Complet list of 1xj1 hssp file
Complete list of 1xj1.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 1XJ1
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 2014-05-12
HEADER VIRAL PROTEIN 22-SEP-04 1XJ1
COMPND MOL_ID: 1; MOLECULE: CYSTEINE-RICH OMEGA-CONOTOXIN HOMOLOG VHV1.1; CHA
SOURCE MOL_ID: 1; ORGANISM_SCIENTIFIC: CAMPOLETIS SONORENSIS ICHNOVIRUS; ORGA
AUTHOR J.EINERWOLD,J.JASEJA,K.HAPNER,B.WEBB,V.COPIE
DBREF 1XJ1 A 3 61 UNP Q89632 Q89632_CSV 159 217
SEQLENGTH 47
NCHAIN 1 chain(s) in 1XJ1 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 : Q89632_CSIV 1XI7 1.00 1.00 1 47 162 208 47 0 0 217 Q89632 ORF OS=Campoletis sonorensis ichnovirus PE=1 SV=1
2 : Q80KH5_CSIV 0.48 0.67 2 46 22 64 46 2 4 152 Q80KH5 UHv0.8 cys-motif protein (Precursor) OS=Campoletis sonorensis ichnovirus PE=4 SV=1
3 : Q80KH6_CSIV 0.42 0.60 2 46 22 64 45 1 2 180 Q80KH6 UHv0.8a cys-motif protein (Precursor) OS=Campoletis sonorensis ichnovirus PE=4 SV=1
4 : Q76TK3_CSIV 0.41 0.70 2 47 277 322 46 0 0 322 Q76TK3 VHv1.4 cysteine-rich protein OS=Campoletis sonorensis ichnovirus GN=VHv1.4 PE=2 SV=1
5 : Q98825_CSIVT 0.41 0.70 2 47 277 322 46 0 0 322 Q98825 VHv1.4 protein OS=Campoletis sonorensis ichnovirus (strain Texas A&M) GN=VHv1.4 PE=4 SV=1
## ALIGNMENTS 1 - 5
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 6 A T 0 0 186 2 0 T
2 7 A a - 0 0 61 6 0 CCCCC
3 8 A I - 0 0 28 6 0 IIIII
4 9 A G - 0 0 42 6 72 GGVPP
5 10 A H S S+ 0 0 125 6 42 HNNNN
6 11 A Y S S+ 0 0 153 6 85 YEEYY
7 12 A Q E -A 42 0A 98 6 79 QTTEE
8 13 A K E -A 41 0A 104 6 106 KNNLL
9 14 A b + 0 0 22 6 0 CCCCC
10 15 A V S S+ 0 0 94 6 0 VVVVV
11 16 A N S S+ 0 0 132 6 42 NHHNN
12 17 A A S S- 0 0 67 6 74 ATTSS
13 18 A D S S- 0 0 157 6 82 DTTKK
14 19 A K + 0 0 146 6 95 KLLRR
15 20 A P + 0 0 27 6 0 PPPPP
16 21 A c - 0 0 29 6 0 CCCCC
17 22 A a - 0 0 38 6 0 CCCCC
18 23 A S - 0 0 62 6 54 SSSWW
19 24 A K E +C 30 0B 151 5 76 K.REE
20 25 A T E -C 29 0B 86 5 99 T.YNN
21 26 A V E -C 28 0B 92 5 104 V.EKK
22 27 A R + 0 0 205 6 105 RRDLL
23 28 A Y - 0 0 232 6 53 YYGFF
24 29 A G S S+ 0 0 38 6 65 GEEAA
25 30 A D S S+ 0 0 174 6 68 DDIGG
26 31 A S - 0 0 92 6 19 SgSSS
27 32 A K - 0 0 146 5 97 Ki.SS
28 33 A N E -C 21 0B 114 5 78 NS.KK
29 34 A V E -C 20 0B 73 6 59 VPPPP
30 35 A R E -C 19 0B 115 6 0 RRRRR
31 36 A K E -B 45 0A 99 6 50 KKKNN
32 37 A F E -B 44 0A 21 6 0 FFFFF
33 38 A I E -B 43 0A 40 6 17 IVVVV
34 39 A b E -B 42 0A 22 6 0 CCCCC
35 40 A D E +B 41 0A 70 6 127 DWWGG
36 41 A R + 0 0 195 6 86 RRRLL
37 42 A D S S+ 0 0 157 6 111 DFFHH
38 43 A G S S- 0 0 50 6 0 GGGGG
39 44 A E S S- 0 0 178 6 96 ETTRR
40 45 A G S S+ 0 0 8 6 40 GGGSS
41 46 A V E -AB 8 35A 42 6 76 VIIYY
42 47 A c E +AB 7 34A 1 6 0 CCCCC
43 48 A V E - B 0 33A 29 6 89 VTTSS
44 49 A P E + B 0 32A 39 6 0 PPPPP
45 50 A F E + B 0 31A 112 6 34 FIIFF
46 51 A D 0 0 94 6 0 DDDDD
47 52 A G 0 0 101 4 0 G GG
## 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 6 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
2 7 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
3 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
4 9 A 17 0 0 0 0 0 0 50 0 33 0 0 0 0 0 0 0 0 0 0 6 0 0 1.011 33 0.28
5 10 A 0 0 0 0 0 0 0 0 0 0 0 0 0 33 0 0 0 0 67 0 6 0 0 0.637 21 0.57
6 11 A 0 0 0 0 0 0 67 0 0 0 0 0 0 0 0 0 0 33 0 0 6 0 0 0.637 21 0.14
7 12 A 0 0 0 0 0 0 0 0 0 0 0 33 0 0 0 0 33 33 0 0 6 0 0 1.099 36 0.20
8 13 A 0 33 0 0 0 0 0 0 0 0 0 0 0 0 0 33 0 0 33 0 6 0 0 1.099 36 -0.06
9 14 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
10 15 A 100 0 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
11 16 A 0 0 0 0 0 0 0 0 0 0 0 0 0 33 0 0 0 0 67 0 6 0 0 0.637 21 0.57
12 17 A 0 0 0 0 0 0 0 0 33 0 33 33 0 0 0 0 0 0 0 0 6 0 0 1.099 36 0.26
13 18 A 0 0 0 0 0 0 0 0 0 0 0 33 0 0 0 33 0 0 0 33 6 0 0 1.099 36 0.17
14 19 A 0 33 0 0 0 0 0 0 0 0 0 0 0 0 33 33 0 0 0 0 6 0 0 1.099 36 0.05
15 20 A 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 6 0 0 0.000 0 1.00
16 21 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
17 22 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
18 23 A 0 0 0 0 0 33 0 0 0 0 67 0 0 0 0 0 0 0 0 0 6 1 0 0.637 21 0.45
19 24 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 20 40 0 40 0 0 5 0 0 1.055 35 0.23
20 25 A 0 0 0 0 0 0 20 0 0 0 0 40 0 0 0 0 0 0 40 0 5 0 0 1.055 35 0.00
21 26 A 40 0 0 0 0 0 0 0 0 0 0 0 0 0 0 40 0 20 0 0 5 0 0 1.055 35 -0.05
22 27 A 0 33 0 0 0 0 0 0 0 0 0 0 0 0 50 0 0 0 0 17 6 0 0 1.011 33 -0.05
23 28 A 0 0 0 0 33 0 50 17 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 1.011 33 0.47
24 29 A 0 0 0 0 0 0 0 33 33 0 0 0 0 0 0 0 0 33 0 0 6 0 0 1.099 36 0.35
25 30 A 0 0 17 0 0 0 0 33 0 0 0 0 0 0 0 0 0 0 0 50 6 0 0 1.011 33 0.32
26 31 A 0 0 0 0 0 0 0 17 0 0 83 0 0 0 0 0 0 0 0 0 6 1 1 0.451 15 0.80
27 32 A 0 0 20 0 0 0 0 0 0 0 40 0 0 0 0 40 0 0 0 0 5 0 0 1.055 35 0.02
28 33 A 0 0 0 0 0 0 0 0 0 0 20 0 0 0 0 40 0 0 40 0 5 0 0 1.055 35 0.22
29 34 A 33 0 0 0 0 0 0 0 0 67 0 0 0 0 0 0 0 0 0 0 6 0 0 0.637 21 0.40
30 35 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 6 0 0 0.000 0 1.00
31 36 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 67 0 0 33 0 6 0 0 0.637 21 0.50
32 37 A 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0.000 0 1.00
33 38 A 67 0 33 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0.637 21 0.83
34 39 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
35 40 A 0 0 0 0 0 33 0 33 0 0 0 0 0 0 0 0 0 0 0 33 6 0 0 1.099 36 -0.27
36 41 A 0 33 0 0 0 0 0 0 0 0 0 0 0 0 67 0 0 0 0 0 6 0 0 0.637 21 0.14
37 42 A 0 0 0 0 33 0 0 0 0 0 0 0 0 33 0 0 0 0 0 33 6 0 0 1.099 36 -0.11
38 43 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0.000 0 1.00
39 44 A 0 0 0 0 0 0 0 0 0 0 0 33 0 0 33 0 0 33 0 0 6 0 0 1.099 36 0.04
40 45 A 0 0 0 0 0 0 0 67 0 0 33 0 0 0 0 0 0 0 0 0 6 0 0 0.637 21 0.59
41 46 A 33 0 33 0 0 0 33 0 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 1.099 36 0.24
42 47 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
43 48 A 33 0 0 0 0 0 0 0 0 0 33 33 0 0 0 0 0 0 0 0 6 0 0 1.099 36 0.10
44 49 A 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 6 0 0 0.000 0 1.00
45 50 A 0 0 33 0 67 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0.637 21 0.66
46 51 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
47 52 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
## INSERTION LIST
AliNo IPOS JPOS Len Sequence
2 23 44 1 gEi
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