Contacts of the helix formed by residues 1181 - 1204 (chain K) in PDB entry 2X4Y
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 LYS1181 (chain K).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1180K ARG* 1.3 94.0 - - + +
1182K SER* 1.3 67.4 + - - +
1183K ASN* 4.2 16.4 - - - +
1184K ILE* 3.2 17.4 + - + +
1185K ARG* 3.1 26.0 + - - +
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Residues in contact with SER1182 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1185A ARG* 5.0 9.2 + - - -
1181K LYS* 1.3 73.2 - - - +
1183K ASN* 1.3 59.7 + - - +
1185K ARG* 3.4 26.7 + - - +
1186K LYS* 2.9 28.1 + - - +
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Residues in contact with ASN1183 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1181K LYS* 4.2 11.4 - - - +
1182K SER* 1.3 79.5 - - - +
1184K ILE* 1.3 74.4 + - - +
1186K LYS* 3.4 13.6 + - + +
1187K SER* 3.1 22.3 + - - -
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Residues in contact with ILE1184 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1096K TYR* 6.1 4.5 - - + -
1097K PRO* 3.7 35.9 - - + -
1099K TYR* 6.2 1.6 - - + -
1179K GLY* 4.4 7.6 - - - -
1180K ARG 5.0 0.9 - - - +
1181K LYS* 3.2 25.9 + - + +
1183K ASN* 1.3 84.5 + - - +
1185K ARG* 1.3 67.2 + - - +
1187K SER* 3.2 9.5 + - - -
1188K VAL* 3.0 23.0 + - + +
36L M3L 6.6 0.7 - - - -
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Residues in contact with ARG1185 (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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1176K MET 4.0 8.2 - - - +
1177K LEU* 3.9 26.6 - - - +
1179K GLY* 2.9 44.3 + - - +
1180K ARG 3.5 9.3 + - - -
1181K LYS 3.1 19.9 + - - +
1182K SER* 3.5 30.4 - - - +
1184K ILE* 1.3 78.3 - - - +
1186K LYS* 1.3 56.7 + - - +
1188K VAL* 3.2 9.8 + - - +
1189K GLN* 2.8 43.9 + - - +
1182M SER* 5.3 7.1 + - - -
1186M LYS* 3.7 22.2 - - - +
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Residues in contact with LYS1186 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1177A LEU* 2.7 44.4 + - + +
1178A GLU 4.3 4.2 + - - -
1179A GLY 3.5 11.5 + - - -
1180A ARG* 5.2 2.9 - - - +
1185A ARG* 3.8 33.0 - - - +
1182K SER* 2.9 18.4 + - - +
1183K ASN* 3.7 13.2 - - - +
1184K ILE 3.2 0.2 - - - -
1185K ARG* 1.3 77.9 - - - +
1187K SER* 1.3 58.0 + - - +
1189K GLN* 3.2 11.6 + - - +
1190K ILE* 2.8 43.5 + - + +
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Residues in contact with SER1187 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1099K TYR* 3.0 30.4 + - - -
1183K ASN 3.1 11.3 + - - -
1184K ILE* 3.5 12.8 - - - -
1186K LYS* 1.3 80.8 - - - +
1188K VAL* 1.3 56.0 + - - +
1190K ILE* 3.4 11.9 + - - +
1191K ALA 3.0 22.9 + - - -
1194K ARG* 5.8 0.3 + - - -
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Residues in contact with VAL1188 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1090K TRP* 3.7 33.7 - - + -
1097K PRO* 4.3 16.2 - - + -
1098K SER 3.9 10.5 - - - +
1099K TYR* 3.8 28.3 - - + -
1100K PRO* 4.0 2.7 - - + +
1175K LYS 4.5 2.7 - - - +
1176K MET* 4.0 16.6 - - + +
1179K GLY 5.9 2.5 - - - +
1184K ILE* 3.0 19.5 + - + +
1185K ARG* 3.2 9.8 + - - +
1187K SER* 1.3 71.4 - - - +
1189K GLN* 1.3 61.5 + - - +
1191K ALA* 3.3 4.8 + - - +
1192K TYR* 2.9 26.5 + - - +
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Residues in contact with GLN1189 (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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1177A LEU* 3.6 27.9 - - + +
1176K MET* 4.2 33.0 + - + +
1177K LEU* 6.2 1.8 - - - +
1185K ARG* 2.8 35.2 + - - +
1186K LYS* 3.6 6.4 - - - +
1188K VAL* 1.3 77.8 - - - +
1190K ILE* 1.3 63.4 + - - +
1192K TYR* 3.2 2.1 + - - +
1193K HIS* 3.0 36.6 + - + +
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Residues in contact with ILE1190 (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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1174A GLU* 4.0 19.0 - - + +
1177A LEU* 3.7 42.0 - - + +
1178A GLU* 5.4 2.0 - - - -
1186K LYS* 2.8 31.9 + - + +
1187K SER* 3.7 8.7 - - - +
1189K GLN* 1.3 75.0 - - - +
1191K ALA* 1.3 57.7 + - - +
1193K HIS* 3.2 6.9 + - - +
1194K ARG* 2.8 66.4 + - - +
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Residues in contact with ALA1191 (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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1099K TYR* 3.4 34.8 - - + +
1100K PRO* 3.8 9.8 - - + +
1148K PHE* 3.4 26.8 - - + +
1187K SER 3.0 15.0 + - - +
1188K VAL 3.3 4.7 + - - +
1190K ILE* 1.3 76.6 - - - +
1192K TYR* 1.3 58.7 + - - +
1194K ARG* 3.2 4.9 + - - +
1195K ALA* 2.8 29.1 + - - +
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Residues in contact with TYR1192 (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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1090K TRP* 3.5 20.0 - + - -
1100K PRO* 3.5 10.7 - - + +
1165K LEU* 4.0 20.4 - - + -
1166K GLY* 4.4 1.6 - - - -
1169K GLN* 5.7 0.5 - - - -
1172K ASP* 2.7 47.2 + - + +
1176K MET* 3.8 28.4 - - + +
1188K VAL 2.9 13.8 + - - +
1189K GLN 3.2 7.2 + - - +
1191K ALA* 1.3 77.4 - - - +
1193K HIS* 1.3 76.7 + + - +
1195K ALA* 3.1 4.4 + - - +
1196K LEU* 2.9 54.9 + - + +
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Residues in contact with HIS1193 (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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1170A ASP* 3.0 42.5 + - - +
1173A LYS* 3.5 49.0 - - + +
1174A GLU* 4.2 8.1 - - + -
1177A LEU* 4.4 8.8 - - + +
1176K MET* 5.1 3.9 - - + -
1189K GLN* 3.0 36.2 + - - +
1190K ILE* 3.8 3.8 - - - +
1192K TYR* 1.3 94.6 - + - +
1194K ARG* 1.3 59.2 + - - +
1196K LEU 3.4 0.7 + - - +
1197K GLN* 2.9 35.9 + - - +
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Residues in contact with ARG1194 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1174A GLU* 3.1 30.6 + - - +
1099K TYR* 5.2 1.6 + - - -
1148K PHE* 3.1 41.5 + - + -
1149K ASP* 3.6 3.6 + - - +
1150K ASN* 2.6 41.2 + - - +
1152K ARG* 6.5 0.7 - - - +
1187K SER 5.8 0.2 + - - -
1190K ILE* 2.8 38.6 + - - +
1191K ALA* 3.5 6.8 - - - +
1193K HIS* 1.3 77.7 - - - +
1195K ALA* 1.3 62.5 + - - +
1197K GLN* 3.3 9.7 + - - +
1198K HIS* 2.9 23.6 + - - +
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Residues in contact with ALA1195 (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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1088K LEU* 3.5 14.1 - - + +
1100K PRO* 4.2 6.5 - - + -
1148K PHE* 3.7 32.6 - - + -
1165K LEU* 4.1 21.5 - - + -
1191K ALA 2.8 17.8 + - - +
1192K TYR 3.1 8.3 + - - +
1194K ARG* 1.3 72.7 - - - +
1196K LEU* 1.3 59.4 + - - +
1198K HIS* 3.2 4.7 + - - +
1199K ARG 2.9 22.9 + - - -
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Residues in contact with LEU1196 (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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1170A ASP* 3.5 37.8 - - - +
1088K LEU* 4.6 2.5 - - + -
1165K LEU* 3.9 25.1 - - + -
1166K GLY* 4.3 5.2 - - - -
1192K TYR* 2.9 45.2 + - + +
1193K HIS 4.1 0.2 - - - +
1195K ALA* 1.3 75.2 - - - +
1197K GLN* 1.3 60.9 + - - +
1199K ARG* 3.4 43.1 + - - +
1200K SER* 3.0 29.6 + - - -
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Residues in contact with GLN1197 (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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1168A ASN* 4.1 13.5 + - - +
1170A ASP* 3.6 18.3 + - + -
1171A LEU* 3.5 42.1 - - - +
1174A GLU* 2.8 28.2 + - - +
1193K HIS 2.9 28.0 + - - +
1194K ARG* 3.3 7.7 + - - +
1196K LEU* 1.3 73.5 - - - +
1198K HIS* 1.3 66.4 + - - +
1200K SER* 3.3 7.1 + - - +
1201K LYS* 3.0 37.4 + - + +
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Residues in contact with HIS1198 (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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1086K LEU* 5.4 1.9 + - - +
1088K LEU* 4.4 8.3 - - + -
1102K LEU* 3.9 39.7 - - + +
1115K HIS* 4.9 3.2 + - - -
1118K VAL* 4.1 25.3 - - + +
1120K ILE* 4.1 19.6 - - + +
1148K PHE* 3.9 18.8 - + + -
1152K ARG* 5.5 3.3 + - - -
1194K ARG 2.9 13.5 + - - +
1195K ALA 3.4 8.3 - - - +
1197K GLN* 1.3 74.5 - - - +
1199K ARG* 1.3 69.8 + - - +
1201K LYS* 3.1 11.1 + - - +
1202K VAL* 3.0 31.5 + - + +
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Residues in contact with ARG1199 (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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1170A ASP* 5.8 0.2 + - - -
1088K LEU* 3.8 17.7 - - + -
1165K LEU 4.6 2.8 + - - -
1166K GLY* 2.9 36.8 + - - -
1167K VAL* 5.8 0.6 - - - +
1195K ALA 2.9 13.4 + - - +
1196K LEU* 3.5 39.0 + - - +
1197K GLN 3.3 0.2 - - - -
1198K HIS* 1.3 82.6 - - - +
1200K SER* 1.3 58.7 + - - +
1202K VAL* 3.2 5.6 + - - +
1203K GLN* 2.9 54.5 + - + +
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Residues in contact with SER1200 (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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1168A ASN* 5.0 13.4 + - - -
1170A ASP* 5.3 2.9 + - - -
1196K LEU 3.0 15.0 + - - -
1197K GLN* 3.7 9.8 - - - -
1198K HIS 3.2 0.2 - - - -
1199K ARG* 1.3 77.1 + - - +
1201K LYS* 1.3 60.6 + - - +
1203K GLN* 3.1 18.9 + - - +
1204K GLY 3.2 0.7 + - - -
1205K GLU* 2.8 42.5 + - - +
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Residues in contact with LYS1201 (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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1168A ASN* 6.1 4.3 - - - +
1116K HIS* 4.5 12.1 - - - +
1118K VAL* 5.2 18.4 - - + -
1197K GLN* 3.0 28.6 + - + +
1198K HIS* 3.1 10.1 + - - +
1200K SER* 1.3 75.9 - - - +
1202K VAL* 1.3 61.8 + - - +
1204K GLY* 3.5 8.5 + - - -
1205K GLU* 3.9 13.9 + - - +
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Residues in contact with VAL1202 (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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1115K HIS* 3.1 46.2 - - + +
1116K HIS* 3.2 32.7 + - + +
1118K VAL* 3.4 28.0 - - + -
1198K HIS* 3.0 28.4 + - + +
1199K ARG* 3.9 4.9 - - - +
1201K LYS* 1.3 75.7 - - - +
1203K GLN* 1.3 60.8 + - + +
1204K GLY 3.2 3.3 + - - -
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Residues in contact with GLN1203 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1199K ARG* 2.9 45.2 + - + +
1200K SER* 3.1 13.8 + - - +
1202K VAL* 1.3 77.7 - - + +
1204K GLY* 1.3 57.9 + - - +
1205K GLU* 4.9 1.8 + - - +
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Residues in contact with GLY1204 (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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1116K HIS* 6.3 0.9 - - - -
1200K SER 3.2 0.2 + - - -
1201K LYS 3.5 4.8 + - - -
1202K VAL 3.2 5.3 + - - -
1203K GLN* 1.3 80.6 - - - +
1205K GLU* 1.3 79.3 + - - +
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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
------------------------------------------------------------
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