HSSP       HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 1.0 1991
PDBID      query
DATE       file generated on 14-Aug-12
SEQBASE    /tmp/e1IvLiOuXj/COPF-tmp20091.msf_tmp
PARAMETER  CONVERTSEQ of query
THRESHOLD  according to: ALL
REFERENCE  Sander C., Schneider R. : Database of homology-derived protein structures. Proteins, 9:56-68 (1991).
HEADER     
COMPND     
SOURCE     
AUTHOR     
SEQLENGTH    36
NCHAIN        1 chain(s) in query data set
NALIGN       15
NOTATION : ID: EMBL/SWISSPROT identifier of the aligned (homologous) protein
NOTATION : STRID: if the 3-D structure of the aligned protein is known, then STRID is the Protein Data Bank identifier as taken
NOTATION : from the database reference or DR-line of the EMBL/SWISSPROT entry
NOTATION : %IDE: percentage of residue identity of the alignment
NOTATION : %SIM (%WSIM):  (weighted) similarity of the alignment
NOTATION : IFIR/ILAS: first and last residue of the alignment in the test sequence
NOTATION : JFIR/JLAS: first and last residue of the alignment in the alignend protein
NOTATION : LALI: length of the alignment excluding insertions and deletions
NOTATION : NGAP: number of insertions and deletions in the alignment
NOTATION : LGAP: total length of all insertions and deletions
NOTATION : LSEQ2: length of the entire sequence of the aligned protein
NOTATION : ACCESSION: SwissProt accession number
NOTATION : PROTEIN: one-line description of aligned protein
NOTATION : SeqNo,PDBNo,AA,STRUCTURE,BP1,BP2,ACC: sequential and PDB residue numbers, amino acid (lower case = Cys), secondary
NOTATION : structure, bridge partners, solvent exposure as in DSSP (Kabsch and Sander, Biopolymers 22, 2577-2637(1983)
NOTATION : VAR: sequence variability on a scale of 0-100 as derived from the NALIGN alignments
NOTATION : pair of lower case characters (AvaK) in the alignend sequence bracket a point of INSERTION IN THIS sequence
NOTATION : dots (....) in the alignend SEQUENCE INDICATE POINTS of deletion in this sequence
NOTATION : SEQUENCE PROFILE: relative frequency of an amino acid type at each position. Asx and Glx are in their
NOTATION : acid/amide form in proportion to their database frequencies
NOTATION : NOCC: number of aligned sequences spanning this position (including the test sequence)
NOTATION : NDEL: number of sequences with a deletion in the test protein at this position
NOTATION : NINS: number of sequences with an insertion in the test protein at this position
NOTATION : ENTROPY: entropy measure of sequence variability at this position
NOTATION : RELENT: relative entropy, i.e.  entropy normalized to the range 0-100
NOTATION : WEIGHT: conservation weight

## PROTEINS : EMBL/SWISSPROT identifier and alignment statistics
  NR.    ID         STRID   %IDE  %SIM IFIR ILAS JFIR JLAS LALI NGAP LGAP LSEQ2 ACCESSION     PROTEIN
    1 : pdb|pdb|2l60        0.54  0.00   13   36    1   24   24    0    0   24
    2 : E2E4L2|PYYV_        0.46  0.00    2   36    1   35   35    0    0   35
    3 : P01302|PAHO_        0.42  0.00    1   36    1   36   36    0    0   36
    4 : P06304|PAHO_        0.78  0.00    1   36    1   36   36    0    0   36
    5 : P06305|PAHO_        0.80  0.00    2   36    1   35   35    0    0   35
    6 : P09475|PPY_L        0.37  0.00    2   36    1   35   35    0    0   35
    7 : P15427|PAHO_        0.42  0.00    1   36    1   36   36    0    0   36
    8 : P28672|NPY_C        0.46  0.00    2   36    1   35   35    0    0   35
    9 : P48098|PYY_L        0.40  0.00    2   36    1   35   35    0    0   35
   10 : Q5JQD4|PYY3_        0.48  0.00    2   34    1   33   33    0    0   33
   11 : A9YZQ9|A9YZQ        0.51  0.00    2   36    1   35   35    0    0   35
   12 : E7F0L6|E7F0L        0.34  0.00    2   36    1   35   35    0    0   35
   13 : F6VPU6|F6VPU        0.51  0.00    2   36    1   35   35    0    0   35
   14 : G1KDC9|G1KDC        0.43  0.00    2   36    1   35   35    0    0   35
   15 : Q58VQ0|Q58VQ        0.37  0.00    2   36    1   35   35    0    0   35
## ALIGNMENTS    1 -   15
 SeqNo  PDBNo AA STRUCTURE BP1 BP2  ACC NOCC  VAR  ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
     1    1   G              0   0    0    4   21    AG  A
     2    2   P              0   0    0   15    0   PPPPPPPPPPPPPP
     3    3   S              0   0    0   15   42   TLSLPSTPIPPSPP
     4    4   Q              0   0    0   15   23   KEQQKEKKKKKKKK
     5    5   P              0   0    0   15    0   PPPPPPPPPPPPPP
     6    6   T              0   0    0   15   24   EETKEHDDEEEDED
     7    7   Y              0   0    0   15   52   SYYYTHNNAHPSSN
     8    8   P              0   0    0   15    0   PPPPPPPPPPPPPP
     9    9   G              0   0    0   15   13   GGGGGGGGGGARGS
    10   10   D              0   0    0   15   27   PDNDSDEDEDGQEP
    11   11   D              0   0    0   15   19   DNDGNQGNDDDDDD
    12   12   A              0   0    0   15   12   AAAAAAAAEAVAAA
    13   13   P              0   0    0   16   32  STTPPSTPSSPGASS
    14   14   V              0   0    0   16   32  PPPVVPPAPLAPAPP
    15   15   E              0   0    0   16    2  EEEEEEDEEEEEEEE
    16   16   D              0   0    0   16   16  EEQDDDQEQEDEDEE
    17   17   L              0   0    0   16   12  LLMLLWLLMLVMLML
    18   18   I              0   0    0   16   28  NAARIAAAASAAAAS
    19   19   R              0   0    0   16   41  REQFQSQKRHKKRKK
    20   20   F              0   0    0   16    1  YYYYFYYYYYYYYYY
    21   21   Y              0   0    0   16   32  YMAYYQYYKYYHYFM
    22   22   D              0   0    0   16   35  ATADDASSAATTSSL
    23   23   N              0   0    0   16   34  SKENDADAASAAAAA
    24   24   L              0   0    0   16    8  LILLLVLLVLLLLLV
    25   25   Q              0   0    0   16   30  RRRQQRYRRCRRRRR
    26   26   Q              0   0    0   16   19  HQRQQHQHHHHHHHN
    27   27   Y              0   0    0   16    0  YYYYYYYYYYYYYYY
    28   28   L              0   0    0   16   19  LIIRLVIIILIIIII
    29   29   N              0   0    0   16   16  NNNLNNTNNNNNNNN
    30   30   V              0   0    0   16   20  LLMNVLFLLVLLLLL
    31   31   V              0   0    0   16   10  VVLVVIIIIVIIIVI
    32   32   T              0   0    0   16    9  TTTFTTTTTTTTTTT
    33   33   R              0   0    0   16    0  RRRRRRRRRRRRRRR
    34   34   H              0   0    0   16   21  QQPHPQPQQQQQQQQ
    35   35   R              0   0    0   15    0  RRRRRRRRR RRRRR
    36   36   Y              0   0    0   15    1  YYYYFYFYY YYYYY
## SEQUENCE PROFILE AND ENTROPY
 SeqNo PDBNo   V   L   I   M   F   W   Y   G   A   P   S   T   C   H   R   K   Q   E   N   D  NOCC NDEL NINS ENTROPY RELENT WEIGHT
    1    1     0   0   0   0   0   0   0  50  50   0   0   0   0   0   0   0   0   0   0   0     4    0    0   0.693     50  0.93
    2    2     0   0   0   0   0   0   0   0   0 100   0   0   0   0   0   0   0   0   0   0    15    0    0   0.000      0  1.38
    3    3     0  13   7   0   0   0   0   0   0  40  27  13   0   0   0   0   0   0   0   0    15    0    0   1.437     53  0.56
    4    4     0   0   0   0   0   0   0   0   0   0   0   0   0   0   0  67  20  13   0   0    15    0    0   0.861     32  0.88
    5    5     0   0   0   0   0   0   0   0   0 100   0   0   0   0   0   0   0   0   0   0    15    0    0   0.000      0  1.38
    6    6     0   0   0   0   0   0   0   0   0   0   0  13   0   7   0   7   0  47   0  27    15    0    0   1.338     49  0.80
    7    7     0   0   0   0   0   0  27   0   7   7  20   7   0  13   0   0   0   0  20   0    15    0    0   1.807     67  0.41
    8    8     0   0   0   0   0   0   0   0   0 100   0   0   0   0   0   0   0   0   0   0    15    0    0   0.000      0  1.38
    9    9     0   0   0   0   0   0   0  80   7   0   7   0   0   0   7   0   0   0   0   0    15    0    0   0.720     27  1.09
   10   10     0   0   0   0   0   0   0   7   0  13   7   0   0   0   0   0   7  20   7  40    15    0    0   1.679     62  0.80
   11   11     0   0   0   0   0   0   0  13   0   0   0   0   0   0   0   0   7   0  20  60    15    0    0   1.078     40  0.99
   12   12     7   0   0   0   0   0   0   0  87   0   0   0   0   0   0   0   0   7   0   0    15    0    0   0.485     18  1.14
   13   13     0   0   0   0   0   0   0   6   6  31  38  19   0   0   0   0   0   0   0   0    16    0    0   1.392     50  0.74
   14   14    19   6   0   0   0   0   0   0  19  56   0   0   0   0   0   0   0   0   0   0    16    0    0   1.125     41  0.73
   15   15     0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0  94   0   6    16    0    0   0.234      8  1.33
   16   16     0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0  19  44   0  38    16    0    0   1.043     38  1.05
   17   17     6  63   0  25   0   6   0   0   0   0   0   0   0   0   0   0   0   0   0   0    16    0    0   0.987     36  1.18
   18   18     0   0  13   0   0   0   0   0  63   0  13   0   0   0   6   0   0   0   6   0    16    0    0   1.160     42  0.70
   19   19     0   0   0   0   6   0   0   0   0   0   6   0   0   6  25  31  19   6   0   0    16    0    0   1.717     62  0.60
   20   20     0   0   0   0  13   0  88   0   0   0   0   0   0   0   0   0   0   0   0   0    16    0    0   0.377     14  1.36
   21   21     0   0   0  13   6   0  56   0   6   0   0   0   0   6   0   6   6   0   0   0    16    0    0   1.450     52  0.64
   22   22     0   6   0   0   0   0   0   0  31   0  25  19   0   0   0   0   0   0   0  19    16    0    0   1.511     55  0.61
   23   23     0   0   0   0   0   0   0   0  50   0  13   0   0   0   0   6   0   6  13  13    16    0    0   1.473     53  0.68
   24   24    19  75   6   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0    16    0    0   0.703     25  1.18
   25   25     0   0   0   0   0   0   6   0   0   0   0   0   6   0  69   0  19   0   0   0    16    0    0   0.918     33  0.73
   26   26     0   0   0   0   0   0   0   0   0   0   0   0   0  56   6   0  31   0   6   0    16    0    0   1.034     37  0.95
   27   27     0   0   0   0   0   0 100   0   0   0   0   0   0   0   0   0   0   0   0   0    16    0    0   0.000      0  1.38
   28   28     6  25  63   0   0   0   0   0   0   0   0   0   0   0   6   0   0   0   0   0    16    0    0   0.987     36  0.96
   29   29     0   6   0   0   0   0   0   0   0   0   0   6   0   0   0   0   0   0  88   0    16    0    0   0.463     17  1.05
   30   30    19  63   0   6   6   0   0   0   0   0   0   0   0   0   0   0   0   0   6   0    16    0    0   1.127     41  0.94
   31   31    44   6  50   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0    16    0    0   0.882     32  1.18
   32   32     0   0   0   0   6   0   0   0   0   0   0  94   0   0   0   0   0   0   0   0    16    0    0   0.234      8  1.19
   33   33     0   0   0   0   0   0   0   0   0   0   0   0   0   0 100   0   0   0   0   0    16    0    0   0.000      0  1.38
   34   34     0   0   0   0   0   0   0   0   0  19   0   0   0  13   0   0  69   0   0   0    16    0    0   0.831     30  0.92
   35   35     0   0   0   0   0   0   0   0   0   0   0   0   0   0 100   0   0   0   0   0    15    0    0   0.000      0  1.38
   36   36     0   0   0   0  13   0  87   0   0   0   0   0   0   0   0   0   0   0   0   0    15    0    0   0.393     15  1.36
//
