INFO  : Successfully started log file 'model.loop_uber.log'
________________________________________________________________________________

                                     Assembler

                 Protein structure prediction by fragment assembly
                                   (Ver. 0.6.6)
________________________________________________________________________________

INFO  : Printing configuration for program 'assembler'
INFO  : Configuration file '//bmm/www/servers/phyre2/bin/loop_uber_local.config'
________________________________________________________________________________

[Query Input]
FASTA_FILE                               = /bmm/www/servers/phyre2/public_html/phyre2_output/eda3e1311e20fe7b/input.fasta
PSSM_FILE                                = /bmm/www/servers/phyre2/public_html/phyre2_output/eda3e1311e20fe7b/assembler.pssm
MODEL_START_LIST                         = model_start.list
BUILD_INITIAL_REFERENCE                  = 0
BUILD_UP_MAX_MODELS                      = 1
________________________________________________________________________________

[Energy Functions]
PP_STUB                                  = /bmm/www/servers/phyre2/bin/assembler_data/default.pp
SP_STUB                                  = /bmm/www/servers/phyre2/bin/assembler_data/default.sp
BBDEP_LIBRARY_THRESHOLD                  = 0.9
RADIUS_OF_GYRATION_THRESHOLD             = 2
RADIUS_OF_GYRATION_ABSOLUTE              = 0
CBCB_CONTACT_DIST                        = 7.5
CONTACT_GAP                              = 5
MAXSUB_DIST                              = 6
MAXSUB_ITER                              = 1
RMSD_DIST                                = 6
HBOND_SEPARATION                         = 5
RESIDUE_PROB_CUT_OFF                     = 0.2
PP_RESIDUE_PROB_CUT_OFF                  = 0.4
MAX_CALIBRATE_ENERGY                     = 500
CUTOFF_PHI_PSI                           = 0.001
TORSION_BILINEAR                         = 1
LJ_SWITCH_RATIO                          = 0.7
ENERGY_SET_MODE                          = 0
NUMBER_OF_ENERGY_SETS                    = 1
________________________________________________________________________________

[Energy Set 1]
T_LIMIT                                  = 0
WEIGHT_PAIR_POTENTIAL                    = 0.215
WEIGHT_SOLVATION_POTENTIAL               = 1
WEIGHT_STERIC_ENERGY                     = 5.03
WEIGHT_RADIUS_OF_GYRATION                = 2.83
WEIGHT_TORSION_ENERGY                    = 1.14
WEIGHT_HBONDS_ORIENT                     = 5.27
STERIC_CLASH                             = 1
PAIR_SEPARATION_MIN                      = 3
SS_METHOD                                = 0
ENERGY_SCALE_FACTOR                      = 0
PROB_REFINE_HELIX                        = 0.3
PROB_REFINE_SHEET                        = 0.5
PROB_REFINE_COIL                         = 1
PROB_SHEAR_STRAND                        = 0.05
PROB_PHI_PSI_TWIST                       = 0.1
PROB_PHI_PSI_TILT                        = 0.15
PROB_TEMPLATE_SPLICE                     = 0
PROB_FRAG_3                              = 1
PROB_GUNN_COST_9                         = 0
PROB_GUNN_COST_3                         = 0
PROB_STABILISE_TWIST                     = 0
PROB_STABILISE_TILT                      = 0
PROB_STABILISE_TEMPLATE                  = 0
PROB_STABILISE_FRAG_9                    = 0
PROB_STABILISE_FRAG_3                    = 0
PROB_STABILISE_GUNN_9                    = 0
PROB_STABILISE_GUNN_3                    = 0
FULL_ATOM_MODEL                          = 0
________________________________________________________________________________

[Model Building]
MAX_MODELS                               = 1000
MAX_BUILD_ITERATIONS                     = 100
MAX_JOIN_ITERATIONS                      = 5
MAX_JOIN_REFINE_ITERATIONS               = 5
MAX_REFINE_ITERATIONS                    = 5
MAX_SPLICE_ITERATIONS                    = 5
SHEAR_STRAND_DISTANCE                    = 3.8
PHI_PSI_TWIST_LENGTH                     = 3
PHI_PSI_TWIST_RANGE                      = 5
PHI_PSI_TILT_LENGTH                      = 5
PHI_PSI_TILT_RANGE                       = 15
STABILISE_SIZE                           = 5
STABILISE_RESTRICT                       = 1
STABILISE_ITERATIONS                     = 3
STABILISE_BREAK_THRESHOLD                = 1
STABILISE_HELIX                          = 0
STABILISE_STRAND                         = 1
STABILISE_MAX_ANGLE_UPDATE               = 15
SHEAR_LOOP_SIZE                          = 8
SHEAR_LOOP_COIL_SIZE                     = 5
SHEAR_MAX_CCD_ITERATIONS                 = 300
SHEAR_CCD_THRESHOLD                      = 0.3
SHEAR_CCD_NC_THRESHOLD                   = 0.1
SHEAR_CCD_RESTRICT                       = 0
SHEAR_MAX_ANGLE_UPDATE                   = 15
REPACK_FREQUENCY                         = 25
REPACK_RANDOM                            = 2
REPACK_THRESHOLD                         = 0.7
GUNN_COST_UPPER                          = 0.03
GUNN_COST_LOWER                          = 11.4701
MAX_MSD_DEVIATION                        = 16
RESEED_RESTRICTION_INTERVAL              = 0
RANDOM_LIST_L                            = 0
RANDOM_LIST_9                            = 0
RANDOM_LIST_3                            = 0
RANDOM_LIST_TEMPLATE                     = 0
RANDOM_BUILD                             = 0
________________________________________________________________________________

[Simulated Annealing]
T_START_TEMP                             = 10
T_END_TEMP                               = 0
CALIBRATION_SEED                         = 0
T_CALIBRATION_FACTOR                     = 10
ENERGY_CALIBRATION_FACTOR                = 4
MAX_CALIBRATE_START                      = 500
T_CALIBRATION_FACTOR                     = 10
T_REDUCE_FACTOR_EXP                      = 0.5
T_REDUCE_FACTOR_STEPS                    = 50
RATIO_EXP_TO_LINEAR_SWITCH               = 1
MIN_TEMP_THRESHOLD                       = 0
MAX_TEMP_ITER                            = 1000
MAX_TEMP_REFINE                          = 100
MAX_STOP_ITER                            = 30000
MAX_STOP_REFINE                          = 2000
DELTA_ROLL_SIZE                          = 0
DELTA_STOP_THRESHOLD                     = 0
MAX_QUENCH                               = 5000
NO_TEMPLATE_RATIO                        = 0.2
________________________________________________________________________________

[Loop Modelling]
MODEL_LOOPS                              = 1
LOOP_DATABASE                            = /data/data/blast/loopdb
MIN_LOOP_SIZE                            = 2
MAX_LOOP_SIZE                            = 15
POSITIONAL_GAPS                          = 1
TRIM_BACK                                = 1
TRIM_BACK_STERIC_CHECKS                  = 1
MAX_TRIM_RES                             = 5
MAX_TRIM_EDGE                            = 3
TRIM_BACK_GOODNESS                       = 1
SIZE_TRIM_BACK_AV                        = 0
MAX_SELECT_LOOPS                         = 500
TOLERANCE                                = 0.75
RMSD_WEIGHT                              = 80.5
RMSD_BENCHMARK                           = 0
FIT_ON_TRIANGLE                          = 0
CHECK_STERIC_CLASH                       = 1
CHECK_STERIC_ENERGY                      = 0
STERIC_ENERGY_THRESHOLD                  = 0.5
ABINITIO_LOOPS                           = 0
ABINITIO_ENDS                            = 0
ABINITIO_TRIM_COUNT                      = 0
MAX_LOOP_MODELS                          = 1000
CCD_LOOP_CLOSURE_TOLERANCE               = 6
CCD_FAILURE_TOLERANCE                    = 0
LOOP_SELECTION_TOLERANCE                 = 9
MAX_CCD_LOOPS                            = 20
CCD_DIRECTION                            = 1
CCD_CLOSURE_RMSD                         = 0.08
CCD_CLOSURE_NC_DEVIATION                 = 0.1
CCD_MAX_ITER                             = 5000
CCD_RESTRICT                             = 1
CCD_MAX_ANGLE_UPDATE                     = 15
MAX_COMBINE_LOOPS                        = 10
START_T                                  = 2
STEPS_PER_LOOP                           = 100
REPLACE_TRIMMED                          = 1
________________________________________________________________________________

[Logging]
LOG_LEVEL                                = 1
LOG_TIME                                 = 0
LOG_FILE                                 = 0
LOG_FILE_NAME                            = model.loop_uber.log
FOLDING_PATH                             = 0
OUTPUT_DIR                               = loop
USE_COMPRESSION                          = 0
FIT_ON_PREVIOUS                          = 0
USAGE_FILE                               = assembler.model_usage
MODEL_START_NO                           = 1
MODEL_END_NO                             = 0
OUTPUT_FREQUENCY                         = 100
UNWEIGHTED_OUTPUT                        = 0
SPLICE_INFO                              = 1
SPLICE_FILE                              = assembler.splice_info
FRAGVAR_INFO                             = 0
BAD_FRAG_DIR                             = assembler_bad
REFINE_RRG_LIMIT                         = 0
STOP_FILE                                = assembler.stop
OUTPUT_LOOPS                             = 0
________________________________________________________________________________

[Benchmark]
BACKBONE_RMSD                            = 0
OUTPUT_RMSD                              = 0
OUTPUT_MAXSUB                            = 0
MAXSUB_DIST                              = 6
MAXSUB_ITER                              = 0
________________________________________________________________________________

INFO  : Reading FASTA sequence file
INFO  : Reading query PSSM file
INFO  : Reading Pair-potential file
INFO  : Reading Solvation-potential file
INFO  : Reading PDB list file 'model_start.list'
INFO  : Successfully read 0 PDBs
INFO  : Successfully read 1 / 1 PDBs from list file 'model_start.list'
________________________________________________________________________________

INFO  : Entering build loops routine
________________________________________________________________________________

INFO  : Processing starting model 1 - hh.d2j13a1.model.1.pdb
________________________________________________________________________________

INFO  : Performing trim back
INFO  : Chain break between residues 380 - 381
INFO  : Trim Back  380 -  381 : Calculating loop extraction success
INFO  : Trim Back  380 -  381 : Extraction identifed 0 loops
INFO  : Trim Back  380 -  382 : Calculating loop extraction success
INFO  : Trim Back  380 -  382 : Extraction identifed 0 loops
INFO  : Trim Back  380 -  383 : Calculating loop extraction success
INFO  : Trim Back  380 -  383 : Extraction identifed 0 loops
INFO  : Trim Back  380 -  384 : Calculating loop extraction success
INFO  : Trim Back  380 -  384 : Extraction identifed 0 loops
INFO  : Trim Back  379 -  381 : Calculating loop extraction success
INFO  : Trim Back  379 -  381 : Extraction identifed 0 loops
INFO  : Trim Back  379 -  382 : Calculating loop extraction success
INFO  : Trim Back  379 -  382 : Extraction identifed 0 loops
INFO  : Trim Back  379 -  383 : Calculating loop extraction success
INFO  : Trim Back  379 -  383 : Extraction identifed 0 loops
INFO  : Trim Back  379 -  384 : Calculating loop extraction success
INFO  : Trim Back  379 -  384 : Extraction identifed 0 loops
INFO  : Trim Back  378 -  381 : Calculating loop extraction success
INFO  : Trim Back  378 -  381 : Extraction identifed 0 loops
INFO  : Trim Back  378 -  382 : Calculating loop extraction success
INFO  : Trim Back  378 -  382 : Extraction identifed 0 loops
INFO  : Trim Back  378 -  383 : Calculating loop extraction success
INFO  : Trim Back  378 -  383 : Extraction identifed 0 loops
INFO  : Trim Back  378 -  384 : Calculating loop extraction success
INFO  : Trim Back  378 -  384 : Extraction identifed 0 loops
INFO  : Trim Back  377 -  381 : Calculating loop extraction success
INFO  : Trim Back  377 -  381 : Extraction identifed 0 loops
INFO  : Trim Back  377 -  382 : Calculating loop extraction success
ERROR : Trim Back failed to transform database loops to fit model
INFO  : Trim Back  377 -  382 : Extraction identifed 0 loops
INFO  : Trim Back  377 -  383 : Calculating loop extraction success
INFO  : Trim Back  377 -  383 : Extraction identifed 0 loops
INFO  : Trim back to residues 377 - 381
________________________________________________________________________________

INFO  : Modelling loops
________________________________________________________________________________

INFO  : Gap size 4 between position 377 and 381 : Seq = 'KPGDN'
INFO  : Stem parameters: x = -3.01; y = 11.40; beta = 2.63; gamma = -0.64
INFO  : Searching loop database file '/data/data/blast/loopdb/-4/11/size.4.b'
INFO  : Searching loop database file '/data/data/blast/loopdb/-3/11/size.4.b'
INFO  : Searching loop database file '/data/data/blast/loopdb/-2/11/size.4.b'
INFO  : Searching loop database file '/data/data/blast/loopdb/-2/12/size.4.b'
INFO  : Identified 65 potential loops
INFO  : Ranking by goodness
INFO  : Extracting 1 / 65 from database
INFO  : Extracting 21 / 65 from database
INFO  : Extracting 41 / 65 from database
INFO  : Extracting 61 / 65 from database
INFO  : Ranking by loop score
INFO  : Rank   Score    = Seq     - 80.50 *    rms^2 (goodness) : Target seq = KPGDN
INFO  :    1      2.559 =  10.000 - 80.50 *  0.304^2 ( 0.433) : SPSHN : Loop ID =    5 : 1DQTA.pdb.bin (  23 -   27)
INFO  :    2     -0.573 =   9.000 - 80.50 *  0.345^2 ( 1.172) : TPSYD : Loop ID =   25 : 1VQQA.pdb.bin ( 335 -  339)
INFO  :    3     -3.239 =   1.000 - 80.50 *  0.229^2 ( 0.474) : YPHRI : Loop ID =   32 : 2BERA.pdb.bin ( 503 -  507)
INFO  :    4     -3.740 =   1.000 - 80.50 *  0.243^2 ( 0.316) : YPHRI : Loop ID =   46 : 2BZDA.pdb.bin ( 503 -  507)
INFO  :    5     -6.034 =   1.000 - 80.50 *  0.296^2 ( 0.859) : YPHRI : Loop ID =   19 : 1W8OA.pdb.bin ( 503 -  507)
INFO  :    6     -6.918 =   1.000 - 80.50 *  0.314^2 ( 0.769) : YPHRI : Loop ID =   49 : 1WCQA.pdb.bin ( 503 -  507)
INFO  :    7     -7.350 =  -1.000 - 80.50 *  0.281^2 ( 1.047) : GPSGQ : Loop ID =   27 : 1S9VA.pdb.bin (  16 -   20)
INFO  :    8     -7.707 =  -5.000 - 80.50 *  0.183^2 ( 1.025) : FPHNI : Loop ID =   54 : 7PCY_.pdb.bin (  35 -   39)
INFO  :    9     -8.181 =  -1.000 - 80.50 *  0.299^2 ( 0.942) : GPYGR : Loop ID =    3 : 1LKFA.pdb.bin ( 169 -  173)
INFO  :   10     -9.285 =   1.000 - 80.50 *  0.357^2 ( 1.901) : LPNDE : Loop ID =   12 : 1GZ7A.pdb.bin (  90 -   94)
INFO  :   11     -9.815 =  -1.000 - 80.50 *  0.331^2 ( 0.787) : SPYYE : Loop ID =   62 : 1RHLA.pdb.bin (  53 -   57)
INFO  :   12    -10.956 =  -3.000 - 80.50 *  0.314^2 ( 0.581) : HELES : Loop ID =   63 : 2BBHA.pdb.bin ( 103 -  107)
INFO  :   13    -10.983 =   5.000 - 80.50 *  0.446^2 ( 5.406) : PFNRN : Loop ID =   30 : 1VKDA.pdb.bin ( 147 -  151)
INFO  :   14    -11.103 =  -1.000 - 80.50 *  0.354^2 ( 0.822) : GPEFT : Loop ID =   50 : 1IOW_.pdb.bin ( 184 -  188)
INFO  :   15    -11.193 =  -5.000 - 80.50 *  0.277^2 ( 0.338) : VPALQ : Loop ID =   11 : 1AXDA.pdb.bin (  53 -   57)
INFO  :   16    -11.298 =  -2.000 - 80.50 *  0.340^2 ( 0.644) : LPKFQ : Loop ID =   31 : 1PGTA.pdb.bin (  52 -   56)
INFO  :   17    -11.461 =  -1.000 - 80.50 *  0.360^2 ( 0.676) : SPYYE : Loop ID =   43 : 1CH0A.pdb.bin (  53 -   57)
INFO  :   18    -11.679 =  -5.000 - 80.50 *  0.288^2 ( 2.504) : EPRGM : Loop ID =    1 : 1XAD_.pdb.bin ( 141 -  145)
INFO  :   19    -11.746 =  -6.000 - 80.50 *  0.267^2 ( 0.993) : NPLYA : Loop ID =   45 : 1U0AA.pdb.bin ( 199 -  203)
INFO  :   20    -11.774 =  -1.000 - 80.50 *  0.366^2 ( 0.479) : SPYYE : Loop ID =   42 : 1I3IA.pdb.bin (  53 -   57)
INFO  :   21    -11.975 =  -4.000 - 80.50 *  0.315^2 ( 0.712) : LPAFQ : Loop ID =   58 : 17GSA.pdb.bin (  52 -   56)
INFO  :   22    -12.352 =  -6.000 - 80.50 *  0.281^2 ( 2.925) : LPACE : Loop ID =    9 : 1YREA.pdb.bin (  81 -   85)
INFO  :   23    -12.620 =   3.000 - 80.50 *  0.440^2 ( 2.391) : DPSGP : Loop ID =    7 : 1MJ5A.pdb.bin (  71 -   75)
INFO  :   24    -12.955 =  -2.000 - 80.50 *  0.369^2 ( 2.336) : GFTWG : Loop ID =    2 : 1HNJA.pdb.bin ( 306 -  310)
INFO  :   25    -12.983 =  -2.000 - 80.50 *  0.369^2 ( 0.676) : LPKFQ : Loop ID =   37 : 1PX7A.pdb.bin (  51 -   55)
INFO  :   26    -13.242 =  -1.000 - 80.50 *  0.390^2 ( 0.578) : SPYYE : Loop ID =   41 : 1FZUA.pdb.bin (  53 -   57)
INFO  :   27    -13.357 =  -2.000 - 80.50 *  0.376^2 ( 0.922) : LPKFQ : Loop ID =   61 : 1MD3A.pdb.bin (  50 -   54)
INFO  :   28    -13.384 =  -5.000 - 80.50 *  0.323^2 ( 3.156) : EPRGM : Loop ID =   35 : 1IPD_.pdb.bin ( 141 -  145)
INFO  :   29    -13.446 =  -2.000 - 80.50 *  0.377^2 ( 0.600) : LPKFQ : Loop ID =   38 : 4GSSA.pdb.bin (  50 -   54)
INFO  :   30    -13.483 =  -1.000 - 80.50 *  0.394^2 ( 0.578) : SPYYE : Loop ID =   23 : 5HOHA.pdb.bin (  53 -   57)
INFO  :   31    -13.630 =  -1.000 - 80.50 *  0.396^2 ( 0.573) : SPYYE : Loop ID =   39 : 2HOHA.pdb.bin (  53 -   57)
INFO  :   32    -13.665 =  -2.000 - 80.50 *  0.381^2 ( 0.880) : LPKFQ : Loop ID =   60 : 1MD4A.pdb.bin (  50 -   54)
INFO  :   33    -13.916 =   4.000 - 80.50 *  0.472^2 ( 4.429) : LPASD : Loop ID =   28 : 1MO9A.pdb.bin ( 429 -  433)
INFO  :   34    -14.048 =  -3.000 - 80.50 *  0.370^2 ( 0.992) : VPTLK : Loop ID =   20 : 1FW1A.pdb.bin (  54 -   58)
INFO  :   35    -14.192 =  -1.000 - 80.50 *  0.405^2 ( 0.597) : SPYYE : Loop ID =   40 : 3HOHA.pdb.bin (  53 -   57)
INFO  :   36    -14.285 =  -5.000 - 80.50 *  0.340^2 ( 4.791) : EPRGM : Loop ID =    6 : 1XAA_.pdb.bin ( 141 -  145)
INFO  :   37    -14.852 =  -5.000 - 80.50 *  0.350^2 ( 0.995) : VPETF : Loop ID =   10 : 1KNGA.pdb.bin ( 106 -  110)
INFO  :   38    -14.922 =  -8.000 - 80.50 *  0.293^2 ( 1.706) : FPQEF : Loop ID =   55 : 1TVGA.pdb.bin (  41 -   45)
INFO  :   39    -15.162 =  -7.000 - 80.50 *  0.318^2 ( 0.681) : LPLFQ : Loop ID =   17 : 1MVEA.pdb.bin ( 152 -  156)
INFO  :   40    -15.526 =  -2.000 - 80.50 *  0.410^2 ( 0.962) : LPKFQ : Loop ID =   59 : 22GSA.pdb.bin (  50 -   54)
INFO  :   41    -15.595 =  -5.000 - 80.50 *  0.363^2 ( 4.585) : EPRGM : Loop ID =   16 : 1IDM_.pdb.bin ( 139 -  143)
INFO  :   42    -15.648 =  -2.000 - 80.50 *  0.412^2 ( 0.937) : LPKFQ : Loop ID =   52 : 1KBNA.pdb.bin (  51 -   55)
INFO  :   43    -15.687 =  -5.000 - 80.50 *  0.364^2 ( 1.135) : LPTTF : Loop ID =   29 : 1ST9A.pdb.bin ( 102 -  106)
INFO  :   44    -15.793 =  -6.000 - 80.50 *  0.349^2 ( 1.059) : NPLYA : Loop ID =   22 : 2AYH_.pdb.bin ( 199 -  203)
INFO  :   45    -15.853 =  -5.000 - 80.50 *  0.367^2 ( 1.577) : VPALK : Loop ID =   65 : 2CZ2A.pdb.bin (  54 -   58)
INFO  :   46    -15.914 =   1.000 - 80.50 *  0.458^2 ( 0.893) : GPYKP : Loop ID =   57 : 1PT2A.pdb.bin ( 352 -  356)
INFO  :   47    -16.931 =  -5.000 - 80.50 *  0.385^2 ( 4.485) : EPRGM : Loop ID =    4 : 1G2UA.pdb.bin ( 141 -  145)
INFO  :   48    -17.482 =  -9.000 - 80.50 *  0.325^2 ( 0.850) : VPALI : Loop ID =   14 : 1K0DA.pdb.bin (  56 -   60)
INFO  :   49    -17.613 =  -5.000 - 80.50 *  0.396^2 ( 4.207) : EPRGM : Loop ID =   36 : 1WALA.pdb.bin ( 141 -  145)
INFO  :   50    -18.138 =  -8.000 - 80.50 *  0.355^2 ( 0.678) : PPVYF : Loop ID =   24 : 1KRRA.pdb.bin (  64 -   68)
INFO  :   51    -18.139 =  -3.000 - 80.50 *  0.434^2 ( 1.279) : SPIRI : Loop ID =   64 : 2B1YA.pdb.bin (  54 -   58)
INFO  :   52    -19.364 =  -7.000 - 80.50 *  0.392^2 ( 5.525) : QPRGL : Loop ID =   51 : 1VLCA.pdb.bin ( 151 -  155)
INFO  :   53    -19.853 =  -9.000 - 80.50 *  0.367^2 ( 0.516) : LPYYI : Loop ID =   18 : 2FHEA.pdb.bin (  53 -   57)
INFO  :   54    -19.988 =  -6.000 - 80.50 *  0.417^2 ( 0.821) : PPHIL : Loop ID =   21 : 1VCEA.pdb.bin ( 225 -  229)
INFO  :   55    -20.732 =  -9.000 - 80.50 *  0.382^2 ( 0.551) : LPYYI : Loop ID =   13 : 1DUGA.pdb.bin (  53 -   57)
INFO  :   56    -21.006 =  -1.000 - 80.50 *  0.499^2 ( 1.852) : QPAPQ : Loop ID =   34 : 1HGYA.pdb.bin ( 337 -  341)
INFO  :   57    -21.367 =  -7.000 - 80.50 *  0.422^2 ( 1.042) : SPLKV : Loop ID =   47 : 2AG4A.pdb.bin (  48 -   52)
INFO  :   58    -21.929 =  -8.000 - 80.50 *  0.416^2 ( 0.655) : IPTLV : Loop ID =   26 : 1JLWA.pdb.bin (  51 -   55)
INFO  :   59    -22.931 =  -3.000 - 80.50 *  0.498^2 ( 3.346) : TPRAF : Loop ID =   56 : 1FI8A.pdb.bin ( 205 -  209)
INFO  :   60    -24.166 =   0.000 - 80.50 *  0.548^2 ( 7.357) : QPKGR : Loop ID =   53 : 1CM7A.pdb.bin ( 147 -  151)
INFO  :   61    -24.864 =  -4.000 - 80.50 *  0.509^2 ( 1.911) : VPITE : Loop ID =   48 : 1WR2A.pdb.bin ( 155 -  159)
INFO  :   62    -26.844 =  -7.000 - 80.50 *  0.496^2 ( 9.687) : QPRGL : Loop ID =   15 : 1A05A.pdb.bin ( 142 -  146)
INFO  :   63    -28.294 =  -9.000 - 80.50 *  0.490^2 (10.986) : ESSTV : Loop ID =   33 : 1RLDA.pdb.bin (  38 -   42)
INFO  :   64    -28.349 = -14.000 - 80.50 *  0.422^2 ( 1.293) : LPVIV : Loop ID =    8 : 1IOW_.pdb.bin ( 138 -  142)
INFO  :   65    -35.853 =  -6.000 - 80.50 *  0.609^2 ( 4.019) : EPLER : Loop ID =   44 : 2A6HA.pdb.bin (  25 -   29)
WARN  : Steric clash between  V  376 -> G  379 = 2.706 in loop    5 - 1DQTA.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.272 in loop   25 - 1VQQA.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.353 in loop   32 - 2BERA.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.333 in loop   46 - 2BZDA.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.234 in loop   19 - 1W8OA.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.314 in loop   49 - 1WCQA.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.951 in loop   27 - 1S9VA.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.774 in loop   54 - 7PCY_.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.455 in loop    3 - 1LKFA.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.590 in loop   12 - 1GZ7A.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.619 in loop   62 - 1RHLA.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 3.040 in loop   63 - 2BBHA.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 3.181 in loop   30 - 1VKDA.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.800 in loop   50 - 1IOW_.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.690 in loop   11 - 1AXDA.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.222 in loop   31 - 1PGTA.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.547 in loop   43 - 1CH0A.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.103 in loop    1 - 1XAD_.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.383 in loop   45 - 1U0AA.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.619 in loop   42 - 1I3IA.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.244 in loop   58 - 17GSA.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.892 in loop    9 - 1YREA.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.424 in loop    7 - 1MJ5A.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.517 in loop    2 - 1HNJA.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.158 in loop   37 - 1PX7A.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.565 in loop   41 - 1FZUA.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.086 in loop   61 - 1MD3A.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 1.959 in loop   35 - 1IPD_.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.151 in loop   38 - 4GSSA.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.566 in loop   23 - 5HOHA.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.526 in loop   39 - 2HOHA.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.152 in loop   60 - 1MD4A.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.397 in loop   28 - 1MO9A.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.673 in loop   20 - 1FW1A.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.585 in loop   40 - 3HOHA.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.171 in loop    6 - 1XAA_.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.958 in loop   10 - 1KNGA.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.017 in loop   55 - 1TVGA.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.537 in loop   17 - 1MVEA.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.077 in loop   59 - 22GSA.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.053 in loop   16 - 1IDM_.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.176 in loop   52 - 1KBNA.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.477 in loop   29 - 1ST9A.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.370 in loop   22 - 2AYH_.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.663 in loop   65 - 2CZ2A.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.449 in loop   57 - 1PT2A.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.021 in loop    4 - 1G2UA.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.622 in loop   14 - 1K0DA.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.119 in loop   36 - 1WALA.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.511 in loop   24 - 1KRRA.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.567 in loop   64 - 2B1YA.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.084 in loop   51 - 1VLCA.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.803 in loop   18 - 2FHEA.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.831 in loop   21 - 1VCEA.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.782 in loop   13 - 1DUGA.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.613 in loop   34 - 1HGYA.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.373 in loop   47 - 2AG4A.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.577 in loop   26 - 1JLWA.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.616 in loop   56 - 1FI8A.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 1.709 in loop   53 - 1CM7A.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.554 in loop   48 - 1WR2A.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.056 in loop   15 - 1A05A.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 2.829 in loop    8 - 1IOW_.pdb.bin
WARN  : Steric clash between  V  376 -> G  379 = 3.150 in loop   44 - 2A6HA.pdb.bin
INFO  : Identifed 1 loops for gap 377 - 381 : 'KPGDN'
WARN  : Model missing 208 N-terminal residues
WARN  : Model missing 6 C-terminal residues
________________________________________________________________________________

INFO  : Cyclic-Coordinate Descent (CCD) and selection for gap  377 -  381
ERROR : CCD : Failed loop   33 in  5000 N->C cycles (RMSD = 0.945579 : N-C = 1.3803)
ERROR : Failed to select any loops for gap 377 - 381
________________________________________________________________________________

INFO  : Assembling final models for 0 gaps => 1 combinations
INFO  : Removing single loop lists
INFO  : Assembled 1 / 1 combinations
________________________________________________________________________________

INFO  : Ranking final models by energy
INFO  : Outputting models to dir 'loop/model.1'
INFO  : model.1.pdb : Energy = -148.590 (T = 0) : I = 0 : R = 0 : RoG = 45.907 : PP = 52.223 : SP = -3.163 : SE = 20.599 : HO = -289.422 : TE = 25.266226
________________________________________________________________________________

INFO  : Model building complete
________________________________________________________________________________

