LOOPP results

LOOPP parallel driver v5.0 (06/13/08 15:45 EDT) with LOOPP v3.0 (compiled Jul 11 2008 17:20:20)
     [NEWSABLE]     [HSHFL]     [ENE]     [NEWALICHOICE]

This is HTML output, the other options are plain text, CASP AL and CASP TS formats.

If an error occured during execution it is logged in plain text version only,
there is no need to look for an error if this file ends with 'DONE' statement.

STARTING:Wed Aug 06 18:06:11 2008 EST

INPUT:
   sim_min =  40.0% minimum sequence identity (%)
   sim_max =  80.0% maximum sequence identity (%)
   len_dif =  20.0% maximum length difference (% of query sequence length) 
                    between query and homolog
   nmax    =  1     maximum number of homologous sequences (including query sequence)
   maxout  =  5     maximum number of outputted matches
   strict  =  0     all alignments will be accepted from LOOPP results
                    for homologs; they will be translated to query sequence 
                    alignments using BLAST results
   casp    =  5     maximum number of outputted matches in CASP format
   align   =  'g'   only corresponding global alignments will be reported
   maxdiff =  50.0% only alignments differing no more than  50.0% from the query
                    sequence will be reported, or when reject=0, corresponding local
                    alignments will be reported
   reject  =  1     alignments shorter more than  50.0% from the query sequence
                    will be rejected
   seccut  =  0.00  structures with sec. str. score below seccut will be rejected
    secdb  = 1      type of secondary structure description: 1 - DSSB, 0 - phi/psi map
   tasktb  = 11111111111111111111  type of initial calculations
   pdbcut  =  60.0% pdb sequence identity threshold (%)
  pdbstop  = 0      stop if PDB structure with similarity above pdbcut found
  domains  = 0      query sequence will be decomposed into putative domains if =1
   maxall  = 200      maximum number of models evaluated in the second stage       
   refstr  = 0      if equal to 1 rmsd distances between all hits and a reference structure
                   will be reported
   maxpdb  = 5      number of top PDB hits added to the second stage scoring 
   maxdyn  = 5      number of dynamic domain entries from database added to the second stage scoring 
 beautify  = 0      use pdb beautifier 
rmsdtables  = 1     compute rmsd tables between hits 

   local LOOPP/BLAST database will be used

   input file T0388
    --> 174 residues, sequence name: T0388
   Database: T:\CBSU\blastdb\20080108\nr


 -> 130 homolog sequences with sequence identity from  40.0% to  80.0% satisfying length constraints found
 -> 0 representatives will be used in search (nmax=1 including query sequence)
 Histogram of all homolog sequences found by BLAST (e-value cutoff 0.01, length constr.) by sequence identity:
  00%-10%    10%-20%    20%-30%    30%-40%    40%-50%    50%-60%    60%-70%    70%-80%    80%-90%    90%-100% 

       0          0          0        100        104         16          3          7          6          5   

5 dynamic database entries created: 2OBI_A 2F8A_A 2HE3_A 2I3Y_A 1GP1_A 




RESULTS

secondary structure prediction shows 31.03% helical, 21.26% extended and 47.70% loops/other

homologs/domains used:
  0 query sequence T0388
all homologs found

total number of entries processed: 205

Amino acid profile calculated versus nr database is here
  (Amino acid profile BLAST run output is here)
Results of BLAST versus pdbaa database using the nr profile are here
  (Results of BLAST versus pdbaa database with no profile are here)
Transitive BLAST output calculted with this profile is here

Phase 1 scoring data: input and output
Phase 2 scoring data: input and output


HITS:

table legend
no    name                SCOP           SCOP_stat         confidence    score homolog  hits  length   seq.   align    ENE             TE13        old        CGenergy      SIFT2        tma1         tma2      |-------OPTM------| |-------SEQ  (global)-------| |-------SEQ   (local)-------| |-------TRD  (global)-------| |-------TRD   (local)-------| |-------TRS  (global)-------| |-------TRS   (local)-------| |-------TSS  (global)-------| |-------TSS   (local)-------| |-------TSC  (global)-------| |-------TSC   (local)-------| |-------PSM  (global)-------| |-------PSM   (local)-------| |-------SRF  (global)-------| |-------SRF   (local)-------| |-------TBLS------| |-------KMER------| |-------CFTR------| |-------TBSS------| |-------SBLS------|  sec. str.
                                                                                               (%)    ident.  src.    all-atom      all-atom      score      all-atom     all-atom     all-atom     all-atom   r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy  r-energy    energy  r-energy    energy  r-energy    energy  r-energy    energy  r-energy    energy    pos. comp.
1    2P31_A               not_found     25.25.25.25            NONE   -43.231     0       1  89.08%  56.13%   OPTM     -774.991     -651.720       10.120        0.680        0.963        0.999        0.999     61.320     -86.6    25.350   592.500    -566.5    48.270   584.000    -653.0    -0.150    14.440       4.6     6.550    24.390     -51.1    10.780    86.670     -42.2    42.500   107.850    -126.1    18.840    74.050     -74.1    37.580    81.330    -123.4   -30.000    32.000    -112.0   -30.000    32.000    -124.0    27.790   675.000    -584.0    85.820   616.000    -656.0     7.940    71.000    -116.0    15.470    90.000    -162.0     5.000     -73.0   -10.256     -16.6     0.000 -9.3e+061     5.000     -77.0    -0.347     -57.3    0.21  0.93
2    2P5Q_A               not_found     25.25.25.25            NONE   -43.691     0       1  89.08%  40.65%   OPTM     -684.937     -587.230        7.984        0.615        0.899        0.960        0.997     45.330     -72.3    17.020   370.500    -359.0    29.960   353.000    -411.0     4.250    17.500     -28.8     3.770    14.390     -52.0    12.770    66.960     -54.7    20.890    65.300     -91.5    16.330    44.060     -73.2    30.000    56.540    -104.9   -30.000    21.000    -111.0   -30.000    19.000    -121.0    21.870   527.500    -440.0    67.880   446.000    -487.0     8.380    71.000    -112.0    16.880    86.000    -159.0     5.000     -73.2    -3.677     -20.4     0.000 -9.3e+061     5.000     -73.4     0.204     -31.1    0.25  0.87
3    2OBI_A               not_found     25.25.25.25            NONE   -43.820     0       1  89.08%  38.71%   OPTM     -650.306     -443.970        8.184        0.612        0.875        0.927        0.986     47.900     -70.5    17.060   338.000    -356.0    31.860   330.500    -400.0     4.740    19.690     -37.0     4.760    14.370     -46.1    17.900    71.400     -66.0    27.580    66.750     -84.7    19.200    52.960     -86.3    25.580    54.050    -100.4   -30.000    28.000    -116.0   -30.000    22.000    -119.0    23.020   546.000    -477.0    76.100   468.000    -507.0     8.280    62.000    -111.0    13.970    77.000    -145.0     5.000     -69.0    -3.729     -26.8     0.000 -9.3e+061     5.000     -69.0    -0.745     -29.7    0.26  0.76
4    2GS3_A               not_found     25.25.25.25            NONE   -44.057     0       1  93.10%  41.36%   OPTM     -605.918     -577.880        8.666        0.618        0.868        0.931        0.983     47.270     -69.5    19.380   379.000    -382.0    35.170   356.500    -428.0     3.700    10.560     -36.8     3.610     6.450     -44.7    14.570    64.820     -61.4    26.020    62.660     -82.2    16.280    44.420     -83.0    24.300    53.050     -99.3   -30.000    14.000    -108.0   -30.000    25.000    -120.0    27.410   612.000    -543.0    89.340   537.000    -580.0     6.870    32.000    -106.0    13.220    53.000    -144.0     5.000     -70.7    -3.047     -25.8     0.000 -9.3e+061     5.000     -71.2    -0.678     -31.4    0.74  0.73
5    2I3Y_A               not_found     25.25.25.25            NONE   -44.100     0       1  87.36%  35.53%   OPTM     -586.218     -448.600        5.025        0.590        0.838        0.848        0.970     34.040     -59.1     9.780   211.000    -221.5    14.260   159.000    -263.0     1.640    11.570     -30.9     1.130     5.120     -42.3     4.220    31.440     -28.1     6.620    21.860     -45.2     6.920    13.350     -54.3    12.380     9.120     -66.2   -30.000    -3.000     -96.0   -30.000    -5.000    -107.0    16.660   360.000    -289.0    48.730   308.000    -360.0     4.300    42.000     -78.0    10.060    40.000    -105.0     5.000     -42.2    -4.464     -49.3     0.000 -9.3e+061     5.000     -42.2     0.447     -18.5    0.15  0.73



RMSD table between hits
(RMSDs are shaded according to similarity, up to 10Å )

	1	2	3	4	5
1	0.00	1.12	0.86	1.14	2.72
2	1.12	0.00	1.02	1.44	2.87
3	0.86	1.02	0.00	0.85	2.90
4	1.14	1.44	0.85	0.00	2.91
5	2.72	2.87	2.90	2.91	0.00



Similarity table for hits: percentage of chain fitting below 3Å RMSD
(Cells are shaded according to similarity starting at 30%)

	1	2	3	4	5
1	100.00	100.00	100.00	100.00	100.00
2	100.00	100.00	100.00	100.00	100.00
3	100.00	100.00	100.00	100.00	100.00
4	100.00	100.00	100.00	100.00	100.00
5	100.00	100.00	100.00	100.00	100.00



Similarity table for hits: percentage of chain fitting below 6Å RMSD
(Cells are shaded according to similarity starting at 50%)

	1	2	3	4	5
1	100.00	100.00	100.00	100.00	100.00
2	100.00	100.00	100.00	100.00	100.00
3	100.00	100.00	100.00	100.00	100.00
4	100.00	100.00	100.00	100.00	100.00
5	100.00	100.00	100.00	100.00	100.00





ALIGNMENTS

--> hit 1 [All-atom model (PDB)] [view all-atom model (PDB) with Chime] [PIR alignment file] [PDB file (backbone only)] [view PDB file (backbone only) with Chime] [hit list]


  secondary structure: 29.87% helical, 18.83% extended, 51.30% loops/other (query: 31.03% 21.26% 47.70%)

  SCOP classification: 


 name                SCOP           SCOP_stat         confidence    score homolog  hits  length   seq.   align    ENE             TE13        old        CGenergy      SIFT2        tma1         tma2      |-------OPTM------| |-------SEQ  (global)-------| |-------SEQ   (local)-------| |-------TRD  (global)-------| |-------TRD   (local)-------| |-------TRS  (global)-------| |-------TRS   (local)-------| |-------TSS  (global)-------| |-------TSS   (local)-------| |-------TSC  (global)-------| |-------TSC   (local)-------| |-------PSM  (global)-------| |-------PSM   (local)-------| |-------SRF  (global)-------| |-------SRF   (local)-------| |-------TBLS------| |-------KMER------| |-------CFTR------| |-------TBSS------| |-------SBLS------|  sec. str.
                                                                                          (%)    ident.  src.    all-atom      all-atom      score      all-atom     all-atom     all-atom     all-atom   r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy  r-energy    energy  r-energy    energy  r-energy    energy  r-energy    energy  r-energy    energy    pos. comp.
2P31_A               not_found     25.25.25.25            NONE   -43.231     0       1  89.08%  56.13%   OPTM     -774.991     -651.720       10.120        0.680        0.963        0.999        0.999     61.320     -86.6    25.350   592.500    -566.5    48.270   584.000    -653.0    -0.150    14.440       4.6     6.550    24.390     -51.1    10.780    86.670     -42.2    42.500   107.850    -126.1    18.840    74.050     -74.1    37.580    81.330    -123.4   -30.000    32.000    -112.0   -30.000    32.000    -124.0    27.790   675.000    -584.0    85.820   616.000    -656.0     7.940    71.000    -116.0    15.470    90.000    -162.0     5.000     -73.0   -10.256     -16.6     0.000 -9.3e+061     5.000     -77.0    -0.347     -57.3    0.21  0.93

alignment source: OPTM
            ---EEEEEE------E-HHH----EEEEEE--------HHHHHHHHHHHHHH----EEEEE-------------HHHHHH
Query:   10 NSFYAFEVKDAKGRTVSLEKYKGKVSLVVNVASDCQLTDRNYLGLKELHKEFGPSHFSVLAFPCNQFGESEPRPSKEVES   89
Sbjct:   23 QDFYDFKAVNIRGKLVSLEKYRGSVSLVVNVASECGFTDQHYRALQQLQRDLGPHHFNVLAFPCNQFGQQEPDSNKEIES  102
            ------EEE-----EEE-------EEEEEEE------HHHHHHHHHHHHHHH----EEEEEEE-----------HHHHHH

            HHH--------EEEEEEE------HHHHHHHH-------E-EEEEEE-----EEEEE-----HHHHHHHHHHHHH
Query:   90 FARKNYGVTFPIFHKIKILGSEGEPAFRFLVDSSKKEPRWNFWKYLVNPEGQVVKFWRPEEPIEVIRPDIAALVR  164
Sbjct:  103 FARRTYSVSFPMFSKIAVTGTGAHPAFKYLAQTSGKEPTWNFWKYLVAPDGKVVGAWDPTVSVEEVRPQITALVR  177
            HHHHHH------------------HHHHHHHHHH---------EEEE-----EEEEE-----HHHHHHHHH----

155 residues (89.08%) of query sequence aligned



--> hit 2 [All-atom model (PDB)] [view all-atom model (PDB) with Chime] [PIR alignment file] [PDB file (backbone only)] [view PDB file (backbone only) with Chime] [hit list]


  secondary structure: 27.50% helical, 18.13% extended, 54.38% loops/other (query: 31.03% 21.26% 47.70%)

  SCOP classification: 


 name                SCOP           SCOP_stat         confidence    score homolog  hits  length   seq.   align    ENE             TE13        old        CGenergy      SIFT2        tma1         tma2      |-------OPTM------| |-------SEQ  (global)-------| |-------SEQ   (local)-------| |-------TRD  (global)-------| |-------TRD   (local)-------| |-------TRS  (global)-------| |-------TRS   (local)-------| |-------TSS  (global)-------| |-------TSS   (local)-------| |-------TSC  (global)-------| |-------TSC   (local)-------| |-------PSM  (global)-------| |-------PSM   (local)-------| |-------SRF  (global)-------| |-------SRF   (local)-------| |-------TBLS------| |-------KMER------| |-------CFTR------| |-------TBSS------| |-------SBLS------|  sec. str.
                                                                                          (%)    ident.  src.    all-atom      all-atom      score      all-atom     all-atom     all-atom     all-atom   r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy  r-energy    energy  r-energy    energy  r-energy    energy  r-energy    energy  r-energy    energy    pos. comp.
2P5Q_A               not_found     25.25.25.25            NONE   -43.691     0       1  89.08%  40.65%   OPTM     -684.937     -587.230        7.984        0.615        0.899        0.960        0.997     45.330     -72.3    17.020   370.500    -359.0    29.960   353.000    -411.0     4.250    17.500     -28.8     3.770    14.390     -52.0    12.770    66.960     -54.7    20.890    65.300     -91.5    16.330    44.060     -73.2    30.000    56.540    -104.9   -30.000    21.000    -111.0   -30.000    19.000    -121.0    21.870   527.500    -440.0    67.880   446.000    -487.0     8.380    71.000    -112.0    16.880    86.000    -159.0     5.000     -73.2    -3.677     -20.4     0.000 -9.3e+061     5.000     -73.4     0.204     -31.1    0.25  0.87

alignment source: OPTM
            ---EEEEEE------E-HHH----EEEEEE--------HHHHHHHHHHHHHH----EEEEE-------------HHHHHH
Query:   10 NSFYAFEVKDAKGRTVSLEKYKGKVSLVVNVASDCQLTDRNYLGLKELHKEFGPSHFSVLAFPCNQFGESEPRPSKEVES   89
Sbjct:   10 ESVHDFTVKDAKENDVDLSIFKGKVLLIVNVASKCGMTNSNYAEMNQLYEKYKDQGLEILAFPCNQFGEEEPGTNDQITD   89
            ------EEE-----EEE-------EEEEEEE------HHHHHHHHHHHHHHH----EEEEEEE-----------HHHHHH

            HHH--------EEEEEEE------HHHHHHH    H-------E-EEEEEE-----EEEEE-----HHHHHHHHHHHHH
Query:   90 FARKNYGVTFPIFHKIKILGSEGEPAFRFLV----DSSKKEPRWNFWKYLVNPEGQVVKFWRPEEPIEVIRPDIAALVR  164
Sbjct:   90 FVCTRFKSEFPIFDKIDVNGENASPLYRFLKLGKWGIFGDDIQWNFAKFLVNKDGQVVDRYYPTTSPLSLERDIKQLLE  168
            HHHHH-------------------HHHHHHH-HHHH-----------EEEE-----EEEEE---------HHHHHHH--

155 residues (89.08%) of query sequence aligned



--> hit 3 [All-atom model (PDB)] [view all-atom model (PDB) with Chime] [PIR alignment file] [PDB file (backbone only)] [view PDB file (backbone only) with Chime] [hit list]


  secondary structure: 21.34% helical, 18.90% extended, 59.76% loops/other (query: 31.03% 21.26% 47.70%)

  SCOP classification: 


 name                SCOP           SCOP_stat         confidence    score homolog  hits  length   seq.   align    ENE             TE13        old        CGenergy      SIFT2        tma1         tma2      |-------OPTM------| |-------SEQ  (global)-------| |-------SEQ   (local)-------| |-------TRD  (global)-------| |-------TRD   (local)-------| |-------TRS  (global)-------| |-------TRS   (local)-------| |-------TSS  (global)-------| |-------TSS   (local)-------| |-------TSC  (global)-------| |-------TSC   (local)-------| |-------PSM  (global)-------| |-------PSM   (local)-------| |-------SRF  (global)-------| |-------SRF   (local)-------| |-------TBLS------| |-------KMER------| |-------CFTR------| |-------TBSS------| |-------SBLS------|  sec. str.
                                                                                          (%)    ident.  src.    all-atom      all-atom      score      all-atom     all-atom     all-atom     all-atom   r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy  r-energy    energy  r-energy    energy  r-energy    energy  r-energy    energy  r-energy    energy    pos. comp.
2OBI_A               not_found     25.25.25.25            NONE   -43.820     0       1  89.08%  38.71%   OPTM     -650.306     -443.970        8.184        0.612        0.875        0.927        0.986     47.900     -70.5    17.060   338.000    -356.0    31.860   330.500    -400.0     4.740    19.690     -37.0     4.760    14.370     -46.1    17.900    71.400     -66.0    27.580    66.750     -84.7    19.200    52.960     -86.3    25.580    54.050    -100.4   -30.000    28.000    -116.0   -30.000    22.000    -119.0    23.020   546.000    -477.0    76.100   468.000    -507.0     8.280    62.000    -111.0    13.970    77.000    -145.0     5.000     -69.0    -3.729     -26.8     0.000 -9.3e+061     5.000     -69.0    -0.745     -29.7    0.26  0.76

alignment source: OPTM
            ------EEEEEE------E-HHH----EEEEEE--------HHHHHHHHHHHHHH----EEEEE-------------HHH
Query:    7 SMINSFYAFEVKDAKGRTVSLEKYKGKVSLVVNVASDCQLTDRNYLGLKELHKEFGPSHFSVLAFPCNQFGESEPRPSKE   86
Sbjct:    9 RCARSMHEFSAKDIDGHMVNLDKYRGFVCIVTNVASQCGKTEVNYTQLVDLHARYAECGLRILAFPCNQFGKQEPGSNEE   88
            --------EEE-----EEE-------EEEEEEE------HHHHHHHHHHHHHHH----EEEEEEE-----------HHHH

            HHHHHH--------EEEEEEE------HHHHHHHH---      ----E-EEEEEE-----EEEEE-----HHHHHHHHH
Query:   87 VESFARKNYGVTFPIFHKIKILGSEGEPAFRFLVDSSK------KEPRWNFWKYLVNPEGQVVKFWRPEEPIEVIRPDIA  160
Sbjct:   89 IKEFAAG-YNVKFDMFSKICVNGDDAHPLWKWMKIQPKGKGILGNAIKWNFTKFLIDKNGCVVKRYGPMEEPLVIEKDLP  167
            HHHHH-- ----EE------------HHHHHHH------------------EEEE-----EEEEE------HHHH-----

            H
Query:  161 A  161
Sbjct:  168 H  168
            -

155 residues (89.08%) of query sequence aligned



--> hit 4 [All-atom model (PDB)] [view all-atom model (PDB) with Chime] [PIR alignment file] [PDB file (backbone only)] [view PDB file (backbone only) with Chime] [hit list]


  secondary structure: 20.59% helical, 18.24% extended, 61.18% loops/other (query: 31.03% 21.26% 47.70%)

  SCOP classification: 


 name                SCOP           SCOP_stat         confidence    score homolog  hits  length   seq.   align    ENE             TE13        old        CGenergy      SIFT2        tma1         tma2      |-------OPTM------| |-------SEQ  (global)-------| |-------SEQ   (local)-------| |-------TRD  (global)-------| |-------TRD   (local)-------| |-------TRS  (global)-------| |-------TRS   (local)-------| |-------TSS  (global)-------| |-------TSS   (local)-------| |-------TSC  (global)-------| |-------TSC   (local)-------| |-------PSM  (global)-------| |-------PSM   (local)-------| |-------SRF  (global)-------| |-------SRF   (local)-------| |-------TBLS------| |-------KMER------| |-------CFTR------| |-------TBSS------| |-------SBLS------|  sec. str.
                                                                                          (%)    ident.  src.    all-atom      all-atom      score      all-atom     all-atom     all-atom     all-atom   r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy  r-energy    energy  r-energy    energy  r-energy    energy  r-energy    energy  r-energy    energy    pos. comp.
2GS3_A               not_found     25.25.25.25            NONE   -44.057     0       1  93.10%  41.36%   OPTM     -605.918     -577.880        8.666        0.618        0.868        0.931        0.983     47.270     -69.5    19.380   379.000    -382.0    35.170   356.500    -428.0     3.700    10.560     -36.8     3.610     6.450     -44.7    14.570    64.820     -61.4    26.020    62.660     -82.2    16.280    44.420     -83.0    24.300    53.050     -99.3   -30.000    14.000    -108.0   -30.000    25.000    -120.0    27.410   612.000    -543.0    89.340   537.000    -580.0     6.870    32.000    -106.0    13.220    53.000    -144.0     5.000     -70.7    -3.047     -25.8     0.000 -9.3e+061     5.000     -71.2    -0.678     -31.4    0.74  0.73

alignment source: OPTM
            ----HH--  ----EEEEEE------E-HHH----EEEEEE--------HHHHHHHHHHHHHH----EEEEE--------
Query:    1 ENLYFQSM--INSFYAFEVKDAKGRTVSLEKYKGKVSLVVNVASDCQLTDRNYLGLKELHKEFGPSHFSVLAFPCNQFGE   78
Sbjct:   28 ENLYFQSMRCARSMHEFSAKDIDGHMVNLDKYRGFVCIVTNVASQGGKTEVNYTQLVDLHARYAECGLRILAFPCNQFGK  107
            ----------------EEE-----EEE-------EEEEEEE------HHHHHHHHHHHHHHH----EEEEEEE-------

            -----HHHHHHHHH--------EEEEEEE------HHHHHHHH------      -E-EEEEEE-----EEEEE-----H
Query:   79 SEPRPSKEVESFARKNYGVTFPIFHKIKILGSEGEPAFRFLVDSSKKEP------RWNFWKYLVNPEGQVVKFWRPEEPI  152
Sbjct:  108 QEPGSNEEIKEFAAG-YNVKFDMFSKICVNGDDAHPLWKWMKIQPKGKGILGNAIKWNFTKFLIDKNGCVVKRYGPMEEP  186
            ----HHHHHHHHHH- ----EE------------HHHHHH-------------------EEEE-----EEEEE-------

            HHHHHHHHHH
Query:  153 EVIRPDIAAL  162
Sbjct:  187 LVIEKDLPHY  196
            -----HHHH-

162 residues (93.10%) of query sequence aligned



--> hit 5 [All-atom model (PDB)] [view all-atom model (PDB) with Chime] [PIR alignment file] [PDB file (backbone only)] [view PDB file (backbone only) with Chime] [hit list]


  secondary structure: 20.81% helical, 17.92% extended, 61.27% loops/other (query: 31.03% 21.26% 47.70%)

  SCOP classification: 


 name                SCOP           SCOP_stat         confidence    score homolog  hits  length   seq.   align    ENE             TE13        old        CGenergy      SIFT2        tma1         tma2      |-------OPTM------| |-------SEQ  (global)-------| |-------SEQ   (local)-------| |-------TRD  (global)-------| |-------TRD   (local)-------| |-------TRS  (global)-------| |-------TRS   (local)-------| |-------TSS  (global)-------| |-------TSS   (local)-------| |-------TSC  (global)-------| |-------TSC   (local)-------| |-------PSM  (global)-------| |-------PSM   (local)-------| |-------SRF  (global)-------| |-------SRF   (local)-------| |-------TBLS------| |-------KMER------| |-------CFTR------| |-------TBSS------| |-------SBLS------|  sec. str.
                                                                                          (%)    ident.  src.    all-atom      all-atom      score      all-atom     all-atom     all-atom     all-atom   r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy    zscore  r-energy    energy  r-energy    energy  r-energy    energy  r-energy    energy  r-energy    energy  r-energy    energy    pos. comp.
2I3Y_A               not_found     25.25.25.25            NONE   -44.100     0       1  87.36%  35.53%   OPTM     -586.218     -448.600        5.025        0.590        0.838        0.848        0.970     34.040     -59.1     9.780   211.000    -221.5    14.260   159.000    -263.0     1.640    11.570     -30.9     1.130     5.120     -42.3     4.220    31.440     -28.1     6.620    21.860     -45.2     6.920    13.350     -54.3    12.380     9.120     -66.2   -30.000    -3.000     -96.0   -30.000    -5.000    -107.0    16.660   360.000    -289.0    48.730   308.000    -360.0     4.300    42.000     -78.0    10.060    40.000    -105.0     5.000     -42.2    -4.464     -49.3     0.000 -9.3e+061     5.000     -42.2     0.447     -18.5    0.15  0.73

alignment source: OPTM
            ------EEEEEE------E-HHH----EEEEEE--------HHHHHHHHHHHHHH----EEEEE-------------HHH
Query:    7 SMINSFYAFEVKDAKGRTVSLEKYKGKVSLVVNVASDCQLTDRNYLGLKELHKEFGPSHFSVLAFPCNQFGESEPRPSKE   86
Sbjct:   38 GTIYDYEAIALN--KNEYVSFKQYVGKHILFVNVATYCGLT-AQYPELNALQEELKPYGLVVLGFPCNQFGKQEPGDNKE  114
            -----EEE----  --EEE-------EEEEEEE-------- -HHHHHHHHHHH----EEEEEEE-----------HHHH

            HHHHHH-     -------EEEEEEE------HHHHHHHH------                   -E-EEEEEE-----E
Query:   87 VESFARK-----NYGVTFPIFHKIKILGSEGEPAFRFLVDSSKKEP-------------------RWNFWKYLVNPEGQV  142
Sbjct:  115 ILPGLKYVRPGGGFVPSFQLFEKGDVNGEKEQKVFSFLKHSCPHPSEILGTFKSISWDPVKVHDIRWNFEKFLVGPDGIP  194
            HHHHHH-----------EE------------HHHHHHHHH-----------------------------EEEE-----EE

            EEEE-----HHHHHHH
Query:  143 VKFWRPEEPIEVIRPD  158
Sbjct:  195 VMRWSHRATVSSVKTD  210
            EEE-----HHHHHH-D

152 residues (87.36%) of query sequence aligned




DONE: Wed Aug 06 22:43:57 2008 EST

00%-10%	10%-20%	20%-30%	30%-40%	40%-50%	50%-60%	60%-70%	70%-80%	80%-90%	90%-100%
0	0	0	100	104	16	3	7	6	5