Contacts of the helix formed by residues 1365 - 1384 (chain A) in PDB entry 3FK2
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 PRO1365 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1334A PRO* 4.1 25.8 - - + -
1336A ASN* 5.5 4.7 - - - +
1337A MET* 4.4 5.8 - - + -
1363A LYS 3.5 6.3 - - - +
1364A PHE* 1.3 84.5 - - + +
1366A LYS* 1.3 62.0 + - - +
1367A GLU* 4.0 8.5 - - - +
1368A ASN* 3.2 22.3 + - - +
1369A HIS* 2.9 23.9 + - - +
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Residues in contact with LYS1366 (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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1364A PHE 3.4 4.9 + - - -
1365A PRO* 1.3 67.9 - - - +
1367A GLU* 1.3 75.2 + - - +
1369A HIS* 3.7 7.1 - - + +
1370A GLU* 3.1 44.5 + - + +
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Residues in contact with GLU1367 (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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1251A LEU* 4.3 7.9 - - + -
1252A THR* 3.6 32.3 - - + +
1255A VAL* 4.5 18.8 - - + +
1256A THR 6.5 0.4 - - - -
1257A PRO* 5.7 4.7 - - + +
1260A PRO* 4.7 4.2 - - - +
1365A PRO* 4.0 9.2 - - - +
1366A LYS* 1.3 87.9 + - - +
1368A ASN* 1.3 66.3 + - - +
1370A GLU* 3.5 4.3 + - - +
1371A VAL* 3.4 24.8 + - - +
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Residues in contact with ASN1368 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1251A LEU* 4.0 21.9 - - - +
1331A PRO 4.2 4.4 + - - -
1332A LEU* 2.9 33.8 + - + +
1334A PRO* 3.7 15.4 - - + +
1364A PHE* 4.6 9.4 - - + -
1365A PRO* 3.2 26.7 + - + +
1367A GLU* 1.3 78.0 - - - +
1369A HIS* 1.3 57.5 + - - +
1371A VAL* 3.1 2.6 + - - +
1372A PHE* 2.7 36.6 + - - +
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Residues in contact with HIS1369 (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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1361A LEU* 3.2 51.8 + - + +
1362A LYS* 5.6 0.9 - - - -
1364A PHE* 3.7 17.9 - - + +
1365A PRO 2.9 15.8 + - - +
1366A LYS* 3.2 10.7 + - + +
1368A ASN* 1.3 76.5 - - - +
1370A GLU* 1.3 76.7 + - - +
1372A PHE* 3.5 2.8 + - - +
1373A LYS* 2.8 36.9 + - + +
1435A PHE 5.3 1.3 - - - -
1436A PHE* 4.0 19.1 - + - -
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Residues in contact with GLU1370 (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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1260A PRO* 3.9 33.2 - - + +
1261A ILE* 3.7 8.0 - - + +
1366A LYS* 3.1 39.6 + - + +
1367A GLU* 3.7 5.4 - - - +
1369A HIS* 1.3 95.8 - - - +
1371A VAL* 1.3 60.1 + - - +
1373A LYS* 3.2 20.2 + - - +
1374A TYR* 2.9 28.6 + - - +
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Residues in contact with VAL1371 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1251A LEU* 4.2 15.5 - - + -
1255A VAL* 4.8 0.4 - - + -
1260A PRO 3.6 20.9 - - - +
1261A ILE* 4.2 7.0 - - + -
1262A PRO* 3.8 20.4 - - + -
1265A ILE* 5.3 3.1 - - + -
1325A PHE* 3.5 39.3 - - + -
1332A LEU* 3.8 12.8 - - + -
1367A GLU 3.4 14.6 + - - +
1368A ASN 3.1 2.0 + - - +
1370A GLU* 1.3 71.7 - - - +
1372A PHE* 1.3 67.3 + - - +
1374A TYR* 3.2 2.5 + - + +
1375A VAL* 2.9 25.5 + - + +
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Residues in contact with PHE1372 (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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1332A LEU* 3.8 19.3 - - + +
1333A VAL* 3.5 26.9 - - + -
1361A LEU* 4.1 7.0 - - + -
1364A PHE* 4.1 21.1 - + + -
1368A ASN 2.7 23.1 + - - +
1369A HIS* 3.7 5.8 - - - +
1371A VAL* 1.3 73.1 - - - +
1373A LYS* 1.3 62.2 + - - +
1375A VAL* 3.9 1.5 - - + +
1376A ILE* 2.9 59.5 + - + +
1404A LEU* 4.1 13.2 - - + -
1405A MET* 5.5 0.4 - - + -
1425A ILE* 3.9 16.6 - - + -
1428A PHE* 4.0 33.2 - + - -
1436A PHE* 3.9 13.7 - + - -
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Residues in contact with LYS1373 (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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1369A HIS* 2.8 29.2 + - + +
1370A GLU* 3.2 25.2 + - - +
1372A PHE* 1.3 71.2 - - - +
1374A TYR* 1.3 57.7 + - - +
1376A ILE* 3.8 1.0 - - - +
1377A SER* 2.4 37.8 + - - +
1436A PHE* 2.9 71.4 + - + +
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Residues in contact with TYR1374 (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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1261A ILE* 3.6 41.5 - - + -
1265A ILE* 3.8 11.7 - - + -
1266A GLU* 3.4 31.2 - - + +
1269A ILE* 3.4 38.8 - - + +
1270A GLU* 3.9 15.8 + - - +
1370A GLU 2.9 12.6 + - - +
1371A VAL* 3.5 7.9 - - - +
1373A LYS* 1.3 78.6 - - - +
1375A VAL* 1.3 64.3 + - + +
1377A SER* 3.4 5.0 + - - -
1378A HIS* 3.0 23.2 + - - +
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Residues in contact with VAL1375 (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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1265A ILE* 4.8 3.1 - - + -
1269A ILE* 4.4 6.1 - - + -
1321A MET* 3.9 19.1 - - + -
1325A PHE* 3.5 34.5 - - + -
1332A LEU* 4.5 4.3 - - + -
1371A VAL* 2.9 26.2 + - + +
1372A PHE* 3.9 4.5 - - + +
1374A TYR* 1.3 71.4 - - + +
1376A ILE* 1.3 64.9 + - + +
1378A HIS* 3.1 9.8 + - + +
1379A LEU* 2.9 37.5 + - + +
1400A PHE* 4.5 11.4 - - + -
1404A LEU* 4.6 14.4 - - + -
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Residues in contact with ILE1376 (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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1372A PHE* 2.9 63.7 + - + +
1373A LYS 3.9 2.0 - - - +
1375A VAL* 1.3 75.0 - - + +
1377A SER* 1.3 59.4 + - - +
1379A LEU* 3.1 14.2 + - + +
1380A ASN* 2.8 25.6 + - - +
1404A LEU* 4.6 5.4 - - + -
1425A ILE* 4.6 8.1 - - + -
1428A PHE* 3.1 36.6 - - + +
1429A ILE* 3.8 21.0 - - + +
1432A CYS* 4.2 4.3 - - - -
1436A PHE* 3.9 14.1 - - + -
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Residues in contact with SER1377 (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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1373A LYS* 2.4 34.9 + - - +
1374A TYR* 3.5 5.1 + - - -
1376A ILE* 1.3 76.3 - - - +
1378A HIS* 1.3 63.3 + - - +
1380A ASN* 3.0 4.5 + - - +
1381A LYS* 2.9 22.8 + - - +
1432A CYS* 3.5 23.8 - - - -
1436A PHE* 5.5 1.0 - - - +
1437A TYR* 5.7 5.4 - - - -
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Residues in contact with HIS1378 (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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1269A ILE* 3.3 38.5 - - + +
1272A ILE* 4.0 11.8 - - + +
1273A GLU* 2.9 44.5 + - + +
1277A LEU* 4.9 0.2 - - + -
1283A TYR* 2.7 36.8 + + - -
1321A MET* 5.1 2.7 - - + -
1374A TYR 3.0 13.6 + - - +
1375A VAL* 3.2 8.7 - - + +
1377A SER* 1.3 77.3 - - - +
1379A LEU* 1.3 65.2 + - + +
1381A LYS* 3.1 5.1 + - - +
1382A VAL* 3.0 40.7 + - + +
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Residues in contact with LEU1379 (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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1283A TYR* 4.1 17.9 - - + -
1375A VAL* 2.9 24.8 + - + +
1376A ILE* 3.5 14.6 - - + +
1378A HIS* 1.3 79.2 - - + +
1380A ASN* 1.3 67.1 + - - +
1382A VAL* 3.3 2.4 + - + +
1383A SER* 3.0 19.9 + - - -
1396A LEU* 3.3 21.9 - - + +
1400A PHE* 3.5 55.0 - - + -
1404A LEU* 5.2 0.4 - - + -
1425A ILE* 5.4 0.2 - - + -
1429A ILE* 3.5 36.8 - - + -
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Residues in contact with ASN1380 (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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1376A ILE 2.8 13.0 + - - +
1377A SER* 3.0 10.9 + - - +
1379A LEU* 1.3 76.6 - - - +
1381A LYS* 1.3 60.4 + - - +
1383A SER* 2.7 26.6 + - - -
1384A HIS* 3.0 39.3 + - - -
1429A ILE* 2.8 31.8 + - - +
1430A GLN* 4.2 9.9 + - - +
1432A CYS* 3.8 20.2 - - + +
1433A PRO* 4.6 5.7 - - - +
1437A TYR* 4.7 9.5 + - - -
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Residues in contact with LYS1381 (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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1273A GLU* 3.2 40.7 + - + +
1277A LEU* 4.4 18.7 - - + +
1377A SER 2.9 11.9 + - - +
1378A HIS* 3.4 9.9 - - - +
1380A ASN* 1.3 73.4 + - - +
1382A VAL* 1.3 69.3 + - + +
1383A SER 3.0 1.6 - - - -
1384A HIS* 2.8 32.3 + - + +
1385A ASN* 3.8 3.1 + - - +
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Residues in contact with VAL1382 (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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1272A ILE* 5.2 1.6 - - + -
1277A LEU* 3.7 21.8 - - + -
1282A ILE* 3.9 22.7 - - + -
1283A TYR* 4.2 10.3 - - + -
1378A HIS* 3.0 45.3 + - + +
1379A LEU* 3.7 7.6 - - - +
1381A LYS* 1.3 75.5 - - - +
1383A SER* 1.3 62.8 + - - +
1385A ASN* 3.1 6.4 + - - +
1389A ASN* 2.9 40.4 + - - +
1391A MET* 4.4 2.0 - - + -
1396A LEU* 4.1 19.5 - - + -
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Residues in contact with SER1383 (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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1379A LEU 3.0 15.1 + - - -
1380A ASN* 2.7 22.8 + - - -
1381A LYS 3.0 0.8 - - - -
1382A VAL* 1.3 78.6 - - - +
1384A HIS* 1.3 63.8 + - - +
1385A ASN 3.1 1.6 + - - -
1386A ASN* 2.8 31.1 + - - +
1391A MET 3.4 15.0 - - - -
1393A SER* 3.9 25.3 + - - -
1396A LEU* 3.8 10.3 - - - +
1430A GLN* 6.0 0.3 - - - -
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Residues in contact with HIS1384 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1380A ASN* 3.0 43.9 + - - -
1381A LYS* 2.8 21.0 + - + +
1383A SER* 1.3 80.7 + - - +
1385A ASN* 1.3 57.8 + - - +
1386A ASN* 3.4 5.6 + - - +
1387A LYS* 5.9 1.7 - - - +
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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