Complet list of 1t50 hssp file
Complete list of 1t50.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 1T50
THRESHOLD according to: t(L)=(290.15 * L ** -0.562) + 5
REFERENCE Sander C., Schneider R. : Database of homology-derived protein structures. Proteins, 9:56-68 (1991).
CONTACT Maintained at http://www.cmbi.ru.nl/ by Maarten L. Hekkelman
DATE file generated on 2014-05-10
HEADER ATTRACTIN 30-APR-04 1T50
COMPND MOL_ID: 1; MOLECULE: ATTRACTIN; CHAIN: A; ENGINEERED: YES
SOURCE MOL_ID: 1; ORGANISM_SCIENTIFIC: APLYSIA CALIFORNICA; ORGANISM_COMMON:
AUTHOR G.RAVINDRANATH,Y.XU,C.H.SCHEIN,K.RAJARATNAM,S.D.PAINTER, G.T.NAGLE,W.B
DBREF 1T50 A 1 58 UNP O96910 ATT_APLCA 19 76
SEQLENGTH 58
NCHAIN 1 chain(s) in 1T50 data set
NALIGN 5
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 : ACCNUM: 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 : identifier and alignment statistics
NR. ID STRID %IDE %WSIM IFIR ILAS JFIR JLAS LALI NGAP LGAP LSEQ2 ACCNUM PROTEIN
1 : ATT_APLCA 1T50 1.00 1.00 1 58 19 76 58 0 0 76 O96910 Attractin OS=Aplysia californica GN=ATT PE=1 SV=1
2 : ATT_APLFA 0.91 1.00 1 58 1 58 58 0 0 58 Q7M459 Attractin OS=Aplysia fasciata GN=ATT PE=1 SV=1
3 : C4P9J9_APLDA 0.76 0.88 1 58 1 58 58 0 0 58 C4P9J9 Attractin (Fragment) OS=Aplysia dactylomela PE=2 SV=1
4 : ATT_APLDE 0.38 0.75 1 52 1 52 52 0 0 56 Q7M460 Attractin OS=Aplysia depilans GN=ATT PE=1 SV=1
5 : ATT_APLVA 0.37 0.75 1 52 1 52 52 0 0 56 Q7M461 Attractin OS=Aplysia vaccaria GN=ATT PE=1 SV=1
## ALIGNMENTS 1 - 5
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A D 0 0 214 6 39 DDNNN
2 2 A Q - 0 0 118 6 60 QQQNN
3 3 A N S S- 0 0 91 6 60 NNNKK
4 4 A a - 0 0 21 6 0 CCCCC
5 5 A D > - 0 0 71 6 0 DDDDD
6 6 A I T 3> S+ 0 0 42 6 20 IIILI
7 7 A G T 34 S+ 0 0 31 6 55 GGGEE
8 8 A N T <4 S+ 0 0 93 6 110 NNNFF
9 9 A I T >> S+ 0 0 27 6 82 IIIAA
10 10 A T H >X S+ 0 0 7 6 35 TTTST
11 11 A S H 3> S+ 0 0 58 6 0 SSSSS
12 12 A Q H <> S+ 0 0 136 6 44 QQQEE
13 13 A b H - 0 0 95 6 27 DDDEE
23 23 A A T 4 S+ 0 0 13 6 26 AAEAA
24 24 A N T 4 S+ 0 0 110 6 86 NNISS
25 25 A G T 4 S+ 0 0 61 6 56 GGGNS
26 26 A c S < S+ 0 0 50 6 0 CCCCC
27 27 A D + 0 0 37 6 75 DNDTT
28 28 A T S S+ 0 0 106 6 60 TTTAA
29 29 A I S >> S+ 0 0 85 6 41 IIVLL
30 30 A I H 3> S+ 0 0 0 6 0 IIIII
31 31 A E H 3> S+ 0 0 111 6 0 EEEEE
32 32 A E H <> S+ 0 0 133 6 0 EEEEE
33 33 A b H X S+ 0 0 29 6 0 CCCCC
34 34 A K H X S+ 0 0 6 6 0 KKKKK
35 35 A T H X S+ 0 0 37 6 0 TTTTT
36 36 A S H < S+ 0 0 69 6 0 SSSSS
37 37 A M H >< S+ 0 0 103 6 11 MMMLL
38 38 A V H >< S+ 0 0 2 6 93 VVVQQ
39 39 A E G >< S+ 0 0 93 6 0 EEEEE
40 40 A R G < S+ 0 0 187 6 82 RRREE
41 41 A a G X> S+ 0 0 0 6 0 CCCCC
42 42 A Q H <>> + 0 0 62 6 53 QQQDN
43 43 A N H 345S+ 0 0 139 6 60 NNNQQ
44 44 A Q H <45S+ 0 0 97 6 71 QQQAA
45 45 A E H <5S- 0 0 13 6 74 EEGSS
46 46 A F T <5 - 0 0 99 6 99 FFFSS
47 47 A E > < - 0 0 26 6 18 EEDED
48 48 A S T 3 S- 0 0 23 6 70 SSLSE
49 49 A A T 3 S- 0 0 20 6 64 AAGSS
50 50 A A S < S- 0 0 48 6 38 ASSSS
51 51 A G S S+ 0 0 21 6 69 GGDTT
52 52 A S S S+ 0 0 124 6 78 SSETT
53 53 A T S S- 0 0 92 4 0 TTT
54 54 A T + 0 0 106 4 0 TTT
55 55 A L - 0 0 86 4 0 LLL
56 56 A G S S+ 0 0 67 4 0 GGG
57 57 A P 0 0 113 4 0 PPP
58 58 A Q 0 0 65 4 0 QQQ
## 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 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 50 50 6 0 0 0.693 23 0.61
2 2 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 67 0 33 0 6 0 0 0.637 21 0.39
3 3 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 33 0 0 67 0 6 0 0 0.637 21 0.39
4 4 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 6 0 0 0.000 0 1.00
5 5 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 6 0 0 0.000 0 1.00
6 6 A 0 17 83 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0.451 15 0.80
7 7 A 0 0 0 0 0 0 0 67 0 0 0 0 0 0 0 0 0 33 0 0 6 0 0 0.637 21 0.45
8 8 A 0 0 0 0 33 0 0 0 0 0 0 0 0 0 0 0 0 0 67 0 6 0 0 0.637 21 -0.10
9 9 A 0 0 67 0 0 0 0 0 33 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0.637 21 0.17
10 10 A 0 0 0 0 0 0 0 0 0 0 17 83 0 0 0 0 0 0 0 0 6 0 0 0.451 15 0.65
11 11 A 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 6 0 0 0.000 0 1.00
12 12 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 67 33 0 0 6 0 0 0.637 21 0.56
13 13 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 6 0 0 0.000 0 1.00
14 14 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 17 0 50 33 0 0 6 0 0 1.011 33 0.52
15 15 A 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0.000 0 1.00
16 16 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 33 0 67 0 0 0 6 0 0 0.637 21 0.39
17 17 A 0 0 0 0 0 0 33 0 0 0 0 0 0 67 0 0 0 0 0 0 6 0 0 0.637 21 0.34
18 18 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 33 50 17 0 0 6 0 0 1.011 33 0.47
19 19 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 67 33 6 0 0 0.637 21 0.56
20 20 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 6 0 0 0.000 0 1.00
21 21 A 0 0 0 0 0 0 0 33 17 0 0 0 0 0 0 0 0 33 0 17 6 0 0 1.330 44 0.40
22 22 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 33 0 67 6 0 0 0.637 21 0.72
23 23 A 0 0 0 0 0 0 0 0 83 0 0 0 0 0 0 0 0 17 0 0 6 0 0 0.451 15 0.73
24 24 A 0 0 17 0 0 0 0 0 0 0 33 0 0 0 0 0 0 0 50 0 6 0 0 1.011 33 0.14
25 25 A 0 0 0 0 0 0 0 67 0 0 17 0 0 0 0 0 0 0 17 0 6 0 0 0.868 28 0.43
26 26 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 6 0 0 0.000 0 1.00
27 27 A 0 0 0 0 0 0 0 0 0 0 0 33 0 0 0 0 0 0 17 50 6 0 0 1.011 33 0.25
28 28 A 0 0 0 0 0 0 0 0 33 0 0 67 0 0 0 0 0 0 0 0 6 0 0 0.637 21 0.39
29 29 A 17 33 50 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 1.011 33 0.58
30 30 A 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0.000 0 1.00
31 31 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 6 0 0 0.000 0 1.00
32 32 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 6 0 0 0.000 0 1.00
33 33 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 6 0 0 0.000 0 1.00
34 34 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 6 0 0 0.000 0 1.00
35 35 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 6 0 0 0.000 0 1.00
36 36 A 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 6 0 0 0.000 0 1.00
37 37 A 0 33 0 67 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0.637 21 0.89
38 38 A 67 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 33 0 0 0 6 0 0 0.637 21 0.06
39 39 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 6 0 0 0.000 0 1.00
40 40 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 67 0 0 33 0 0 6 0 0 0.637 21 0.17
41 41 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 6 0 0 0.000 0 1.00
42 42 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 67 0 17 17 6 0 0 0.868 28 0.46
43 43 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 33 0 67 0 6 0 0 0.637 21 0.39
44 44 A 0 0 0 0 0 0 0 0 33 0 0 0 0 0 0 0 67 0 0 0 6 0 0 0.637 21 0.28
45 45 A 0 0 0 0 0 0 0 17 0 0 33 0 0 0 0 0 0 50 0 0 6 0 0 1.011 33 0.26
46 46 A 0 0 0 0 67 0 0 0 0 0 33 0 0 0 0 0 0 0 0 0 6 0 0 0.637 21 0.01
47 47 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 67 0 33 6 0 0 0.637 21 0.81
48 48 A 0 17 0 0 0 0 0 0 0 0 67 0 0 0 0 0 0 17 0 0 6 0 0 0.868 28 0.30
49 49 A 0 0 0 0 0 0 0 17 50 0 33 0 0 0 0 0 0 0 0 0 6 0 0 1.011 33 0.36
50 50 A 0 0 0 0 0 0 0 0 33 0 67 0 0 0 0 0 0 0 0 0 6 0 0 0.637 21 0.61
51 51 A 0 0 0 0 0 0 0 50 0 0 0 33 0 0 0 0 0 0 0 17 6 0 0 1.011 33 0.30
52 52 A 0 0 0 0 0 0 0 0 0 0 50 33 0 0 0 0 0 17 0 0 6 0 0 1.011 33 0.22
53 53 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 4 0 0 0.000 0 1.00
54 54 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 4 0 0 0.000 0 1.00
55 55 A 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0.000 0 1.00
56 56 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0.000 0 1.00
57 57 A 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 4 0 0 0.000 0 1.00
58 58 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 4 0 0 0.000 0 1.00
## INSERTION LIST
AliNo IPOS JPOS Len Sequence
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