RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16257
(346 letters)
>3pgw_S U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM,
splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo
sapiens} PDB: 3cw1_K 2l5i_A 2l5j_A*
Length = 437
Score = 39.4 bits (91), Expect = 0.001
Identities = 10/81 (12%), Positives = 21/81 (25%)
Query: 266 ERHAKTSGYSDHKKSDRGDSYKRSYDSKDDRYKSSSRYASPERKKYRDDSRDTYRDRDKY 325
D D + +R++ R + R RD+
Sbjct: 310 RGGGGDMAEPSEAGDAPPDDGPPGELGPDGPDGPEEKGRDRDRERRRSHRSERERRRDRD 369
Query: 326 SSSSKYDKYSKDDRYSSSKDD 346
+ ++ + +R S D
Sbjct: 370 RDRDRDREHKRGERGSERGRD 390
Score = 39.1 bits (90), Expect = 0.002
Identities = 11/80 (13%), Positives = 21/80 (26%)
Query: 267 RHAKTSGYSDHKKSDRGDSYKRSYDSKDDRYKSSSRYASPERKKYRDDSRDTYRDRDKYS 326
+ + K+ RG + S+ D + RDRD+
Sbjct: 295 SRERARRERERKEELRGGGGDMAEPSEAGDAPPDDGPPGELGPDGPDGPEEKGRDRDRER 354
Query: 327 SSSKYDKYSKDDRYSSSKDD 346
S + + +D
Sbjct: 355 RRSHRSERERRRDRDRDRDR 374
Score = 38.7 bits (89), Expect = 0.002
Identities = 12/90 (13%), Positives = 21/90 (23%)
Query: 257 DNEAHYGEAERHAKTSGYSDHKKSDRGDSYKRSYDSKDDRYKSSSRYASPERKKYRDDSR 316
+ A R + D + + DD P+ + + R
Sbjct: 291 RSSRSRERARRERERKEELRGGGGDMAEPSEAGDAPPDDGPPGELGPDGPDGPEEKGRDR 350
Query: 317 DTYRDRDKYSSSSKYDKYSKDDRYSSSKDD 346
D R R S + +D
Sbjct: 351 DRERRRSHRSERERRRDRDRDRDRDREHKR 380
Score = 37.5 bits (86), Expect = 0.005
Identities = 9/81 (11%), Positives = 17/81 (20%)
Query: 266 ERHAKTSGYSDHKKSDRGDSYKRSYDSKDDRYKSSSRYASPERKKYRDDSRDTYRDRDKY 325
ER K + + +K RD R+ R
Sbjct: 302 ERERKEELRGGGGDMAEPSEAGDAPPDDGPPGELGPDGPDGPEEKGRDRDRERRRSHRSE 361
Query: 326 SSSSKYDKYSKDDRYSSSKDD 346
+ +D + +
Sbjct: 362 RERRRDRDRDRDRDREHKRGE 382
Score = 32.1 bits (72), Expect = 0.27
Identities = 12/91 (13%), Positives = 27/91 (29%), Gaps = 2/91 (2%)
Query: 256 PDNEAHYGEAERHAKTSGYSDHKKSDRGDSYKRSYDSKDDRYKSSSRYASPERKKYRDDS 315
+ + + ++S R + +R +D + ++ RD++
Sbjct: 333 GELGPDGPDGPEEKGRDRDRERRRSHRSERERRRDRDRDRDRDREHKRGERGSERGRDEA 392
Query: 316 RDTYRDRDKYSSSSKYDKYSKDDRYSSSKDD 346
R +D S+D S D
Sbjct: 393 RGGGGGQDN--GLEGLGNDSRDMYMESEGGD 421
>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 = 37.5 bits (86), Expect = 0.006
Identities = 36/274 (13%), Positives = 71/274 (25%), Gaps = 75/274 (27%)
Query: 12 EEATGNHP------GYKKNNVLPLWGNERTMNMNPLILTNIQSSHYFKVNLYELKTYHEV 65
E +P + L W N + +N + L T I S + E + +
Sbjct: 320 REVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKL--TTIIESSLNVLEPAEYRKMFDR 377
Query: 66 L----DEVYYKVQHLEP-WEKGSRKTSGQ--TGMCGGVRGVGAGGIVSTAFCL--LYKLF 116
L + L W + + + + + +Y
Sbjct: 378 LSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHK--YSLVEKQPKESTISIPSIYLEL 435
Query: 117 TLKMT-RKQL-NGLINHTDSPYIRGLGFMYIRYTQPPADL-WDWYEPY----LEDEEEVD 169
+K+ L +++H Y F P D + + + +E E +
Sbjct: 436 KVKLENEYALHRSIVDH----YNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMT 491
Query: 170 VKAGGGQVMTIGNMLRSFLTKLEWHGTLFPRIPVPIQQKLEKQMSAKFPPVYSQAGSGN- 228
+ R + ++QK+ +A N
Sbjct: 492 -------------LFRMVFLDFRF-----------LEQKIRHDSTAWNAS----GSILNT 523
Query: 229 YQQGRGGGGNYQNRSAPGAMSTNAKHIPDNEAHY 262
QQ + Y+ +I DN+ Y
Sbjct: 524 LQQLK----FYK------------PYICDNDPKY 541
Score = 35.2 bits (80), Expect = 0.038
Identities = 19/116 (16%), Positives = 32/116 (27%), Gaps = 17/116 (14%)
Query: 112 LYKLFTLKMTRKQLNGLINHTDSPYIRGLGFMYIRYTQPPADLWDWYEPYLEDEEEVDVK 171
+LF + KQ + + F+ Y E+ D
Sbjct: 64 TLRLFWT-LLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMY---IEQRDRL 119
Query: 172 AGGGQVMTIGNMLRSFLTKLEWHGTLFPRIPVPIQQKLEKQMSAKFPPVYSQAGSG 227
QV N+ R + + ++Q L + AK + GSG
Sbjct: 120 YNDNQVFAKYNVSR-------------LQPYLKLRQALLELRPAKNVLIDGVLGSG 162
Score = 31.7 bits (71), Expect = 0.41
Identities = 11/53 (20%), Positives = 21/53 (39%), Gaps = 6/53 (11%)
Query: 283 GDSYKRSYDSKDDRYKSSSRYASPERKKYRDDSRDTYRDRDKYSSSSKYDKYS 335
+ + +Y K+ R S + Y + RDR Y+ + + KY+
Sbjct: 84 EEVLRINYKFLMSPIKTEQRQPSMMTRMYIE-----QRDR-LYNDNQVFAKYN 130
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 32.1 bits (72), Expect = 0.18
Identities = 8/52 (15%), Positives = 19/52 (36%), Gaps = 1/52 (1%)
Query: 264 EAERHAKTSGYSDHKKSDRGDSYKRSYDSKDDRYKSSSRYASPERKKYRDDS 315
+A + + K D + +R + ++ K ++R A + D
Sbjct: 102 DAASKVMEQEWREKAKKDLEEWNQR-QSEQVEKNKINNRIADKAFYQQPDAD 152
>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 = 31.5 bits (70), Expect = 0.21
Identities = 12/48 (25%), Positives = 17/48 (35%), Gaps = 23/48 (47%)
Query: 206 QQKLEK-QMSAKFPPVYSQAGSGNYQQGRGGGGNYQNRSAPGAMSTNA 252
+Q L+K Q S K Y + SAP A++ A
Sbjct: 19 KQALKKLQASLKL---------------------YADDSAP-ALAIKA 44
>1d3c_A Cyclodextrin glycosyltransferase; alpha-amylase, product complex,
oligosaccharide, family 13 glycosyl hydrolase,
transglycosylation; HET: GLC; 1.78A {Bacillus circulans}
SCOP: b.1.18.2 b.3.1.1 b.71.1.1 c.1.8.1 PDB: 1cxf_A*
1cxk_A* 1cdg_A* 1cxe_A* 1cxh_A* 1cxi_A* 2cxg_A* 1cgv_A*
2dij_A* 1cgy_A* 1kck_A* 1cgx_A* 1cxl_A* 1cgw_A* 1tcm_A
1kcl_A* 1eo5_A* 1eo7_A* 1dtu_A* 1ot1_A* ...
Length = 686
Score = 30.2 bits (68), Expect = 1.1
Identities = 6/18 (33%), Positives = 10/18 (55%)
Query: 125 LNGLINHTDSPYIRGLGF 142
G+IN + Y+ G+G
Sbjct: 54 WQGIINKINDGYLTGMGV 71
>1cyg_A Cyclodextrin glucanotransferase; glycosyltransferase; 2.50A
{Geobacillus stearothermophilus} SCOP: b.1.18.2 b.3.1.1
b.71.1.1 c.1.8.1
Length = 680
Score = 30.2 bits (68), Expect = 1.2
Identities = 5/18 (27%), Positives = 9/18 (50%)
Query: 125 LNGLINHTDSPYIRGLGF 142
G+IN + Y+ +G
Sbjct: 51 WQGIINKINDGYLTDMGV 68
>3bmv_A Cyclomaltodextrin glucanotransferase; glycosidase, thermostable,
family 13 glycosyl hydrolas; 1.60A
{Thermoanaerobacterium thermosulfurigenorganism_taxid}
SCOP: b.1.18.2 b.3.1.1 b.71.1.1 c.1.8.1 PDB: 3bmw_A*
1ciu_A 1a47_A 1pj9_A* 1cgt_A
Length = 683
Score = 29.8 bits (67), Expect = 1.5
Identities = 6/18 (33%), Positives = 10/18 (55%)
Query: 125 LNGLINHTDSPYIRGLGF 142
G+IN + Y+ G+G
Sbjct: 54 WQGIINKINDGYLTGMGV 71
>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 = 29.2 bits (65), Expect = 2.4
Identities = 10/51 (19%), Positives = 19/51 (37%), Gaps = 10/51 (19%)
Query: 184 LRSF-LTKLEWHGTLFPRIPVPIQ-----QKLEKQMSAKFPPVYSQAGSGN 228
R L+ HG+L + VP +L++Q + P + +
Sbjct: 6 TRPLTLS----HGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADD 52
>2nqt_A N-acetyl-gamma-glutamyl-phosphate reductase; apoprotein, dimer,
rossmann fold, structural genomics, PSI, protein
structure initiative; 1.58A {Mycobacterium tuberculosis}
PDB: 2i3a_A* 2i3g_A
Length = 352
Score = 27.9 bits (63), Expect = 4.3
Identities = 11/41 (26%), Positives = 14/41 (34%), Gaps = 1/41 (2%)
Query: 135 PYIRG-LGFMYIRYTQPPADLWDWYEPYLEDEEEVDVKAGG 174
P RG L R P + L YE E + + G
Sbjct: 245 PASRGILATCTARTRSPLSQLRAAYEKAYHAEPFIYLMPEG 285
>2w42_A PIWI, putative uncharacterized protein; RNAI, RISC, argonaute, PIWI
domain, protein/DNA complex; 1.90A {Archaeoglobus
fulgidus} PDB: 1ytu_A 2bgg_A 1w9h_A
Length = 427
Score = 27.4 bits (60), Expect = 8.6
Identities = 6/19 (31%), Positives = 10/19 (52%)
Query: 188 LTKLEWHGTLFPRIPVPIQ 206
L+K+ W G +PV +
Sbjct: 374 LSKMNWRGFRSRNLPVTVN 392
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
0.312 0.131 0.395
Gapped
Lambda K H
0.267 0.0476 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,232,888
Number of extensions: 301718
Number of successful extensions: 406
Number of sequences better than 10.0: 1
Number of HSP's gapped: 404
Number of HSP's successfully gapped: 20
Length of query: 346
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 252
Effective length of database: 4,077,219
Effective search space: 1027459188
Effective search space used: 1027459188
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 58 (26.7 bits)