Contacts of the helix formed by residues 989 - 1014 (chain A) in PDB entry 6C90
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 989 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
396A LYS* 3.6 41.1 - - + -
397A LYS* 4.9 7.0 - - + -
400A GLU* 3.3 28.7 - - - -
440A GLN* 4.8 3.1 - - - -
456A HIS* 4.0 8.5 - + - -
458A GLY* 3.5 32.5 - - - -
987A ASP 3.5 6.5 + - - -
988A VAL* 1.3 78.4 - - - +
990A GLU* 1.3 76.3 + - - +
992A SER* 3.0 12.9 + - - +
993A ILE* 3.0 19.8 + - - +
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Residues in contact with GLU 990 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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438A LEU* 6.2 1.3 - - + -
439A PRO* 4.8 8.1 - - - +
440A GLN* 3.5 40.8 + - + +
458A GLY 3.7 2.9 + - - +
460A LEU* 4.0 13.0 - - + -
979A PHE* 3.8 18.7 - - + -
983A CYS* 3.6 26.7 - - + -
988A VAL 3.5 2.4 + - - +
989A PHE* 1.3 81.7 - - - +
991A GLY* 1.3 62.7 + - - +
993A ILE* 3.1 10.1 + - - +
994A ILE* 3.0 26.6 + - - +
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Residues in contact with GLY 991 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
457A GLY 3.4 10.8 - - - -
458A GLY 2.8 18.4 + - - -
459A LEU 3.2 26.2 + - - -
460A LEU* 4.4 1.1 - - - -
461A PRO* 4.8 2.7 - - - +
990A GLU* 1.3 73.7 - - - +
992A SER* 1.3 56.9 + - - +
994A ILE* 3.4 7.9 + - - +
995A ARG* 2.9 32.1 + - - +
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Residues in contact with SER 992 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
396A LYS* 4.4 9.7 - - - -
457A GLY 3.8 1.0 + - - -
458A GLY* 4.4 0.5 - - - -
914A PHE* 5.1 1.9 - - - -
916A GLU* 3.7 23.4 + - - +
966A LEU* 4.9 0.9 - - - +
988A VAL* 3.6 18.6 - - - -
989A PHE* 3.0 22.8 + - - +
991A GLY* 1.3 73.0 - - - +
993A ILE* 1.3 66.2 + - - +
995A ARG* 3.4 23.5 + - - +
996A CYS* 3.1 22.5 + - - +
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Residues in contact with ILE 993 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
966A LEU* 4.4 17.2 - - + +
969A VAL* 4.2 15.7 - - + -
979A PHE* 3.9 17.0 - - + -
982A ILE* 4.3 1.8 - - + -
983A CYS* 4.2 26.5 - - - +
986A THR* 3.8 19.3 - - + -
988A VAL* 3.7 31.0 - - + +
989A PHE 3.0 13.2 + - - +
990A GLU* 3.1 7.4 + - - +
992A SER* 1.3 76.6 - - - +
994A ILE* 1.3 58.0 + - - +
996A CYS* 3.3 4.0 + - - +
997A MET* 2.9 46.5 + - + +
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Residues in contact with ILE 994 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
460A LEU* 3.4 33.7 - - + -
461A PRO* 3.6 28.9 - - + -
979A PHE* 3.8 18.6 - - + -
990A GLU 3.0 12.9 + - - +
991A GLY 3.8 4.5 - - - +
993A ILE* 1.3 76.5 - - - +
995A ARG* 1.3 58.3 + - - +
997A MET* 3.2 1.4 + - - +
998A ARG* 2.9 41.9 + - - +
1034A ILE* 4.4 5.4 - - + +
1035A VAL* 3.4 46.9 - - + +
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Residues in contact with ARG 995 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
396A LYS* 4.2 6.5 - - - +
457A GLY* 3.0 37.8 + - - -
464A LYS* 4.9 6.3 - - - +
915A GLN* 5.3 9.6 + - + +
916A GLU* 4.3 9.1 + - - -
991A GLY 2.9 14.7 + - - +
992A SER* 3.4 29.7 + - - +
993A ILE 3.3 0.2 - - - -
994A ILE* 1.3 77.5 - - - +
996A CYS* 1.3 61.7 + - - +
998A ARG* 3.3 7.5 + - - +
999A ARG* 3.0 35.5 + - - +
1105A MLI 4.4 34.7 + - - +
1106A MLI 5.8 0.4 + - - -
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Residues in contact with CYS 996 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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910A SER* 4.3 15.5 - - - -
913A VAL* 3.9 18.9 - - - +
914A PHE* 4.0 28.0 - - + -
966A LEU* 3.9 25.4 - - + -
970A VAL* 5.0 4.5 - - - -
992A SER 3.1 13.6 + - - +
993A ILE 3.6 7.2 - - - +
995A ARG* 1.3 73.7 - - - +
997A MET* 1.3 60.4 + - - +
999A ARG* 3.4 5.2 + - - +
1000A LEU* 2.7 31.9 + - - +
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Residues in contact with MET 997 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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966A LEU* 6.4 0.4 - - + -
969A VAL* 4.9 1.8 - - + -
970A VAL* 4.1 33.7 - - + -
973A TRP* 3.8 41.5 - - + +
982A ILE* 4.3 6.5 - - + -
993A ILE* 2.9 36.6 + - + +
994A ILE 3.6 0.9 - - - +
996A CYS* 1.3 76.5 - - - +
998A ARG* 1.3 57.0 + - - +
1000A LEU* 3.3 9.9 + - - +
1001A GLU 2.9 23.2 + - - -
1030A ILE* 4.1 7.4 - - + +
1035A VAL* 3.5 31.2 - - + -
1036A PHE* 3.6 18.4 - - + -
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Residues in contact with ARG 998 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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192A LYS* 4.3 15.6 + - - +
215A ASP* 3.8 26.9 + - - +
461A PRO* 3.7 37.4 - - - +
465A GLU* 5.7 2.2 + - - -
994A ILE* 2.9 24.4 + - - +
995A ARG* 3.8 6.7 - - - +
997A MET* 1.3 75.2 - - - +
999A ARG* 1.3 60.4 + - - +
1001A GLU* 3.4 5.9 + - - +
1002A GLU* 3.1 24.8 + - - +
1034A ILE 4.3 4.0 + - - -
1035A VAL 3.0 28.5 + - - +
1036A PHE* 4.1 22.2 - - + +
1037A ALA* 3.6 23.0 + - - +
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Residues in contact with ARG 999 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
192A LYS* 5.2 3.6 - - - +
261A GLU* 3.4 28.8 + - - -
262A ARG* 4.3 7.9 - - - +
882A SER* 5.5 2.6 - - - -
913A VAL* 3.9 30.1 + - + +
915A GLN* 2.3 38.2 + - - +
995A ARG* 3.0 28.2 + - + +
996A CYS* 3.9 4.0 - - - +
998A ARG* 1.3 73.5 - - - +
1000A LEU* 1.3 59.9 + - - +
1002A GLU* 3.2 17.7 + - - +
1003A LEU* 2.8 29.6 + - - +
1105A MLI 2.8 40.2 + - - +
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Residues in contact with LEU1000 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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906A THR* 3.6 20.2 - - + +
909A LEU* 3.5 36.1 - - + +
910A SER* 3.7 15.3 - - - +
913A VAL* 3.8 9.6 - - + +
970A VAL* 3.6 34.3 - - + -
996A CYS* 2.7 22.6 + - - +
997A MET* 3.5 9.0 - - - +
999A ARG* 1.3 71.1 - - - +
1001A GLU* 1.3 59.4 + - - +
1003A LEU* 3.1 7.2 + - + +
1004A LEU* 2.8 35.6 + - + +
1030A ILE* 4.1 11.9 - - + -
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Residues in contact with GLU1001 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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214A GLY 3.8 2.6 - - - +
215A ASP* 4.8 1.3 - - - +
997A MET 2.9 16.5 + - - +
998A ARG 3.7 5.4 - - - +
999A ARG 3.4 0.2 - - - -
1000A LEU* 1.3 76.0 - - - +
1002A GLU* 1.3 62.0 + - - +
1004A LEU* 3.4 6.3 + - - +
1005A ARG* 2.8 63.2 + - - +
1027A ILE* 4.2 21.6 - - + +
1030A ILE* 4.1 12.3 - - + +
1031A LYS* 4.0 10.5 - - + +
1036A PHE* 3.6 30.2 - - + -
677B ASN* 3.2 21.8 + - - +
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Residues in contact with GLU1002 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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192A LYS* 4.9 9.9 + - - -
214A GLY* 4.3 16.6 - - - +
215A ASP* 5.5 0.2 - - - +
230A GLU* 4.8 17.9 - - - +
231A ILE* 5.8 2.1 - - - +
882A SER* 3.7 19.4 + - - +
998A ARG 3.1 11.4 + - - +
999A ARG* 3.5 20.4 - - - +
1000A LEU 3.2 0.4 - - - -
1001A GLU* 1.3 76.7 + - - +
1003A LEU* 1.3 64.9 + - - +
1005A ARG* 3.3 33.8 + - - +
1006A GLN* 3.2 32.7 + - - +
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Residues in contact with LEU1003 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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880A ILE* 4.3 9.6 - - + -
882A SER* 5.1 4.9 - - - -
883A ALA* 3.8 20.9 - - + +
888A LEU* 4.0 19.3 - - + -
909A LEU* 4.0 23.6 - - + +
912A PHE* 3.9 13.9 - - + -
913A VAL* 3.8 24.5 - - + -
999A ARG 2.8 20.2 + - - +
1000A LEU* 3.6 5.4 - - + +
1002A GLU* 1.3 72.0 - - - +
1004A LEU* 1.3 58.3 + - - +
1006A GLN* 2.9 16.3 + - + +
1007A MET* 2.8 40.2 + - + +
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Residues in contact with LEU1004 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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906A THR* 4.1 19.7 - - + +
909A LEU* 3.3 30.1 - - + -
1000A LEU* 2.8 24.8 + - + +
1001A GLU* 3.6 1.8 - - - +
1002A GLU 3.3 0.2 - - - -
1003A LEU* 1.3 72.6 - - - +
1005A ARG* 1.3 57.0 + - - +
1007A MET* 3.1 6.3 + - - +
1008A CYS* 2.9 32.2 + - - -
1023A PHE* 3.8 28.1 - - + +
1026A GLY 4.0 3.4 - - - -
1027A ILE* 3.4 41.1 - - + +
1030A ILE* 3.9 20.6 - - + -
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Residues in contact with ARG1005 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
213A THR 5.5 0.4 + - - -
214A GLY* 2.3 41.9 + - - -
1001A GLU* 2.8 41.9 + - - +
1002A GLU* 3.5 30.7 + - - +
1003A LEU 3.2 0.2 - - - -
1004A LEU* 1.3 76.8 - - - +
1006A GLN* 1.3 63.1 + - + +
1008A CYS* 3.5 6.2 + - - +
1009A GLN* 3.2 28.5 + - - +
1027A ILE* 3.8 18.4 - - + -
676B GLU* 2.9 50.3 + - - +
677B ASN* 3.5 10.8 - - - +
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Residues in contact with GLN1006 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
238A ARG* 6.0 0.2 - - - +
879A GLU 3.6 17.8 - - - +
880A ILE* 3.6 8.1 - - + +
881A SER* 2.8 39.8 + - - -
882A SER* 2.7 35.9 + - - -
1002A GLU* 3.2 24.4 + - - +
1003A LEU* 2.9 14.6 + - + +
1005A ARG* 1.3 76.8 - - + +
1007A MET* 1.3 59.3 + - - +
1009A GLN* 3.3 15.8 + - - +
1010A ALA* 2.8 28.0 + - - +
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Residues in contact with MET1007 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
880A ILE* 3.7 22.4 - - + -
888A LEU* 4.2 19.5 - - + +
892A MET* 3.7 25.4 - - + -
897A PHE* 4.2 20.4 - - + -
909A LEU* 4.2 15.0 - - + -
1003A LEU* 2.8 37.0 + - + +
1004A LEU* 3.6 6.1 - - - +
1006A GLN* 1.3 73.7 - - - +
1008A CYS* 1.3 59.3 + - - +
1010A ALA* 3.2 4.4 + - - +
1011A ALA* 2.8 26.3 + - - +
1023A PHE* 3.5 41.1 - - + -
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Residues in contact with CYS1008 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1004A LEU 2.9 17.8 + - - -
1005A ARG* 3.5 9.9 - - - +
1007A MET* 1.3 77.5 - - - +
1009A GLN* 1.3 53.0 + - + +
1011A ALA* 3.3 1.9 + - - +
1012A LYS* 2.7 39.4 + - - +
1020A GLU* 3.6 23.4 - - + +
1023A PHE* 3.6 11.4 - - - -
1024A ALA* 3.5 36.8 - - - -
1027A ILE* 4.2 9.0 - - - -
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Residues in contact with GLN1009 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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238A ARG* 3.7 25.5 + - - +
879A GLU* 3.5 19.6 - - + +
1005A ARG 3.2 16.5 + - - +
1006A GLN* 3.3 19.5 + - - +
1008A CYS* 1.3 76.9 - - + +
1010A ALA* 1.3 58.0 + - - +
1012A LYS* 3.3 22.5 + - - +
1013A ALA* 2.9 29.8 + - - +
671B THR* 4.1 4.5 + - - +
672B PRO 4.0 18.6 + - - -
673B PHE* 5.3 0.8 - - - +
674B GLU* 4.6 11.7 - - - +
676B GLU* 4.0 20.8 + - - +
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Residues in contact with ALA1010 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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876A VAL* 3.7 40.6 - - + +
879A GLU* 3.8 11.4 - - + +
880A ILE* 4.1 10.3 - - + -
892A MET* 3.8 11.2 - - + -
1006A GLN 2.8 14.9 + - - +
1007A MET* 3.2 12.3 + - - +
1009A GLN* 1.3 76.6 - - - +
1011A ALA* 1.3 63.5 + - - +
1013A ALA* 3.2 16.6 + - - +
1014A ILE* 3.9 3.1 + - - +
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Residues in contact with ALA1011 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
892A MET* 4.3 7.7 - - - +
1007A MET 2.8 19.0 + - - +
1008A CYS 3.7 3.1 - - - +
1010A ALA* 1.3 72.0 - - - +
1012A LYS* 1.3 63.3 + - - +
1014A ILE* 3.2 14.8 + - - +
1016A ASN* 3.0 33.3 + - + +
1019A LEU* 3.8 14.6 - - + -
1020A GLU* 3.6 27.8 - - - +
1023A PHE* 4.6 2.5 - - + -
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Residues in contact with LYS1012 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1008A CYS* 2.7 20.4 + - - +
1009A GLN* 3.5 27.6 - - - +
1010A ALA 3.2 0.2 - - - -
1011A ALA* 1.3 73.9 - - - +
1013A ALA* 1.3 58.4 + - - +
1015A GLY* 2.9 21.0 + - - +
1020A GLU* 3.7 33.3 - - - +
671B THR* 3.9 25.0 - - + +
672B PRO* 5.2 3.1 + - + +
674B GLU* 4.3 24.7 + - - +
----------------------------------------------------------
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Residues in contact with ALA1013 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
872A MET* 3.7 17.1 - - + +
875A ARG* 4.5 13.2 - - + +
876A VAL* 4.5 7.6 - - + -
879A GLU* 4.1 21.5 - - + +
1009A GLN 2.9 14.2 + - - +
1010A ALA 3.4 11.9 - - - +
1011A ALA 3.2 0.6 - - - -
1012A LYS* 1.3 75.8 - - - +
1014A ILE* 1.3 58.4 + - - +
1015A GLY 3.5 0.4 + - - -
671B THR* 4.1 10.3 - - + +
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Residues in contact with ILE1014 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
872A MET* 3.9 27.4 - - + +
876A VAL* 3.7 28.0 - - + -
892A MET* 4.5 12.8 - - + -
893A PHE* 4.2 22.0 - - + -
1010A ALA 4.0 6.3 - - - +
1011A ALA 3.4 11.9 - - - +
1013A ALA* 1.3 77.7 - - - +
1015A GLY* 1.3 56.1 + - - +
1016A ASN* 2.9 29.5 + - + +
----------------------------------------------------------
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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