Complet list of 1zfu hssp file
Complete list of 1zfu.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 1ZFU
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 2014-05-14
HEADER ANTIMICROBIAL PROTEIN 20-APR-05 1ZFU
COMPND MOL_ID: 1; MOLECULE: PLECTASIN; CHAIN: A; FRAGMENT: RESIDUES 56-95; EN
SOURCE MOL_ID: 1; ORGANISM_SCIENTIFIC: PSEUDOPLECTANIA NIGRELLA; ORGANISM_TAX
AUTHOR P.H.MYGIND,R.L.FISCHER,K.SCHNORR,M.T.HANSEN,C.P.SONKSEN, S.LUDVIGSEN,D
DBREF 1ZFU A 1 40 UNP Q53I06 Q53I06_9PEZI 56 95
SEQLENGTH 40
NCHAIN 1 chain(s) in 1ZFU data set
NALIGN 7
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 : PLECT_PSENR 3E7U 1.00 1.00 1 40 56 95 40 0 0 95 Q53I06 Plectasin OS=Pseudoplectania nigrella GN=DEF PE=1 SV=1
2 : U4LUG1_PYROM 0.95 1.00 1 40 56 95 40 0 0 95 U4LUG1 Similar to Plectasin acc. no. Q53I06 OS=Pyronema omphalodes (strain CBS 100304) GN=PCON_01609 PE=4 SV=1
3 : U4LWE8_PYROM 0.93 0.98 1 40 53 92 40 0 0 92 U4LWE8 Similar to Plectasin acc. no. Q53I06 OS=Pyronema omphalodes (strain CBS 100304) GN=PCON_01610 PE=4 SV=1
4 : U4LND7_PYROM 0.90 0.98 1 40 56 95 40 0 0 95 U4LND7 Similar to Plectasin acc. no. Q53I06 OS=Pyronema omphalodes (strain CBS 100304) GN=PCON_01608 PE=4 SV=1
5 : U4LNY7_PYROM 0.90 0.95 1 40 55 94 40 0 0 94 U4LNY7 Similar to Plectasin acc. no. Q53I06 OS=Pyronema omphalodes (strain CBS 100304) GN=PCON_01606 PE=4 SV=1
6 : DEF1_CRAVI 0.54 0.66 1 40 1 36 41 4 6 38 P85008 Defensin-1 OS=Crassostrea virginica PE=1 SV=1
7 : G1E712_9BIVA 0.50 0.62 1 40 24 64 42 3 3 65 G1E712 Defensin OS=Hyriopsis schlegelii PE=4 SV=1
## ALIGNMENTS 1 - 7
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A G 0 0 8 8 0 GGGGGGG
2 2 A F + 0 0 174 8 0 FFFFFFF
3 3 A G + 0 0 2 8 0 GGGGGGG
4 4 A a + 0 0 13 8 0 CCCCCCC
5 5 A N - 0 0 85 7 18 NNNNG.N
6 6 A G - 0 0 6 7 0 GGGGG.G
7 7 A P S S+ 0 0 92 8 0 PPPPPPP
8 8 A W S S- 0 0 162 8 46 WWWWWWK
9 9 A D S S+ 0 0 93 7 13 DDDDN.D
10 10 A E - 0 0 107 7 54 EEEEE.H
11 11 A D - 0 0 64 8 22 DDDDDND
12 12 A D S > S+ 0 0 119 8 80 DDDDDRP
13 13 A M H > S+ 0 0 107 8 83 MMMMMYY
14 14 A Q H > S+ 0 0 111 8 37 QKKKQQQ
15 15 A b H > S+ 0 0 3 8 0 CCCCCCC
16 16 A H H X S+ 0 0 56 8 33 HHHHHHN
17 17 A N H X S+ 0 0 86 8 70 NNNNNSA
18 18 A H H X S+ 0 0 73 8 0 HHHHHHH
19 19 A c H < S+ 0 0 0 8 0 CCCCCCC
20 20 A K H < S+ 0 0 118 8 36 KKKKKRR
21 21 A S H < S+ 0 0 101 8 57 SSSTSSR
22 22 A I S >< S- 0 0 68 8 59 IIIIIIN
23 23 A K T 3 S+ 0 0 196 6 0 KKKKK..
24 24 A G T 3 S+ 0 0 78 8 0 GGGGGGG
25 25 A Y < - 0 0 105 8 60 YYYYYRF
26 26 A K - 0 0 141 8 86 KKKKKLT
27 27 A G - 0 0 2 8 0 GGGGGGG
28 28 A G E -A 39 0A 20 8 0 GGGGGGG
29 29 A Y E -A 38 0A 117 8 0 YYYYYYY
30 30 A a E -A 37 0A 47 8 0 CCCCCCC
31 31 A A E >> +A 36 0A 11 8 43 AAAAAAn
32 32 A K T >45S- 0 0 163 8 86 KKSSSGw
33 33 A G T 345S- 0 0 64 8 87 GAAAAsl
34 34 A G T 345S+ 0 0 25 8 114 GGGGGrw
35 35 A F T <<5S+ 0 0 103 8 15 FFFFFLY
36 36 A V E