Complet list of 1d5q hssp file
Complete list of 1d5q.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 1D5Q
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 BINDING PROTEIN 11-OCT-99 1D5Q
COMPND MOL_ID: 1; MOLECULE: CHIMERIC MINI-PROTEIN; CHAIN: A; ENGINEERED: YES
SOURCE MOL_ID: 1; SYNTHETIC: YES; OTHER_DETAILS: SYNTHETIC MINIPROTEIN (SOLID
AUTHOR C.VITA,E.DRAKOPOULOU,J.VIZZANOVA,S.ROCHETTE,L.MARTIN, A.MENEZ,C.ROUMES
DBREF 1D5Q A 1 27 PDB 1D5Q 1D5Q 1 27
SEQLENGTH 27
NCHAIN 1 chain(s) in 1D5Q data set
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 : KAX52_ANDMA 1PNH 0.69 0.73 1 26 3 28 26 0 0 31 P31719 Potassium channel toxin alpha-KTx 5.2 OS=Androctonus mauretanicus mauretanicus PE=1 SV=1
2 : KAX53_MESMA 0.69 0.73 1 26 31 56 26 0 0 61 Q9TVX3 Potassium channel toxin alpha-KTx 5.3 OS=Mesobuthus martensii PE=1 SV=1
3 : B8XH32_BUTOS 0.65 0.73 1 26 31 56 26 0 0 61 B8XH32 Putative potassium channel toxin Tx479 OS=Buthus occitanus israelis PE=4 SV=1
4 : KAX51_LEIQH 1SCY 0.65 0.69 1 26 3 28 26 0 0 31 P16341 Potassium channel toxin alpha-KTx 5.1 OS=Leiurus quinquestriatus hebraeus PE=1 SV=1
5 : KAX54_MESTA 2LU9 0.65 0.73 1 26 3 28 26 0 0 31 P59869 Potassium channel toxin alpha-KTx 5.4 OS=Mesobuthus tamulus PE=1 SV=1
6 : KAX55_MESTA 0.65 0.73 1 26 3 28 26 0 0 31 P59870 Potassium channel toxin alpha-KTx 5.5 OS=Mesobuthus tamulus PE=1 SV=1
## ALIGNMENTS 1 - 6
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A a 0 0 61 7 0 CCCCCC
2 2 A N > - 0 0 74 7 0 NNNNNN
3 3 A L H > S+ 0 0 89 7 0 LLLLLL
4 4 A A H > S+ 0 0 60 7 66 RKRRRR
5 5 A R H > S+ 0 0 180 7 22 RRRMRR
6 6 A b H X S+ 0 0 5 7 0 CCCCCC
7 7 A Q H X S+ 0 0 90 7 34 QQEQEE
8 8 A L H X S+ 0 0 113 7 0 LLLLLL
9 9 A S H X S+ 0 0 73 7 0 SSSSSS
10 10 A c H X>S+ 0 0 0 7 0 CCCCCC
11 11 A K H <5S+ 0 0 149 7 23 RRRRRR
12 12 A S H <5S+ 0 0 110 7 0 SSSSSS
13 13 A L H <5S- 0 0 123 7 0 LLLLLL
14 14 A G T <5S+ 0 0 57 7 0 GGGGGG
15 15 A L S -A 23 0A 159 7 60 IIIIII
21 21 A G T 3 S- 0 0 82 7 0 GGGGGG
22 22 A S T 3 S+ 0 0 107 7 70 VDDDEE
23 23 A F E < -A 20 0A 147 7 107 KKTKEE
24 24 A b E +A 19 0A 46 7 0 CCCCCC
25 25 A T E -A 18 0A 66 7 84 EEIEKK
26 26 A c E A 17 0A 43 7 0 CCCCCC
27 27 A G 0 0 88 1 0
## 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 0 100 0 0 0 0 0 0 0 7 0 0 0.000 0 1.00
2 2 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
3 3 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
4 4 A 0 0 0 0 0 0 0 0 14 0 0 0 0 0 71 14 0 0 0 0 7 0 0 0.796 26 0.33
5 5 A 0 0 0 14 0 0 0 0 0 0 0 0 0 0 86 0 0 0 0 0 7 0 0 0.410 13 0.78
6 6 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
7 7 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 57 43 0 0 7 0 0 0.683 22 0.66
8 8 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
9 9 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
10 10 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
11 11 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 0.77
12 12 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
13 13 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 14 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
15 15 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
16 16 A 0 86 0 0 0 0 0 0 0 0 0 0 0 0 0 14 0 0 0 0 7 0 0 0.410 13 0.40
17 17 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
18 18 A 0 0 0 0 0 0 0 14 0 0 0 0 0 0 0 86 0 0 0 0 7 0 0 0.410 13 0.47
19 19 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
20 20 A 0 0 86 0 0 0 0 0 0 0 0 0 0 0 0 0 14 0 0 0 7 0 0 0.410 13 0.40
21 21 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
22 22 A 14 0 0 0 0 0 0 0 0 0 14 0 0 0 0 0 0 29 0 43 7 0 0 1.277 42 0.29
23 23 A 0 0 0 0 14 0 0 0 0 0 0 14 0 0 0 43 0 29 0 0 7 0 0 1.277 42 -0.08
24 24 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
25 25 A 0 0 14 0 0 0 0 0 0 0 0 14 0 0 0 29 0 43 0 0 7 0 0 1.277 42 0.16
26 26 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
27 27 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
## INSERTION LIST
AliNo IPOS JPOS Len Sequence
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