RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy10576
(151 letters)
>3t5v_A Nuclear mRNA export protein SAC3; PCI, mRNA nuclear export, mRNA,
nuclear, transcription; 2.90A {Saccharomyces cerevisiae}
Length = 316
Score = 133 bits (335), Expect = 4e-39
Identities = 40/138 (28%), Positives = 63/138 (45%), Gaps = 1/138 (0%)
Query: 10 NVSQWYDFLWDRLRGIRKDIVQQQLCSVNTANILEQCARFHILCFDRLCGEDASIFDEKI 69
+ + FLWDR+R IR+D Q + E+ R H+L + + F +
Sbjct: 28 TLPESEGFLWDRMRSIRQDFTYQNYSGPEAVDCNERIVRIHLLILHIMVKSNVE-FSLQQ 86
Query: 70 NTENLNNCLQSLIHMYDDLHAQGLVCPNEPEFRAYEILLKLNRGDIIWEFQQLSPHLQTA 129
E L+ L +L +YDD+ + G CPNE EFRAY +L K+ Q+L H+
Sbjct: 87 ELEQLHKSLITLSEIYDDVRSSGGTCPNEAEFRAYALLSKIRDPQYDENIQRLPKHIFQD 146
Query: 130 PEILFSLRVFSAFNNNLY 147
+ +L +N+ Y
Sbjct: 147 KLVQMALCFRRVISNSAY 164
>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 = 44.3 bits (104), Expect = 5e-06
Identities = 19/103 (18%), Positives = 32/103 (31%), Gaps = 33/103 (32%)
Query: 43 LEQCARFHILCFDRLCGEDASIFDEKINTENLNNCLQSLIHMYDDLHAQGLV-------C 95
+ Q A + + +L G L + L+ H+QGLV
Sbjct: 243 VIQLAHYVVTA--KLLG---------FTPGELRSYLKGAT-----GHSQGLVTAVAIAET 286
Query: 96 PNEPEF-----RAYEILLKLNRGDIIWEFQQLSPHLQTAPEIL 133
+ F +A +L + G + P+ P IL
Sbjct: 287 DSWESFFVSVRKAITVLFFI--G---VRCYEAYPNTSLPPSIL 324
Score = 29.2 bits (65), Expect = 0.65
Identities = 14/70 (20%), Positives = 20/70 (28%), Gaps = 19/70 (27%)
Query: 8 DINVSQW----YDFL-WDRLRGIRKDIVQ---QQLCS--VNTANILEQCARF---HILCF 54
N YD LR + I + + V E +F HIL F
Sbjct: 449 SFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVK----WETTTQFKATHILDF 504
Query: 55 DRLCGEDASI 64
G + +
Sbjct: 505 GP--GGASGL 512
Score = 26.9 bits (59), Expect = 3.3
Identities = 27/163 (16%), Positives = 50/163 (30%), Gaps = 65/163 (39%)
Query: 22 LRGIRKDIVQQQLCSVNTANILEQCARFHILCFDRLCGEDASIFDEKINTENLNNCL--- 78
+ + ++ VQ + N+ L + I S+ +N N +
Sbjct: 341 ISNLTQEQVQDYVNKTNSH--LPAGKQVEI-----------SL----VNGAK-NLVVSGP 382
Query: 79 -QSLIHMYDDLHAQGLVCPNEPE-----F--RAYEILLKLNRGDIIWEFQQL-------S 123
QSL + +L + P+ + F R KL F L S
Sbjct: 383 PQSLYGL--NLTLRKAKAPSGLDQSRIPFSER------KLK---FSNRF--LPVASPFHS 429
Query: 124 PHLQTAPEILF-------------SLR--VFSAFNN-NLYSLS 150
L A +++ ++ V+ F+ +L LS
Sbjct: 430 HLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLS 472
>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 = 35.2 bits (80), Expect = 0.005
Identities = 22/120 (18%), Positives = 36/120 (30%), Gaps = 41/120 (34%)
Query: 15 YDFLWDRLRGIRKDIVQQQLCSVNTANILEQCARFHILCFDRLCGEDASIFD-------E 67
Y FL ++ +Q+ S+ T R +I DRL D +F +
Sbjct: 91 YKFLMSPIK------TEQRQPSMMT--------RMYIEQRDRLYN-DNQVFAKYNVSRLQ 135
Query: 68 KINTENLNNCLQSLIHM-YDDLHAQG---------LVCPNEPEFRAYEILLKLNRGDIIW 117
L L L + VC +Y++ K++ I W
Sbjct: 136 PYL--KLRQALLELRPAKNVLIDGVLGSGKTWVALDVC------LSYKVQCKMDFK-IFW 186
Score = 28.3 bits (62), Expect = 1.3
Identities = 17/96 (17%), Positives = 39/96 (40%), Gaps = 23/96 (23%)
Query: 49 FHILCFDRLCGEDASIF----------DEKINTENLN-NCLQSLIHMYDDLHA-QGLVCP 96
H+ + E ++F ++KI ++ N S+++ L + +C
Sbjct: 479 HHLKNIEH--PERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICD 536
Query: 97 NEPEFRAYEILLKLNRGDIIWEF-QQLSPHLQTAPE 131
N+P+ YE L+ I+ +F ++ +L +
Sbjct: 537 NDPK---YERLVN----AIL-DFLPKIEENLICSKY 564
Score = 27.5 bits (60), Expect = 2.1
Identities = 18/88 (20%), Positives = 29/88 (32%), Gaps = 25/88 (28%)
Query: 73 NLNNC---------LQSLIHMYDDLHAQGLVCPNEPEFRAYEILLKLNRGDIIWEFQQLS 123
NL NC LQ L++ D + + R + I +L R +
Sbjct: 188 NLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRR------LLKSK 241
Query: 124 PHLQTAPEILFSLR------VFSAFNNN 145
P+ L L ++AFN +
Sbjct: 242 PY----ENCLLVLLNVQNAKAWNAFNLS 265
>3q7m_A Lipoprotein YFGL, BAMB; beta-propeller, BAM complex, outer membrane
protein folding, negative, BAMA, protein binding; 1.65A
{Escherichia coli} PDB: 3q7n_A 3q7o_A 3p1l_A 3prw_A
2yh3_A
Length = 376
Score = 26.3 bits (58), Expect = 4.1
Identities = 8/39 (20%), Positives = 14/39 (35%)
Query: 113 GDIIWEFQQLSPHLQTAPEILFSLRVFSAFNNNLYSLSQ 151
G +W L L T+P + V L+ ++
Sbjct: 297 GVTLWTQSDLLHRLLTSPVLYNGNLVVGDSEGYLHWINV 335
>3q87_A Putative uncharacterized protein ECU08_1170;
SAM-methyltransferase, methyltransferase, methylation,
trans activator-transferase complex; HET: SAM; 2.00A
{Encephalitozoon cuniculi}
Length = 125
Score = 25.8 bits (56), Expect = 4.1
Identities = 20/59 (33%), Positives = 29/59 (49%), Gaps = 4/59 (6%)
Query: 35 CSVNTANILEQCARFHILCFDRLCGEDASIFDEKINTENLNNCLQSLIHMYDDLHAQGL 93
CS T ILE C + D +D IF++ + TEN L+SL++ D H + L
Sbjct: 14 CSFMTKLILE-CEKAESNDVDT---DDVKIFNKHMFTENGGERLKSLVNSLRDFHGREL 68
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 25.8 bits (56), Expect = 5.9
Identities = 8/35 (22%), Positives = 16/35 (45%), Gaps = 5/35 (14%)
Query: 35 CSVNTANILEQCARFHILCFDRLCGEDASIFDEKI 69
C V I+E+ + ++C CG + +K+
Sbjct: 27 CKVYPPKIVERFSEGDVVCAL--CGL---VLSDKL 56
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
0.325 0.140 0.443
Gapped
Lambda K H
0.267 0.0477 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,309,206
Number of extensions: 121712
Number of successful extensions: 260
Number of sequences better than 10.0: 1
Number of HSP's gapped: 256
Number of HSP's successfully gapped: 14
Length of query: 151
Length of database: 6,701,793
Length adjustment: 85
Effective length of query: 66
Effective length of database: 4,328,508
Effective search space: 285681528
Effective search space used: 285681528
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 53 (24.8 bits)