Complet list of 1s6d hssp file
Complete list of 1s6d.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 1S6D
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 2014-05-09
HEADER PLANT PROTEIN 23-JAN-04 1S6D
COMPND MOL_ID: 1; MOLECULE: ALBUMIN 8; CHAIN: A; SYNONYM: METHIONINE-RICH 2S
SOURCE MOL_ID: 1; ORGANISM_SCIENTIFIC: HELIANTHUS ANNUUS; ORGANISM_COMMON: CO
AUTHOR D.PANTOJA-UCEDA,M.BRUIX,P.R.SHEWRY,J.SANTORO,M.RICO
DBREF 1S6D A 1 103 UNP P23110 2SS8_HELAN 39 141
SEQLENGTH 103
NCHAIN 1 chain(s) in 1S6D 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 : 2SS8_HELAN 1S6D 1.00 1.00 1 103 39 141 103 0 0 141 P23110 Albumin-8 OS=Helianthus annuus PE=1 SV=1
2 : 2SS2_BEREX 0.39 0.56 4 103 40 147 108 2 8 154 P0C8Y8 2S sulfur-rich seed storage protein 2 OS=Bertholletia excelsa GN=BE2S2 PE=3 SV=1
3 : B6EU54_BEREX 0.34 0.51 11 103 39 138 100 2 7 145 B6EU54 2S albumin (Precursor) OS=Bertholletia excelsa PE=2 SV=1
4 : 2SS1_BEREX 2LVF 0.31 0.52 11 103 40 139 100 2 7 146 P04403 2S sulfur-rich seed storage protein 1 OS=Bertholletia excelsa GN=BE2S1 PE=1 SV=2
5 : B6EU55_BEREX2LVF 0.30 0.51 11 103 40 139 100 2 7 146 B6EU55 2S albumin (Precursor) OS=Bertholletia excelsa PE=2 SV=1
## ALIGNMENTS 1 - 5
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A P 0 0 115 2 0 P
2 2 A Y - 0 0 133 2 0 Y
3 3 A G - 0 0 23 2 0 G
4 4 A R + 0 0 191 3 0 RR
5 5 A G - 0 0 44 3 0 GG
6 6 A R + 0 0 232 3 0 RR
7 7 A T - 0 0 111 3 79 TS
8 8 A E S S- 0 0 171 3 0 EE
9 9 A S S S+ 0 0 93 3 106 SQ
10 10 A G S >> S+ 0 0 27 3 86 GQ
11 11 A a H 3> S+ 0 0 19 6 0 CCCCC
12 12 A Y H >> S+ 0 0 56 6 125 YRPRR
13 13 A Q H <> S+ 0 0 113 6 44 QEEEE
14 14 A Q H 3X S+ 0 0 101 6 0 QQQQQ
15 15 A M H X< S+ 0 0 7 6 0 MMMMM
16 16 A E H >< S+ 0 0 81 6 41 EEQQQ
17 17 A E H 3< S+ 0 0 179 6 83 ERRRR
18 18 A A T << S- 0 0 23 6 72 AQQQQ
19 19 A E < + 0 0 81 6 44 EQQQQ
20 20 A M S > S+ 0 0 0 6 31 MQMMM
21 21 A L T 4 S+ 0 0 6 6 0 LLLLL
22 22 A N T > S+ 0 0 38 6 61 NNSSS
23 23 A H H >> S+ 0 0 43 6 0 HHHHH
24 24 A b H 3X S+ 0 0 2 6 0 CCCCC
25 25 A G H >> S+ 0 0 1 6 100 GRRRR
26 26 A M H << S+ 0 0 84 6 0 MMMMM
27 27 A Y H 3< S+ 0 0 126 6 0 YYYYY
28 28 A L H X< S+ 0 0 16 6 10 LLMMM
29 29 A M T 3X S+ 0 0 48 6 72 MRRRR
30 30 A K T 34 S+ 0 0 33 6 61 KQQQQ
31 31 A N T <4 S+ 0 0 130 6 78 NQMQQ
32 32 A L T 4 S- 0 0 46 6 11 LMMMM
33 33 A G S < S+ 0 0 62 6 69 GEKEE
34 34 A E S S- 0 0 99 6 0 EEEEE
35 35 A R - 0 0 193 6 77 RSSSS
36 36 A S + 0 0 97 6 61 SPPPP
37 37 A Q + 0 0 138 6 116 QYYYY
38 38 A V - 0 0 77 6 94 VQQQQ
39 39 A S S S+ 0 0 124 6 77 SNTTT
40 40 A P S S- 0 0 80 6 87 PPMMM
41 41 A R S S- 0 0 225 6 61 Rrppp
42 42 A M - 0 0 132 6 72 Mrrrr
43 43 A R + 0 0 203 6 100 RGGGG
44 44 A E - 0 0 108 6 87 EEMMM
45 45 A E - 0 0 106 6 0 EEEEE
46 46 A D + 0 0 103 6 77 DPPPP
47 47 A H + 0 0 53 6 0 HHHHH
48 48 A K S > S+ 0 0 106 6 80 KLMMM
49 49 A Q H > S+ 0 0 169 6 90 QDSSS
50 50 A L H > S+ 0 0 74 6 100 LEEEE
51 51 A b H > S+ 0 0 5 6 0 CCCCC
52 52 A c H < S+ 0 0 41 6 0 CCCCC
53 53 A M H >X S+ 0 0 84 6 94 MEEEE
54 54 A Q H 3X S+ 0 0 50 6 0 QQQQQ
55 55 A L H 3< S+ 0 0 3 6 0 LLLLL
56 56 A K H <4 S+ 0 0 157 6 66 KEEEE
57 57 A N H < S+ 0 0 122 6 80 NRGGG
58 58 A L S < S- 0 0 20 6 11 LMMMM
59 59 A D > - 0 0 97 6 0 DDDDD
60 60 A E G > S+ 0 0 122 6 0 EEEEE
61 61 A K G 3 S+ 0 0 148 6 87 KMSSS
62 62 A a G < S+ 0 0 4 6 0 CCCCC
63 63 A M S < S+ 0 0 10 6 72 MRRRR
64 64 A d S > S+ 0 0 17 6 0 CCCCC
65 65 A P H > S+ 0 0 29 6 77 PEEEE
66 66 A A H >> S+ 0 0 1 6 44 AGGGG
67 67 A I H 3> S+ 0 0 7 6 38 ILLLL
68 68 A M H >< S+ 0 0 114 6 72 MRRRR
69 69 A M H X< S+ 0 0 59 6 24 MMMMR
70 70 A M H >< S+ 0 0 7 6 0 MMMMM
71 71 A L T << S+ 0 0 7 6 10 LLMMM
72 72 A N T < S+ 0 0 74 6 89 Nrrmr
73 73 A E S X S- 0 0 39 6 94 Emmmm
74 74 A P T 3 S+ 0 0 104 6 76 PEQQQ
75 75 A M T 3 S+ 0 0 106 6 91 MLPPP
76 76 A W < + 0 0 4 6 38 WQRRR
77 77 A I S S- 0 0 100 6 100 IGGGG
78 78 A R S > S+ 0 0 201 6 83 REEEE
79 79 A M T >> S+ 0 0 55 6 83 MQQQQ
80 80 A R H 3> S+ 0 0 67 6 72 RMMMM
81 81 A D H <> S+ 0 0 102 6 84 DQRRR
82 82 A Q H <> S+ 0 0 110 6 73 QRMRR
83 83 A V H X S+ 0 0 1 6 51 VIMMM
84 84 A M H < S+ 0 0 60 6 0 MMMMM
85 85 A S H >X S+ 0 0 68 6 77 SRRRR
86 86 A M H >X S+ 0 0 97 6 36 MKMLL
87 87 A A H 3< S+ 0 0 1 6 0 AAAAA
88 88 A H H <4 S+ 0 0 41 6 61 HEEEE
89 89 A N H S+ 0 0 1 6 38 PLPPP
92 92 A I H >45S+ 0 0 36 6 88 ISSSS
93 93 A E H 3<5S+ 0 0 169 6 83 ERRRR
94 94 A c T 3<5S- 0 0 45 6 0 CCCCC
95 95 A N T < 5S+ 0 0 109 6 0 NNNNN
96 96 A L S