Complet list of 2brz hssp file
Complete list of 2brz.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 2BRZ
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 2014-05-17
HEADER SWEET PROTEIN 30-APR-98 2BRZ
COMPND MOL_ID: 1; MOLECULE: BRAZZEIN; CHAIN: A
SOURCE MOL_ID: 1; ORGANISM_SCIENTIFIC: PENTADIPLANDRA BRAZZEANA; ORGANISM_TAX
AUTHOR J.E.CALDWELL,F.ABILDGAARD,Z.DZAKULA,D.MING,G.HELLEKANT, J.L.MARKLEY
DBREF 2BRZ A 2 54 UNP P56552 BRAZ_PENBA 2 54
SEQLENGTH 54
NCHAIN 1 chain(s) in 2BRZ data set
NALIGN 1
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 : DEF_PENBA 2LY5 1.00 1.00 2 54 2 54 53 0 0 54 P56552 Defensin-like protein OS=Pentadiplandra brazzeana PE=1 SV=1
## ALIGNMENTS 1 - 1
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A X 0 0 177 0 0
2 2 A D - 0 0 136 2 0 D
3 3 A K + 0 0 189 2 0 K
4 4 A a + 0 0 33 2 0 C
5 5 A K E +A 50 0A 109 2 0 K
6 6 A K E -A 49 0A 74 2 0 K
7 7 A V E -A 48 0A 65 2 0 V
8 8 A Y - 0 0 67 2 0 Y
9 9 A E S S+ 0 0 145 2 0 E
10 10 A N S S+ 0 0 126 2 0 N
11 11 A Y - 0 0 64 2 0 Y
12 12 A P - 0 0 88 2 0 P
13 13 A V S S+ 0 0 108 2 0 V
14 14 A S + 0 0 54 2 0 S
15 15 A K + 0 0 155 2 0 K
16 16 A b + 0 0 15 2 0 C
17 17 A Q S S+ 0 0 165 2 0 Q
18 18 A L S > S- 0 0 139 2 0 L
19 19 A A T 3 S+ 0 0 64 2 0 A
20 20 A N T 3>>S+ 0 0 98 2 0 N
21 21 A Q H <>5S+ 0 0 62 2 0 Q
22 22 A c H >5S+ 0 0 1 2 0 C
23 23 A N H >5S+ 0 0 41 2 0 N
24 24 A Y H <5S+ 0 0 127 2 0 Y
25 25 A D H >XXS+ 0 0 11 2 0 D
26 26 A d H 3X5S+ 0 0 2 2 0 C
27 27 A K H 3<5S- 0 0 127 2 0 K
28 28 A L H X45S+ 0 0 113 2 0 L
29 29 A D H 3<5S+ 0 0 76 2 0 D
30 30 A K T 3<