RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14648
(154 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 = 31.7 bits (71), Expect = 0.092
Identities = 18/129 (13%), Positives = 31/129 (24%), Gaps = 43/129 (33%)
Query: 6 ARTYSKTLVFLITGL------AIFSFRHRVEPALVIWSLILCLVGRACNIFPLAI--LVN 57
A T +L L ++ + L P + +
Sbjct: 284 ATTTHISLDHHSMTLTPDEVKSLL--------LKYLDCRPQDLPREVLTTNPRRLSIIAE 335
Query: 58 RFREHQITRRMMFIMW-------FSGLRGAISYALSLHLEFSDETRH-----------VI 99
R+ T W L I +L+ LE E R
Sbjct: 336 SIRDGLAT-------WDNWKHVNCDKLTTIIESSLN-VLE-PAEYRKMFDRLSVFPPSAH 386
Query: 100 ITSTLIIVL 108
I + L+ ++
Sbjct: 387 IPTILLSLI 395
Score = 26.7 bits (58), Expect = 3.7
Identities = 24/172 (13%), Positives = 47/172 (27%), Gaps = 76/172 (44%)
Query: 7 RTYSKTLVFLITGLAIFSFRH--RVEPALVIWSLILCL----------------VGRACN 48
R Y + L +F+ + R++P L L G+
Sbjct: 110 RMYIEQRDRLYNDNQVFAKYNVSRLQP---YLKLRQALLELRPAKNVLIDGVLGSGKTW- 165
Query: 49 IFPLAILVNRFREHQITRRMMF-IMWFS-------------------------GLRGAIS 82
+A+ V +++ +M F I W + R S
Sbjct: 166 ---VALDV--CLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHS 220
Query: 83 YALSLHLE-FSDETRHVIITS----TLII------------------VLVTT 111
+ L + E R ++ + L++ +L+TT
Sbjct: 221 SNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTT 272
>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 = 31.2 bits (70), Expect = 0.12
Identities = 33/193 (17%), Positives = 60/193 (31%), Gaps = 60/193 (31%)
Query: 4 YLAR-TYSKTLVFLITGLA---IFSFRHRVEPALVIWSLILCLVGRACNIFPLAILV--- 56
YL S L+ + LA + + P + S + G + + A+ +
Sbjct: 230 YLLSIPISCPLIGV-IQLAHYVVTAKLLGFTPGELR-SYLKGATGHSQGL-VTAVAIAET 286
Query: 57 ---NRFREHQITRRMMFIMWFSGLR-----------------------GAISYALSL--- 87
F R+ + +++F G+R G S LS+
Sbjct: 287 DSWESF--FVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNL 344
Query: 88 ---HLE-FSDETR-HVIITSTLIIVLV---TTLVFGGSTMPLMKILQTSSNQKIGRRRRG 139
++ + ++T H+ + I LV LV G L G
Sbjct: 345 TQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLY-----------GLNLTL 393
Query: 140 RKGKTAISLSKTK 152
RK K L +++
Sbjct: 394 RKAKAPSGLDQSR 406
>2kbv_A Sodium/hydrogen exchanger 1; transmembrane, peptide, NHE1,
micelle, alternative splicing, antiport, glycoprotein,
ION transport, membrane; NMR {Synthetic}
Length = 28
Score = 25.7 bits (56), Expect = 0.99
Identities = 10/21 (47%), Positives = 16/21 (76%)
Query: 70 FIMWFSGLRGAISYALSLHLE 90
FI+ + GLRGAI+++L L+
Sbjct: 5 FIIAYGGLRGAIAFSLGYLLD 25
>4a17_M RPL5, 60S ribosomal protein L5; eukaryotic ribosome, ribosome,
eukaryotic initiation factor 60S, translation, large
ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB:
4a1a_M 4a1c_M 4a1e_M
Length = 301
Score = 27.4 bits (60), Expect = 2.2
Identities = 10/29 (34%), Positives = 15/29 (51%), Gaps = 4/29 (13%)
Query: 119 MPLMKILQTS---SNQKIGRRRRGRKGKT 144
M +K+L+T + RRR R+G T
Sbjct: 1 MGFVKVLKTKAYFKRFQTKYRRR-REGLT 28
>3iz5_Q 60S ribosomal protein L5 (L18P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
3izr_Q
Length = 304
Score = 27.3 bits (60), Expect = 2.4
Identities = 8/29 (27%), Positives = 14/29 (48%), Gaps = 4/29 (13%)
Query: 119 MPLMKILQTS---SNQKIGRRRRGRKGKT 144
+K +T ++ +RR R+GKT
Sbjct: 5 GGFVKTQKTHAYFKRFQVKFKRR-RQGKT 32
>2zkr_n 60S ribosomal protein L5; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 297
Score = 26.9 bits (59), Expect = 3.0
Identities = 9/29 (31%), Positives = 16/29 (55%), Gaps = 4/29 (13%)
Query: 119 MPLMKILQTS---SNQKIGRRRRGRKGKT 144
M +K+++ ++ RRR R+GKT
Sbjct: 1 MGFVKVVKNKAYFKRYQVKFRRR-REGKT 28
>3mst_A Putative nitrate transport protein; structural genomics, joint
center for structural genomics, J protein structure
initiative, PSI; HET: MSE; 1.35A {Thermoplasma
volcanium}
Length = 244
Score = 26.7 bits (58), Expect = 3.1
Identities = 17/84 (20%), Positives = 34/84 (40%), Gaps = 16/84 (19%)
Query: 72 MWFSGL------RGAISYAL---------SLHLEFSDETR-HVIITSTLIIVLVTTLVFG 115
++F G+ G +S+ L +H S+ + V++ S + +F
Sbjct: 15 LYFQGMDVGMPFSGPVSFPLLVIEEELPFRIHNICSETGKFDVVLDSITNMPKYGLKIFA 74
Query: 116 GSTMPLMKILQTSSNQKIGRRRRG 139
G + + IL S+ +I R+G
Sbjct: 75 GVRIDMYSILGDESSGRIYTLRKG 98
>3u5e_D 60S ribosomal protein L5; translation, ribosome, ribosomal R
ribosomal protein, STM1, eukaryotic ribosome; 3.00A
{Saccharomyces cerevisiae} PDB: 3u5i_D 3izc_Q 3izs_Q
3o58_E 3o5h_E 3jyw_E 1s1i_E
Length = 297
Score = 26.6 bits (58), Expect = 3.5
Identities = 11/29 (37%), Positives = 15/29 (51%), Gaps = 4/29 (13%)
Query: 119 MPLMKILQTS---SNQKIGRRRRGRKGKT 144
M K ++S S + RRR R+GKT
Sbjct: 1 MAFQKDAKSSAYSSRFQTPFRRR-REGKT 28
>3gg9_A D-3-phosphoglycerate dehydrogenase oxidoreductase; structural
genomics, PSI-2, P structure initiative; 1.90A
{Ralstonia solanacearum}
Length = 352
Score = 26.1 bits (58), Expect = 5.3
Identities = 9/15 (60%), Positives = 12/15 (80%)
Query: 85 LSLHLEFSDETRHVI 99
LS+HL +DETR +I
Sbjct: 219 LSVHLRLNDETRSII 233
>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold,
transferase-transferase complex; HET: ADX ANP; 1.79A
{Arabidopsis thaliana} PDB: 4fxp_A*
Length = 200
Score = 25.3 bits (56), Expect = 8.2
Identities = 10/48 (20%), Positives = 22/48 (45%), Gaps = 4/48 (8%)
Query: 46 ACNIFPLAILVNRFREHQITRRMMFIMWFSGLRGA----ISYALSLHL 89
+ NI V + ++ + ++W +GL G+ ++ AL+ L
Sbjct: 2 STNIKWHECSVEKVDRQRLLDQKGCVIWVTGLSGSGKSTLACALNQML 49
>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met
nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A
{Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A*
1m7h_A* 3cr7_A*
Length = 211
Score = 25.3 bits (56), Expect = 9.6
Identities = 9/48 (18%), Positives = 19/48 (39%), Gaps = 4/48 (8%)
Query: 46 ACNIFPLAILVNRFREHQITRRMMFIMWFSGLRGA----ISYALSLHL 89
+ NI A + R ++ + +W +GL + ++ L L
Sbjct: 2 STNITFHASALTRSERTELRNQRGLTIWLTGLSASGKSTLAVELEHQL 49
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
0.331 0.140 0.419
Gapped
Lambda K H
0.267 0.0530 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,240,959
Number of extensions: 121510
Number of successful extensions: 275
Number of sequences better than 10.0: 1
Number of HSP's gapped: 275
Number of HSP's successfully gapped: 13
Length of query: 154
Length of database: 6,701,793
Length adjustment: 85
Effective length of query: 69
Effective length of database: 4,328,508
Effective search space: 298667052
Effective search space used: 298667052
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 53 (24.7 bits)