RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5990
(119 letters)
>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC
repeat; 2.70A {Saccharomyces cerevisiae}
Length = 963
Score = 126 bits (317), Expect = 3e-35
Identities = 38/100 (38%), Positives = 67/100 (67%)
Query: 3 TVAGVISLLDDPMIELKEFSLKKLNDIVDDFWPEVSEAIQKIEILHEDKGFPQYKLAALV 62
T A +++LL + +K ++L+ +N++VD W E+S + IE L++D F ++AAL+
Sbjct: 16 TAAPLLALLRENQDSVKTYALESINNVVDQLWSEISNELPDIEALYDDDTFSDREMAALI 75
Query: 63 ASKVYFHLGSFSDSLQYALGAGDLFDVRNDTVYVKTIICK 102
ASKVY++LG + +++YAL A D FD+ + +V+TI+ K
Sbjct: 76 ASKVYYNLGEYESAVKYALAAKDRFDIDEKSQFVETIVSK 115
>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 = 28.8 bits (63), Expect = 0.34
Identities = 8/30 (26%), Positives = 16/30 (53%), Gaps = 4/30 (13%)
Query: 19 KEFSLKKLNDIVDDFWPEVSE--AIQ-KIE 45
K+ +LKKL + + + + AI+ +E
Sbjct: 19 KQ-ALKKLQASLKLYADDSAPALAIKATME 47
>3nfd_A Phosphopantethiene protein transferase, PPT1P; acyl carrier protein
synthase, mycobacterium tuberculosis, A carrier protein;
HET: COA; 1.89A {Corynebacterium ammoniagenes} PDB:
3ne9_A*
Length = 153
Score = 28.5 bits (64), Expect = 0.36
Identities = 13/43 (30%), Positives = 19/43 (44%), Gaps = 6/43 (13%)
Query: 44 IEILHEDKGFPQYKLAALVASKVYFHLG------SFSDSLQYA 80
IE+L + G +L VA+K+ +G S S YA
Sbjct: 101 IEVLPDRWGRVALQLKGEVAAKLQESIGDVELALSISHDGDYA 143
>2ptr_A Adenylosuccinate lyase; mutant-substrate complex; HET: 2SA; 1.85A
{Escherichia coli} PDB: 2ptq_A* 2pts_A 3gzh_A
Length = 462
Score = 28.4 bits (63), Expect = 0.55
Identities = 13/46 (28%), Positives = 20/46 (43%), Gaps = 4/46 (8%)
Query: 4 VAGVISLLDDPMI-ELKEFS---LKKLNDIVDDFWPEVSEAIQKIE 45
V + L I E+ F+ + L+ IV F E + I+ IE
Sbjct: 41 VRWLQKLAAHAAIKEVPAFAADAIGYLDAIVASFSEEDAARIKTIE 86
>3bhg_A Adenylosuccinate lyase; structural G PSI-2, protein structure
initiative, midwest center for STR genomics, MCSG;
1.90A {Legionella pneumophila subsp}
Length = 459
Score = 28.0 bits (62), Expect = 0.69
Identities = 11/46 (23%), Positives = 21/46 (45%), Gaps = 4/46 (8%)
Query: 4 VAGVISLLDDPMI-ELKEFS---LKKLNDIVDDFWPEVSEAIQKIE 45
+ SL + I E+ K L+D++ +F +E I++ E
Sbjct: 44 IKWFESLAANDTIPEVPALDNKARKFLSDLISNFNESEAEKIKEFE 89
>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 = 28.1 bits (62), Expect = 0.90
Identities = 12/58 (20%), Positives = 24/58 (41%), Gaps = 9/58 (15%)
Query: 14 PMIELKEFSLKKLNDIVDDFWPEVSEAIQKIEI-LH--EDK----GFPQYKLAALVAS 64
PM+ + + +++ D V+ + +++EI L G PQ L L +
Sbjct: 337 PMLSISNLTQEQVQDYVNKTNSHLPAG-KQVEISLVNGAKNLVVSGPPQS-LYGLNLT 392
>3sm4_A Exonuclease; homologous recombination, DNA repair, recombineering,
single annealing; 1.88A {Enterobacteria phage lambda}
PDB: 3slp_A 1avq_A
Length = 229
Score = 27.2 bits (59), Expect = 1.1
Identities = 6/28 (21%), Positives = 16/28 (57%)
Query: 24 KKLNDIVDDFWPEVSEAIQKIEILHEDK 51
++IV +F ++ EA+ +I + ++
Sbjct: 200 ASFDEIVPEFIEKMDEALAEIGFVFGEQ 227
>2qga_B Adenylosuccinate lyase; malaria, PV003765, SGC, structural G
consortium; HET: AMP; 2.01A {Plasmodium vivax} PDB:
2hvg_A
Length = 465
Score = 27.2 bits (60), Expect = 1.3
Identities = 7/45 (15%), Positives = 20/45 (44%), Gaps = 4/45 (8%)
Query: 4 VAGVISLLDDPMIELKEFS---LKKLNDIVDDFWPEVSEAIQKIE 45
V ++ L ++ + ++ + ++ LN I + ++ IE
Sbjct: 40 VRWLLFLNEEELF-FEKVTDHSVEVLNQIATNITDSDIARVKAIE 83
>2bdd_A ACP-synthase; structural genomics, structural genomics conso SGC,
transferase; 2.28A {Plasmodium yoelii yoelii}
Length = 182
Score = 26.0 bits (57), Expect = 3.0
Identities = 11/45 (24%), Positives = 13/45 (28%), Gaps = 7/45 (15%)
Query: 42 QKIEILHEDKGFPQYKLAALVASKVY------FHLGSFSDSLQYA 80
IEI ++ G P L Y L S SD
Sbjct: 113 NDIEIKNDKYGKPHVYLYGKAKKVAYEMGIVKIFL-SISDEKIIN 156
>1dci_A Dienoyl-COA isomerase; lyase; 1.50A {Rattus norvegicus} SCOP:
c.14.1.3 PDB: 2vre_A
Length = 275
Score = 25.6 bits (57), Expect = 4.2
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 24 KKLNDIVDDFWPEVSEAIQKIE 45
+K N + FW E+ E QKI
Sbjct: 23 EKRNAMNRAFWRELVECFQKIS 44
>2qg8_A Acyl carrier protein synthase PY06285; malaria, 3'5'ADP, SG
structural genomics consortium, transferase; HET: A3P;
2.00A {Plasmodium yoelii yoelii}
Length = 163
Score = 25.5 bits (56), Expect = 4.5
Identities = 11/43 (25%), Positives = 13/43 (30%), Gaps = 7/43 (16%)
Query: 44 IEILHEDKGFPQYKLAALVASKVY------FHLGSFSDSLQYA 80
IEI ++ G P L Y L S SD
Sbjct: 96 IEIKNDKYGKPHVYLYGKAKKVAYEMGIVKIFL-SISDEKIIN 137
>2uv9_A Fatty acid synthase alpha subunits; fungal, dehydratase, enoyl
reductase, ketoacyl synthase, ketoacyl reductase; 3.1A
{Thermomyces lanuginosus} PDB: 2uvb_A*
Length = 1878
Score = 25.7 bits (56), Expect = 4.8
Identities = 9/30 (30%), Positives = 18/30 (60%), Gaps = 3/30 (10%)
Query: 40 AIQKIEILHEDKGFPQYKL---AALVASKV 66
A+++IE++++ G P+ L AA A +
Sbjct: 1825 AMREIEVINDANGAPEVHLHGAAAEAAKQA 1854
>4aco_A Centromere DNA-binding protein complex CBF3 subun; 1.89A
{Saccharomyces cerevisiae}
Length = 956
Score = 25.4 bits (54), Expect = 6.3
Identities = 10/42 (23%), Positives = 16/42 (38%)
Query: 38 SEAIQKIEILHEDKGFPQYKLAALVASKVYFHLGSFSDSLQY 79
+A+ E L + +LA + + H SF L Y
Sbjct: 912 YKAVDICEKLRDQNEGSFSRLAKFLRKWRHDHQNSFDGLLVY 953
>1zl8_A LIN-7; heterodimer, alpha helix, scaffold, assembly, specifici
signaling, protein binding; NMR {Caenorhabditis
elegans} SCOP: a.194.1.1
Length = 53
Score = 23.7 bits (51), Expect = 6.6
Identities = 6/26 (23%), Positives = 13/26 (50%)
Query: 36 EVSEAIQKIEILHEDKGFPQYKLAAL 61
+V ++ +E + + KLA+L
Sbjct: 8 DVQRILELMEHVQKTGEVNNAKLASL 33
>3prh_A Tryptophanyl-tRNA synthetase; TRPRS, protein biosynthesis,
translation, class I tRNA synth rossman fold, high
motif, KMSKS motif; 2.80A {Bacillus subtilis}
Length = 388
Score = 24.9 bits (55), Expect = 6.9
Identities = 19/85 (22%), Positives = 33/85 (38%), Gaps = 28/85 (32%)
Query: 5 AGVISLLDDPMIELKEFSLKKLNDIVDDFWPEVS---------------------EAIQK 43
I+LLD+P + KK+ V D V I++
Sbjct: 235 KAYITLLDEP-----KQLEKKIKSAVTDSEGIVKFDKENKPGVSNLLTIYSILGNTTIEE 289
Query: 44 IEILHEDKGFPQYK--LAALVASKV 66
+E +E KG+ ++K LA +V + +
Sbjct: 290 LEAKYEGKGYGEFKGDLAEVVVNAL 314
>1i6k_A TRPRS, tryptophanyl-tRNA synthetase; class I tRNA synthetase, AARS,
induced FIT, ligase; HET: TYM; 1.72A {Geobacillus
stearothermophilus} SCOP: c.26.1.1 PDB: 1i6l_A* 1i6m_A*
1m83_A* 1mau_A* 1maw_A* 1mb2_A* 2ov4_A* 3fhj_A* 3fi0_A*
1d2r_A 3u1v_A
Length = 328
Score = 24.8 bits (55), Expect = 8.9
Identities = 18/85 (21%), Positives = 31/85 (36%), Gaps = 28/85 (32%)
Query: 5 AGVISLLDDPMIELKEFSLKKLNDIVDDFWPEVSE---------------------AIQK 43
I+LLDD + KK+ V D + +I++
Sbjct: 201 KAYITLLDDA-----KTIEKKIKSAVTDSEGTIRYDKEAKPGISNLLNIYSTLSGQSIEE 255
Query: 44 IEILHEDKGFPQYK--LAALVASKV 66
+E +E KG+ +K LA +V +
Sbjct: 256 LERQYEGKGYGVFKADLAQVVIETL 280
>2cw9_A Translocase of inner mitochondrial membrane; structure genomics,
TIM, structural genomics, NPPFSA, riken structural
genomics/proteomics initiative; HET: 1PE; 1.90A {Homo
sapiens} SCOP: d.17.4.13
Length = 194
Score = 24.4 bits (52), Expect = 10.0
Identities = 9/42 (21%), Positives = 16/42 (38%)
Query: 12 DDPMIELKEFSLKKLNDIVDDFWPEVSEAIQKIEILHEDKGF 53
D+ I K+ D++ + + + EIL D F
Sbjct: 11 DNAFIRASRALTDKVTDLLGGLFSKTEMSEVLTEILRVDPAF 52
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
0.323 0.140 0.409
Gapped
Lambda K H
0.267 0.0487 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,838,763
Number of extensions: 100759
Number of successful extensions: 246
Number of sequences better than 10.0: 1
Number of HSP's gapped: 245
Number of HSP's successfully gapped: 25
Length of query: 119
Length of database: 6,701,793
Length adjustment: 81
Effective length of query: 38
Effective length of database: 4,440,192
Effective search space: 168727296
Effective search space used: 168727296
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 51 (24.0 bits)