Complet list of 1hd6 hssp file
Complete list of 1hd6.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 1HD6
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 2014-04-30
HEADER PHEROMONE 09-NOV-00 1HD6
COMPND MOL_ID: 1; MOLECULE: PHEROMONE ER-22; CHAIN: A
SOURCE MOL_ID: 1; ORGANISM_SCIENTIFIC: EUPLOTES RAIKOVI; ORGANISM_TAXID: 5938
AUTHOR P.LUGINBUHL,A.LIU,O.ZERBE,C.ORTENZI,P.LUPORINI,K.WUTHRICH
DBREF 1HD6 A 1 37 PDB 1HD6 1HD6 1 37
SEQLENGTH 37
NCHAIN 1 chain(s) in 1HD6 data set
NALIGN 2
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 : MER22_EUPRA 1HD6 1.00 1.00 1 37 1 37 37 0 0 37 P58548 Mating pheromone Er-22 OS=Euplotes raikovi GN=MAT22 PE=1 SV=1
2 : MER20_EUPRA 0.73 0.81 1 37 1 37 37 0 0 37 P26888 Mating pheromone Er-20 (Fragment) OS=Euplotes raikovi GN=MAT20 PE=1 SV=1
## ALIGNMENTS 1 - 2
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A D >> 0 0 138 3 0 DD
2 2 A I H 3> + 0 0 65 3 0 II
3 3 A a H 3> S+ 0 0 14 3 0 CC
4 4 A D H <> S+ 0 0 100 3 0 DD
5 5 A I H X S+ 0 0 74 3 113 ID
6 6 A A H X>S+ 0 0 0 3 0 AA
7 7 A I H <5S+ 0 0 45 3 26 IV
8 8 A A H <5S+ 0 0 81 3 0 AA
9 9 A Q H <5S- 0 0 109 3 0 QQ
10 10 A b T <5 + 0 0 10 3 0 CC
11 11 A S >< - 0 0 27 3 0 SS
12 12 A L H > S+ 0 0 53 3 13 LM
13 13 A T H >4 S+ 0 0 104 3 0 TT
14 14 A L H >> S+ 0 0 26 3 0 LL
15 15 A c H >< S+ 0 0 0 3 0 CC
16 16 A Q T << S+ 0 0 140 3 0 QQ
17 17 A D T <4 S+ 0 0 102 3 133 DL
18 18 A a S X< S- 0 0 6 3 0 CC
19 19 A E T 3 S+ 0 0 171 3 133 EY
20 20 A N T >> S+ 0 0 64 3 0 NN
21 21 A T H <> S+ 0 0 35 3 0 TT
22 22 A P H 3> S+ 0 0 87 3 93 PE
23 23 A I H <> S+ 0 0 100 3 0 II
24 24 A c H X S+ 0 0 1 3 0 CC
25 25 A E H X S+ 0 0 74 3 0 EE
26 26 A L H X S+ 0 0 127 3 0 LL
27 27 A A H X S+ 0 0 35 3 73 AS
28 28 A V H X S+ 0 0 0 3 0 VV
29 29 A K H < S+ 0 0 114 3 113 KI
30 30 A G H < S+ 0 0 66 3 0 GG
31 31 A S H < S+ 0 0 68 3 0 SS
32 32 A b S < S- 0 0 32 3 0 CC
33 33 A P - 0 0 107 3 79 PQ
34 34 A P S S+ 0 0 72 3 0 PP
35 35 A P S S- 0 0 124 3 0 PP
36 36 A W 0 0 62 3 13 WF
37 37 A S 0 0 160 3 0 SS
## 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 0 0 100 3 0 0 0.000 0 1.00
2 2 A 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
3 3 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
4 4 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 3 0 0 0.000 0 1.00
5 5 A 0 0 67 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 33 3 0 0 0.637 21 -0.13
6 6 A 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
7 7 A 33 0 67 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.637 21 0.73
8 8 A 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
9 9 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
10 10 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
11 11 A 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
12 12 A 0 67 0 33 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.637 21 0.87
13 13 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
14 14 A 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
15 15 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
16 16 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
17 17 A 0 33 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 67 3 0 0 0.637 21 -0.33
18 18 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
19 19 A 0 0 0 0 0 0 33 0 0 0 0 0 0 0 0 0 0 67 0 0 3 0 0 0.637 21 -0.33
20 20 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 3 0 0 0.000 0 1.00
21 21 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
22 22 A 0 0 0 0 0 0 0 0 0 67 0 0 0 0 0 0 0 33 0 0 3 0 0 0.637 21 0.07
23 23 A 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
24 24 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 3 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 0 100 0 0 3 0 0 0.000 0 1.00
26 26 A 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
27 27 A 0 0 0 0 0 0 0 0 67 0 33 0 0 0 0 0 0 0 0 0 3 0 0 0.637 21 0.27
28 28 A 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
29 29 A 0 0 33 0 0 0 0 0 0 0 0 0 0 0 0 67 0 0 0 0 3 0 0 0.637 21 -0.13
30 30 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
31 31 A 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
32 32 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
33 33 A 0 0 0 0 0 0 0 0 0 67 0 0 0 0 0 0 33 0 0 0 3 0 0 0.637 21 0.20
34 34 A 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
35 35 A 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
36 36 A 0 0 0 0 33 67 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.637 21 0.87
37 37 A 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
## INSERTION LIST
AliNo IPOS JPOS Len Sequence
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