Complet list of 1bqf hssp file
Complete list of 1bqf.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 1BQF
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 2014-04-27
HEADER HORMONE/GROWTH FACTOR 09-AUG-98 1BQF
COMPND MOL_ID: 1; MOLECULE: PROTEIN (GROWTH-BLOCKING PEPTIDE); CHAIN: A; OTHE
SOURCE MOL_ID: 1; ORGANISM_SCIENTIFIC: APANTELES KARIYAI; ORGANISM_TAXID: 740
AUTHOR T.AIZAWA,N.FUJITANI,Y.HAYAKAWA,A.OHNISHI,T.OHKUBO,K.KWANO, K.HIKICHI,K
DBREF 1BQF A 1 25 UNP Q27913 GBP_PSESE 1 25
SEQLENGTH 25
NCHAIN 1 chain(s) in 1BQF data set
NALIGN 19
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 : GBP_COTKA 1.00 1.00 1 25 1 25 25 0 0 25 P22800 Growth-blocking peptide OS=Cotesia kariyai PE=1 SV=1
2 : GBP_MYTSE 2EQT 1.00 1.00 1 25 121 145 25 0 0 145 Q27913 Growth-blocking peptide, long form OS=Mythimna separata PE=1 SV=2
3 : Q9TWU6_TRINI 0.91 1.00 1 23 1 23 23 0 0 24 Q9TWU6 Paralytic peptide I, PP I OS=Trichoplusia ni PE=1 SV=1
4 : PSP1_PSEIC 1B5N 0.87 1.00 1 23 119 141 23 0 0 141 O61704 Plasmatocyte-spreading peptide OS=Pseudoplusia includens GN=PSP1 PE=1 SV=1
5 : C5HYF5_HELVI 0.83 0.96 1 24 114 137 24 0 0 149 C5HYF5 Growth-blocking peptide OS=Heliothis virescens PE=2 SV=1
6 : O96060_MAMBR2DJ9 0.83 1.00 1 23 130 152 23 0 0 152 O96060 Growth-blocking peptide OS=Mamestra brassicae GN=GBP PE=1 SV=1
7 : E1CEG2_SAMCY 0.78 0.96 1 23 95 117 23 0 0 118 E1CEG2 Precursor of insect cytokine ENF peptide OS=Samia cynthia pryeri GN=preproENF PE=4 SV=1
8 : E1CEG5_9NEOP 0.78 0.96 1 23 102 124 23 0 0 125 E1CEG5 Precursor of insect cytokine ENF peptide OS=Neogurelca himachala sangaica GN=preproENF PE=2 SV=1
9 : E1CEG8_9NEOP 0.78 0.96 1 23 95 117 23 0 0 117 E1CEG8 Precursor of insect cytokine ENF peptide OS=Theretra japonica GN=preproENF PE=4 SV=1
10 : G1EIN6_SPOEX 0.78 0.91 1 23 77 99 23 0 0 100 G1EIN6 Paralytic peptide 1 (Fragment) OS=Spodoptera exigua PE=2 SV=1
11 : G6DMS0_DANPL 0.78 0.91 1 23 138 160 23 0 0 160 G6DMS0 Growth-blocking peptide OS=Danaus plexippus GN=KGM_21478 PE=4 SV=1
12 : R9WQX7_SPOEX 0.78 0.91 1 23 121 143 23 0 0 144 R9WQX7 Growth-blocking peptide OS=Spodoptera exigua PE=2 SV=1
13 : I4DJ29_PAPXU 0.74 0.87 1 23 106 128 23 0 0 128 I4DJ29 Uncharacterized protein OS=Papilio xuthus PE=2 SV=1
14 : O96061_SPOLT2DJC 0.74 0.91 1 23 122 144 23 0 0 144 O96061 Growth-blocking peptide (Fragment) OS=Spodoptera litura GN=GBP PE=1 SV=1
15 : Q95YI2_BOMMO1IRR 0.74 0.87 1 23 109 131 23 0 0 131 Q95YI2 Paralytic peptide OS=Bombyx mori GN=BmPP PE=1 SV=1
16 : Q9UA40_MANSE 0.74 0.96 1 23 108 130 23 0 0 130 Q9UA40 Plasmatocyte-spreading peptide (Precursor) OS=Manduca sexta GN=PPAR PE=2 SV=1
17 : Q0VJV7_MANSE 0.71 0.95 1 21 98 118 21 0 0 118 Q0VJV7 DVA-AP3-2 (Fragment) OS=Manduca sexta GN=PPAR PE=2 SV=1
18 : I4DS88_PAPPL 0.70 0.87 1 23 106 128 23 0 0 128 I4DS88 Uncharacterized protein OS=Papilio polytes PE=2 SV=1
19 : H9IVD4_BOMMO 0.61 0.83 1 23 85 107 23 0 0 107 H9IVD4 Uncharacterized protein OS=Bombyx mori GN=Bmo.6400 PE=4 SV=1
## ALIGNMENTS 1 - 19
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A E 0 0 216 20 5 EEEEEEEEEEEEEEEEEED
2 2 A N + 0 0 147 20 0 NNNNNNNNNNNNNNNNNNN
3 3 A F + 0 0 169 20 0 FFFFFFFFFFFFFFFFFFF
4 4 A S S S+ 0 0 68 20 73 SSSNSAAAAAAARAVAARK
5 5 A G S S- 0 0 67 20 10 GGGGGGGGGGAGGAGGGGG
6 6 A G S S- 0 0 89 20 13 GGGGGGGGGGGGAGGGGAG
7 7 A a - 0 0 51 20 0 CCCCCCCCCCCCCCCCCCC
8 8 A V > - 0 0 94 20 70 VVLLILAAATSTAAAAAAA
9 9 A A T 3 S+ 0 0 98 20 50 AAAAPTTTTPTPTTTTTTT
10 10 A G T 3 S+ 0 0 50 20 0 GGGGGGGGGGGGGGGGGGG
11 11 A Y E < -A 21 0A 103 20 3 YYYYYFFFFYYYYYFFFYF
12 12 A M E -A 20 0A 130 20 66 MMMMMMMMMQKQQQKLLEK
13 13 A R E -A 19 0A 202 20 0 RRRRRRRRRRRRRRRRRRR
14 14 A T - 0 0 54 20 0 TTTTTTTTTTTTTTTTTTT
15 15 A P S S+ 0 0 142 20 42 PPAAAPAAAAPASAAAASA
16 16 A D S S- 0 0 152 20 0 DDDDDDDDDDDDDDDDDDD
17 17 A G S S+ 0 0 29 20 0 GGGGGGGGGGGGGGGGGGG
18 18 A R - 0 0 135 20 0 RRRRRRRRRRRRRRRRRRR
19 19 A a E -A 13 0A 39 20 0 CCCCCCCCCCCCCCCCCCC
20 20 A K E -A 12 0A 104 20 7 KKKKKKKKKKKKKKKKKKR
21 21 A P E -A 11 0A 64 20 10 PPPPPPPPPPPPPPPPPSP
22 22 A T + 0 0 79 19 14 TTTTTTTTTTTTTTTT TI
23 23 A F + 0 0 162 19 10 FFFFVFFFFFFFFFFF FF
24 24 A Y 0 0 223 4 0 YY Y
25 25 A Q 0 0 230 3 0 QQ
## 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 95 0 5 20 0 0 0.199 6 0.95
2 2 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 20 0 0 0.000 0 1.00
3 3 A 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 20 0 0 0.000 0 1.00
4 4 A 5 0 0 0 0 0 0 0 50 0 25 0 0 0 10 5 0 0 5 0 20 0 0 1.373 45 0.27
5 5 A 0 0 0 0 0 0 0 90 10 0 0 0 0 0 0 0 0 0 0 0 20 0 0 0.325 10 0.89
6 6 A 0 0 0 0 0 0 0 90 10 0 0 0 0 0 0 0 0 0 0 0 20 0 0 0.325 10 0.87
7 7 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 20 0 0 0.000 0 1.00
8 8 A 15 15 5 0 0 0 0 0 50 0 5 10 0 0 0 0 0 0 0 0 20 0 0 1.446 48 0.29
9 9 A 0 0 0 0 0 0 0 0 25 15 0 60 0 0 0 0 0 0 0 0 20 0 0 0.938 31 0.50
10 10 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 20 0 0 0.000 0 1.00
11 11 A 0 0 0 0 40 0 60 0 0 0 0 0 0 0 0 0 0 0 0 0 20 0 0 0.673 22 0.96
12 12 A 0 10 0 50 0 0 0 0 0 0 0 0 0 0 0 15 20 5 0 0 20 0 0 1.333 44 0.33
13 13 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 20 0 0 0.000 0 1.00
14 14 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 20 0 0 0.000 0 1.00
15 15 A 0 0 0 0 0 0 0 0 65 25 10 0 0 0 0 0 0 0 0 0 20 0 0 0.857 28 0.57
16 16 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 20 0 0 0.000 0 1.00
17 17 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 20 0 0 0.000 0 1.00
18 18 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 20 0 0 0.000 0 1.00
19 19 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 20 0 0 0.000 0 1.00
20 20 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 95 0 0 0 0 20 0 0 0.199 6 0.93
21 21 A 0 0 0 0 0 0 0 0 0 95 5 0 0 0 0 0 0 0 0 0 20 0 0 0.199 6 0.90
22 22 A 0 0 5 0 0 0 0 0 0 0 0 95 0 0 0 0 0 0 0 0 19 0 0 0.206 6 0.86
23 23 A 5 0 0 0 95 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 19 0 0 0.206 6 0.90
24 24 A 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0.000 0 1.00
25 25 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 3 0 0 0.000 0 1.00
## INSERTION LIST
AliNo IPOS JPOS Len Sequence
//