RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy6063
(108 letters)
>3gia_A Uncharacterized protein MJ0609; membrane protein, transporter, cell
membrane, membrane, transmembrane, transport protein;
HET: D10 BCN; 2.32A {Methanocaldococcus jannaschii} PDB:
3gi9_C* 3gi8_C
Length = 444
Score = 64.6 bits (158), Expect = 9e-14
Identities = 11/54 (20%), Positives = 25/54 (46%), Gaps = 1/54 (1%)
Query: 51 QLARVLGLIDLTMLGVGATLGVGVYVLAGSVARNQAGPSVVISFAIAAVTSLFS 104
+ L L + + VG +G ++ + G A AG ++ +F ++ + +L
Sbjct: 3 LKNKKLSLWEAVSMAVGVMIGASIFSIFGVGA-KIAGRNLPETFILSGIYALLV 55
>3l1l_A Arginine/agmatine antiporter; TCDB 2.A.3.2.5, ADIC, Arg-bound,
amino-acid transport, cell inner membrane, cell
membrane, membrane; HET: ARG BNG; 3.00A {Escherichia
coli} PDB: 3h5m_A* 3h6b_A 3lrb_A 3lrc_A 3ob6_A* 3hqk_A
3ncy_A
Length = 445
Score = 51.2 bits (123), Expect = 5e-09
Identities = 14/56 (25%), Positives = 29/56 (51%), Gaps = 2/56 (3%)
Query: 48 DAPQLARVLGLIDLTMLGVGATLGVGVYVLAGSVARNQAGPSVVISFAIAAVTSLF 103
+ A +GLI +T++ GA +G GV++L ++A G + + + + +L
Sbjct: 2 SSDADAHKVGLIPVTLMVSGAIMGSGVFLLPANLA--STGGIAIYGWLVTIIGALG 55
>4djk_A Probable glutamate/gamma-aminobutyrate antiporter; LEUT,
glutamate-GABA antiporter, transport protein; 3.10A
{Escherichia coli} PDB: 4dji_A
Length = 511
Score = 46.8 bits (111), Expect = 2e-07
Identities = 9/54 (16%), Positives = 16/54 (29%)
Query: 50 PQLARVLGLIDLTMLGVGATLGVGVYVLAGSVARNQAGPSVVISFAIAAVTSLF 103
+ LT+LG A V + +G S+V + +
Sbjct: 2 ATSVQTGKAKQLTLLGFFAITASMVMAVYEYPTFATSGFSLVFFLLLGGILWFI 55
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 39.5 bits (91), Expect = 7e-05
Identities = 13/92 (14%), Positives = 24/92 (26%), Gaps = 24/92 (26%)
Query: 7 LYEALSRKKIDVGDDDVSIAEGKNPA-GGADGVGKLPLERASDAPQLARVL--------- 56
L + ++ E ++ K + R +L + L
Sbjct: 94 LMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNV 153
Query: 57 ---GLIDLTMLGVGATLGVGVYVLAGSVARNQ 85
G +LG G T +A V +
Sbjct: 154 LIDG-----VLGSGKT------WVALDVCLSY 174
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 35.4 bits (81), Expect = 0.002
Identities = 19/73 (26%), Positives = 27/73 (36%), Gaps = 17/73 (23%)
Query: 43 LERASDAPQ---LARV---LGLIDLTMLG--------VGATLGVGVYVLAGSVARNQAGP 88
LE S+ P L + LI + L +G T G L G+ +Q
Sbjct: 219 LENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQG-- 276
Query: 89 SVVISFAIAAVTS 101
+V + AIA S
Sbjct: 277 -LVTAVAIAETDS 288
Score = 26.6 bits (58), Expect = 1.9
Identities = 15/54 (27%), Positives = 20/54 (37%), Gaps = 22/54 (40%)
Query: 33 GGADGVGKLPLERASDAPQLARVLGLIDLTMLGVGATLGVGVYVLAGSVARNQA 86
GGA G+G L R D G GV V ++AG++ N
Sbjct: 507 GGASGLGVL-THRNKD------------------GT--GVRV-IVAGTLDINPD 538
Score = 26.6 bits (58), Expect = 2.2
Identities = 16/129 (12%), Positives = 35/129 (27%), Gaps = 56/129 (43%)
Query: 8 YEALSRKKIDVGDDDVSIAEGKNPAGGADGVGKLPLERASDAPQLARV------------ 55
Y AL S+A V + +E ++
Sbjct: 1767 YAAL-----------ASLA----------DV--MSIE---SLVEVVFYRGMTMQVAVPRD 1800
Query: 56 -LGLIDLTMLGV-----GATLGV-GVYVLAGSVAR-----------NQAGPSVVISFAIA 97
LG + M+ + A+ + + V + N V + +
Sbjct: 1801 ELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLR 1860
Query: 98 AVTSLFSVI 106
A+ ++ +V+
Sbjct: 1861 ALDTVTNVL 1869
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna;
HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 27.6 bits (60), Expect = 0.58
Identities = 11/26 (42%), Positives = 11/26 (42%), Gaps = 7/26 (26%)
Query: 39 GKLPLERASD-APQLARVLGLIDLTM 63
L L A D AP LA I TM
Sbjct: 27 ASLKL-YADDSAPALA-----IKATM 46
>3h16_A TIR protein; bacteria TIR domain, signaling protein; 2.50A
{Paracoccus denitrificans PD1222}
Length = 154
Score = 26.9 bits (60), Expect = 1.0
Identities = 7/26 (26%), Positives = 10/26 (38%)
Query: 4 LRNLYEALSRKKIDVGDDDVSIAEGK 29
+ L L +V DD S+ G
Sbjct: 36 VEALAHTLRAAGAEVWYDDFSLRPGD 61
>3jur_A EXO-poly-alpha-D-galacturonosidase; beta-helix, cell WALL
biogenesis/degradation, glycosidase; 2.05A {Thermotoga
maritima}
Length = 448
Score = 26.7 bits (59), Expect = 1.6
Identities = 9/22 (40%), Positives = 11/22 (50%)
Query: 16 IDVGDDDVSIAEGKNPAGGADG 37
D GDD V I G++ G G
Sbjct: 256 FDTGDDSVVIKSGRDADGRRIG 277
>3jrn_A AT1G72930 protein; TIR domain arabidopsis thaliana, plant
protein; 2.00A {Arabidopsis thaliana}
Length = 176
Score = 26.0 bits (58), Expect = 2.1
Identities = 8/24 (33%), Positives = 12/24 (50%)
Query: 6 NLYEALSRKKIDVGDDDVSIAEGK 29
LY+ L R+ I DD + G+
Sbjct: 27 FLYKELVRRSIRTFKDDKELENGQ 50
>3hhd_A Fatty acid synthase; transferase, multienzyme, megasynthase, fatty
acid synthesis, acetylation, cytoplasm, fatty acid
biosynthesis, hydrolase; 2.15A {Homo sapiens} PDB:
2jfk_A* 2jfd_A
Length = 965
Score = 26.4 bits (59), Expect = 2.3
Identities = 8/25 (32%), Positives = 12/25 (48%), Gaps = 3/25 (12%)
Query: 35 ADGVGKLPLERASDAPQLARVLGLI 59
++GV + L + S A RV I
Sbjct: 227 SEGVVAVLLTKKSLA---RRVYATI 248
>3ozi_A L6TR; plant TIR domain, plant protein; 2.30A {Linum
usitatissimum}
Length = 204
Score = 26.1 bits (58), Expect = 2.5
Identities = 10/24 (41%), Positives = 14/24 (58%)
Query: 6 NLYEALSRKKIDVGDDDVSIAEGK 29
LY++L R KI DD + +GK
Sbjct: 54 FLYQSLRRYKIHTFRDDDELLKGK 77
>1z56_A Ligase interacting factor 1; DNA repair, BRCT, NHEJ, XRCC4, DNA
ligase, coiled-coil; HET: DNA; 3.92A {Saccharomyces
cerevisiae}
Length = 246
Score = 25.5 bits (55), Expect = 3.4
Identities = 9/23 (39%), Positives = 14/23 (60%)
Query: 2 SRLRNLYEALSRKKIDVGDDDVS 24
++R L+E L + I + DDDV
Sbjct: 221 KKIRELHEILRQNNIKLSDDDVL 243
>2uvf_A Exopolygalacturonase; GH28, pectin, cell WALL, hydrolase,
periplasm, beta-helix, glycosidase, EXO-activity; HET:
AD0; 2.1A {Yersinia enterocolitica} PDB: 2uve_A*
Length = 608
Score = 25.7 bits (56), Expect = 4.1
Identities = 6/22 (27%), Positives = 8/22 (36%)
Query: 16 IDVGDDDVSIAEGKNPAGGADG 37
D GDD ++ A G
Sbjct: 398 FDTGDDCINFAAGTGEKAQEQE 419
>1bhe_A PEHA, polygalacturonase; family 28 glycosyl hydrolase, hydrolyses
polygalacturonic acid, glycosidase; 1.90A
{Pectobacterium carotovorum subsp} SCOP: b.80.1.3
Length = 376
Score = 25.4 bits (56), Expect = 4.4
Identities = 8/18 (44%), Positives = 10/18 (55%)
Query: 16 IDVGDDDVSIAEGKNPAG 33
I GDD+V+I K A
Sbjct: 219 IATGDDNVAIKAYKGRAE 236
>2zjr_M 50S ribosomal protein L19; ribosome, large ribosomal subunit,
ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} SCOP: b.34.5.6 PDB: 1nwx_N* 1nwy_N* 1sm1_N*
1xbp_N* 2zjp_M* 2zjq_M 1nkw_N 3cf5_M* 3dll_M* 3pio_M*
3pip_M* 1pnu_N 1pny_N 1vor_Q 1vou_Q 1vow_Q 1voy_Q 1vp0_Q
Length = 166
Score = 25.1 bits (55), Expect = 5.0
Identities = 14/46 (30%), Positives = 20/46 (43%)
Query: 60 DLTMLGVGATLGVGVYVLAGSVARNQAGPSVVISFAIAAVTSLFSV 105
L G T+ V V G+ R+QA VVI+ + F+V
Sbjct: 23 QLPDFRPGDTVRVDTKVREGNRTRSQAFEGVVIAINGSGSRKSFTV 68
>3r8s_P 50S ribosomal protein L19; protein biosynthesis, RNA, tRNA,
transfer RNA, 23S ribosomal subunit, ribosome recycling
factor, RRF, ribosome; 3.00A {Escherichia coli} PDB:
1p85_N 1p86_N 2awb_P 2gya_N 2gyc_N 2aw4_P 2i2v_P 2j28_P
2i2t_P* 2qao_P* 2qba_P* 2qbc_P* 2qbe_P 2qbg_P 2qbi_P*
2qbk_P* 2qov_P 2qox_P 2qoz_P* 2qp1_P* ...
Length = 114
Score = 24.5 bits (54), Expect = 5.4
Identities = 17/46 (36%), Positives = 24/46 (52%)
Query: 60 DLTMLGVGATLGVGVYVLAGSVARNQAGPSVVISFAIAAVTSLFSV 105
D+ G T+ V V+V+ GS R QA VVI+ + S F+V
Sbjct: 15 DVPSFRPGDTVEVKVWVVEGSKKRLQAFEGVVIAIRNRGLHSAFTV 60
>3v2d_T 50S ribosomal protein L19; ribosome associated inhibitor A, RAIA,
protein Y, stress RES stationary phase, ribosome
hibernation, ribosome; 2.70A {Thermus thermophilus} PDB:
2hgq_S 2hgj_S 2hgu_S 2j03_T 2jl6_T 2jl8_T 2v47_T 2v49_T
2wdi_T 2wdj_T 2wdl_T 2wdn_T 2wh2_T 2wh4_T 2wrj_T 2wrl_T
2wro_T 2wrr_T 2x9s_T 2x9u_T ...
Length = 146
Score = 24.7 bits (54), Expect = 6.7
Identities = 13/46 (28%), Positives = 18/46 (39%)
Query: 60 DLTMLGVGATLGVGVYVLAGSVARNQAGPSVVISFAIAAVTSLFSV 105
DL G T+ V V G+ R Q +VI + F+V
Sbjct: 18 DLPEFRPGDTVRVSYKVKEGNRTRIQDFEGIVIRIRRNGFNTTFTV 63
>2xnd_J ATP synthase lipid-binding protein, mitochondrial; ATP
phosphorylase (H+ transporting), ATP synthesis, F1FO ATP
synthase, hydrolase, ION transport; HET: ANP; 3.50A {Bos
taurus}
Length = 72
Score = 23.5 bits (51), Expect = 8.7
Identities = 14/56 (25%), Positives = 24/56 (42%), Gaps = 5/56 (8%)
Query: 57 GLIDLTMLGVGATLGVGVYVLAGSVARN-----QAGPSVVISFAIAAVTSLFSVII 107
G + + G GA +G L ARN Q ++ FA++ LF +++
Sbjct: 11 GAATVGVAGSGAGIGTVFGSLIIGYARNPSLKQQLFSYAILGFALSEAMGLFCLMV 66
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.318 0.137 0.372
Gapped
Lambda K H
0.267 0.0667 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,681,482
Number of extensions: 102609
Number of successful extensions: 304
Number of sequences better than 10.0: 1
Number of HSP's gapped: 299
Number of HSP's successfully gapped: 54
Length of query: 108
Length of database: 6,701,793
Length adjustment: 72
Effective length of query: 36
Effective length of database: 4,691,481
Effective search space: 168893316
Effective search space used: 168893316
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (23.6 bits)