Complet list of 1erd hssp file
Complete list of 1erd.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 1ERD
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 2014-04-28
HEADER PHEROMONE 14-FEB-94 1ERD
COMPND MOL_ID: 1; MOLECULE: PHEROMONE ER-2; CHAIN: A; ENGINEERED: YES
SOURCE MOL_ID: 1; ORGANISM_SCIENTIFIC: EUPLOTES RAIKOVI; ORGANISM_TAXID: 5938
AUTHOR M.OTTIGER,T.SZYPERSKI,P.LUGINBUHL,C.ORTENZI,P.LUPORINI, R.A.BRADSHAW,K
DBREF 1ERD A 1 40 UNP P26886 MER2_EUPRA 36 75
SEQLENGTH 40
NCHAIN 1 chain(s) in 1ERD 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 : MER2_EUPRA 1ERD 1.00 1.00 1 40 36 75 40 0 0 75 P26886 Mating pheromone Er-2/Er-9 OS=Euplotes raikovi GN=MAT2 PE=1 SV=2
## ALIGNMENTS 1 - 1
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A D 0 0 177 2 0 D
2 2 A P + 0 0 99 2 0 P
3 3 A M S S- 0 0 65 2 0 M
4 4 A T > - 0 0 73 2 0 T
5 5 A a H > S+ 0 0 29 2 0 C
6 6 A E H >> S+ 0 0 114 2 0 E
7 7 A Q H 3> S+ 0 0 93 2 0 Q
8 8 A A H 3X>S+ 0 0 0 2 0 A
9 9 A M H X<5S+ 0 0 17 2 0 M
10 10 A A H 3<5S+ 0 0 70 2 0 A
11 11 A S H 3<5S- 0 0 46 2 0 S
12 12 A b T <<5 + 0 0 39 2 0 C
13 13 A E > < + 0 0 100 2 0 E
14 14 A H G > S+ 0 0 87 2 0 H
15 15 A T G > S+ 0 0 82 2 0 T
16 16 A M G X S+ 0 0 91 2 0 M
17 17 A c G X + 0 0 1 2 0 C
18 18 A G G < S+ 0 0 69 2 0 G
19 19 A Y G < S+ 0 0 67 2 0 Y
20 20 A a S < S- 0 0 4 2 0 C
21 21 A Q >> - 0 0 117 2 0 Q
22 22 A G H 3> S+ 0 0 48 2 0 G
23 23 A P H 3> S+ 0 0 108 2 0 P
24 24 A L H <> S+ 0 0 73 2 0 L
25 25 A Y H X S+ 0 0 105 2 0 Y
26 26 A M H X S+ 0 0 113 2 0 M
27 27 A T H X S+ 0 0 67 2 0 T
28 28 A c H X S+ 0 0 0 2 0 C
29 29 A I H X S+ 0 0 35 2 0 I
30 30 A G H < S+ 0 0 43 2 0 G
31 31 A I H >< S+ 0 0 74 2 0 I
32 32 A T H 3< S+ 0 0 7 2 0 T
33 33 A T T 3< S+ 0 0 71 2 0 T
34 34 A D X - 0 0 69 2 0 D
35 35 A P T 3 S+ 0 0 112 2 0 P
36 36 A E T > S+ 0 0 130 2 0 E
37 37 A b T < S- 0 0 39 2 0 C
38 38 A G T 3 S+ 0 0 84 2 0 G
39 39 A L < 0 0 100 2 0 L
40 40 A P 0 0 175 2 0 P
## 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 2 0 0 0.000 0 1.00
2 2 A 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
3 3 A 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
4 4 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
5 5 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
6 6 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 2 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 0 100 0 0 0 2 0 0 0.000 0 1.00
8 8 A 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
9 9 A 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
10 10 A 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 2 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 2 0 0 0.000 0 1.00
12 12 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
13 13 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 2 0 0 0.000 0 1.00
14 14 A 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 2 0 0 0.000 0 1.00
15 15 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
16 16 A 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
17 17 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
18 18 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
19 19 A 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
20 20 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
21 21 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 2 0 0 0.000 0 1.00
22 22 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
23 23 A 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
24 24 A 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
25 25 A 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
26 26 A 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
27 27 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
28 28 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
29 29 A 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
30 30 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
31 31 A 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
32 32 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
33 33 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
34 34 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 2 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 2 0 0 0.000 0 1.00
36 36 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 2 0 0 0.000 0 1.00
37 37 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
38 38 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
39 39 A 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
40 40 A 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
## INSERTION LIST
AliNo IPOS JPOS Len Sequence
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