RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 028945
(201 letters)
>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 = 45.6 bits (107), Expect = 5e-06
Identities = 31/231 (13%), Positives = 70/231 (30%), Gaps = 74/231 (32%)
Query: 5 FVHTGMQEVMPIGATFPRIGKTVTVL--------------------IGDPIEFDDLVDEE 44
+ G+ +G+ GKT L + + + +++
Sbjct: 154 LID-GV-----LGS-----GKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEML 202
Query: 45 QTKYLSRGKLYDAVA---SRIGHRLKKLKLQVDRLALEQPSAECVADILHMV-DQESLGL 100
Q + + + S I R+ ++ ++ RL +P C+ +L V + ++
Sbjct: 203 QKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCL-LVLLNVQNAKAW-- 259
Query: 101 QNHLLNEDYSLAQEAL-VQSKLDITPTQERS--FFRMGLSYGDAFASRMRGYMDPTELMG 157
A + K+ +T T+ + F + + P E+
Sbjct: 260 -------------NAFNLSCKILLT-TRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKS 305
Query: 158 FAARGLFMNGRTTD---------------IAAIVRERGPLRAWKQYMEANL 193
+ +++ R D IA +R+ G W + N
Sbjct: 306 LLLK--YLDCRPQDLPREVLTTNPRRLSIIAESIRD-GLAT-WDNWKHVNC 352
Score = 29.4 bits (65), Expect = 0.79
Identities = 26/110 (23%), Positives = 45/110 (40%), Gaps = 22/110 (20%)
Query: 31 IG---DPIEFDDLVDEEQTKYLS----RGKL-YDAVA----SRIGHRLKKLKLQVDRLAL 78
IG IE + + + +L K+ +D+ A I + L++LK +
Sbjct: 477 IGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICD 536
Query: 79 EQPSAE-CVADILHMVDQ--ESLG-------LQNHLLNEDYSLAQEALVQ 118
P E V IL + + E+L L+ L+ ED ++ +EA Q
Sbjct: 537 NDPKYERLVNAILDFLPKIEENLICSKYTDLLRIALMAEDEAIFEEAHKQ 586
>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 = 38.5 bits (89), Expect = 0.001
Identities = 26/156 (16%), Positives = 50/156 (32%), Gaps = 41/156 (26%)
Query: 63 GHRLKKLKLQVDRLALEQPSAECVA--DILHMVDQESLGL----QNHLLNE-DY------ 109
G + K+++ + E + I +++ S + LL+ +
Sbjct: 1678 GEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALT 1737
Query: 110 --SLAQEALVQSKLDITPTQERSFFRMGLSYGD--AFASRMRGYMDPTELMGFAARGLFM 165
A ++SK I + F G S G+ A AS ++M
Sbjct: 1738 LMEKAAFEDLKSKGLI---PADATF-AGHSLGEYAALAS-------LADVMSIE------ 1780
Query: 166 NGRTTDIAAIVRERGPLRAWKQYMEANLLGKWNLLM 201
+ +V RG + + + LG+ N M
Sbjct: 1781 -----SLVEVVFYRG--MTMQVAVPRDELGRSNYGM 1809
Score = 28.1 bits (62), Expect = 2.5
Identities = 25/120 (20%), Positives = 45/120 (37%), Gaps = 26/120 (21%)
Query: 32 GDPIE-FDDLVDEEQTKYLSRGKLYDAVASRIGHRLKKLKLQVDRLALEQPSAECVA--- 87
G+ + F++L D LY +G +K + L AE V
Sbjct: 164 GNTDDYFEELRD-----------LYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQG 212
Query: 88 -DILH-MVDQESLGLQNHLLNEDYS--------LAQEALVQSKLDITPTQERSFFRMGLS 137
+IL + + + +++LL+ S LA + L TP + RS+ + G +
Sbjct: 213 LNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLK-GAT 271
>2eyq_A TRCF, transcription-repair coupling factor; MFD, SF2 ATPase,
hydrolase; HET: EPE; 3.20A {Escherichia coli} SCOP:
b.34.18.1 c.37.1.19 c.37.1.19 c.37.1.19 c.37.1.19
d.315.1.1
Length = 1151
Score = 30.4 bits (69), Expect = 0.42
Identities = 17/57 (29%), Positives = 23/57 (40%), Gaps = 23/57 (40%)
Query: 30 LIGDPIEFDDL----VDEEQTKYLSRGKLYDAVASRIG--H--RLKKLKLQVDRLAL 78
L+ ++F DL VDEE R G H R+K ++ VD L L
Sbjct: 716 LLQSDVKFKDLGLLIVDEEH---------------RFGVRHKERIKAMRANVDILTL 757
>3t5x_A PCI domain-containing protein 2; PCI, mRNA nuclear export,
transcription; 2.12A {Homo sapiens}
Length = 203
Score = 27.6 bits (61), Expect = 2.7
Identities = 8/36 (22%), Positives = 15/36 (41%), Gaps = 1/36 (2%)
Query: 103 HLLNEDYSLAQEALVQSKLDITPTQERSFFRMGLSY 138
+ + D+ A+E L + + + RM L Y
Sbjct: 24 AMFDSDFKQAEEYLSFA-FEHCHRSSQKNKRMILIY 58
>2cb1_A O-acetyl homoserine sulfhydrylase; PLP enzyme, lyase, riken
structural genomics/proteomics initiative, RSGI,
structural genomics; HET: LLP; 2.0A {Thermus
thermophilus}
Length = 412
Score = 27.5 bits (62), Expect = 3.5
Identities = 5/31 (16%), Positives = 13/31 (41%), Gaps = 1/31 (3%)
Query: 19 TFPRIGKTVTVLIGDPIEFDDLVDEEQTKYL 49
+G TV + +P + + +T+ +
Sbjct: 115 VLSLMGVTVRYVDPEPEAVREALS-AKTRAV 144
>2g39_A Acetyl-COA hydrolase; coenzyme A transferase, structural G PSI,
protein structure initiative, midwest center for struc
genomics, MCSG; 2.10A {Pseudomonas aeruginosa} SCOP:
c.124.1.2 c.124.1.2
Length = 497
Score = 26.3 bits (58), Expect = 7.2
Identities = 5/54 (9%), Positives = 14/54 (25%)
Query: 15 PIGATFPRIGKTVTVLIGDPIEFDDLVDEEQTKYLSRGKLYDAVASRIGHRLKK 68
P I + ++ + + G + +AV + +
Sbjct: 228 PPDGETQAIANHLIDFFKREVDAGRMSNSLGPLQAGIGSIANAVMCGLIESPFE 281
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
0.322 0.137 0.400
Gapped
Lambda K H
0.267 0.0595 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,144,076
Number of extensions: 186333
Number of successful extensions: 329
Number of sequences better than 10.0: 1
Number of HSP's gapped: 329
Number of HSP's successfully gapped: 11
Length of query: 201
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 112
Effective length of database: 4,216,824
Effective search space: 472284288
Effective search space used: 472284288
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 55 (25.3 bits)