Complet list of 2b9z hssp file
Complete list of 2b9z.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 2B9Z
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 2014-05-16
HEADER VIRAL PROTEIN 13-OCT-05 2B9Z
COMPND MOL_ID: 1; MOLECULE: B2 PROTEIN; CHAIN: A, B; ENGINEERED: YES
SOURCE MOL_ID: 1; ORGANISM_SCIENTIFIC: FLOCK HOUSE VIRUS; ORGANISM_TAXID: 122
AUTHOR A.LINGEL,B.SIMON,E.IZAURRALDE,M.SATTLER
DBREF 2B9Z A 1 72 UNP P68831 B2_FHV 1 72
DBREF 2B9Z B 1 72 UNP P68831 B2_FHV 1 72
SEQLENGTH 74
NCHAIN 2 chain(s) in 2B9Z data set
KCHAIN 1 chain(s) used here ; chains(s) : A
NALIGN 6
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 : B2_BBV 0.99 1.00 3 74 1 72 72 0 0 106 P68830 Protein B2 OS=Black beetle virus GN=B2 PE=2 SV=1
2 : B2_FHV 2AZ2 0.99 1.00 3 74 1 72 72 0 0 106 P68831 Protein B2 OS=Flock house virus GN=B2 PE=1 SV=1
3 : G4WWB1_FHV 0.97 0.99 3 74 1 72 72 0 0 106 G4WWB1 Protein B2 OS=Flock house virus PE=4 SV=1
4 : D0U499_9VIRU 0.96 0.99 3 74 1 72 72 0 0 106 D0U499 Protein B2 OS=Drosophila melanogaster American nodavirus (ANV) SW-2009a PE=4 SV=1
5 : B2_BOOLV 0.82 0.90 3 74 1 72 72 0 0 106 Q992I9 Protein B2 OS=Boolarra virus GN=B2 PE=2 SV=1
6 : E9MW24_9VIRU 0.40 0.53 12 73 26 86 62 1 1 131 E9MW24 B2-like protein OS=Penaeus vannamei nodavirus PE=4 SV=1
## ALIGNMENTS 1 - 6
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 -1 A G 0 0 128 1 0
2 0 A A - 0 0 94 1 0
3 1 A M - 0 0 163 6 0 MMMMM
4 2 A P - 0 0 92 6 63 PPPPQ
5 3 A S > - 0 0 60 6 0 SSSSS
6 4 A K H > S+ 0 0 32 6 0 KKKKK
7 5 A L H > S+ 0 0 34 6 0 LLLLL
8 6 A A H > S+ 0 0 37 6 0 AAAAA
9 7 A L H X S+ 0 0 25 6 0 LLLLL
10 8 A I H < S+ 0 0 0 6 0 IIIII
11 9 A Q H < S+ 0 0 91 6 0 QQQQQ
12 10 A E H X S+ 0 0 65 7 25 EEEEED
13 11 A L H X S+ 0 0 2 7 0 LLLLLL
14 12 A P H > S+ 0 0 39 7 60 PPPPPG
15 13 A D H > S+ 0 0 91 7 40 DDDDDQ
16 14 A R H X S+ 0 0 60 7 90 RRRRRV
17 15 A I H X S+ 0 0 2 7 0 IIIIII
18 16 A Q H X S+ 0 0 104 7 0 QQQQQQ
19 17 A T H X S+ 0 0 63 7 85 TTTTKV
20 18 A A H < S+ 0 0 1 7 65 AAAAAV
21 19 A V H X S+ 0 0 1 7 17 VVVAVV
22 20 A E H X S+ 0 0 90 7 75 EEEEER
23 21 A A H < S+ 0 0 9 7 28 AAAAVA
24 22 A A H 4 S+ 0 0 0 7 83 AAAAVI
25 23 A M H < S+ 0 0 43 7 93 MMMMLN
26 24 A G S < S+ 0 0 69 7 57 GGGGAS
27 25 A M - 0 0 11 7 10 MMMMML
28 26 A S > + 0 0 50 7 55 SSSSSP
29 27 A Y G > + 0 0 59 7 90 YYYYYA
30 28 A Q G 3 S+ 0 0 139 7 105 QQQQQC
31 29 A D G < S+ 0 0 106 7 46 DDDDEQ
32 30 A A S < S- 0 0 3 7 60 AAAAAD
33 31 A P > - 0 0 46 7 0 PPPPPP
34 32 A N H > S+ 0 0 105 6 0 NNNNN.
35 33 A N H > S+ 0 0 107 7 70 NNNNNR
36 34 A V H > S+ 0 0 7 7 0 VVVVVV
37 35 A R H X S+ 0 0 74 7 90 RRRRRI
38 36 A R H X S+ 0 0 125 7 35 RRRRRK
39 37 A D H X S+ 0 0 31 7 0 DDDDDD
40 38 A L H X S+ 0 0 1 7 0 LLLLLL
41 39 A D H X S+ 0 0 62 7 0 DDDDDD
42 40 A N H X S+ 0 0 69 7 0 NNNNNN
43 41 A L H X S+ 0 0 0 7 60 LLLLLY
44 42 A H H X S+ 0 0 31 7 78 HHHHQK
45 43 A A H X S+ 0 0 52 7 40 AAAAAG
46 44 A C H X S+ 0 0 27 7 0 CCCCCC
47 45 A L H X S+ 0 0 1 7 0 LLLLLL
48 46 A N H X S+ 0 0 76 7 65 NNNNNA
49 47 A K H X S+ 0 0 108 7 0 KKKKKK
50 48 A A H X S+ 0 0 6 7 80 AAAAAL
51 49 A K H X S+ 0 0 34 7 60 KKKKKE
52 50 A L H X S+ 0 0 87 7 101 LLLLQT
53 51 A T H X S+ 0 0 57 7 0 TTTTTT
54 52 A V H X S+ 0 0 2 7 65 VVVVVC
55 53 A G H X S+ 0 0 15 7 115 SSRSNF
56 54 A R H X S+ 0 0 134 7 0 RRRRRR
57 55 A M H X S+ 0 0 27 7 75 MMMMMA
58 56 A V H X S+ 0 0 2 7 65 VVVVVT
59 57 A T H X S+ 0 0 76 7 65 TTTTTD
60 58 A S H >< S+ 0 0 42 7 0 SSSSSS
61 59 A L H >< S+ 0 0 0 7 0 LLLLLL
62 60 A L H 3< S+ 0 0 56 7 0 LLLLLL
63 61 A E T << S+ 0 0 126 7 71 EEEEDS
64 62 A K <> - 0 0 46 7 0 KKKKKK
65 63 A P H > S+ 0 0 107 7 0 PPPPPP
66 64 A S H > S+ 0 0 65 7 70 SSSSSR
67 65 A V H > S+ 0 0 2 7 19 VVVVMV
68 66 A V H X S+ 0 0 24 7 71 VVVVAA
69 67 A A H X>S+ 0 0 18 7 0 AAAAAA
70 68 A Y H <5S+ 0 0 88 7 90 YYYYYA
71 69 A L H <5S+ 0 0 0 7 0 LLLLLL
72 70 A E H <5S- 0 0 74 7 60 EEEEEK
73 71 A G T <5 0 0 60 7 0 GGGGGG
74 72 A K < 0 0 192 6 23 KKRRK
## 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
165535 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 1 0 0 0.000 0 1.00
2 0 A 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 1 0 0 0.000 0 1.00
3 1 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
4 2 A 0 0 0 0 0 0 0 0 0 83 0 0 0 0 0 0 17 0 0 0 6 0 0 0.451 15 0.36
5 3 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
6 4 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
7 5 A 0 100 0 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
8 6 A 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0.000 0 1.00
9 7 A 0 100 0 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
10 8 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
11 9 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 6 0 0 0.000 0 1.00
12 10 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 86 0 14 7 0 0 0.410 13 0.75
13 11 A 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0.000 0 1.00
14 12 A 0 0 0 0 0 0 0 14 0 86 0 0 0 0 0 0 0 0 0 0 7 0 0 0.410 13 0.40
15 13 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 14 0 0 86 7 0 0 0.410 13 0.60
16 14 A 14 0 0 0 0 0 0 0 0 0 0 0 0 0 86 0 0 0 0 0 7 0 0 0.410 13 0.10
17 15 A 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0.000 0 1.00
18 16 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 7 0 0 0.000 0 1.00
19 17 A 14 0 0 0 0 0 0 0 0 0 0 71 0 0 0 14 0 0 0 0 7 0 0 0.796 26 0.14
20 18 A 14 0 0 0 0 0 0 0 86 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0.410 13 0.35
21 19 A 86 0 0 0 0 0 0 0 14 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0.410 13 0.83
22 20 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 14 0 0 86 0 0 7 0 0 0.410 13 0.25
23 21 A 14 0 0 0 0 0 0 0 86 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0.410 13 0.72
24 22 A 14 0 14 0 0 0 0 0 71 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0.796 26 0.17
25 23 A 0 14 0 71 0 0 0 0 0 0 0 0 0 0 0 0 0 0 14 0 7 0 0 0.796 26 0.06
26 24 A 0 0 0 0 0 0 0 71 14 0 14 0 0 0 0 0 0 0 0 0 7 0 0 0.796 26 0.43
27 25 A 0 14 0 86 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0.410 13 0.90
28 26 A 0 0 0 0 0 0 0 0 0 14 86 0 0 0 0 0 0 0 0 0 7 0 0 0.410 13 0.45
29 27 A 0 0 0 0 0 0 86 0 14 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0.410 13 0.10
30 28 A 0 0 0 0 0 0 0 0 0 0 0 0 14 0 0 0 86 0 0 0 7 0 0 0.410 13 -0.05
31 29 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 14 14 0 71 7 0 0 0.796 26 0.53
32 30 A 0 0 0 0 0 0 0 0 86 0 0 0 0 0 0 0 0 0 0 14 7 0 0 0.410 13 0.40
33 31 A 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 7 1 0 0.000 0 1.00
34 32 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 6 0 0 0.000 0 1.00
35 33 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 14 0 0 0 86 0 7 0 0 0.410 13 0.30
36 34 A 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0.000 0 1.00
37 35 A 0 0 14 0 0 0 0 0 0 0 0 0 0 0 86 0 0 0 0 0 7 0 0 0.410 13 0.10
38 36 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 86 14 0 0 0 0 7 0 0 0.410 13 0.65
39 37 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 7 0 0 0.000 0 1.00
40 38 A 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0.000 0 1.00
41 39 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 7 0 0 0.000 0 1.00
42 40 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 7 0 0 0.000 0 1.00
43 41 A 0 86 0 0 0 0 14 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0.410 13 0.40
44 42 A 0 0 0 0 0 0 0 0 0 0 0 0 0 71 0 14 14 0 0 0 7 0 0 0.796 26 0.22
45 43 A 0 0 0 0 0 0 0 14 86 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0.410 13 0.60
46 44 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 7 0 0 0.000 0 1.00
47 45 A 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0.000 0 1.00
48 46 A 0 0 0 0 0 0 0 0 14 0 0 0 0 0 0 0 0 0 86 0 7 0 0 0.410 13 0.35
49 47 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 7 0 0 0.000 0 1.00
50 48 A 0 14 0 0 0 0 0 0 86 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0.410 13 0.20
51 49 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 86 0 14 0 0 7 0 0 0.410 13 0.40
52 50 A 0 71 0 0 0 0 0 0 0 0 0 14 0 0 0 0 14 0 0 0 7 0 0 0.796 26 -0.01
53 51 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 7 0 0 0.000 0 1.00
54 52 A 86 0 0 0 0 0 0 0 0 0 0 0 14 0 0 0 0 0 0 0 7 0 0 0.410 13 0.35
55 53 A 0 0 0 0 14 0 0 14 0 0 43 0 0 0 14 0 0 0 14 0 7 0 0 1.475 49 -0.15
56 54 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 7 0 0 0.000 0 1.00
57 55 A 0 0 0 86 0 0 0 0 14 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0.410 13 0.25
58 56 A 86 0 0 0 0 0 0 0 0 0 0 14 0 0 0 0 0 0 0 0 7 0 0 0.410 13 0.35
59 57 A 0 0 0 0 0 0 0 0 0 0 0 86 0 0 0 0 0 0 0 14 7 0 0 0.410 13 0.35
60 58 A 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 7 0 0 0.000 0 1.00
61 59 A 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0.000 0 1.00
62 60 A 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0.000 0 1.00
63 61 A 0 0 0 0 0 0 0 0 0 0 14 0 0 0 0 0 0 71 0 14 7 0 0 0.796 26 0.28
64 62 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 7 0 0 0.000 0 1.00
65 63 A 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 7 0 0 0.000 0 1.00
66 64 A 0 0 0 0 0 0 0 0 0 0 86 0 0 0 14 0 0 0 0 0 7 0 0 0.410 13 0.30
67 65 A 86 0 0 14 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0.410 13 0.80
68 66 A 71 0 0 0 0 0 0 0 29 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0.598 19 0.29
69 67 A 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0.000 0 1.00
70 68 A 0 0 0 0 0 0 86 0 14 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0.410 13 0.10
71 69 A 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0.000 0 1.00
72 70 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 14 0 86 0 0 7 0 0 0.410 13 0.40
73 71 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0.000 0 1.00
74 72 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 33 67 0 0 0 0 6 0 0 0.637 21 0.77
## INSERTION LIST
AliNo IPOS JPOS Len Sequence
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