Contacts of the helix formed by residues 1364 - 1376 (chain D) in PDB entry 5X22
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 HIS1364 (chain D).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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773D ALA 3.5 20.3 + - - +
774D SER* 4.8 5.6 - - - +
1141D GLU 4.6 1.8 - - - -
1142D ALA* 3.2 31.1 + - - +
1145D TYR* 2.7 34.5 + + - -
1147D ARG* 4.1 18.1 - - - +
1209D LEU* 3.8 21.1 - - + -
1353D GLN* 3.7 2.6 + - - -
1363D LEU* 1.3 80.7 - - - +
1365D ASP* 1.3 65.8 + - - +
1366D LYS* 3.0 49.7 + - + +
1367D HIS* 3.1 27.5 + - + +
1368D ILE 4.3 1.7 + - - -
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Residues in contact with ASP1365 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1120D VAL* 5.9 0.7 - - - +
1135D ARG* 5.2 4.2 + - - -
1139D ASP 4.8 2.0 - - - +
1142D ALA* 3.1 23.0 + - - +
1143D GLY* 3.8 16.1 - - - -
1147D ARG* 4.5 2.0 + - - +
1349D VAL* 4.2 13.6 - - + +
1350D GLU* 5.5 0.7 - - - +
1353D GLN* 2.8 34.3 + - - +
1357D ARG* 4.7 8.2 + - - -
1364D HIS* 1.3 74.6 + - - +
1366D LYS* 1.3 63.2 + - - +
1367D HIS 3.4 0.2 - - - -
1368D ILE* 3.4 5.0 + - - +
1369D GLU* 2.9 40.9 + - - +
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Residues in contact with LYS1366 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1146D GLY 4.7 1.7 + - - -
1147D ARG* 4.0 15.7 - - + +
1191D PRO* 4.4 6.5 - - + +
1205D TYR* 3.2 57.5 - - + +
1206D GLY* 4.3 0.6 - - - -
1207D TYR 2.8 34.2 + - - +
1209D LEU* 3.7 25.8 - - - +
1364D HIS* 3.0 35.9 + - + +
1365D ASP* 1.3 76.4 - - - +
1367D HIS* 1.3 60.3 + - + +
1369D GLU* 3.0 12.9 + - - +
1370D ILE* 2.9 31.6 + - - +
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Residues in contact with HIS1367 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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772D PRO 3.4 18.1 + - - -
773D ALA* 3.3 21.0 + - - -
1205D TYR* 4.2 19.1 + - - -
1209D LEU* 4.1 3.9 - - + +
1224D VAL* 4.4 5.4 - - + -
1225D ALA* 3.4 36.5 - - + +
1228D SER* 3.7 13.7 - - - -
1229D ILE* 3.8 15.9 - - + -
1363D LEU* 3.8 15.9 - - + -
1364D HIS* 3.1 31.6 - - + +
1366D LYS* 1.3 72.4 - - + +
1368D ILE* 1.3 67.6 + - + +
1370D ILE* 2.9 17.3 + - - +
1371D VAL* 3.0 16.5 + - - +
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Residues in contact with ILE1368 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1229D ILE* 4.0 21.3 - - + -
1263D PHE* 4.7 2.0 - - + -
1349D VAL* 3.9 23.3 - - + -
1352D ILE* 3.6 47.6 - - + -
1353D GLN* 3.3 43.7 - - + +
1356D TYR* 5.1 0.9 - - + -
1363D LEU* 4.8 10.3 - - + -
1364D HIS 4.4 5.2 - - - +
1365D ASP 3.8 5.2 - - - +
1366D LYS 3.4 0.2 - - - -
1367D HIS* 1.3 75.6 - - + +
1369D GLU* 1.3 56.8 + - - +
1371D VAL* 3.3 2.7 + - - +
1372D VAL* 2.9 35.7 + - + +
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Residues in contact with GLU1369 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1118D ILE* 3.5 10.0 - - - +
1147D ARG* 2.2 46.2 + - - -
1190D SER* 2.7 15.2 + - - +
1191D PRO* 3.7 8.5 - - + +
1192D LEU* 3.5 26.9 - - + +
1349D VAL* 3.7 23.0 - - + +
1365D ASP* 2.9 29.9 + - - +
1366D LYS* 3.2 9.3 - - - +
1368D ILE* 1.3 74.6 - - - +
1370D ILE* 1.3 57.3 + - - +
1372D VAL* 4.5 0.2 - - - -
1373D ARG* 2.9 30.3 + - - +
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Residues in contact with ILE1370 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1102D THR* 4.1 20.2 - - + -
1105D ILE* 4.4 19.5 - - + -
1191D PRO* 3.5 27.8 - - + -
1200D VAL* 4.0 13.2 - - + -
1205D TYR* 4.4 5.4 - - + -
1221D VAL* 3.6 26.7 - - + -
1222D GLY* 4.5 2.9 - - - -
1225D ALA* 4.3 11.4 - - + -
1366D LYS 2.9 19.8 + - - +
1367D HIS* 2.9 12.3 + - - +
1369D GLU* 1.3 76.5 - - - +
1371D VAL* 1.3 58.4 + - - +
1373D ARG* 3.2 10.1 - - - +
1374D GLN* 2.9 26.9 + - - +
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Residues in contact with VAL1371 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1098D LEU* 3.7 21.1 - - + -
1101D VAL* 4.3 7.0 - - + -
1102D THR* 3.7 22.2 - - + -
1225D ALA* 5.0 3.6 - - + -
1226D ALA 5.3 1.3 - - - +
1229D ILE* 3.6 21.5 - - + -
1263D PHE* 3.5 27.6 - - + -
1367D HIS 3.0 13.3 + - - +
1368D ILE 3.3 2.7 + - - +
1370D ILE* 1.3 76.0 - - + +
1372D VAL* 1.3 57.0 + - - +
1374D GLN* 2.9 19.3 + - - +
1375D MET* 2.9 13.5 + - + +
1424D VAL* 3.7 15.9 - - + -
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Residues in contact with VAL1372 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1192D LEU* 4.2 5.4 - - + -
1345D GLU* 3.8 40.2 - - + +
1348D LEU* 4.0 24.2 - - + -
1349D VAL* 4.0 15.5 - - + -
1352D ILE* 4.9 0.7 - - + -
1368D ILE* 2.9 28.4 + - + +
1369D GLU 4.0 2.7 - - - +
1371D VAL* 1.3 75.0 - - - +
1373D ARG* 1.3 57.9 + - - +
1375D MET* 2.9 39.5 + - + +
1376D MET* 2.9 16.4 + - + +
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Residues in contact with ARG1373 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1105D ILE* 4.0 13.7 - - - +
1191D PRO* 3.1 31.7 + - - +
1192D LEU* 4.4 17.4 + - + +
1194D CYS* 2.7 29.3 + - - +
1195D GLN 4.6 0.2 - - - -
1196D THR 3.2 11.9 + - - -
1199D GLY 2.5 38.9 + - - +
1200D VAL* 3.2 11.5 - - - +
1345D GLU* 5.7 0.7 - - - -
1369D GLU 2.9 21.2 + - - +
1370D ILE* 3.2 8.7 - - - +
1372D VAL* 1.3 77.3 - - - +
1374D GLN* 1.3 71.3 + - - +
1376D MET* 3.2 16.6 + - + +
1377D LYS* 3.5 10.4 + - - +
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Residues in contact with GLN1374 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1101D VAL* 3.6 37.3 + - + +
1102D THR* 4.1 11.4 - - + -
1104D GLU* 4.3 7.1 + - - +
1105D ILE* 3.3 34.5 - - + +
1370D ILE 2.9 14.7 + - - +
1371D VAL* 2.9 12.6 + - - +
1373D ARG* 1.3 92.0 + - - +
1375D MET* 1.3 59.4 + - - +
1377D LYS* 3.4 46.1 - - - +
1427D SER* 2.9 19.8 + - - -
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Residues in contact with MET1375 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1101D VAL* 6.1 0.4 - - + -
1262D LEU 4.3 4.5 - - - +
1263D PHE* 3.4 51.8 - - + +
1265D ALA* 5.3 0.9 - - - -
1348D LEU* 4.2 18.2 - - + -
1352D ILE* 4.9 1.8 - - + -
1371D VAL* 2.9 12.4 + - + +
1372D VAL* 2.9 42.5 + - + +
1374D GLN* 1.3 78.2 - - + +
1376D MET* 1.3 59.6 + - + +
1377D LYS 3.2 1.9 + - - -
1378D TYR* 4.6 1.2 + - - -
1420D LEU 3.7 4.7 - - - +
1421D LEU* 3.9 12.4 - - + -
1422D MET* 3.3 44.7 + - - +
1423D GLY* 4.7 1.3 - - - -
1424D VAL* 4.4 13.2 - - + +
1427D SER* 4.4 3.4 - - - -
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Residues in contact with MET1376 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1336D LEU* 4.5 8.5 - - + -
1341D PRO* 3.6 35.9 - - + -
1344D VAL* 4.8 8.1 - - - -
1345D GLU* 3.4 35.7 - - + +
1372D VAL* 2.9 20.8 + - + +
1373D ARG* 3.2 9.5 + - + +
1375D MET* 1.3 74.4 - - - +
1377D LYS* 1.3 63.1 + - - +
1378D TYR 3.1 7.9 + - - +
1397D LYS* 3.6 28.2 + - - +
1419D PRO* 5.0 6.1 - - + -
1420D LEU 4.3 8.8 - - - +
1421D LEU* 3.9 29.2 - - + -
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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