RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 025399
(253 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 = 50.6 bits (120), Expect = 2e-07
Identities = 38/270 (14%), Positives = 83/270 (30%), Gaps = 82/270 (30%)
Query: 18 VHIFPEGGRSRDGGKTVGSPKRGVGRLILDADNVPMVVPFVHTGMQEVMPIGATFPRIGK 77
+F + SR + ++ + L A NV + G+ +G+ GK
Sbjct: 123 NQVFAKYNVSR--LQPYLKLRQALLELR-PAKNV-----LID-GV-----LGS-----GK 163
Query: 78 TVTVL--------------------IGDPIEFDDLVDEEQTKYLSRGKLYDAVA---SRI 114
T L + + + +++ Q + + + S I
Sbjct: 164 TWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNI 223
Query: 115 GHRLKKLKLQVDRLALEQPSAECVADILHMV-DQESLGLQNHLLNEDYSLAQEAL-VQSK 172
R+ ++ ++ RL +P C+ +L V + ++ A + K
Sbjct: 224 KLRIHSIQAELRRLLKSKPYENCL-LVLLNVQNAKAW---------------NAFNLSCK 267
Query: 173 LDITPTQERS--FFRMGLSYGDAFASRMRGYMDPTELMGFAARGLFMNGRTTD------- 223
+ +T T+ + F + + P E+ + +++ R D
Sbjct: 268 ILLT-TRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLK--YLDCRPQDLPREVLT 324
Query: 224 --------IAAIVRERGPLRAWKQYMEANL 245
IA +R+ G W + N
Sbjct: 325 TNPRRLSIIAESIRD-GLAT-WDNWKHVNC 352
Score = 30.2 bits (67), Expect = 0.72
Identities = 26/110 (23%), Positives = 45/110 (40%), Gaps = 22/110 (20%)
Query: 83 IG---DPIEFDDLVDEEQTKYLS----RGKL-YDAVA----SRIGHRLKKLKLQVDRLAL 130
IG IE + + + +L K+ +D+ A I + L++LK +
Sbjct: 477 IGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICD 536
Query: 131 EQPSAE-CVADILHMVDQ--ESLG-------LQNHLLNEDYSLAQEALVQ 170
P E V IL + + E+L L+ L+ ED ++ +EA Q
Sbjct: 537 NDPKYERLVNAILDFLPKIEENLICSKYTDLLRIALMAEDEAIFEEAHKQ 586
>1iuq_A Glycerol-3-phosphate acyltransferase; open twisted alpha/beta, four
helix bundle; 1.55A {Cucurbita moschata} SCOP: c.112.1.1
PDB: 1k30_A
Length = 367
Score = 40.6 bits (94), Expect = 3e-04
Identities = 24/134 (17%), Positives = 40/134 (29%), Gaps = 16/134 (11%)
Query: 5 MDMAIAKLNSGGWV-HIFPEGGRSRDGGKTVG--------SPKRGVGRLILDADNVPMVV 55
+ L G + I P GGR R T S + RLI +D +
Sbjct: 212 LKEMALLLRGGSQLIWIAPSGGRDRPDPSTGEWYPAPFDASSVDNMRRLIQHSDVPGHLF 271
Query: 56 PFVHTGMQEVMPIGATFPRIGKT-------VTVLIGDPIEFDDLVDEEQTKYLSRGKLYD 108
P + P IG+ + + I F+++ + R
Sbjct: 272 PLALLCHDIMPPPSQVEIEIGEKRVIAFNGAGLSVAPEISFEEIAATHKNPEEVREAYSK 331
Query: 109 AVASRIGHRLKKLK 122
A+ + + LK
Sbjct: 332 ALFDSVAMQYNVLK 345
>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 = 38.1 bits (88), Expect = 0.002
Identities = 26/156 (16%), Positives = 50/156 (32%), Gaps = 41/156 (26%)
Query: 115 GHRLKKLKLQVDRLALEQPSAECVA--DILHMVDQESLGL----QNHLLNE-DY------ 161
G + K+++ + E + I +++ S + LL+ +
Sbjct: 1678 GEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALT 1737
Query: 162 --SLAQEALVQSKLDITPTQERSFFRMGLSYGD--AFASRMRGYMDPTELMGFAARGLFM 217
A ++SK I + F G S G+ A AS ++M
Sbjct: 1738 LMEKAAFEDLKSKGLI---PADATF-AGHSLGEYAALAS-------LADVMSIE------ 1780
Query: 218 NGRTTDIAAIVRERGPLRAWKQYMEANLLGKWNLLM 253
+ +V RG + + + LG+ N M
Sbjct: 1781 -----SLVEVVFYRG--MTMQVAVPRDELGRSNYGM 1809
Score = 28.1 bits (62), Expect = 3.9
Identities = 25/120 (20%), Positives = 45/120 (37%), Gaps = 26/120 (21%)
Query: 84 GDPIE-FDDLVDEEQTKYLSRGKLYDAVASRIGHRLKKLKLQVDRLALEQPSAECVA--- 139
G+ + F++L D LY +G +K + L AE V
Sbjct: 164 GNTDDYFEELRD-----------LYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQG 212
Query: 140 -DILH-MVDQESLGLQNHLLNEDYS--------LAQEALVQSKLDITPTQERSFFRMGLS 189
+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 = 30.8 bits (70), Expect = 0.48
Identities = 17/57 (29%), Positives = 23/57 (40%), Gaps = 23/57 (40%)
Query: 82 LIGDPIEFDDL----VDEEQTKYLSRGKLYDAVASRIG--H--RLKKLKLQVDRLAL 130
L+ ++F DL VDEE R G H R+K ++ VD L L
Sbjct: 716 LLQSDVKFKDLGLLIVDEEH---------------RFGVRHKERIKAMRANVDILTL 757
>2cn3_A Xyloglucanase, beta-1,4-xyloglucan hydrolase; glycosylhydrolase,
family GH74; HET: GLC BGC GAL; 1.95A {Clostridium
thermocellum} PDB: 2cn2_A*
Length = 737
Score = 30.0 bits (67), Expect = 0.82
Identities = 11/52 (21%), Positives = 19/52 (36%), Gaps = 5/52 (9%)
Query: 26 RSRDGGKT----VGSPKRGVGRLIL-DADNVPMVVPFVHTGMQEVMPIGATF 72
RS DGG T G PK + + ++ + + G + G +
Sbjct: 226 RSTDGGVTWKAVPGQPKGLLPHHGVLASNGMLYITYGDTCGPYDGNGKGQVW 277
Score = 26.9 bits (59), Expect = 7.1
Identities = 16/78 (20%), Positives = 24/78 (30%), Gaps = 13/78 (16%)
Query: 17 WVHIFPEGG--RSRDGGKT------VGSPKRGVGRLILDADNVPMVVPFVHTGMQEVMPI 68
++ G RS D G T +P + D + V +V P
Sbjct: 148 YLGTRCGNGLWRSTDYGVTWSKVESFPNPGTYIYDPNFDYTKDIIGVVWVVFDKSSSTPG 207
Query: 69 GATFPRIGKTVTVLIGDP 86
T KT+ V + D
Sbjct: 208 NPT-----KTIYVGVADK 220
>3eaf_A ABC transporter, substrate binding protein; PSI2, NYSGXRC,
substrate binding P structural genomics, protein
structure initiative; 2.00A {Aeropyrum pernix}
Length = 391
Score = 29.4 bits (66), Expect = 1.2
Identities = 9/75 (12%), Positives = 18/75 (24%), Gaps = 11/75 (14%)
Query: 1 MLQGMDMAIAKLNSGGWVHIFPEGGR----SRDGGKTVGSPKRGVG---RLILDADNVPM 53
G ++A N G RD +P D V
Sbjct: 24 YSLGAELAFKYFNEKGIYTKDGVRVNINYIKRDYA---YNPTTAEEYYREFR-DRYGVIA 79
Query: 54 VVPFVHTGMQEVMPI 68
++ + +++
Sbjct: 80 IIGWGTADTEKLSDQ 94
>3lop_A Substrate binding periplasmic protein; protein structure
initiative II(PSI II), NYSGXRC, structural genomics;
1.55A {Ralstonia solanacearum}
Length = 364
Score = 29.2 bits (66), Expect = 1.4
Identities = 13/75 (17%), Positives = 24/75 (32%), Gaps = 17/75 (22%)
Query: 1 MLQGMDMAIAKLNSGGWVHIFPEGGR-----SRDGGKTVGSPKRGVG---RLILDADNVP 52
+ G + LN G ++ G +RD ++ V + DN
Sbjct: 25 LNAGARLYFDWLNLNGGIN-----GETIRLVARDDE---QKIEQTVRNVRDMA-RVDNPV 75
Query: 53 MVVPFVHTGMQEVMP 67
++ V T E +
Sbjct: 76 ALLTVVGTANVEALM 90
>3t5x_A PCI domain-containing protein 2; PCI, mRNA nuclear export,
transcription; 2.12A {Homo sapiens}
Length = 203
Score = 28.3 bits (63), Expect = 2.1
Identities = 8/36 (22%), Positives = 15/36 (41%), Gaps = 1/36 (2%)
Query: 155 HLLNEDYSLAQEALVQSKLDITPTQERSFFRMGLSY 190
+ + 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 = 27.1 bits (61), Expect = 5.5
Identities = 5/31 (16%), Positives = 13/31 (41%), Gaps = 1/31 (3%)
Query: 71 TFPRIGKTVTVLIGDPIEFDDLVDEEQTKYL 101
+G TV + +P + + +T+ +
Sbjct: 115 VLSLMGVTVRYVDPEPEAVREALS-AKTRAV 144
>2fba_A Glucoamylase Glu1; (alpha-alpha)6 barrel, TRIS, hydrolase; 1.10A
{Saccharomycopsis fibuligera} SCOP: a.102.1.1 PDB:
1ayx_A* 2f6d_A
Length = 492
Score = 27.5 bits (60), Expect = 5.5
Identities = 20/185 (10%), Positives = 55/185 (29%), Gaps = 17/185 (9%)
Query: 35 GSPKRGVGRLILDADNVPMVVPFVHTGMQEVMPIGATFPRIGKTVTVLIGD-----PIEF 89
+ R LD+ + G P + ++ +L+ D +
Sbjct: 276 PDLLQQNSRQGLDSATYIGPLLTHDIGESSSTPFDVDNEYVLQSYYLLLEDNKDRYSVNS 335
Query: 90 DDLVDEEQTKYLSRGKLYDAVASRIGHRLKKLKL----QVDRLALEQPSAECVADILHMV 145
+Y +Y+ S G+ +LA + SA +
Sbjct: 336 AYSAGAAIGRY--PEDVYNGDGSSEGNPWFLATAYAAQVPYKLAYDAKSASNDI----TI 389
Query: 146 DQESLGLQNHLLNEDYSLAQEALVQSKLDITPTQE--RSFFRMGLSYGDAFASRMRGYMD 203
++ + N + + ++ + I + + +++GD+F + +++
Sbjct: 390 NKINYDFFNKYIVDLSTINSAYQSSDSVTIKSGSDEFNTVADNLVTFGDSFLQVILDHIN 449
Query: 204 PTELM 208
+
Sbjct: 450 DDGSL 454
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
0.321 0.138 0.408
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: 4,021,276
Number of extensions: 249440
Number of successful extensions: 455
Number of sequences better than 10.0: 1
Number of HSP's gapped: 455
Number of HSP's successfully gapped: 18
Length of query: 253
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 162
Effective length of database: 4,160,982
Effective search space: 674079084
Effective search space used: 674079084
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 (21.8 bits)
S2: 56 (25.6 bits)