Complet list of 1e9k hssp file
Complete list of 1e9k.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 1E9K
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 HYDROLASE 20-OCT-00 1E9K
COMPND MOL_ID: 1; MOLECULE: CAMP SPECIFIC PHOSPHODIESTERASE PDE4D5; CHAIN: A;
SOURCE MOL_ID: 1; SYNTHETIC: YES; ORGANISM_SCIENTIFIC: HOMO SAPIENS; ORGANISM
AUTHOR G.B.BOLGER,K.J.SMITH,A.MCCAHILL,E.I.HYDE,M.R.STEELE, M.D.HOUSLAY
DBREF 1E9K A 1 38 UNP CAC03757 CAC03757 12 49
SEQLENGTH 38
NCHAIN 1 chain(s) in 1E9K data set
NALIGN 8
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 : U3BNV5_CALJA 1.00 1.00 1 38 12 49 38 0 0 745 U3BNV5 cAMP-specific 3',5'-cyclic phosphodiesterase 4D isoform PDE4D5 OS=Callithrix jacchus GN=PDE4D PE=2 SV=1
2 : F6QFD1_MOUSE 0.97 0.97 1 38 22 59 38 0 0 754 F6QFD1 cAMP-specific 3',5'-cyclic phosphodiesterase 4D (Fragment) OS=Mus musculus GN=Pde4d PE=3 SV=1
3 : S9YAB6_9CETA 0.97 1.00 1 38 13 50 38 0 0 107 S9YAB6 Uncharacterized protein OS=Camelus ferus GN=CB1_000477023 PE=4 SV=1
4 : L5LYT6_MYODS 0.95 1.00 1 38 13 50 38 0 0 161 L5LYT6 Uncharacterized protein OS=Myotis davidii GN=MDA_GLEAN10025831 PE=4 SV=1
5 : M3Y7M6_MUSPF 0.95 0.97 1 38 13 50 38 0 0 89 M3Y7M6 Uncharacterized protein OS=Mustela putorius furo PE=4 SV=1
6 : K9IXX2_DESRO 0.92 0.97 1 38 13 50 38 0 0 89 K9IXX2 Uncharacterized protein OS=Desmodus rotundus PE=4 SV=1
7 : R0JST1_ANAPL 0.82 0.95 1 38 12 49 38 0 0 282 R0JST1 Uncharacterized protein OS=Anas platyrhynchos GN=Anapl_18108 PE=4 SV=1
8 : W5NLX8_LEPOC 0.61 0.82 1 38 13 50 38 0 0 91 W5NLX8 Uncharacterized protein OS=Lepisosteus oculatus PE=4 SV=1
## ALIGNMENTS 1 - 8
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A V 0 0 146 9 0 VVVVVVVV
2 2 A P + 0 0 122 9 0 PPPPPPPP
3 3 A E + 0 0 142 9 44 EEEEEEEA
4 4 A V S S- 0 0 135 9 0 VVVVVVVV
5 5 A D S S+ 0 0 93 9 18 DDDDDDDE
6 6 A N + 0 0 127 9 40 NNNNNNNK
7 7 A P S S- 0 0 93 9 79 PPPPPLSR
8 8 A H S S+ 0 0 188 9 54 HHHHHQHP
9 9 A C S S+ 0 0 85 9 68 CVCCCCCH
10 10 A P S > S+ 0 0 37 9 77 PPPAPSQE
11 11 A N T 3> S+ 0 0 60 9 36 NNNNNNNH
12 12 A P H 3> + 0 0 12 9 40 PPPPPPPS
13 13 A W H <4 S+ 0 0 184 9 92 WWWWWWWG
14 14 A L H > S+ 0 0 103 9 0 LLLLLLLL
15 15 A N H >X>S+ 0 0 42 9 0 NNNNNNNN
16 16 A E H 3<5S+ 0 0 98 9 0 EEEEEEEE
17 17 A D H 345S- 0 0 128 9 0 DDDDDDDD
18 18 A L H > S+ 0 0 60 9 22 QQQQQQKQ
29 29 A H H > S+ 0 0 79 9 50 HHQNQHYH
30 30 A E H 4>S+ 0 0 56 9 0 EEEEEEEE
31 31 A K H >>5S+ 0 0 110 9 25 KKKKKKKR
32 32 A S H 3X5S+ 0 0 61 9 40 SSSSSSSP
33 33 A K H 3<5S+ 0 0 124 9 33 KKKKKKRR
34 34 A T H <45S+ 0 0 97 9 14 TTTTPTTT
35 35 A A H <