NMR Restraints Grid
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NMR Restraints Grid |
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Result table
| image | mrblock_id | pdb_id | cing | stage | program | type | subtype | subsubtype |
|
|
629684 |
5y7l   |
cing | 4-filtered-FRED | Wattos | check | completeness | distance |
data_5y7l
save_NOE_Completeness
_NOE_completeness_stats.Sf_category NOE_completeness_statistics
_NOE_completeness_stats.Model_count 20
_NOE_completeness_stats.Residue_count 122
_NOE_completeness_stats.Total_atom_count 1901
_NOE_completeness_stats.Observable_atom_definition ob_standard
_NOE_completeness_stats.Observable_atom_count 678
_NOE_completeness_stats.Use_intra_residue_restraints no
_NOE_completeness_stats.Redundancy_threshold_pct 5.0
_NOE_completeness_stats.Distance_averaging_power 1.00
_NOE_completeness_stats.Completeness_cutoff 4.00
_NOE_completeness_stats.Completeness_cumulative_pct 42.2
_NOE_completeness_stats.Constraint_unexpanded_count 1761
_NOE_completeness_stats.Constraint_count 1767
_NOE_completeness_stats.Constraint_exp_unfiltered_count 1230
_NOE_completeness_stats.Constraint_exceptional_count 0
_NOE_completeness_stats.Constraint_nonobservable_count 15
_NOE_completeness_stats.Constraint_intraresidue_count 383
_NOE_completeness_stats.Constraint_surplus_count 23
_NOE_completeness_stats.Constraint_observed_count 1346
_NOE_completeness_stats.Constraint_expected_count 1217
_NOE_completeness_stats.Constraint_matched_count 514
_NOE_completeness_stats.Constraint_unmatched_count 832
_NOE_completeness_stats.Constraint_exp_nonobs_count 703
_NOE_completeness_stats.Details
;
A detailed methodology description is available at:
http://nmr.cmbi.ru.nl/~jd/wattos/doc/Wattos/Soup/Constraint/dc_completeness.html
Please note that the contributions in ambiguous restraints are considered
separate 'restraints' for the sets defined below.
The cut off for all statistics except those in the by-shell table is
given below by the above tag: _NOE_completeness_stats.Completeness_cutoff
Description of the tags in this list:
* 1 * Administrative tag
* 2 * Administrative tag
* 3 * Administrative tag
* 4 * Number of models
* 5 * Number of residues
* 6 * Number of atoms
* 7 * Standard set name of observable atom definitions
see: Doreleijers et al., J.Biomol.NMR 14, 123-132 (1999).
* 8 * Observable atom(group)s
* 9 * Include intra residue restraints
* 10 * Surplus threshold for determining redundant restraints
* 11 * Power for averaging the distance over models
* 12 * Up to what distance are NOEs expected
* 13 * Cumulative completeness percentage
* 14 * Number of unexpanded restraints in restraint list.
* 15 * Number of restraints in restraint list. Set U
* 16 * Expected restraints based on criteria in list. Set V
Set V differs from set B only if intra residue restraints are analyzed.
* 17 * Exceptional restraints, i.e. with an unknown atom.Set E
* 18 * Not observable NOEs with e.g. hydroxyl Ser HG. Set O
Even though restraints with these atom types might have been observed they are
excluded from the analysis.
* 19 * Intra-residue restraints if not to be analyzed. Set I
* 20 * Surplus like double restraints. Set S
* 21 * Observed restraints. Set A = U - (E u O u I u S)
* 22 * Expected restraints based on criteria as in A. Set B = V - (I u S)
* 23 * Observed restraints matched to the expected. Set M = A n B
* 24 * Observed restraints that were not expected. Set C = A - M
* 25 * Expected restraints that were not observed. Set D = B - M
* 26 * This tag
Description of the tags in the class table:
* 1 * Class of restraint. Note that 'medium-range' involves (2<=i<=4) contacts.
Possible values are: intraresidue,sequential,medium-range,long-range, and intermolecular.
* 2 * Observed restraints. Set A = U - (E u O u I u S)
* 3 * Expected restraints based on criteria as in A. Set B = V - (I u S)
* 4 * Observed restraints matched to the expected. Set M = A n B
* 5 * Completeness percentage
* 6 * Standard deviation from the average over the classes.
* 7 * Extra information
* 8 * Administrative tag
* 9 * Administrative tag
Description of the tags in the shell table.
The first row shows the lower limit of the shells requested and
The last row shows the total number of restraints over the shells.
* 1 * Description of the content of the row: edges, shell, or sums.
The value determines the meaning of the values to the nine 'Matched_shell_x' tags among others.
* 2 * Lower limit of shell of expected restraints.
* 3 * Upper limit of shell of expected restraints.
* 4 * Expected restraints based on criteria as in A. Set B = V - (I u S)
* 5 * Observed restraints matched to the expected. Set M = A n B
* 6 * Matched restraints with experimental distance in shell 1
* 7 * Matched restraints with experimental distance in shell 2
* 8 * Matched restraints with experimental distance in shell 3
* 9 * Matched restraints with experimental distance in shell 4
* 10 * Matched restraints with experimental distance in shell 5
* 11 * Matched restraints with experimental distance in shell 6
* 12 * Matched restraints with experimental distance in shell 7
* 13 * Matched restraints with experimental distance in shell 8
* 14 * Matched restraints with experimental distance in shell 9
* 15 * Matched restraints overflowing the last shell
* 16 * Completeness percentage for this shell
* 17 * Completeness percentage up to upper limit of this shell
* 18 * Administrative tag
* 19 * Administrative tag
Description of the tags in the residue table:
* 1 * Chain identifier
* 2 * Residue number
* 3 * Residue name
* 4 * Observable atom(group)s for this residue.
* 5 * Observed restraints. Set A = U - (E u O u I u S)
* 6 * Expected restraints based on criteria as in A. Set B = V - (I u S)
* 7 * Observed restraints matched to the expected. Set M = A n B
* 8 * Completeness percentage
* 9 * Standard deviation from the average over the residues.
* 10 * Extra information
* 11 * Administrative tag
* 12 * Administrative tag
;
loop_
_NOE_completeness_class.Type
_NOE_completeness_class.Constraint_observed_count
_NOE_completeness_class.Constraint_expected_count
_NOE_completeness_class.Constraint_matched_count
_NOE_completeness_class.Completeness_cumulative_pct
_NOE_completeness_class.Std_dev
_NOE_completeness_class.Details
intraresidue 0 0 0 . . "no intras"
sequential 622 498 352 70.7 1.0 >sigma
medium-range 308 194 58 29.9 -0.3 .
long-range 416 525 104 19.8 -0.7 .
intermolecular 0 0 0 . . "no multimer"
stop_
loop_
_NOE_completeness_shell.Type
_NOE_completeness_shell.Shell_start
_NOE_completeness_shell.Shell_end
_NOE_completeness_shell.Constraint_expected_count
_NOE_completeness_shell.Constraint_matched_count
_NOE_completeness_shell.Matched_shell_1
_NOE_completeness_shell.Matched_shell_2
_NOE_completeness_shell.Matched_shell_3
_NOE_completeness_shell.Matched_shell_4
_NOE_completeness_shell.Matched_shell_5
_NOE_completeness_shell.Matched_shell_6
_NOE_completeness_shell.Matched_shell_7
_NOE_completeness_shell.Matched_shell_8
_NOE_completeness_shell.Matched_shell_9
_NOE_completeness_shell.Matched_shell_overflow
_NOE_completeness_shell.Completeness_shell_pct
_NOE_completeness_shell.Completeness_cumulative_pct
edges . . . . 2.00 2.50 3.00 3.50 4.00 4.50 5.00 5.50 . . . .
shell 0.00 2.00 12 7 0 0 0 2 0 0 4 0 . 1 58.3 58.3
shell 2.00 2.50 135 96 0 37 0 25 0 0 26 0 . 8 71.1 70.1
shell 2.50 3.00 203 105 0 9 0 38 0 0 51 0 . 7 51.7 59.4
shell 3.00 3.50 339 140 0 1 0 22 0 0 89 0 . 28 41.3 50.5
shell 3.50 4.00 528 166 0 0 0 20 0 0 98 0 . 48 31.4 42.2
shell 4.00 4.50 899 201 0 0 0 0 0 0 144 0 . 57 22.4 33.8
shell 4.50 5.00 1285 145 0 0 0 0 0 0 71 0 . 74 11.3 25.3
shell 5.00 5.50 1767 130 0 0 0 0 0 0 27 0 . 103 7.4 19.2
shell 5.50 6.00 1909 88 0 0 0 0 0 0 8 0 . 80 4.6 15.2
shell 6.00 6.50 2171 80 0 0 0 0 0 0 0 0 . 80 3.7 12.5
shell 6.50 7.00 2396 61 0 0 0 0 0 0 1 0 . 60 2.5 10.5
shell 7.00 7.50 2486 47 0 0 0 0 0 0 0 0 . 47 1.9 9.0
shell 7.50 8.00 2773 28 0 0 0 0 0 0 0 0 . 28 1.0 7.7
shell 8.00 8.50 2943 15 0 0 0 0 0 0 0 0 . 15 0.5 6.6
shell 8.50 9.00 3256 15 0 0 0 0 0 0 0 0 . 15 0.5 5.7
sums . . 23102 1324 0 47 0 107 0 0 519 0 . 651 . .
stop_
loop_
_NOE_completeness_comp.Entity_assembly_ID
_NOE_completeness_comp.Comp_index_ID
_NOE_completeness_comp.Comp_ID
_NOE_completeness_comp.Obs_atom_count
_NOE_completeness_comp.Constraint_observed_count
_NOE_completeness_comp.Constraint_expected_count
_NOE_completeness_comp.Constraint_matched_count
_NOE_completeness_comp.Completeness_cumulative_pct
_NOE_completeness_comp.Std_dev
_NOE_completeness_comp.Details
1 1 GLN 7 4 4 4 100.0 2.6 >sigma
1 2 ASP 4 10 8 7 87.5 2.0 >sigma
1 3 LEU 7 7 8 5 62.5 0.8 .
1 4 GLN 7 9 9 6 66.7 1.0 .
1 5 ALA 3 22 18 11 61.1 0.7 .
1 6 THR 4 28 17 7 41.2 -0.3 .
1 7 GLU 5 26 20 12 60.0 0.6 .
1 8 ALA 3 31 21 10 47.6 0.0 .
1 9 ASN 6 28 34 11 32.4 -0.8 .
1 10 CYS 4 32 17 13 76.5 1.5 >sigma
1 11 THR 4 44 31 15 48.4 0.0 .
1 12 VAL 5 47 45 16 35.6 -0.6 .
1 13 LEU 7 33 42 6 14.3 -1.7 >sigma
1 14 SER 4 36 21 8 38.1 -0.5 .
1 15 VAL 5 40 23 7 30.4 -0.9 .
1 16 GLN 7 18 14 5 35.7 -0.6 .
1 17 GLN 7 21 14 7 50.0 0.1 .
1 18 ILE 6 32 25 9 36.0 -0.6 .
1 19 GLY 3 7 10 5 50.0 0.1 .
1 20 GLU 5 22 20 11 55.0 0.4 .
1 21 VAL 5 23 13 9 69.2 1.1 >sigma
1 22 PHE 7 33 41 14 34.1 -0.7 .
1 23 GLU 5 21 23 11 47.8 0.0 .
1 24 CYS 4 18 21 9 42.9 -0.2 .
1 25 THR 4 29 18 11 61.1 0.7 .
1 26 PHE 7 29 20 13 65.0 0.9 .
1 27 THR 4 21 15 11 73.3 1.3 >sigma
1 28 CYS 4 13 8 6 75.0 1.4 >sigma
1 29 GLY 3 15 7 5 71.4 1.2 >sigma
1 30 ALA 3 11 8 6 75.0 1.4 >sigma
1 31 ASP 4 11 7 4 57.1 0.5 .
1 32 CYS 4 16 10 6 60.0 0.6 .
1 33 ARG 7 18 16 7 43.8 -0.2 .
1 34 GLY 3 17 12 7 58.3 0.5 .
1 35 THR 4 28 20 13 65.0 0.9 .
1 36 SER 4 21 17 10 58.8 0.6 .
1 37 GLN 7 23 22 10 45.5 -0.1 .
1 38 TYR 6 14 20 7 35.0 -0.6 .
1 39 PRO 5 5 20 4 20.0 -1.4 >sigma
1 40 CYS 4 24 23 9 39.1 -0.4 .
1 41 VAL 5 21 31 7 22.6 -1.2 >sigma
1 42 GLN 7 24 31 8 25.8 -1.1 >sigma
1 43 VAL 5 25 36 7 19.4 -1.4 >sigma
1 44 TYR 6 55 40 11 27.5 -1.0 .
1 45 VAL 5 63 35 17 48.6 0.1 .
1 46 ASN 6 40 34 9 26.5 -1.0 >sigma
1 47 ASN 6 29 24 11 45.8 -0.1 .
1 48 SER 4 22 18 8 44.4 -0.1 .
1 49 GLU 5 14 18 7 38.9 -0.4 .
1 50 SER 4 14 10 9 90.0 2.1 >sigma
1 51 ASN 6 17 9 7 77.8 1.5 >sigma
1 52 SER 4 18 10 6 60.0 0.6 .
1 53 ARG 7 27 37 7 18.9 -1.4 >sigma
1 54 ALA 3 37 29 12 41.4 -0.3 .
1 55 LEU 7 49 38 8 21.1 -1.3 >sigma
1 56 LEU 7 36 34 10 29.4 -0.9 .
1 57 HIS 6 23 18 8 44.4 -0.1 .
1 58 SER 4 6 10 3 30.0 -0.9 .
1 59 ASP 4 14 15 5 33.3 -0.7 .
1 60 GLU 5 15 13 8 61.5 0.7 .
1 61 HIS 6 19 16 12 75.0 1.4 >sigma
1 62 GLN 7 18 20 9 45.0 -0.1 .
1 63 LEU 7 30 31 13 41.9 -0.3 .
1 64 LEU 7 24 17 12 70.6 1.2 >sigma
1 65 THR 4 23 22 9 40.9 -0.3 .
1 66 ASN 6 17 22 7 31.8 -0.8 .
1 67 PRO 5 12 17 4 23.5 -1.2 >sigma
1 68 LYS 7 21 15 7 46.7 -0.0 .
1 69 CYS 4 30 22 10 45.5 -0.1 .
1 70 SER 4 16 12 8 66.7 1.0 .
1 71 TYR 6 25 14 11 78.6 1.6 >sigma
1 72 ILE 6 16 22 6 27.3 -1.0 >sigma
1 73 PRO 5 1 9 0 0.0 -2.4 >sigma
1 74 PRO 5 11 15 2 13.3 -1.7 >sigma
1 75 CYS 4 11 7 4 57.1 0.5 .
1 76 LYS 7 11 21 5 23.8 -1.2 >sigma
1 77 ARG 7 9 19 8 42.1 -0.3 .
1 78 GLU 5 14 12 7 58.3 0.5 .
1 79 ASN 6 10 9 7 77.8 1.5 >sigma
1 80 GLN 7 8 12 8 66.7 1.0 .
1 81 LYS 7 11 9 7 77.8 1.5 >sigma
1 82 ASN 6 11 6 5 83.3 1.8 >sigma
1 83 LEU 7 15 10 6 60.0 0.6 .
1 84 GLU 5 9 13 6 46.2 -0.1 .
1 85 SER 4 13 12 6 50.0 0.1 .
1 86 VAL 5 30 26 13 50.0 0.1 .
1 87 MET 6 20 21 14 66.7 1.0 .
1 88 ASN 6 22 17 11 64.7 0.9 .
1 89 TRP 10 33 28 14 50.0 0.1 .
1 90 GLN 7 23 26 9 34.6 -0.6 .
1 91 GLN 7 18 29 13 44.8 -0.1 .
1 92 TYR 6 49 21 17 81.0 1.7 >sigma
1 93 TRP 10 49 31 16 51.6 0.2 .
1 94 LYS 7 28 24 9 37.5 -0.5 .
1 95 ASP 4 16 15 9 60.0 0.6 .
1 96 GLU 5 24 18 9 50.0 0.1 .
1 97 ILE 6 42 40 10 25.0 -1.1 >sigma
1 98 GLY 3 6 12 2 16.7 -1.5 >sigma
1 99 SER 4 4 16 1 6.3 -2.1 >sigma
1 100 GLN 7 19 21 4 19.0 -1.4 >sigma
1 101 PRO 5 27 35 11 31.4 -0.8 .
1 102 PHE 7 52 45 21 46.7 -0.0 .
1 103 THR 4 30 27 9 33.3 -0.7 .
1 104 CYS 4 31 23 11 47.8 0.0 .
1 105 TYR 6 44 37 13 35.1 -0.6 .
1 106 PHE 7 49 35 15 42.9 -0.2 .
1 107 ASN 6 25 24 8 33.3 -0.7 .
1 108 GLN 7 31 22 12 54.5 0.4 .
1 109 HIS 6 17 17 9 52.9 0.3 .
1 110 GLN 7 14 16 8 50.0 0.1 .
1 111 ARG 7 13 15 5 33.3 -0.7 .
1 112 PRO 5 15 21 5 23.8 -1.2 >sigma
1 113 ASP 4 14 18 5 27.8 -1.0 .
1 114 ASP 4 13 13 5 38.5 -0.4 .
1 115 VAL 5 24 13 8 61.5 0.7 .
1 116 LEU 7 20 29 9 31.0 -0.8 .
1 117 LEU 7 18 21 6 28.6 -0.9 .
1 118 HIS 6 15 14 4 28.6 -0.9 .
1 119 ARG 7 11 23 7 30.4 -0.9 .
1 120 THR 4 17 18 6 33.3 -0.7 .
1 121 HIS 6 5 5 4 80.0 1.6 >sigma
1 122 ASP 4 3 2 2 100.0 2.6 >sigma
stop_
save_
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