Complet list of 1x32 hssp file
Complete list of 1x32.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 1X32
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 2014-05-12
HEADER SIGNALING PROTEIN 28-APR-05 1X32
COMPND MOL_ID: 1; MOLECULE: CHLOROPLAST SIGNAL RECOGNITION PARTICLE COMPONENT
SOURCE MOL_ID: 1; ORGANISM_SCIENTIFIC: ARABIDOPSIS THALIANA; ORGANISM_COMMON:
AUTHOR V.SIVARAJA,T.K.KUMAR,R.HENRY,C.YU
DBREF 1X32 A 3 47 UNP O22265 O22265_ARATH 84 128
SEQLENGTH 47
NCHAIN 1 chain(s) in 1X32 data set
NALIGN 31
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 : SR43C_ARATH 3DEO 1.00 1.00 3 47 84 128 45 0 0 373 O22265 Signal recognition particle 43 kDa protein, chloroplastic OS=Arabidopsis thaliana GN=CAO PE=1 SV=2
2 : R0GDV2_9BRAS 0.91 0.93 3 47 81 126 46 1 1 386 R0GDV2 Uncharacterized protein OS=Capsella rubella GN=CARUB_v10021283mg PE=4 SV=1
3 : V4LU51_THESL 0.91 0.93 3 47 65 110 46 1 1 364 V4LU51 Uncharacterized protein OS=Thellungiella salsuginea GN=EUTSA_v10000208mg PE=4 SV=1
4 : D7LGN1_ARALL 0.87 0.93 3 47 72 117 46 1 1 366 D7LGN1 Putative uncharacterized protein OS=Arabidopsis lyrata subsp. lyrata GN=ARALYDRAFT_904220 PE=4 SV=1
5 : M4DC93_BRARP 0.85 0.92 3 47 74 121 48 2 3 380 M4DC93 Uncharacterized protein OS=Brassica rapa subsp. pekinensis GN=BRA014106 PE=4 SV=1
6 : A5C8N4_VITVI 0.72 0.89 3 47 72 117 46 1 1 373 A5C8N4 Putative uncharacterized protein OS=Vitis vinifera GN=VITISV_027983 PE=4 SV=1
7 : B9HR05_POPTR 0.72 0.85 3 47 74 119 47 2 3 380 B9HR05 Chaos family protein OS=Populus trichocarpa GN=POPTR_0009s14260g PE=4 SV=2
8 : B9RF69_RICCO 0.72 0.85 3 47 68 113 47 2 3 396 B9RF69 Ankyrin repeat domain protein, putative OS=Ricinus communis GN=RCOM_1431980 PE=4 SV=1
9 : F6I0T6_VITVI 0.72 0.85 3 47 72 117 47 2 3 373 F6I0T6 Putative uncharacterized protein OS=Vitis vinifera GN=VIT_03s0038g03560 PE=4 SV=1
10 : K4BBP7_SOLLC 0.72 0.85 3 47 75 120 47 2 3 368 K4BBP7 Uncharacterized protein OS=Solanum lycopersicum GN=Solyc02g087400.1 PE=4 SV=1
11 : M0ZLC9_SOLTU 0.72 0.85 3 47 79 124 47 2 3 372 M0ZLC9 Uncharacterized protein OS=Solanum tuberosum GN=PGSC0003DMG400001299 PE=4 SV=1
12 : M5VMP6_PRUPE 0.72 0.83 3 47 29 74 47 2 3 333 M5VMP6 Uncharacterized protein OS=Prunus persica GN=PRUPE_ppa008415mg PE=4 SV=1
13 : V4SA78_9ROSI 0.72 0.81 3 47 67 112 47 2 3 389 V4SA78 Uncharacterized protein OS=Citrus clementina GN=CICLE_v10028628mg PE=4 SV=1
14 : S8C2S1_9LAMI 0.70 0.89 3 47 15 60 46 1 1 300 S8C2S1 Uncharacterized protein (Fragment) OS=Genlisea aurea GN=M569_13846 PE=4 SV=1
15 : I1LIP2_SOYBN 0.68 0.81 3 47 72 117 47 2 3 382 I1LIP2 Uncharacterized protein OS=Glycine max PE=4 SV=2
16 : V7ADE1_PHAVU 0.68 0.83 3 47 116 161 47 2 3 424 V7ADE1 Uncharacterized protein OS=Phaseolus vulgaris GN=PHAVU_011G025300g PE=4 SV=1
17 : A9SYD6_PHYPA 0.61 0.76 3 47 2 45 46 2 3 285 A9SYD6 Predicted protein (Fragment) OS=Physcomitrella patens subsp. patens GN=PHYPADRAFT_15522 PE=4 SV=1
18 : W1NL70_AMBTC 0.60 0.79 3 47 82 127 47 2 3 378 W1NL70 Uncharacterized protein OS=Amborella trichopoda GN=AMTR_s00001p00270240 PE=4 SV=1
19 : D8RDK6_SELML 0.58 0.78 3 47 73 116 45 1 1 361 D8RDK6 Putative uncharacterized protein OS=Selaginella moellendorffii GN=SELMODRAFT_270723 PE=4 SV=1
20 : D8T2U0_SELML 0.58 0.78 3 47 73 116 45 1 1 361 D8T2U0 Putative uncharacterized protein OS=Selaginella moellendorffii GN=SELMODRAFT_160480 PE=4 SV=1
21 : C0P9X8_MAIZE 0.46 0.74 3 47 271 314 46 2 3 382 C0P9X8 Uncharacterized protein OS=Zea mays PE=2 SV=1
22 : C5WZV5_SORBI 0.46 0.74 3 47 324 367 46 2 3 435 C5WZV5 Putative uncharacterized protein Sb01g048210 OS=Sorghum bicolor GN=Sb01g048210 PE=4 SV=1
23 : K4AKQ4_SETIT 0.46 0.74 3 47 270 313 46 2 3 385 K4AKQ4 Uncharacterized protein OS=Setaria italica GN=Si039479m.g PE=4 SV=1
24 : C1FEM2_MICSR 0.45 0.73 8 47 253 292 40 0 0 339 C1FEM2 Signal recognition particle SRP43 protein, chloroplast OS=Micromonas sp. (strain RCC299 / NOUM17) GN=SRP43 PE=4 SV=1
25 : K8ENU2_9CHLO 0.45 0.75 8 47 240 279 40 0 0 315 K8ENU2 Uncharacterized protein OS=Bathycoccus prasinos GN=Bathy14g02660 PE=4 SV=1
26 : A2XC41_ORYSI 0.43 0.72 3 47 271 314 46 2 3 388 A2XC41 Putative uncharacterized protein OS=Oryza sativa subsp. indica GN=OsI_09862 PE=4 SV=1
27 : I1HA39_BRADI 0.43 0.70 3 47 277 320 46 2 3 399 I1HA39 Uncharacterized protein OS=Brachypodium distachyon GN=BRADI1G76290 PE=4 SV=1
28 : I1P787_ORYGL 0.43 0.72 3 47 271 314 46 2 3 388 I1P787 Uncharacterized protein OS=Oryza glaberrima PE=4 SV=1
29 : SR43C_ORYSJ 0.43 0.72 3 47 271 314 46 2 3 388 Q8LSQ2 Probable signal recognition particle 43 kDa protein, chloroplastic OS=Oryza sativa subsp. japonica GN=Os03g0131900 PE=2 SV=1
30 : B9H1N6_POPTR 0.41 0.65 3 47 198 241 46 2 3 311 B9H1N6 Uncharacterized protein OS=Populus trichocarpa GN=POPTR_0004s18750g PE=4 SV=2
31 : J3LJM8_ORYBR 0.41 0.70 3 47 269 312 46 2 3 419 J3LJM8 Uncharacterized protein OS=Oryza brachyantha GN=OB03G12540 PE=4 SV=1
## ALIGNMENTS 1 - 31
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A G 0 0 121 1 0
2 2 A S + 0 0 106 1 0
3 3 A G S S+ 0 0 17 30 15 GGGGGGGGGGGGGGGGGGGGAAA GGGGAG
4 4 A E S S+ 0 0 100 30 0 EEEEEEEEEEEEEEEEEEEEEEE EEEEEE
5 5 A V S S- 0 0 83 30 0 VVVVVVVVVVVVVVVVVVVVVVV VVVVVV
6 6 A N + 0 0 79 30 62 NNNKNSSSNNNDSNKKNKNNEEE EEEEQE
7 7 A K S S+ 0 0 139 30 40 KKRRRKKKKKKKKRGGKGRRKKK KKKKEK
8 8 A I S S- 0 0 129 32 14 IIIIIIIIIIIIIIIIIVIIVVVIIVVVVIV
9 9 A I - 0 0 67 32 28 IIIIIIIIIIIIIIIILILLIIIKIVVVVLV
10 10 A G - 0 0 31 32 39 GGGGGGGGGGGGGGGGAGGGDDDADDDDDED
11 11 A S + 0 0 37 32 41 SSSSSSSSSSSSSSSSSSSSGGGASGGGGKG
12 12 A R + 0 0 201 32 2 RRRRrrrkrrrrrRrrrrRRRRRRRRRRRRR
13 13 A T - 0 0 56 23 84 TRMMaaeeeeeeeAedvpVV...PI......
14 14 A A - 0 0 70 23 65 AAAAGEGDGGGGDLATDGVV...AS......
15 15 A G S S+ 0 0 48 32 30 GAGAGGGGGGGGAEAAGGNNGGGGDGGGGGG
16 16 A E S S- 0 0 196 32 65 EESEGEKTKKKKTNTAETRREEEDNEEEEKE
17 17 A G S S+ 0 0 16 32 31 GvglgKGGGGGGGgGGTGEEgggGGgggggg
18 18 A A + 0 0 14 19 121 AaaaaG.......g......wwwGGwwwwdw
19 19 A M + 0 0 90 31 59 MMMMMMMMMMMMMMMM.MMMRRRDVRRRRMR
20 20 A E - 0 0 72 32 11 EEEEEEEEEEEEEEEEQEQQEEEEEEEEEEE
21 21 A Y + 0 0 68 32 0 YYYYYYYYYYYYYYYYYYYYYYYYYYYYYYY
22 22 A L S S- 0 0 27 32 1 LLLLLLFLLLLLLLLLLLLLLLLLLLLLLLL
23 23 A I S S+ 0 0 4 32 18 IIIIIIIIIIIIIIIIILIIVVVIVVVVVVV
24 24 A E + 0 0 118 32 10 EEEEEEEEEEESEEEEEEEEEEEEEEEEEKE
25 25 A W S > S- 0 0 14 32 0 WWWWWWWWWWWWWWWWWWWWWWWWWWWWWWW
26 26 A K T 3 - 0 0 169 32 51 KKKKKKKKKKKKKRNKKAKKRRRLMRSRRKR
27 27 A D T > S+ 0 0 60 32 0 DDDDDDDDDDDDDDDDDDDDDDDDDDDDDDD
28 28 A G T < S+ 0 0 43 32 23 GGGGGGGGGEEGGDGGDGDDGGGEGGGGGGG
29 29 A H T 3 S- 0 0 69 32 73 HHHHHHHHHHHHHHHHHHHHGGGRYGGGGGG
30 30 A S S < S- 0 0 92 32 79 SSSSSVTTVAAAAAAAPAPPEEEMQDDDDAD
31 31 A P + 0 0 53 32 69 PPPPPPPPPPPPPPPPDPDDRRRDERRRRNR
32 32 A S - 0 0 23 32 64 SSSSSTSSTTTSSTSSSSTTEEESSEEEEEE
33 33 A W S S+ 0 0 128 32 0 WWWWWWWWWWWWWWWWWWWWWWWWWWWWWWW
34 34 A V S S- 0 0 7 32 23 VVVVVVVVVVVVVVVVEVEEVVVVVVVVVVV
35 35 A P S S- 0 0 12 32 57 PPPPPPPPPPPPPPPPPAPPKKRPSRKRRKK
36 36 A S S S+ 0 0 67 32 54 SSSSSASSASSSQSAAPSAAAAAEEAAAAAA
37 37 A S S S- 0 0 9 32 80 SSSSSRDNRNNDDQDDAEEEAAPNLAPAARA
38 38 A Y + 0 0 27 32 56 YYYYYYFYYFFFYYFFNNNNWWWNDWWWWFW
39 39 A I + 0 0 9 32 17 IIIIIVIIVIIIIIIIIIIIMVVIIVVVVIV
40 40 A A + 0 0 73 32 10 AAAAAAAAAAAAAAAAAAAAAAAASAAAAGA
41 41 A A S S- 0 0 64 32 69 AAAAAGKKGQQKKKKKNKGGEEEDDEEEEEE
42 42 A D S S+ 0 0 162 32 4 DDDDDDDDDDDDDDDDDDDDDDDNDDDDDDD
43 43 A V - 0 0 51 32 29 VVVVVVVVVVVVVVVVVVVVLLLLLLLLLLL
44 44 A V S S- 0 0 88 32 18 VVVVVVVIVVVVVVVVVILLVVVIIVVVVVA
45 45 A S S S+ 0 0 65 32 75 SSSSSAAAAAAAAADAYASSSSSKRKRKKRK
46 46 A E 0 0 121 32 21 EEEEEEEEEEEEEEEEEEEEDDDDDDDDDDD
47 47 A Y 0 0 160 32 4 YYYYYYYYYYYYYYYYYFYYFFFFYFFFFFF
## 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 0 100 0 0 0 0 0 0 0 0 0 0 0 0 1 0 0 0.000 0 1.00
2 2 A 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 1 0 0 0.000 0 1.00
3 3 A 0 0 0 0 0 0 0 87 13 0 0 0 0 0 0 0 0 0 0 0 30 0 0 0.393 13 0.84
4 4 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 30 0 0 0.000 0 1.00
5 5 A 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 30 0 0 0.000 0 1.00
6 6 A 0 0 0 0 0 0 0 0 0 0 13 0 0 0 0 13 3 27 40 3 30 0 0 1.483 49 0.37
7 7 A 0 0 0 0 0 0 0 10 0 0 0 0 0 0 20 67 0 3 0 0 30 0 0 0.936 31 0.60
8 8 A 28 0 72 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 32 0 0 0.594 19 0.85
9 9 A 16 13 69 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0 0 32 0 0 0.916 30 0.71
10 10 A 0 0 0 0 0 0 0 63 6 0 0 0 0 0 0 0 0 3 0 28 32 0 0 0.932 31 0.60
11 11 A 0 0 0 0 0 0 0 25 3 0 69 0 0 0 0 3 0 0 0 0 32 0 0 0.821 27 0.58
12 12 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 97 3 0 0 0 0 32 9 13 0.139 4 0.97
13 13 A 13 0 4 9 0 0 0 0 13 9 0 9 0 0 4 0 0 35 0 4 23 0 0 1.945 64 0.16
14 14 A 9 4 0 0 0 0 0 30 30 0 4 4 0 0 0 0 0 4 0 13 23 0 0 1.747 58 0.34
15 15 A 0 0 0 0 0 0 0 72 16 0 0 0 0 0 0 0 0 3 6 3 32 0 0 0.917 30 0.69
16 16 A 0 0 0 0 0 0 0 3 3 0 3 13 0 0 6 19 0 44 6 3 32 0 0 1.715 57 0.35
17 17 A 3 3 0 0 0 0 0 81 0 0 0 3 0 0 0 3 0 6 0 0 32 13 14 0.775 25 0.69
18 18 A 0 0 0 0 0 42 0 21 32 0 0 0 0 0 0 0 0 0 0 5 19 0 0 1.211 40 -0.22
19 19 A 3 0 0 68 0 0 0 0 0 0 0 0 0 0 26 0 0 0 0 3 31 0 0 0.835 27 0.41
20 20 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 9 91 0 0 32 0 0 0.311 10 0.89
21 21 A 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 32 0 0 0.000 0 1.00
22 22 A 0 97 0 0 3 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 32 0 0 0.139 4 0.99
23 23 A 31 3 66 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 32 0 0 0.748 24 0.82
24 24 A 0 0 0 0 0 0 0 0 0 0 3 0 0 0 0 3 0 94 0 0 32 0 0 0.277 9 0.89
25 25 A 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 32 0 0 0.000 0 1.00
26 26 A 0 3 0 3 0 0 0 0 3 0 3 0 0 0 25 59 0 0 3 0 32 0 0 1.198 39 0.49
27 27 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 32 0 0 0.000 0 1.00
28 28 A 0 0 0 0 0 0 0 78 0 0 0 0 0 0 0 0 0 9 0 13 32 0 0 0.675 22 0.76
29 29 A 0 0 0 0 0 0 3 28 0 0 0 0 0 66 3 0 0 0 0 0 32 0 0 0.850 28 0.26
30 30 A 6 0 0 3 0 0 0 0 28 9 19 6 0 0 0 0 3 9 0 16 32 0 0 1.968 65 0.20
31 31 A 0 0 0 0 0 0 0 0 0 56 0 0 0 0 25 0 0 3 3 13 32 0 0 1.147 38 0.31
32 32 A 0 0 0 0 0 0 0 0 0 0 50 22 0 0 0 0 0 28 0 0 32 0 0 1.036 34 0.36
33 33 A 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 32 0 0 0.000 0 1.00
34 34 A 91 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 9 0 0 32 0 0 0.311 10 0.76
35 35 A 0 0 0 0 0 0 0 0 3 66 3 0 0 0 13 16 0 0 0 0 32 0 0 1.043 34 0.42
36 36 A 0 0 0 0 0 0 0 0 47 3 41 0 0 0 0 0 3 6 0 0 32 0 0 1.111 37 0.46
37 37 A 0 3 0 0 0 0 0 0 22 6 19 0 0 0 9 0 3 9 13 16 32 0 0 2.030 67 0.19
38 38 A 0 0 0 0 22 25 34 0 0 0 0 0 0 0 0 0 0 0 16 3 32 0 0 1.444 48 0.43
39 39 A 28 0 69 3 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 32 0 0 0.723 24 0.83
40 40 A 0 0 0 0 0 0 0 3 94 0 3 0 0 0 0 0 0 0 0 0 32 0 0 0.277 9 0.90
41 41 A 0 0 0 0 0 0 0 13 19 0 0 0 0 0 0 25 6 28 3 6 32 0 0 1.732 57 0.31
42 42 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 97 32 0 0 0.139 4 0.95
43 43 A 66 34 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 32 0 0 0.643 21 0.71
44 44 A 78 6 13 0 0 0 0 0 3 0 0 0 0 0 0 0 0 0 0 0 32 0 0 0.734 24 0.81
45 45 A 0 0 0 0 0 0 3 0 34 0 34 0 0 0 9 16 0 0 0 3 32 0 0 1.463 48 0.25
46 46 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 66 0 34 32 0 0 0.643 21 0.79
47 47 A 0 0 0 0 34 0 66 0 0 0 0 0 0 0 0 0 0 0 0 0 32 0 0 0.643 21 0.96
## INSERTION LIST
AliNo IPOS JPOS Len Sequence
2 16 96 1 vGa
3 16 80 1 gAa
4 16 87 1 lEa
5 11 84 2 rMAa
5 16 91 1 gAa
6 11 82 1 rAa
7 11 84 2 rAVe
8 11 78 2 kALe
9 11 82 2 rAAe
10 11 85 2 rAIe
11 11 89 2 rAIe
12 11 39 2 rALe
13 11 77 2 rALe
14 16 30 1 gGg
15 11 82 2 rALe
16 11 126 2 rALd
17 11 12 1 rVv
18 11 92 2 rPRp
21 14 284 1 gKw
22 14 337 1 gKw
23 14 283 1 gKw
26 14 284 1 gKw
27 14 290 1 gKw
28 14 284 1 gKw
29 14 284 1 gKw
30 14 211 1 gRd
31 14 282 1 gKw
//