Contacts of the helix formed by residues 1081 - 1100 (chain B) in PDB entry 4EC0
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 THR1081 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1080B ASN* 1.3 88.5 - - + +
1082B GLU* 1.3 59.6 + - - +
1083B MET* 3.6 8.6 + - - +
1084B GLU* 3.0 30.2 + - + +
1085B GLN* 2.9 35.7 + - - +
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Residues in contact with GLU1082 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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70A TYR* 3.5 29.4 - - + +
73A LYS* 4.3 17.7 + - + +
74A ASN* 3.0 30.1 + - - +
1081B THR* 1.3 73.6 - - - +
1083B MET* 1.3 63.4 + - - +
1085B GLN* 3.2 20.8 + - - +
1086B CYS 3.1 16.8 + - - -
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Residues in contact with MET1083 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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56A VAL* 4.7 13.9 - - + +
59A LEU* 3.3 23.6 - - + -
61A LEU* 3.4 36.3 - - + -
70A TYR* 3.8 27.9 - - + +
1081B THR* 3.6 7.7 + - - +
1082B GLU* 1.3 78.3 - - - +
1084B GLU* 1.3 66.5 + - + +
1086B CYS* 3.0 14.2 + - - +
1087B HIS* 3.0 28.6 + - + +
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Residues in contact with GLU1084 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1079B GLY* 3.8 5.6 - - - -
1080B ASN* 3.1 40.9 + - - +
1081B THR* 3.0 30.4 + - + +
1083B MET* 1.3 77.3 - - + +
1085B GLN* 1.3 57.2 + - - +
1087B HIS* 3.1 12.9 + - + +
1088B VAL* 2.8 34.8 + - - +
1142B ILE* 3.7 15.9 - - + +
1143B GLY* 3.4 28.7 - - - +
1144B ASN* 4.7 1.4 + - - -
1147B THR* 5.2 1.2 - - - +
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Residues in contact with GLN1085 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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73A LYS* 2.5 39.6 + - - +
1078B ALA* 3.2 35.5 - - + +
1079B GLY 3.2 18.7 + - - +
1080B ASN 4.4 4.2 + - - -
1081B THR 2.9 19.6 + - - +
1082B GLU* 3.4 15.7 - - - +
1083B MET 3.1 0.2 - - - -
1084B GLU* 1.3 77.2 - - - +
1086B CYS* 1.3 57.2 + - - +
1088B VAL* 3.4 1.4 + - - +
1089B ASP* 2.9 37.5 + - - +
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Residues in contact with CYS1086 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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61A LEU* 4.3 24.5 - - - -
62A HIS 5.0 2.2 - - - -
66A ALA* 3.6 29.8 - - - +
67A ILE* 4.1 7.2 - - - -
70A TYR* 3.8 26.0 - - + -
73A LYS* 5.3 0.4 - - - +
1082B GLU 3.1 11.1 + - - +
1083B MET* 3.0 14.2 + - - +
1085B GLN* 1.3 78.0 - - - +
1087B HIS* 1.3 57.7 + - - +
1089B ASP* 3.2 7.6 + - - +
1090B ALA* 2.8 31.5 + - - +
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Residues in contact with HIS1087 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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59A LEU* 4.0 14.7 - - + +
60A THR 4.2 7.8 + - - -
61A LEU* 3.3 35.2 - - + +
62A HIS* 6.2 1.8 - - - -
1083B MET* 3.0 32.2 + - + +
1084B GLU* 3.1 17.0 + - + +
1086B CYS* 1.3 76.6 - - - +
1088B VAL* 1.3 62.7 + - - +
1090B ALA* 3.3 6.6 + - - +
1091B ILE* 3.1 29.3 + - - +
1134B TYR* 3.5 22.8 + - - +
1142B ILE* 3.7 17.3 - - + -
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Residues in contact with VAL1088 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1078B ALA 3.7 15.5 - - - +
1079B GLY* 4.4 0.4 - - - -
1084B GLU 2.8 21.4 + - - +
1085B GLN 3.7 5.2 - - - +
1087B HIS* 1.3 77.0 - - - +
1089B ASP* 1.3 63.6 + - - +
1090B ALA 3.3 0.2 + - - -
1091B ILE* 3.4 1.9 + - - +
1092B VAL* 3.0 23.2 + - - +
1142B ILE* 3.7 18.8 - - + -
1147B THR* 3.7 28.3 - - + +
1148B TRP* 3.4 39.5 - - + +
1149B ALA* 3.8 14.0 - - + +
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Residues in contact with ASP1089 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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66A ALA* 3.7 16.3 - - + +
69A ARG* 3.1 28.8 + - - +
73A LYS* 5.0 5.2 + - - -
1069B ARG* 2.9 38.2 + - - +
1078B ALA 5.8 0.2 - - - +
1085B GLN* 2.9 24.3 + - - +
1086B CYS* 3.6 5.9 - - - +
1088B VAL* 1.3 78.8 - - - +
1090B ALA* 1.3 57.8 + - - +
1092B VAL* 3.5 5.5 + - - +
1093B ASP* 3.0 32.7 + - - +
1148B TRP* 3.9 10.2 + - - -
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Residues in contact with ALA1090 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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62A HIS* 3.4 47.1 - - + +
63A GLN* 3.3 7.3 - - + +
66A ALA* 3.6 7.8 - - + +
1086B CYS* 2.8 18.4 + - - +
1087B HIS* 3.6 7.6 - - - +
1088B VAL 3.2 0.2 - - - -
1089B ASP* 1.3 75.4 - - - +
1091B ILE* 1.3 60.7 + - - +
1093B ASP 3.3 1.2 + - - -
1094B THR* 2.9 31.9 + - - -
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Residues in contact with ILE1091 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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48A PHE* 3.6 37.2 - - + -
62A HIS* 4.3 2.5 - - - +
1087B HIS 3.1 16.9 + - - +
1088B VAL 3.9 3.4 - - - +
1090B ALA* 1.3 75.0 - - - +
1092B VAL* 1.3 64.8 + - - +
1094B THR* 3.1 3.5 + - - -
1095B LEU* 3.0 42.0 + - + +
1131B LEU* 4.6 9.9 - - + -
1134B TYR* 3.8 32.1 - - + -
1141B LEU* 4.0 16.2 - - + -
1142B ILE* 4.0 7.4 - - + -
1149B ALA* 4.0 17.9 - - + -
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Residues in contact with VAL1092 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1065B LEU* 3.5 26.7 - - + -
1069B ARG* 5.1 2.0 - - - +
1088B VAL 3.0 20.9 + - - +
1089B ASP* 3.6 6.3 - - - +
1090B ALA 3.2 0.2 - - - -
1091B ILE* 1.3 77.9 - - - +
1093B ASP* 1.3 60.6 + - - +
1095B LEU* 3.4 2.7 + - - +
1096B ASP* 2.9 25.8 + - - +
1148B TRP* 3.9 42.4 - - + -
1149B ALA* 3.9 23.6 - - + -
1152B TYR* 3.8 18.4 - - + -
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Residues in contact with ASP1093 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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63A GLN* 3.4 26.5 - - + +
65A LEU* 4.2 23.9 - - - +
66A ALA* 4.6 5.7 + - - +
69A ARG* 5.2 5.1 + - - -
93A ASP* 4.8 7.9 - - - +
202A MG 4.1 14.4 - - - -
1065B LEU* 3.9 18.7 - - - +
1069B ARG* 5.0 6.9 + - - -
1089B ASP 3.0 19.9 + - - +
1090B ALA 3.3 0.4 + - - +
1092B VAL* 1.3 76.8 - - - +
1094B THR* 1.3 60.7 + - - +
1096B ASP* 4.3 3.5 - - - +
1097B ASP* 2.8 37.2 + - - +
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Residues in contact with THR1094 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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48A PHE* 3.7 36.1 - - + +
62A HIS* 3.2 17.5 + - - -
63A GLN* 3.1 19.0 + - - +
1090B ALA 2.9 17.2 + - - -
1091B ILE* 3.1 8.7 + - - +
1093B ASP* 1.3 76.2 - - - +
1095B LEU* 1.3 64.6 + - - +
1097B ASP* 3.6 4.1 - - - +
1098B PHE* 3.3 19.8 + - - +
1127B LEU* 3.7 18.8 - - + +
1131B LEU* 5.0 3.8 - - + -
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Residues in contact with LEU1095 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1091B ILE* 3.0 35.5 + - + +
1092B VAL* 3.7 3.4 - - - +
1094B THR* 1.3 78.5 - - - +
1096B ASP* 1.3 64.0 + - - +
1098B PHE* 3.2 6.4 + - - +
1099B MET* 3.0 27.3 + - - +
1127B LEU* 4.9 7.9 - - + -
1128B MET* 5.8 0.9 - - + -
1131B LEU* 3.9 31.2 - - + -
1149B ALA 4.2 0.4 - - - +
1152B TYR* 3.9 20.6 - - + -
1153B TRP* 3.6 44.0 - - + +
1156B CYS* 4.1 15.5 - - + -
1160B LEU* 6.4 1.8 - - + -
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Residues in contact with ASP1096 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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97A ASP* 5.1 1.7 - - - +
202A MG 4.1 11.3 - - - -
1014B ARG* 4.7 9.8 + - - -
1064B SER* 5.4 0.2 + - - -
1065B LEU* 3.6 26.9 - - + +
1092B VAL 2.9 17.6 + - - +
1093B ASP* 4.0 5.6 - - - +
1095B LEU* 1.3 77.5 - - - +
1097B ASP* 1.3 59.6 + - - +
1099B MET* 3.2 7.3 + - - +
1100B SER* 2.8 47.7 + - - -
1152B TYR* 2.5 27.7 + - + -
1201B GSH 4.7 14.1 + - - -
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Residues in contact with ASP1097 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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50A LYS* 6.1 2.7 - - - +
63A GLN* 2.9 17.4 + - - +
96A ASP* 5.1 1.6 - - - +
100A SER* 5.4 3.8 + - - -
201A GSH 2.7 36.7 + - - +
202A MG 4.2 14.6 - - - -
1093B ASP* 2.8 24.7 + - - +
1094B THR* 3.6 6.1 - - - +
1096B ASP* 1.3 73.6 - - - +
1098B PHE* 1.3 64.7 + - - +
1100B SER* 3.3 11.1 + - - -
1101B CYS* 3.3 19.8 + - - -
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Residues in contact with PHE1098 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1094B THR 3.3 4.9 + - - +
1095B LEU 3.2 8.3 + - - +
1096B ASP 3.2 0.2 - - - -
1097B ASP* 1.3 77.5 - - - +
1099B MET* 1.3 69.7 + - - +
1101B CYS* 2.9 26.9 + - - +
1102B PHE* 3.5 34.4 - + - -
1119B LEU* 3.8 20.6 - - + -
1123B ASN* 3.8 24.9 - - + -
1124B ALA* 3.6 34.5 - - + -
1127B LEU* 3.6 33.4 - - + -
1160B LEU* 3.9 21.8 - - + -
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Residues in contact with MET1099 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1014B ARG* 4.6 4.3 - - - +
1095B LEU* 3.0 20.7 + - - +
1096B ASP* 3.7 11.0 - - - +
1098B PHE* 1.3 80.4 - - - +
1100B SER* 1.3 61.1 + - - +
1101B CYS 3.3 0.5 + - - -
1102B PHE* 3.4 10.4 + - + -
1104B TRP* 3.1 39.4 + - + +
1152B TYR* 5.3 1.1 - - - +
1156B CYS* 3.6 34.8 - - - +
1159B THR* 3.7 37.0 - - + -
1160B LEU* 3.9 34.3 - - + -
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Residues in contact with SER1100 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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97A ASP* 5.3 5.7 + - - -
1014B ARG* 3.3 23.7 + - - +
1096B ASP* 2.8 32.7 + - - -
1097B ASP* 3.7 7.2 - - - -
1098B PHE 3.1 0.2 - - - -
1099B MET* 1.3 76.9 - - - +
1101B CYS* 1.3 62.2 + - - +
1102B PHE 3.2 7.3 + - - +
1104B TRP* 4.9 0.8 - - - +
1201B GSH 5.6 1.6 + - - -
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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
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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