
1081G THR* 3.7 25.6 - - + +
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Residues in contact with HIS1023 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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548G THR* 5.3 1.0 - - - +
1019G GLN* 3.0 25.6 + - - -
1022G LYS* 1.3 118.2 + - + +
1024G MET* 1.3 59.7 + - - +
1026G LEU* 3.2 17.8 + - + +
1027G VAL* 2.9 32.4 + - - +
1144G ARG* 4.0 15.4 - - + +
1147G LEU* 3.5 35.6 - - + +
1148G LEU* 3.2 39.7 - - + +
1151G SER* 5.2 3.4 - - - +
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Residues in contact with MET1024 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1020G LEU* 2.9 39.5 + - + +
1021G LEU* 4.0 10.3 - - + +
1023G HIS* 1.3 78.1 - - - +
1025G VAL* 1.3 56.9 + - + +
1027G VAL* 3.5 7.5 + - - +
1028G ALA* 2.8 27.8 + - - +
1147G LEU* 5.5 5.4 - - + -
1151G SER* 6.2 3.1 - - - -
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Residues in contact with VAL1025 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1021G LEU* 2.9 26.9 + - + +
1022G LYS* 3.1 5.1 + - - +
1024G MET* 1.3 75.3 - - + +
1026G LEU* 1.3 61.4 + - + +
1028G ALA* 3.5 8.0 - - + +
1029G ILE* 2.8 32.0 + - + +
1070G LEU* 4.1 24.0 - - + +
1073G LEU* 3.6 37.5 - - + -
1074G GLY* 4.3 9.4 - - - +
1077G LEU* 4.6 0.9 - - + -
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Residues in contact with LEU1026 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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552G ILE* 3.9 26.9 - - + -
584G HIS* 6.0 6.1 - - + -
1022G LYS* 2.9 45.0 + - + +
1023G HIS* 3.3 26.5 - - + +
1025G VAL* 1.3 75.1 - - - +
1027G VAL* 1.3 54.7 + - + +
1029G ILE* 3.0 24.3 - - + +
1030G ASP* 2.6 30.1 - - - +
1074G GLY* 5.1 13.7 - - - +
1148G LEU* 5.6 8.7 - - + -
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Residues in contact with VAL1027 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1023G HIS 2.9 19.4 + - - +
1024G MET* 3.7 7.6 - - - +
1026G LEU* 1.3 75.0 - - + +
1028G ALA* 1.3 62.4 + - - +
1030G ASP* 2.6 21.4 - - - +
1031G TYR* 2.9 27.4 + - + +
1148G LEU* 6.2 2.2 - - + -
1151G SER* 3.9 27.1 - - - +
1152G ALA* 5.9 0.4 - - - -
1155G VAL* 3.5 29.4 - - + -
1286G TYR* 5.3 7.0 - - + +
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Residues in contact with ALA1028 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1024G MET 2.8 21.9 + - - +
1025G VAL* 3.2 11.9 + - + +
1027G VAL* 1.3 74.9 - - - +
1029G ILE* 1.3 57.7 + - - +
1031G TYR* 3.8 3.3 - - - +
1032G TRP* 2.9 35.6 + - - +
1070G LEU* 4.4 9.4 - - + -
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Residues in contact with ILE1029 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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552G ILE* 6.2 4.0 - - + -
555G VAL* 6.2 1.1 - - + -
1025G VAL* 2.8 22.3 + - + +
1026G LEU* 3.0 34.3 - - + +
1028G ALA* 1.3 72.5 - - - +
1030G ASP* 1.3 61.6 + - + +
1032G TRP* 3.4 2.9 + - - +
1033G LEU* 2.8 24.9 + - - +
1067G PHE* 3.6 24.3 - - + +
1070G LEU* 3.6 25.8 - - + +
1071G CYS* 3.3 52.5 - - - +
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Residues in contact with ASP1030 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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577G PHE* 5.4 4.3 - - + -
580G LEU* 4.3 24.6 - - + +
584G HIS* 4.3 13.7 + - - -
1026G LEU* 2.6 22.8 + - - +
1027G VAL* 2.6 32.3 - - - +
1029G ILE* 1.3 76.9 - - + +
1031G TYR* 1.3 59.9 + - - -
1032G TRP 3.0 1.6 - - - -
1033G LEU* 3.0 12.2 + - + +
1034G ALA 3.0 22.2 + - - -
1067G PHE* 5.5 0.4 - - - -
1282G LEU* 3.8 7.1 - - - +
1286G TYR* 2.5 32.5 + - - +
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Residues in contact with TYR1031 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1027G VAL* 2.9 24.3 + - + +
1028G ALA* 4.2 2.9 - - - +
1030G ASP* 1.3 82.4 + - - +
1032G TRP* 1.3 59.0 + - + +
1034G ALA* 3.0 18.0 - - - +
1035G LYS* 3.8 13.7 + - + +
1155G VAL* 4.7 5.6 - - + -
1158G TYR* 3.1 35.1 + + - -
1159G VAL* 3.8 21.8 - - + -
1279G LEU* 3.6 29.8 - - + +
1282G LEU* 3.4 30.9 - - + +
1286G TYR* 5.0 1.1 - - - +
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Residues in contact with TRP1032 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1028G ALA 2.9 21.0 + - - +
1029G ILE 3.7 1.8 - - - +
1031G TYR* 1.3 78.4 - - + +
1033G LEU* 1.3 59.9 + - - +
1034G ALA 3.1 1.1 - - - -
1035G LYS* 3.0 58.5 + - + +
1036G TRP* 3.3 7.7 + + + +
1063G TYR* 3.0 56.9 - + + -
1066G VAL* 3.3 23.8 - - + -
1067G PHE* 3.3 42.6 - + + -
1070G LEU* 4.1 18.2 - - + -
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Residues in contact with LEU1033 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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559G PHE* 3.6 34.1 - - + -
576G ALA* 4.8 10.5 - - + -
577G PHE* 4.8 13.7 - - + -
580G LEU* 3.7 19.1 - - + -
1029G ILE 2.8 15.6 + - - +
1030G ASP* 3.1 13.0 - - - +
1032G TRP* 1.3 74.1 - - - +
1034G ALA* 1.3 58.0 + - - -
1036G TRP* 2.7 57.6 + - + +
1037G THR* 3.2 12.6 + - + +
1067G PHE* 3.9 26.7 - - + -
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Residues in contact with ALA1034 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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577G PHE* 6.2 1.9 - - - -
1030G ASP 3.0 7.3 + - - -
1031G TYR* 3.0 19.3 - - + +
1033G LEU* 1.3 77.2 - - - +
1035G LYS* 1.3 56.8 + - + +
1037G THR* 2.9 25.9 + - - -
1038G ASP* 4.1 5.2 - - - +
1276G SER* 6.0 0.5 - - - -
1278G GLY* 4.7 8.9 - - - +
1279G LEU* 4.2 26.5 - - + +
1282G 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